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
A2M	2	hgsc.bcm.edu	37	12	9246177	9246181	+	Splice_Site	DEL	TATGG	TATGG	-	rs3832852	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TATGG	TATGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	28	88	.	0.384	.	TATGG|0.860;-|0.140	0.140	strong	.	A2M	180	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
TPR	7175	hgsc.bcm.edu	37	1	186326758	186326758	+	Splice_Site	DEL	A	A	-	rs3841803	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	35	56	.	0.389	.	A|0.845;-|0.155	0.155	strong	.	TPR	441	.	NM_003292	exon15	c.1498-2T>-	.	.	.	PASS	Pindel,Atlas-Indel
OR2A14	135941	hgsc.bcm.edu	37	7	143826730	143826732	+	In_Frame_Del	DEL	CTT	CTT	-	rs66549240	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	241	86	228	0	0.356846	0	CTT|0.441;-|0.559	0.559	strong	.	OR2A14	66	.	NM_001001659	exon1	c.524_526del	p.175_176del	.	.	PASS	Atlas-Indel
OTOP1	133060	hgsc.bcm.edu	37	4	4198949	4198954	+	In_Frame_Del	DEL	CGTTGC	CGTTGC	-	rs112623841	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CGTTGC	CGTTGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	30	145	.	0.250	.	CGTTGC|0.943;-|0.057	0.057	strong	.	OTOP1	118	.	NM_177998	exon5	c.1608_1613del	p.536_538del	.	.	PASS	Pindel,Atlas-Indel
OR5M1	390168	hgsc.bcm.edu	37	11	56380547	56380550	+	Frame_Shift_Del	DEL	CAGA	CAGA	-	rs72003051	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CAGA	CAGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	278	88	235	.	0.317	.	CAGA|0.853;-|0.147	0.147	strong	.	OR5M1	92	.	NM_001004740	exon1	c.430_433del	p.144_145del	.	.	PASS	Pindel,Atlas-Indel
NCL	4691	hgsc.bcm.edu	37	2	232325382	232325384	+	In_Frame_Del	DEL	TCC	TCC	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TCC	TCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	50	142	.	0.327	.	.	.	none	.	NCL	80	.	NM_005381	exon4	c.808_810del	p.270_270del	.	.	PASS	Pindel,Atlas-Indel
ATF7IP2	80063	hgsc.bcm.edu	37	16	10524657	10524659	+	In_Frame_Del	DEL	GAC	GAC	-	rs56252625	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	GAC	GAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	244	65	252	.	0.266	.	GAC|0.396;-|0.604	0.604	strong	.	ATF7IP2	40	.	NM_001256160	exon4	c.179_181del	p.60_61del	.	.	PASS	Pindel,Atlas-Indel
EME1	146956	hgsc.bcm.edu	37	17	48452978	48452979	+	In_Frame_Ins	INS	-	-	AGC	rs3060668	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	49	142	.	0.285	.	-|0.250;AGC|0.750	0.750	strong	.	EME1	39	.	NM_152463	exon2	c.409_410insAGC	p.K137delinsKQ	.	.	PASS	Pindel,Atlas-Indel
PDE4DIP	9659	hgsc.bcm.edu	37	1	144915624	144915624	+	Frame_Shift_Del	DEL	G	G	-	rs66512216	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	196	30	123	.	0.153	.	G|0.808;-|0.192	0.192	strong	.	PDE4DIP	817	.	NM_001002811	exon10	c.2291delT	p.L764fs	.	.	PASS	Pindel,Atlas-Indel
PCDH7	5099	hgsc.bcm.edu	37	4	30725858	30725859	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	38	60	.	0.418	.	.	.	none	.	PCDH7	215	.	NM_032457	exon1	c.2814_2815insA	p.K938fs	.	.	PASS	Pindel,Atlas-Indel
NEFH	4744	hgsc.bcm.edu	37	22	29885581	29885604	+	In_Frame_Del	DEL	AGGCCAAGTCCCCAGAGAAGGAAG	AGGCCAAGTCCCCAGAGAAGGAAG	-	rs200984527		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	AGGCCAAGTCCCCAGAGAAGGAAG	AGGCCAAGTCCCCAGAGAAGGAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	20	56	0	0.392157	0	.	.	weak	.	NEFH	178	.	NM_021076	exon4	c.1951_1974del	p.651_658del	.	.	PASS	Atlas-Indel
RAI1	10743	hgsc.bcm.edu	37	17	17697102	17697102	+	Frame_Shift_Del	DEL	G	G	-	rs34083643		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	25	64	0	0.280899	0	.	.	weak	RAI1,colon,carcinoma,-1,3	RAI1	121	3	NM_030665	exon3	c.839delA	p.Q280fs	.	.	PASS	Atlas-Indel
TBP	6908	hgsc.bcm.edu	37	6	170871004	170871005	+	In_Frame_Ins	INS	-	-	CAA	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	46	99	0	0.45098	0	.	.	none	.	TBP	58	.	NM_003194	exon3	c.180_181insCAA	p.Q60delinsQQ	.	.	PASS	Atlas-Indel
ZNF271	10778	hgsc.bcm.edu	37	18	32888090	32888090	+	RNA	DEL	C	C	-	rs201643077	by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	23	84	0	0.22549	0	C|0.747;-|0.253	0.253	strong	.	ZNF271	16	.	.	.	.	.	.	.	PASS	Atlas-Indel
ZNF560	147741	hgsc.bcm.edu	37	19	9578512	9578513	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	238	62	233	.	0.261	.	.	.	none	.	ZNF560	162	.	NM_152476	exon10	c.1111_1112del	p.371_371del	.	.	PASS	Pindel,Atlas-Indel
MIR5694	100847064	hgsc.bcm.edu	37	10	122358877	122358878	+	RNA	DEL	GA	GA	-	rs71853551	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	28	91	.	0.277	.	GA|0.769;-|0.231	0.231	strong	.	.	.	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
TAF7L	54457	hgsc.bcm.edu	37	X	100531414	100531419	+	In_Frame_Del	DEL	TCATCC	TCATCC	-	rs199759165	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TCATCC	TCATCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	44	88	.	0.407	.	TCATCC|0.871;-|0.129	0.129	strong	.	TAF7L	64	.	NM_024885	exon10	c.1048_1053del	p.350_351del	.	.	PASS	Pindel,Atlas-Indel
MIR302C	442895	hgsc.bcm.edu	37	4	113569540	113569543	+	RNA	DEL	ACTT	ACTT	-	rs199971565	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	ACTT	ACTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	59	129	.	0.373	.	ACTT|0.986;-|0.014	0.014	strong	.	.	.	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
SEC16A	9919	hgsc.bcm.edu	37	9	139370955	139370963	+	In_Frame_Del	DEL	AGCTCCTGA	AGCTCCTGA	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	AGCTCCTGA	AGCTCCTGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	32	110	.	0.271	.	.	.	none	.	SEC16A	249	.	NM_014866	exon3	c.1106_1114del	p.369_372del	.	.	PASS	Pindel,Atlas-Indel
ABCF1	23	hgsc.bcm.edu	37	6	30558477	30558478	+	Frame_Shift_Ins	INS	-	-	A	rs72545970	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	58	192	.	0.259	.	A|1.000;|0.000	1.000	strong	.	ABCF1	61	.	NM_001025091	exon25	c.2537_2538insA	p.X846delinsX	.	.	PASS	Pindel,Atlas-Indel
SPATA31A5	727905	hgsc.bcm.edu	37	9	65504156	65504156	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	263	49	376	.	0.186	.	.	.	none	.	.	.	.	NM_001113541	exon4	c.3405delA	p.P1135fs	.	.	PASS	Pindel,Atlas-Indel
TPSD1	23430	hgsc.bcm.edu	37	16	1306560	1306560	+	Frame_Shift_Del	DEL	G	G	-	rs3830782	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	90	164	0	0.471204	0	G|0.731;-|0.269	0.269	strong	.	TPSD1	47	.	NM_012217	exon2	c.125delA	p.Q42fs	.	.	PASS	Atlas-Indel
AFM	173	hgsc.bcm.edu	37	4	74347532	74347532	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	181	12	170	0	0.0662983	0	.	.	none	.	AFM	101	.	NM_001133	exon1	c.39delG	p.L13fs	.	.	PASS	Atlas-Indel
C21orf58	54058	hgsc.bcm.edu	37	21	47721985	47721986	+	In_Frame_Ins	INS	-	-	TGG	rs71318063	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	13	56	.	0.260	.	-|0.500;TGG|0.500	0.500	strong	.	C21orf58	25	.	NM_058180	exon8	c.897_898insCCA	p.H299delinsHH	.	.	PASS	Pindel,Atlas-Indel
FOXD4L2	100036519	hgsc.bcm.edu	37	9	70427650	70427652	+	In_Frame_Del	DEL	CAG	CAG	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	11	200	0	0.0696203	0	.	.	none	.	FOXD4L2	4	.	NM_001099279	exon1	c.1249_1251del	p.417_417del	.	.	PASS	Atlas-Indel
SPAG1	6674	hgsc.bcm.edu	37	8	101206459	101206460	+	In_Frame_Ins	INS	-	-	GAC	rs56246127	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	247	64	308	.	0.259	.	GAC|1.000;|0.000	1.000	weak	.	SPAG1	80	.	NM_172218	exon10	c.1059_1060insGAC	p.K353delinsKD	.	.	PASS	Pindel,Atlas-Indel
OR5M10	390167	hgsc.bcm.edu	37	11	56344844	56344851	+	Frame_Shift_Del	DEL	CATTGAAG	CATTGAAG	-	rs148438199	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CATTGAAG	CATTGAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	207	60	203	.	0.290	.	CATTGAAG|0.959;-|0.041	0.041	strong	.	OR5M10	56	.	NM_001004741	exon1	c.348_355del	p.116_119del	.	.	PASS	Pindel,Atlas-Indel
MPHOSPH9	10198	hgsc.bcm.edu	37	12	123678972	123678974	+	In_Frame_Del	DEL	TTT	TTT	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TTT	TTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	50	142	.	0.309	.	.	.	none	.	MPHOSPH9	75	.	NM_022782	exon9	c.1745_1747del	p.582_583del	.	.	PASS	Pindel,Atlas-Indel
TMSB4X	7114	hgsc.bcm.edu	37	X	12994443	12994444	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	81	177	.	0.435	.	.	.	none	.	TMSB4X	3	.	NM_021109	exon2	c.62_63del	p.21_21del	.	.	PASS	Pindel,Atlas-Indel
FOXD4L5	653427	hgsc.bcm.edu	37	9	70176734	70176736	+	In_Frame_Del	DEL	CAG	CAG	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	28	255	0	0.159091	0	.	.	none	.	FOXD4L5	27	.	NM_001126334	exon1	c.1249_1251del	p.417_417del	.	.	PASS	Atlas-Indel
EMCN	51705	hgsc.bcm.edu	37	4	101401162	101401164	+	In_Frame_Del	DEL	AAC	AAC	-	rs80331904	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	AAC	AAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	220	57	195	.	0.259	.	AAC|0.680;-|0.320	0.320	strong	.	EMCN	37	.	NM_001159694	exon2	c.98_100del	p.33_34del	.	.	PASS	Pindel,Atlas-Indel
APLF	200558	hgsc.bcm.edu	37	2	68765135	68765137	+	In_Frame_Del	DEL	AAG	AAG	-	rs139666972	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	AAG	AAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	419	123	288	.	0.294	.	AAG|0.949;-|0.051	0.051	strong	.	APLF	69	.	NM_173545	exon7	c.935_937del	p.312_313del	.	.	PASS	Pindel,Atlas-Indel
AHNAK	79026	hgsc.bcm.edu	37	11	62303555	62303556	+	In_Frame_Ins	INS	-	-	CTC	rs145590149	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	43	115	.	0.331	.	.	.	strong	.	AHNAK	532	.	NM_001620	exon3	c.16_17insGAG	p.T6delinsET	.	.	PASS	Pindel,Atlas-Indel
PKD1	5310	hgsc.bcm.edu	37	16	2144160	2144161	+	In_Frame_Ins	INS	-	-	TGG	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	217	59	167	.	0.272	.	.	.	none	.	PKD1	184	.	NM_001009944	exon35	c.10551_10552insCCA	p.G3517delinsGQ	.	.	PASS	Pindel,Atlas-Indel
SPANXN4	441525	hgsc.bcm.edu	37	X	142121809	142121811	+	Splice_Site	DEL	AGA	AGA	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	229	39	117	.	0.170	.	.	.	none	.	SPANXN4	10	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
FCRL5	83416	hgsc.bcm.edu	37	1	157488567	157488567	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	209	52	171	.	0.249	.	.	.	none	FCRL5,NS,carcinoma,-1,1	FCRL5	177	1	NM_031281	exon14	c.2667delT	p.P889fs	.	.	PASS	Pindel,Atlas-Indel
TOP3A	7156	hgsc.bcm.edu	37	17	18205751	18205760	+	Splice_Site	DEL	GGAGAGTGAA	GGAGAGTGAA	-	rs66697088	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	GGAGAGTGAA	GGAGAGTGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	27	94	.	0.303	.	GGAGAGTGAA|0.758;-|0.242	0.242	strong	.	TOP3A	85	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
PKD1L2	114780	hgsc.bcm.edu	37	16	81242149	81242150	+	Frame_Shift_Del	DEL	TT	TT	-	rs55980345	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	24	24	42	0	1	0	TT|0.500;-|0.500	0.500	strong	.	PKD1L2	361	.	NM_001076780	exon4	c.707_708del	p.236_236del	.	.	PASS	Atlas-Indel
CLVS1	157807	hgsc.bcm.edu	37	8	62412051	62412053	+	In_Frame_Del	DEL	GAG	GAG	-	rs35623706	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	50	129	.	0.368	.	GAG|0.500;-|0.500	0.500	weak	.	CLVS1	74	.	NM_173519	exon6	c.1014_1016del	p.338_339del	.	.	PASS	Pindel,Atlas-Indel
CWH43	80157	hgsc.bcm.edu	37	4	49034670	49034670	+	Frame_Shift_Del	DEL	A	A	-	rs147750792	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	240	65	231	.	0.271	.	A|0.980;-|0.020	0.020	strong	.	CWH43	101	.	NM_025087	exon12	c.1595delC	p.T532fs	.	.	PASS	Pindel,Atlas-Indel
SPATA31A5	727905	hgsc.bcm.edu	37	9	41506129	41506129	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	290	101	295	0	0.348276	0	.	.	none	.	.	.	.	NM_001113541	exon4	c.3400delA	p.T1134fs	.	.	PASS	Atlas-Indel
IFNE	338376	hgsc.bcm.edu	37	9	21482239	21482241	+	RNA	DEL	AAT	AAT	-	rs34533918	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	AAT	AAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	23	69	.	0.365	.	AAT|0.882;-|0.118	0.118	strong	.	IFNE	16	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
CCDC66	285331	hgsc.bcm.edu	37	3	56650051	56650052	+	In_Frame_Ins	INS	-	-	CTT	rs77152637	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	82	133	.	0.689	.	-|0.298;CTT|0.702	0.702	strong	.	CCDC66	145	.	NM_001141947	exon13	c.1813_1814insCTT	p.T605delinsTS	.	.	PASS	Pindel,Atlas-Indel
ALPK2	115701	hgsc.bcm.edu	37	18	56204388	56204402	+	In_Frame_Del	DEL	CAGTTGATGTGTCCT	CAGTTGATGTGTCCT	-	rs67925233	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CAGTTGATGTGTCCT	CAGTTGATGTGTCCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	40	192	.	0.215	.	.	.	strong	.	ALPK2	487	.	NM_052947	exon5	c.3018_3032del	p.1006_1011del	.	.	PASS	Pindel,Atlas-Indel
BTNL2	56244	hgsc.bcm.edu	37	6	32370970	32370970	+	Frame_Shift_Del	DEL	G	G	-	rs60740710	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	17	53	.	0.250	.	G|0.866;-|0.134	0.134	strong	.	BTNL2	50	.	NM_019602	exon3	c.452delA	p.H151fs	.	.	PASS	Pindel,Atlas-Indel
SLC5A9	200010	hgsc.bcm.edu	37	1	48694606	48694609	+	Frame_Shift_Del	DEL	GTAG	GTAG	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	GTAG	GTAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	43	14	45	.	0.326	.	.	.	none	SLC5A9,rectum,carcinoma,0,1	SLC5A9	82	1	NM_001135181	exon3	c.318_321del	p.106_107del	.	.	PASS	Pindel,Atlas-Indel
OR1B1	347169	hgsc.bcm.edu	37	9	125391770	125391771	+	Frame_Shift_Ins	INS	-	-	A	rs11421222	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	21	77	.	0.253	.	-|0.589;A|0.411	0.411	strong	.	OR1B1	48	.	NM_001004450	exon1	c.45_46insT	p.L15fs	.	.	PASS	Pindel,Atlas-Indel
KRT4	3851	hgsc.bcm.edu	37	12	53207602	53207603	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	40	69	0	0.39604	0	.	.	none	.	KRT4	110	.	NM_002272	exon1	c.241_242insC	p.G81fs	.	.	PASS	Atlas-Indel
DNAH14	127602	hgsc.bcm.edu	37	1	225380562	225380565	+	Frame_Shift_Del	DEL	AAAG	AAAG	-	rs144339803	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	AAAG	AAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	60	178	.	0.326	.	AAAG|0.968;-|0.032	0.032	strong	.	DNAH14	300	.	NM_001373	exon37	c.5768_5771del	p.1923_1924del	.	.	PASS	Pindel,Atlas-Indel
MAN1A2	10905	hgsc.bcm.edu	37	1	117945057	117945067	+	Frame_Shift_Del	DEL	TAAAGAGGTAA	TAAAGAGGTAA	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TAAAGAGGTAA	TAAAGAGGTAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	30	114	.	0.316	.	.	.	none	.	MAN1A2	50	.	NM_006699	exon2	c.551_558del	p.184_186del	.	.	PASS	Pindel,Atlas-Indel
ACIN1	22985	hgsc.bcm.edu	37	14	23548787	23548788	+	In_Frame_Ins	INS	-	-	GTGAAT	rs34870944	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	229	36	202	.	0.157	.	-|0.604;GTGAAT|0.396	0.396	strong	.	ACIN1	147	.	NM_014977	exon6	c.1931_1932insATTCAC	p.R644delinsHSR	.	.	PASS	Pindel,Atlas-Indel
BDNF	627	hgsc.bcm.edu	37	11	27681176	27681177	+	RNA	INS	-	-	TG	rs149254890	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	110	206	0	0.491071	0	.	.	strong	.	BDNF	63	.	.	.	.	.	.	.	PASS	Atlas-Indel
PRDM2	7799	hgsc.bcm.edu	37	1	14106394	14106395	+	In_Frame_Ins	INS	-	-	CTC	rs2308040	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	39	117	.	0.281	.	-|0.492;CTC|0.508	0.508	strong	.	PRDM2	147	.	NM_015866	exon8	c.2104_2105insCTC	p.T702delinsTP	.	.	PASS	Pindel,Atlas-Indel
DEFB126	81623	hgsc.bcm.edu	37	20	126311	126312	+	Frame_Shift_Del	DEL	CC	CC	-	rs11467417	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	35	20	40	0	0.571429	0	CC|0.459;-|0.541	0.541	strong	.	DEFB126	52	.	NM_030931	exon2	c.313_314del	p.105_105del	.	.	PASS	Atlas-Indel
KCNA7	3743	hgsc.bcm.edu	37	19	49573363	49573365	+	In_Frame_Del	DEL	GGA	GGA	-	rs10535426	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	GGA	GGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	51	58	.	0.622	.	GGA|0.851;-|0.149	0.149	strong	.	KCNA7	30	.	NM_031886	exon2	c.1327_1329del	p.443_443del	.	.	PASS	Pindel,Atlas-Indel
C2orf71	388939	hgsc.bcm.edu	37	2	29287926	29287927	+	In_Frame_Ins	INS	-	-	GCT	rs139768554	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	18	43	.	0.295	.	.	.	strong	.	C2orf71	146	.	NM_001029883	exon2	c.3676_3677insAGC	p.E1226delinsSE	.	.	PASS	Pindel,Atlas-Indel
SSC5D	284297	hgsc.bcm.edu	37	19	56029616	56029617	+	In_Frame_Ins	INS	-	-	CCA	rs150781976	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	40	77	0	0.38835	0	.	.	strong	.	SSC5D	65	.	NM_001144950	exon14	c.3973_3974insCCA	p.P1325delinsPT	.	.	PASS	Atlas-Indel
ZNF681	148213	hgsc.bcm.edu	37	19	23927742	23927743	+	Frame_Shift_Del	DEL	CA	CA	-	rs61397759	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	29	60	.	0.460	.	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
GDPD4	220032	hgsc.bcm.edu	37	11	76954788	76954789	+	Frame_Shift_Ins	INS	-	-	A	rs34784710	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	24	105	.	0.240	.	-|0.773;A|0.227	0.227	strong	.	GDPD4	49	.	NM_182833	exon12	c.1192_1193insT	p.I398fs	.	.	PASS	Pindel,Atlas-Indel
MED15	51586	hgsc.bcm.edu	37	22	20920813	20920814	+	In_Frame_Ins	INS	-	-	CAGCAGCAGCAG	rs67182670	bycluster;alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	13	62	0	0.185714	0	.	.	alt	PCQAP,caecum,carcinoma,0,2	MED15	68	2	NM_015889	exon7	c.750_751insCAGCAGCAGCAG	p.Q250delinsQQQQQ	.	.	PASS	Atlas-Indel
HTT	3064	hgsc.bcm.edu	37	4	3230411	3230413	+	In_Frame_Del	DEL	GAG	GAG	-	rs149109767	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	53	76	.	0.596	.	GAG|0.965;-|0.035	0.035	strong	.	HTT	221	.	NM_002111	exon58	c.7917_7919del	p.2639_2640del	.	.	PASS	Pindel,Atlas-Indel
KIAA1009	22832	hgsc.bcm.edu	37	6	84896314	84896316	+	In_Frame_Del	DEL	TTC	TTC	-	rs199518175	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TTC	TTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	27	55	.	0.333	.	TTC|0.961;-|0.039	0.039	strong	.	KIAA1009	119	.	NM_014895	exon12	c.1136_1138del	p.379_380del	.	.	PASS	Pindel,Atlas-Indel
DEFB126	81623	hgsc.bcm.edu	37	20	126156	126159	+	Frame_Shift_Del	DEL	CAAA	CAAA	-	rs11467497	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CAAA	CAAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	52	143	.	0.315	.	CAAA|0.834;-|0.166	0.166	strong	.	DEFB126	52	.	NM_030931	exon2	c.158_161del	p.53_54del	.	.	PASS	Pindel,Atlas-Indel
ALMS1	7840	hgsc.bcm.edu	37	2	73681184	73681184	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	30	92	.	0.222	.	.	.	none	ALMS1,NS,carcinoma,0,1	ALMS1	384	1	NM_015120	exon8	c.7526delT	p.V2509fs	.	.	PASS	Pindel,Atlas-Indel
TNRC6A	27327	hgsc.bcm.edu	37	16	24788423	24788434	+	In_Frame_Del	DEL	GCAGCCACAGCC	GCAGCCACAGCC	-	rs71383714	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	GCAGCCACAGCC	GCAGCCACAGCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	32	39	0	0.516129	0	GCAGCCACAGCC|0.906;-|0.094	0.094	strong	.	TNRC6A	171	.	NM_014494	exon5	c.332_343del	p.111_115del	.	.	PASS	Atlas-Indel
FRG2C	100288801	hgsc.bcm.edu	37	3	75713659	75713660	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	255	27	188	0	0.105882	0	.	.	none	.	FRG2C	16	.	NM_001124759	exon1	c.128_129del	p.43_43del	.	.	PASS	Atlas-Indel
PALM2-AKAP2	445815	hgsc.bcm.edu	37	9	112900341	112900342	+	In_Frame_Ins	INS	-	-	GAAGCT	rs150402481	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	27	52	.	0.435	.	.	.	strong	.	PALM2-AKAP2	117	.	NM_007203	exon8	c.2517_2518insGAAGCT	p.E839delinsEEA	.	.	PASS	Pindel,Atlas-Indel
DYSF	8291	hgsc.bcm.edu	37	2	71871177	71871195	+	In_Frame_Del	DEL	ATTTTGACACCCTGAAGGT	ATTTTGACACCCTGAAGGT	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	ATTTTGACACCCTGAAGGT	ATTTTGACACCCTGAAGGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	57	180	.	0.270	.	.	.	none	.	DYSF	536	.	NM_001130987	exon42	c.4609_4626del	p.1537_1542del	.	.	PASS	Pindel,Atlas-Indel
OR5B12	390191	hgsc.bcm.edu	37	11	58207036	58207036	+	Frame_Shift_Del	DEL	T	T	-	rs201567144	by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	29	112	.	0.195	.	T|0.994;-|0.006	0.006	strong	.	OR5B12	80	.	NM_001004733	exon1	c.590delT	p.I197fs	.	.	PASS	Pindel,Atlas-Indel
VSIG10	54621	hgsc.bcm.edu	37	12	118511660	118511677	+	In_Frame_Del	DEL	TGATCACCTCGGGCTGGG	TGATCACCTCGGGCTGGG	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TGATCACCTCGGGCTGGG	TGATCACCTCGGGCTGGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	38	123	.	0.336	.	.	.	none	.	VSIG10	41	.	NM_019086	exon5	c.1047_1064del	p.349_355del	.	.	PASS	Pindel,Atlas-Indel
ZNF3	7551	hgsc.bcm.edu	37	7	99662512	99662515	+	Frame_Shift_Del	DEL	TAGT	TAGT	-	rs71689664	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TAGT	TAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	30	126	.	0.294	.	TAGT|0.748;-|0.252	0.252	strong	.	ZNF3	54	.	NM_017715	exon6	c.293_296del	p.98_99del	.	.	PASS	Pindel,Atlas-Indel
DNAJC28	54943	hgsc.bcm.edu	37	21	34860750	34860754	+	Frame_Shift_Del	DEL	AATTA	AATTA	-	rs139852262	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	AATTA	AATTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	65	176	.	0.344	.	AATTA|0.826;-|0.174	0.174	strong	.	DNAJC28	47	.	NM_001040192	exon2	c.948_952del	p.316_318del	.	.	PASS	Pindel,Atlas-Indel
TRDN	10345	hgsc.bcm.edu	37	6	123594510	123594511	+	Splice_Site	INS	-	-	A	rs147062785	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	17	77	.	0.215	.	-|0.740;A|0.260	0.260	strong	.	TRDN	88	.	NM_006073	exon29	c.1598-2->T	.	.	.	PASS	Pindel,Atlas-Indel
ETFB	2109	hgsc.bcm.edu	37	19	51857874	51857875	+	In_Frame_Ins	INS	-	-	CCACAG	rs61361626	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	26	128	.	0.292	.	-|0.937;CCACAG|0.063	0.063	strong	.	ETFB	46	.	NM_001014763	exon1	c.19_20insCTGTGG	p.V7delinsLWV	.	.	PASS	Pindel,Atlas-Indel
SPATA31A3	727830	hgsc.bcm.edu	37	9	40705744	40705744	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	504	37	207	0	0.0734127	0	.	.	none	.	.	.	.	NM_001083124	exon4	c.3400delA	p.T1134fs	.	.	PASS	Atlas-Indel
DMKN	93099	hgsc.bcm.edu	37	19	36002410	36002412	+	In_Frame_Del	DEL	CTG	CTG	-	rs111543270		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CTG	CTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	21	45	0	0.313433	0	CTG|0.500;-|0.500	0.500	weak	.	DMKN	116	.	NM_033317	exon5	c.820_822del	p.274_274del	.	.	PASS	Atlas-Indel
ZNF83	55769	hgsc.bcm.edu	37	19	53116646	53116648	+	In_Frame_Del	DEL	TGT	TGT	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TGT	TGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	26	60	.	0.325	.	.	.	none	.	ZNF83	73	.	NM_001105551	exon5	c.1171_1173del	p.391_391del	.	.	PASS	Pindel,Atlas-Indel
SCRN3	79634	hgsc.bcm.edu	37	2	175292581	175292593	+	Frame_Shift_Del	DEL	TCAAATTTATCAG	TCAAATTTATCAG	-	rs145699077	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TCAAATTTATCAG	TCAAATTTATCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	354	78	450	.	0.220	.	TCAAATTTATCAG|0.751;-|0.249	0.249	strong	.	SCRN3	76	.	NM_024583	exon8	c.1232_1244del	p.411_415del	.	.	PASS	Pindel,Atlas-Indel
KLF17	128209	hgsc.bcm.edu	37	1	44596380	44596382	+	In_Frame_Del	DEL	CAA	CAA	-	rs34057178	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CAA	CAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	56	100	.	0.691	.	CAA|0.811;-|0.189	0.189	strong	.	KLF17	92	.	NM_173484	exon3	c.1121_1123del	p.374_375del	.	.	PASS	Pindel,Atlas-Indel
OR8I2	120586	hgsc.bcm.edu	37	11	55861307	55861307	+	Frame_Shift_Del	DEL	A	A	-	rs144690814	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	50	132	0	0.342466	0	.	.	strong	.	OR8I2	119	.	NM_001003750	exon1	c.523delC	p.H175fs	.	.	PASS	Atlas-Indel
PRDM2	7799	hgsc.bcm.edu	37	1	14105121	14105122	+	In_Frame_Ins	INS	-	-	GAA	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	25	80	.	0.250	.	.	.	none	PRDM2,colon,carcinoma,0,1	PRDM2	147	1	NM_015866	exon8	c.831_832insGAA	p.D277delinsDE	.	.	PASS	Pindel,Atlas-Indel
OR5B12	390191	hgsc.bcm.edu	37	11	58207035	58207036	+	Frame_Shift_Del	DEL	AT	AT	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	14	109	0	0.0958904	0	.	.	none	.	OR5B12	80	.	NM_001004733	exon1	c.590_591del	p.197_197del	.	.	PASS	Atlas-Indel
OR6C1	390321	hgsc.bcm.edu	37	12	55714406	55714407	+	Frame_Shift_Ins	INS	-	-	A	rs5798345	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	29	71	.	0.322	.	-|0.656;A|0.344	0.344	strong	.	OR6C1	58	.	NM_001005182	exon1	c.23_24insA	p.T8fs	.	.	PASS	Pindel,Atlas-Indel
MAGI1	9223	hgsc.bcm.edu	37	3	65425560	65425561	+	In_Frame_Ins	INS	-	-	CTG	rs142043619	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	21	48	0	0.344262	0	.	.	strong	.	MAGI1	481	.	NM_001033057	exon9	c.1264_1265insCAG	p.T422delinsQT	.	.	PASS	Atlas-Indel
AKAP9	10142	hgsc.bcm.edu	37	7	91652178	91652179	+	In_Frame_Ins	INS	-	-	AAC	rs10644111	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	23	45	.	0.333	.	-|0.604;AAC|0.396	0.396	strong	.	AKAP9	788	.	NM_147185	exon14	c.4003_4004insAAC	p.K1335delinsKQ	.	.	PASS	Pindel,Atlas-Indel
FOXD4L2	100036519	hgsc.bcm.edu	37	9	42719309	42719311	+	In_Frame_Del	DEL	GCT	GCT	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	GCT	GCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	20	233	0	0.136054	0	.	.	none	.	FOXD4L2	4	.	NM_001099279	exon1	c.1243_1245del	p.415_415del	.	.	PASS	Atlas-Indel
PTPRQ	374462	hgsc.bcm.edu	37	12	80943506	80943523	+	In_Frame_Del	DEL	TGAAACAGGTAACTAACG	TGAAACAGGTAACTAACG	-	rs141686707	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TGAAACAGGTAACTAACG	TGAAACAGGTAACTAACG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	34	120	.	0.274	.	.	.	strong	.	PTPRQ	119	.	NM_001145026	exon22	c.3761_3769del	p.1254_1257del	.	.	PASS	Pindel,Atlas-Indel
OR52N5	390075	hgsc.bcm.edu	37	11	5799652	5799652	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	18	0	.	0.180	.	.	.	none	.	OR52N5	58	.	NM_001001922	exon1	c.214delG	p.G72fs	.	.	PASS	Pindel,Atlas-Indel
CUL9	23113	hgsc.bcm.edu	37	6	43174057	43174065	+	In_Frame_Del	DEL	AGGAGGAAG	AGGAGGAAG	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	AGGAGGAAG	AGGAGGAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	20	66	.	0.400	.	.	.	none	.	CUL9	248	.	NM_015089	exon26	c.5023_5028del	p.1675_1676del	.	.	PASS	Pindel,Atlas-Indel
NCOA3	8202	hgsc.bcm.edu	37	20	46279837	46279839	+	In_Frame_Del	DEL	CAG	CAG	-	rs147879509	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	37	102	0	0.321739	0	CAG|0.669;-|0.331	0.331	strong	NCOA3,NS,carcinoma,0,1	NCOA3	156	1	NM_181659	exon20	c.3762_3764del	p.1254_1255del	.	.	PASS	Atlas-Indel
DNAJC9	23234	hgsc.bcm.edu	37	10	75005896	75005902	+	Frame_Shift_Del	DEL	GTATGTC	GTATGTC	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	GTATGTC	GTATGTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	20	168	.	0.169	.	.	.	none	.	DNAJC9	19	.	NM_015190	exon3	c.355_361del	p.119_121del	.	.	PASS	Pindel,Atlas-Indel
FAM74A3	728495	hgsc.bcm.edu	37	9	40715923	40715924	+	RNA	DEL	AA	AA	-	rs374953827	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	76	452	0	0.47205	0	.	.	weak	.	FAM74A3	17	.	.	.	.	.	.	.	PASS	Atlas-Indel
PYGL	5836	hgsc.bcm.edu	37	14	51378591	51378591	+	Splice_Site	DEL	T	T	-	rs11356035	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	71	169	.	0.372	.	T|0.468;-|0.532	0.532	strong	.	PYGL	77	.	NM_001163940	exon16	c.1726-1A>-	.	.	.	PASS	Pindel,Atlas-Indel
HRCT1	646962	hgsc.bcm.edu	37	9	35906584	35906586	+	In_Frame_Del	DEL	CCA	CCA	-	rs143611048	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CCA	CCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	28	11	36	0	0.392857	0	.	.	strong	HRCT1,NS,malignant_melanoma,0,1	HRCT1	14	1	NM_001039792	exon1	c.299_301del	p.100_101del	.	.	PASS	Atlas-Indel
LILRB4	11006	hgsc.bcm.edu	37	19	55179244	55179244	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	218	32	206	0	0.146789	0	.	.	none	.	LILRB4	86	.	NM_006847	exon11	c.1199delA	p.E400fs	.	.	PASS	Atlas-Indel
ZNF772	400720	hgsc.bcm.edu	37	19	57988666	57988667	+	In_Frame_Ins	INS	-	-	GCC	rs34678661	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	214	59	199	.	0.276	.	GCC|1.000;|0.000	1.000	strong	ZNF772,colon,carcinoma,0,1	ZNF772	42	1	NM_001024596	exon1	c.12_13insGGC	p.A4delinsAA	.	.	PASS	Pindel,Atlas-Indel
OR8I2	120586	hgsc.bcm.edu	37	11	55861278	55861278	+	Frame_Shift_Del	DEL	T	T	-	rs138372442	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	45	126	0	0.362903	0	T|0.961;-|0.039	0.039	strong	.	OR8I2	119	.	NM_001003750	exon1	c.494delG	p.S165fs	.	.	PASS	Atlas-Indel
IGSF3	3321	hgsc.bcm.edu	37	1	117122285	117122286	+	In_Frame_Ins	INS	-	-	TCC	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	32	84	0	0.326531	0	.	.	none	IGSF3_ENST00000369483,NS,carcinoma,0,4	IGSF3	294	4	NM_001542	exon11	c.3123_3124insGGA	p.D1041delinsED	.	.	PASS	Atlas-Indel
CC2D2A	57545	hgsc.bcm.edu	37	4	15513005	15513007	+	In_Frame_Del	DEL	GAA	GAA	-	rs112367037	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	GAA	GAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	56	90	.	0.602	.	GAA|0.958;-|0.042	0.042	strong	.	CC2D2A	158	.	NM_001080522	exon9	c.675_677del	p.225_226del	.	.	PASS	Pindel,Atlas-Indel
RAI1	10743	hgsc.bcm.edu	37	17	17697099	17697100	+	Frame_Shift_Del	DEL	GC	GC	-	rs35068024	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	25	65	0	0.280899	0	GC|0.875;-|0.125	0.125	strong	.	RAI1	121	.	NM_030665	exon3	c.836_837del	p.279_279del	.	.	PASS	Atlas-Indel
RIC8A	60626	hgsc.bcm.edu	37	11	209895	209897	+	In_Frame_Del	DEL	CCC	CCC	-	rs3832797	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CCC	CCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	40	12	29	.	0.300	.	CCC|0.579;-|0.421	0.421	strong	.	RIC8A	45	.	NM_021932	exon3	c.620_622del	p.207_208del	.	.	PASS	Pindel,Atlas-Indel
FAM98B	283742	hgsc.bcm.edu	37	15	38776807	38776815	+	In_Frame_Del	DEL	GGTGGTGGT	GGTGGTGGT	-	rs201831942	by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	GGTGGTGGT	GGTGGTGGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	14	56	.	0.192	.	GGTGGTGGT|0.896;-|0.104	0.104	strong	.	FAM98B	53	.	NM_173611	exon8	c.1248_1256del	p.416_419del	.	.	PASS	Pindel,Atlas-Indel
WDR81	124997	hgsc.bcm.edu	37	17	1631341	1631343	+	In_Frame_Del	DEL	GAG	GAG	-	rs35048651	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	18	74	.	0.290	.	-|0.172;GAG|0.828	0.172	strong	.	WDR81	180	.	NM_001163809	exon1	c.3087_3089del	p.1029_1030del	.	.	PASS	Pindel,Atlas-Indel
BAIAP2L2	80115	hgsc.bcm.edu	37	22	38483155	38483156	+	In_Frame_Ins	INS	-	-	TCATGGGTG	rs142739979	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	32	48	.	0.667	.	.	.	strong	BAIAP2L2,NS,carcinoma,0,4	BAIAP2L2	39	4	NM_025045	exon11	c.1235_1236insCACCCATGA	p.N412delinsTPMN	.	.	PASS	Pindel,Atlas-Indel
OR2T4	127074	hgsc.bcm.edu	37	1	248525328	248525329	+	Frame_Shift_Ins	INS	-	-	TA	rs61248663	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	666	189	729	0	0.283784	0	-|0.754;TA|0.246	0.246	strong	.	OR2T4	126	.	NM_001004696	exon1	c.446_447insTA	p.T149fs	.	.	PASS	Atlas-Indel
CNDP1	84735	hgsc.bcm.edu	37	18	72223591	72223592	+	In_Frame_Ins	INS	-	-	TGC	rs10663835	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	34	103	.	0.309	.	-|0.500;TGC|0.500	0.500	strong	.	CNDP1	98	.	NM_032649	exon2	c.43_44insTGC	p.V15delinsVL	.	.	PASS	Pindel,Atlas-Indel
MAN2A1	4124	hgsc.bcm.edu	37	5	109190936	109190938	+	In_Frame_Del	DEL	CTC	CTC	-	rs3217225	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	45	78	.	0.346	.	CTC|0.730;-|0.270	0.270	strong	MAN2A1,NS,carcinoma,-1,2	MAN2A1	136	2	NM_002372	exon20	c.3071_3073del	p.1024_1025del	.	.	PASS	Pindel,Atlas-Indel
AMOT	154796	hgsc.bcm.edu	37	X	112022297	112022298	+	In_Frame_Ins	INS	-	-	AGG	rs147791784	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	78	104	.	0.510	.	.	.	weak	.	AMOT	204	.	NM_001113490	exon10	c.3085_3086insCCT	p.A1029delinsPA	.	.	PASS	Pindel,Atlas-Indel
IL32	9235	hgsc.bcm.edu	37	16	3119297	3119298	+	Frame_Shift_Ins	INS	-	-	G	rs71818662	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	258	51	124	.	0.198	.	.	.	strong	IL32,NS,carcinoma,0,1	IL32	32	1	NM_004221	exon7	c.508_509insG	p.R170fs	.	.	PASS	Pindel,Atlas-Indel
PDPK1	5170	hgsc.bcm.edu	37	16	2611896	2611899	+	Frame_Shift_Del	DEL	CGAC	CGAC	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CGAC	CGAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	582	62	582	0	0.106529	0	.	.	none	.	PDPK1	37	.	NM_001261816	exon4	c.452_455del	p.151_152del	.	.	PASS	Atlas-Indel
ROBO3	64221	hgsc.bcm.edu	37	11	124750448	124750453	+	In_Frame_Del	DEL	CGGAGT	CGGAGT	-	rs71859853	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CGGAGT	CGGAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	49	70	.	0.516	.	CGGAGT|0.626;-|0.374	0.374	strong	.	ROBO3	199	.	NM_022370	exon27	c.4092_4097del	p.1364_1366del	.	.	PASS	Pindel,Atlas-Indel
TUT1	64852	hgsc.bcm.edu	37	11	62359061	62359061	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	12	46	.	0.240	.	.	.	none	.	TUT1	122	.	NM_022830	exon1	c.12delT	p.P4fs	.	.	PASS	Pindel,Atlas-Indel
RP1L1	94137	hgsc.bcm.edu	37	8	10466004	10466024	+	In_Frame_Del	DEL	CTGGGCCTCCCCTTCAGCCTC	CTGGGCCTCCCCTTCAGCCTC	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CTGGGCCTCCCCTTCAGCCTC	CTGGGCCTCCCCTTCAGCCTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	22	60	0	0.26506	0	.	.	none	RP1L1,lower_third,carcinoma,+2,1	RP1L1	453	1	NM_178857	exon4	c.5585_5605del	p.1862_1869del	.	.	PASS	Atlas-Indel
OR2W3	343171	hgsc.bcm.edu	37	1	248059779	248059780	+	Frame_Shift_Ins	INS	-	-	A	rs112696640	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	44	88	.	0.314	.	-|0.876;A|0.124	0.124	strong	.	OR2W3	113	.	NM_001001957	exon1	c.891_892insA	p.V297fs	.	.	PASS	Pindel,Atlas-Indel
BAIAP2L2	80115	hgsc.bcm.edu	37	22	38482353	38482394	+	In_Frame_Del	DEL	TGCGGGAGCGGGACTGGCCATCCCAGTACTCCGAGGGTGCTA	TGCGGGAGCGGGACTGGCCATCCCAGTACTCCGAGGGTGCTA	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TGCGGGAGCGGGACTGGCCATCCCAGTACTCCGAGGGTGCTA	TGCGGGAGCGGGACTGGCCATCCCAGTACTCCGAGGGTGCTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	32	22	129	.	0.688	.	.	.	none	.	BAIAP2L2	39	.	NM_025045	exon12	c.1323_1364del	p.441_455del	.	.	PASS	Pindel,Atlas-Indel
OR5K3	403277	hgsc.bcm.edu	37	3	98110406	98110407	+	Frame_Shift_Ins	INS	-	-	A	rs144759043	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	28	45	.	0.778	.	-|0.649;A|0.351	0.351	strong	.	OR5K3	60	.	NM_001005516	exon1	c.897_898insA	p.M299fs	.	.	PASS	Pindel,Atlas-Indel
MICA	100507436	hgsc.bcm.edu	37	6	31380161	31380162	+	Frame_Shift_Ins	INS	-	-	CT	rs373265782	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	32	118	.	0.208	.	.	.	weak	.	MICA	21	.	NM_001177519	exon5	c.952_953insCT	p.G318fs	.	.	PASS	Pindel,Atlas-Indel
OR5H6	79295	hgsc.bcm.edu	37	3	97983488	97983496	+	In_Frame_Del	DEL	TGTAACCAC	TGTAACCAC	-	rs74203917	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TGTAACCAC	TGTAACCAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	230	59	248	.	0.257	.	TGTAACCAC|0.673;-|0.327	0.327	strong	.	OR5H6	89	.	NM_001005479	exon1	c.359_367del	p.120_123del	.	.	PASS	Pindel,Atlas-Indel
DDX20	11218	hgsc.bcm.edu	37	1	112305578	112305580	+	In_Frame_Del	DEL	ATG	ATG	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	ATG	ATG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	30	113	.	0.300	.	.	.	none	.	DDX20	50	.	NM_007204	exon10	c.1260_1262del	p.420_421del	.	.	PASS	Pindel,Atlas-Indel
OR52A1	23538	hgsc.bcm.edu	37	11	5172795	5172796	+	Frame_Shift_Ins	INS	-	-	C	rs112098990	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	36	116	.	0.333	.	-|0.838;C|0.162	0.162	strong	OR52A1,NS,carcinoma,+1,1	OR52A1	58	1	NM_012375	exon1	c.805_806insG	p.S269fs	.	.	PASS	Pindel,Atlas-Indel
BBX	56987	hgsc.bcm.edu	37	3	107491759	107491761	+	In_Frame_Del	DEL	AGA	AGA	-	rs34531902	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	57	152	.	0.329	.	AGA|0.951;-|0.049	0.049	strong	.	BBX	156	.	NM_001142568	exon11	c.1190_1192del	p.397_398del	.	.	PASS	Pindel,Atlas-Indel
UBAC1	10422	hgsc.bcm.edu	37	9	138836942	138836944	+	In_Frame_Del	DEL	CCT	CCT	-	rs140946801	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CCT	CCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	39	102	.	0.368	.	CCT|0.815;-|0.185	0.185	strong	.	UBAC1	40	.	NM_016172	exon7	c.807_809del	p.269_270del	.	.	PASS	Pindel,Atlas-Indel
OR2T12	127064	hgsc.bcm.edu	37	1	248458876	248458876	+	Frame_Shift_Del	DEL	T	T	-	rs11339452	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	302	56	293	.	0.185	.	T|0.803;-|0.197	0.197	strong	OR2T12,NS,carcinoma,-1,1	OR2T12	113	1	NM_001004692	exon1	c.6delG	p.E2fs	.	.	PASS	Pindel,Atlas-Indel
OR5K4	403278	hgsc.bcm.edu	37	3	98073592	98073592	+	Frame_Shift_Del	DEL	A	A	-	rs11288615	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	53	34	30	.	0.642	.	A|0.650;-|0.350	0.350	strong	.	OR5K4	75	.	NM_001005517	exon1	c.894delT	p.L298fs	.	.	PASS	Pindel,Atlas-Indel
CACNA1B	774	hgsc.bcm.edu	37	9	140918171	140918185	+	In_Frame_Del	DEL	GGAGAAGGAGACCAC	GGAGAAGGAGACCAC	-	rs145816559	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	GGAGAAGGAGACCAC	GGAGAAGGAGACCAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	19	16	94	.	0.842	.	GGAGAAGGAGACCAC|0.621;-|0.379	0.379	strong	.	CACNA1B	266	.	NM_001243812	exon19	c.2975_2989del	p.992_997del	.	.	PASS	Pindel
IFIH1	64135	hgsc.bcm.edu	37	2	163128798	163128801	+	Frame_Shift_Del	DEL	TCTC	TCTC	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TCTC	TCTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	345	102	312	.	0.296	.	.	.	none	.	IFIH1	102	.	NM_022168	exon13	c.2552_2555del	p.851_852del	.	.	PASS	Pindel
IQSEC1	9922	hgsc.bcm.edu	37	3	12942851	12942851	+	Frame_Shift_Del	DEL	C	C	-	rs56387830	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	16	12	17	.	0.750	.	C|0.010;-|0.990	0.990	strong	.	IQSEC1	88	.	NM_001134382	exon15	c.2977delC	p.P993fs	.	.	PASS	Pindel
PKD1L2	114780	hgsc.bcm.edu	37	16	81242149	81242151	+	In_Frame_Del	DEL	TTT	TTT	-	rs55980345	bycluster;by1000genomes;alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TTT	TTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	26	18	43	.	0.692	.	-|0.500;TT|0.500	0.500	alt	.	PKD1L2	361	.	NM_001076780	exon4	c.706_708del	p.236_236del	.	.	PASS	Pindel
RHBG	57127	hgsc.bcm.edu	37	1	156354348	156354348	+	Frame_Shift_Del	DEL	C	C	-	rs11303415	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	66	97	.	0.579	.	-|1.000;|0.000	1.000	strong	.	RHBG	133	.	NM_020407	exon9	c.1264delT	p.S422fs	.	.	PASS	Pindel
ACIN1	22985	hgsc.bcm.edu	37	14	23548783	23548784	+	In_Frame_Ins	INS	-	-	GAACGT	rs148403158	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	58	197	.	0.286	.	.	.	strong	.	ACIN1	147	.	NM_014977	exon6	c.1935_1936insACGTTC	p.S645delinsSRS	.	.	PASS	Pindel
OR8I2	120586	hgsc.bcm.edu	37	11	55861280	55861307	+	Frame_Shift_Del	DEL	TGGCGTTCTGTGATTCCAGCATCAATCA	TGGCGTTCTGTGATTCCAGCATCAATCA	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TGGCGTTCTGTGATTCCAGCATCAATCA	TGGCGTTCTGTGATTCCAGCATCAATCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	23	134	.	0.168	.	.	.	none	.	OR8I2	119	.	NM_001003750	exon1	c.496_523del	p.166_175del	.	.	PASS	Pindel
PSORS1C1	170679	hgsc.bcm.edu	37	6	31106500	31106501	+	Frame_Shift_Ins	INS	-	-	C	rs138474986	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	45	138	.	0.298	.	.	.	strong	.	PSORS1C1	11	.	NM_014068	exon5	c.111_112insC	p.R37fs	.	.	PASS	Pindel
NEFH	4744	hgsc.bcm.edu	37	22	29885567	29885568	+	In_Frame_Ins	INS	-	-	AAGTCCCCTGAGAAGGCC	rs147489453	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	16	47	.	0.364	.	.	.	strong	NEFH,rectum,carcinoma,0,1	NEFH	178	1	NM_021076	exon4	c.1938_1939insAAGTCCCCTGAGAAGGCC	p.A646delinsAKSPEKA	.	.	PASS	Pindel
CLEC17A	388512	hgsc.bcm.edu	37	19	14694175	14694176	+	In_Frame_Ins	INS	-	-	GGA	rs34295949	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	243	48	238	.	0.198	.	-|0.500;GGA|0.500	0.500	weak	.	CLEC17A	27	.	NM_207390	exon2	c.50_51insGGA	p.M17delinsME	.	.	PASS	Pindel
RAI1	10743	hgsc.bcm.edu	37	17	17697094	17697096	+	In_Frame_Del	DEL	CAG	CAG	-	rs371983878	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	25	64	.	0.275	.	.	.	weak	.	RAI1	121	.	NM_030665	exon3	c.831_833del	p.277_278del	.	.	PASS	Pindel
KIAA1009	22832	hgsc.bcm.edu	37	6	84884494	84884495	+	In_Frame_Ins	INS	-	-	TCCTGTTGTTTCTTTAGTTCTTCCAACTTATTTTCTAGTTCTTTC	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	35	156	.	0.189	.	.	.	none	.	KIAA1009	119	.	NM_014895	exon15	c.1977_1978insGAAAGAACTAGAAAATAAGTTGGAAGAACTAAAGAAACAACAGGA	p.E659delinsEKELENKLEELKKQQE	.	.	PASS	Pindel
AKD1	221264	hgsc.bcm.edu	37	6	109906330	109906332	+	In_Frame_Del	DEL	CTT	CTT	-	rs71770197	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	15	61	.	0.294	.	CTT|0.626;-|0.374	0.374	strong	.	AKD1	223	.	NM_001145128	exon19	c.2109_2111del	p.703_704del	.	.	PASS	Pindel
ACTRT2	140625	hgsc.bcm.edu	37	1	2938408	2938410	+	In_Frame_Del	DEL	AGA	AGA	-	rs4013154	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	41	87	.	0.342	.	AGA|0.848;-|0.152	0.152	strong	ACTRT2,NS,carcinoma,-1,1	ACTRT2	69	1	NM_080431	exon1	c.157_159del	p.53_53del	.	.	PASS	Pindel
DMKN	93099	hgsc.bcm.edu	37	19	36002362	36002412	+	In_Frame_Del	DEL	CTGCTGCCACCACTGCTGCCGCCACTGCTGCCGCCACTGCTGCTGCCACTG	CTGCTGCCACCACTGCTGCCGCCACTGCTGCCGCCACTGCTGCTGCCACTG	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CTGCTGCCACCACTGCTGCCGCCACTGCTGCCGCCACTGCTGCTGCCACTG	CTGCTGCCACCACTGCTGCCGCCACTGCTGCCGCCACTGCTGCTGCCACTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	25	49	.	0.385	.	.	.	none	.	DMKN	116	.	NM_033317	exon5	c.820_870del	p.274_290del	.	.	PASS	Pindel
ZNF384	171017	hgsc.bcm.edu	37	12	6777070	6777072	+	In_Frame_Del	DEL	TGC	TGC	-	rs3835029	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TGC	TGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	20	48	.	0.345	.	.	.	strong	ZNF384_ENST00000361959,caecum,carcinoma,0,4	ZNF384	102	4	NM_001135734	exon11	c.1543_1545del	p.515_515del	.	.	PASS	Pindel
OVGP1	5016	hgsc.bcm.edu	37	1	111957515	111957583	+	In_Frame_Del	DEL	ACTCACAGGGGTCACAGACTGATGACCCACAGGGGTCAGGGTCTTTTCCCCAGGGGTCACAGACTGATA	ACTCACAGGGGTCACAGACTGATGACCCACAGGGGTCAGGGTCTTTTCCCCAGGGGTCACAGACTGATA	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	ACTCACAGGGGTCACAGACTGATGACCCACAGGGGTCAGGGTCTTTTCCCCAGGGGTCACAGACTGATA	ACTCACAGGGGTCACAGACTGATGACCCACAGGGGTCAGGGTCTTTTCCCCAGGGGTCACAGACTGATA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	33	167	.	0.217	.	.	.	none	.	OVGP1	177	.	NM_002557	exon11	c.1541_1609del	p.514_537del	.	.	PASS	Pindel
FAM74A3	728495	hgsc.bcm.edu	37	9	40715911	40715944	+	RNA	DEL	GAGAAGACGTGGAAAGAGCTCAGAGGCTGTCCCA	GAGAAGACGTGGAAAGAGCTCAGAGGCTGTCCCA	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	GAGAAGACGTGGAAAGAGCTCAGAGGCTGTCCCA	GAGAAGACGTGGAAAGAGCTCAGAGGCTGTCCCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	50	488	.	0.267	.	.	.	none	FAM74A3,right_upper_lobe,carcinoma,-1,1	FAM74A3	17	1	.	.	.	.	.	.	PASS	Pindel
PCDHA4	56144	hgsc.bcm.edu	37	5	140186979	140186990	+	In_Frame_Del	DEL	GGGCCGCGGAGG	GGGCCGCGGAGG	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	GGGCCGCGGAGG	GGGCCGCGGAGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	12	66	.	0.308	.	.	.	none	.	PCDHA4	419	.	NM_031500	exon1	c.206_217del	p.69_73del	.	.	PASS	Pindel
FAM157B	100132403	hgsc.bcm.edu	37	9	141107537	141107548	+	In_Frame_Del	DEL	GCAGCAGCAGCA	GCAGCAGCAGCA	-	rs370981092	alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	GCAGCAGCAGCA	GCAGCAGCAGCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	220	40	565	.	0.182	.	.	.	alt	.	.	.	.	NM_001145249	exon2	c.218_229del	p.73_77del	.	.	PASS	Pindel
DCAF15	90379	hgsc.bcm.edu	37	19	14070706	14070707	+	Frame_Shift_Ins	INS	-	-	GGTGGGCCCAGGGCGGGCAG	rs141180609	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	17	145	.	0.179	.	-|0.924;GGTGGGCCCAGGGCGGGCAG|0.076	0.076	strong	.	DCAF15	30	.	NM_138353	exon9	c.1439_1440insGGTGGGCCCAGGGCGGGCAG	p.E480fs	.	.	PASS	Pindel
KRTAP5-5	439915	hgsc.bcm.edu	37	11	1651614	1651643	+	In_Frame_Del	DEL	TACTGCTGCCAGTCCAGCTGCTGTAAGCCC	TACTGCTGCCAGTCCAGCTGCTGTAAGCCC	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	TACTGCTGCCAGTCCAGCTGCTGTAAGCCC	TACTGCTGCCAGTCCAGCTGCTGTAAGCCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	15	67	.	0.227	.	.	.	none	.	KRTAP5-5	86	.	NM_001001480	exon1	c.543_572del	p.181_191del	.	.	PASS	Pindel
MAB21L1	4081	hgsc.bcm.edu	37	13	36050434	36050451	+	RNA	DEL	CTGCTGCTGCTGCTGCTG	CTGCTGCTGCTGCTGCTG	-	rs11275995	alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CTGCTGCTGCTGCTGCTG	CTGCTGCTGCTGCTGCTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	21	75	.	0.477	.	.	.	alt	.	MAB21L1	52	.	.	.	.	.	.	.	PASS	Pindel
PTPRQ	374462	hgsc.bcm.edu	37	12	81063246	81063246	+	Splice_Site	DEL	A	A	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	42	11	37	.	0.262	.	.	.	none	.	PTPRQ	119	.	NM_001145026	exon38	c.5937+2A>-	.	.	.	PASS	Pindel
WNK1	65125	hgsc.bcm.edu	37	12	970297	970297	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	13	50	.	0.181	.	.	.	none	WNK1_ENST00000537687,rectum,carcinoma,-2,2	WNK1	403	2	NM_213655	exon7	c.1738delG	p.E580fs	.	.	PASS	Pindel
PDE4DIP	9659	hgsc.bcm.edu	37	1	144923729	144923729	+	Frame_Shift_Del	DEL	T	T	-	rs3215779	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	431	74	400	.	0.172	.	.	.	weak	.	PDE4DIP	817	.	NM_001002811	exon2	c.1219delC	p.L407fs	.	.	PASS	Pindel
KRTAP5-1	387264	hgsc.bcm.edu	37	11	1606121	1606150	+	In_Frame_Del	DEL	CCACAGCCACCCTTGGATCCCCCACAAGAG	CCACAGCCACCCTTGGATCCCCCACAAGAG	-	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CCACAGCCACCCTTGGATCCCCCACAAGAG	CCACAGCCACCCTTGGATCCCCCACAAGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	15	162	.	0.203	.	.	.	none	.	KRTAP5-1	74	.	NM_001005922	exon1	c.331_360del	p.111_120del	.	.	PASS	Pindel
CD33	945	hgsc.bcm.edu	37	19	51729104	51729107	+	Frame_Shift_Del	DEL	CCGG	CCGG	-	rs201074739	by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	CCGG	CCGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	28	72	.	0.318	.	CCGG|0.992;-|0.008	0.008	strong	.	CD33	55	.	NM_001177608	exon3	c.463_466del	p.155_156del	.	.	PASS	Pindel
HEATR5A	25938	hgsc.bcm.edu	37	14	31856396	31856398	+	In_Frame_Del	DEL	AAG	AAG	-	rs142429257	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	AAG	AAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	216	65	184	.	0.301	.	AAG|0.989;-|0.011	0.011	strong	.	HEATR5A	181	.	NM_015473	exon8	c.1118_1120del	p.373_374del	.	.	PASS	Pindel
TRAPPC9	83696	hgsc.bcm.edu	37	8	141461266	141461266	+	Silent	SNP	A	A	G	rs3735801	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	73	73	0	0.948052	0	A|0.446;G|0.554	0.554	strong	.	TRAPPC9	114	.	NM_031466	exon2	c.T501C	p.G167G	GAAGTCACCCCAC	.	PASS	Atlas-SNP
BBS12	166379	hgsc.bcm.edu	37	4	123664446	123664446	+	Missense_Mutation	SNP	G	G	A	rs13135778	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	69	196	0	0.428571	0	G|0.857;A|0.143	0.143	strong	.	BBS12	63	.	NM_001178007	exon3	c.G1399A	p.D467N	GTGGGCGACGGGG	.	PASS	Atlas-SNP
MAP3K5	4217	hgsc.bcm.edu	37	6	137113248	137113248	+	Missense_Mutation	SNP	G	G	C	rs114489274	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	28	14	26	0	0.5	0	G|0.968;C|0.032	0.032	strong	.	MAP3K5	136	.	NM_005923	exon1	c.C48G	p.F16L	GGGGGCGAAGGGT	.	PASS	Atlas-SNP
INADL	10207	hgsc.bcm.edu	37	1	62261168	62261168	+	Missense_Mutation	SNP	A	A	G	rs7516332	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	161	149	1	0.981707	0.00671141	A|0.589;G|0.411	0.411	strong	INADL,NS,carcinoma,0,1	INADL	179	1	NM_176877	exon10	c.A1198G	p.I400V	AAAAGTATAATAC	.	PASS	Atlas-SNP
RNF43	54894	hgsc.bcm.edu	37	17	56436109	56436109	+	Missense_Mutation	SNP	C	C	T	rs34523089	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	29	44	0	0.966667	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
PCDHA3	56145	hgsc.bcm.edu	37	5	140182101	140182101	+	Missense_Mutation	SNP	G	G	T	rs7701755	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	237	123	204	0	0.518987	0	G|0.413;T|0.587	0.587	strong	PCDHA3_ENST00000522353,NS,carcinoma,0,2	PCDHA3	396	2	NM_031497	exon1	c.G1319T	p.S440I	CGGCCAGCGTGTC	.	PASS	Atlas-SNP
TMEM247	388946	hgsc.bcm.edu	37	2	46707885	46707885	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	13	121	1	0.110169	0.00826446	.	.	none	ENSG00000187600_ENST00000434431,NS,carcinoma,+1,2	.	.	2	NM_001145051	exon2	c.A459G	p.Q153Q	GCAGCAAGAGGCG	.	scavenged	Atlas-SNP
PDCD6IP	10015	hgsc.bcm.edu	37	3	33905566	33905566	+	Missense_Mutation	SNP	C	C	T	rs1127732	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	272	120	300	0	0.441176	0	C|0.800;N|0.001	.	strong	.	PDCD6IP	62	.	NM_001162429	exon16	c.C2204T	p.S735L	AGTCCTCACCAGC	.	PASS	Atlas-SNP
MBL2	4153	hgsc.bcm.edu	37	10	54531235	54531235	+	Missense_Mutation	SNP	C	C	T	rs1800450	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	76	82	0	0.460606	0	C|0.888;T|0.111	0.111	strong	.	MBL2	55	.	NM_000242	exon1	c.G161A	p.G54D	TTGGTGCCATCAC	.	PASS	Atlas-SNP
SAMD1	90378	hgsc.bcm.edu	37	19	14200109	14200109	+	Silent	SNP	T	T	C	rs8062	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	232	131	197	1	0.564655	0.00507614	T|0.928;C|0.002;A|0.070	0.002	strong	.	SAMD1	27	.	NM_138352	exon2	c.A702G	p.E234E	ATCTTCTTCATCT	.	PASS	Atlas-SNP
SUPT20H	55578	hgsc.bcm.edu	37	13	37583831	37583831	+	Missense_Mutation	SNP	G	G	A	rs9469	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	124	284	0	0.925373	0	G|0.646;A|0.354	0.354	strong	.	.	.	.	NM_001014286	exon26	c.C2318T	p.T773M	GTTGGCGTGCCTC	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144906508	144906508	+	Missense_Mutation	SNP	C	C	T	rs34169189	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	401	208	355	0	0.518703	0	C|0.898;T|0.102	0.102	strong	.	PDE4DIP	817	.	NM_001002811	exon14	c.G2838A	p.M946I	CACAGCCATCATG	.	PASS	Atlas-SNP
USP45	85015	hgsc.bcm.edu	37	6	99893938	99893938	+	Silent	SNP	T	T	C	rs4504482	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	29	56	0	0.491525	0	T|0.693;C|0.307	0.307	strong	.	USP45	56	.	NM_001080481	exon14	c.A1710G	p.G570G	TTGATCTCCAGTT	.	PASS	Atlas-SNP
SLAIN2	57606	hgsc.bcm.edu	37	4	48424058	48424058	+	Silent	SNP	C	C	T	rs17609614	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	30	79	0	0.535714	0	C|0.968;T|0.032	0.032	strong	.	SLAIN2	31	.	NM_020846	exon8	c.C1710T	p.S570S	TGGTAGCATGAAA	.	PASS	Atlas-SNP
ZNF645	158506	hgsc.bcm.edu	37	X	22291606	22291606	+	Missense_Mutation	SNP	C	C	A	rs5951426	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	153	145	0	0.993506	0	C|0.602;0|0.023	.	strong	.	ZNF645	67	.	NM_152577	exon1	c.C498A	p.D166E	CTCTGACATCCCT	.	PASS	Atlas-SNP
TRIM63	84676	hgsc.bcm.edu	37	1	26385003	26385003	+	Missense_Mutation	SNP	T	T	C	rs2275950	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	240	113	210	0	0.470833	0	T|0.785;C|0.215	0.215	strong	TRIM63,NS,carcinoma,0,1	TRIM63	33	1	NM_032588	exon5	c.A709G	p.K237E	GCTTTTTCTCCTG	.	PASS	Atlas-SNP
TRIM58	25893	hgsc.bcm.edu	37	1	248039451	248039451	+	Missense_Mutation	SNP	C	C	T	rs3811444	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	178	177	145	1	0.994382	0.00689655	C|0.752;N|0.000	.	strong	TRIM58,colon,carcinoma,0,2	TRIM58	143	2	NM_015431	exon6	c.C1121T	p.T374M	AAACCACGCCATC	.	PASS	Atlas-SNP
PJA1	64219	hgsc.bcm.edu	37	X	68381264	68381264	+	Missense_Mutation	SNP	C	C	A	rs11539157	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	78	52	0	0.876405	0	0|0.013;A|0.129	0.129	strong	.	PJA1	106	.	NM_145119	exon2	c.G1818T	p.E606D	TGCCACCTCCCCC	.	PASS	Atlas-SNP
TAP1	6890	hgsc.bcm.edu	37	6	32814942	32814942	+	Missense_Mutation	SNP	C	C	T	rs200925248		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	31	12	42	0	0.387097	0	.	.	weak	.	TAP1	39	.	NM_000593	exon10	c.G2123A	p.R708Q	GCCTGTCGCTGAC	.	PASS	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39140221	39140221	+	Missense_Mutation	SNP	C	C	T	rs1510068	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	198	104	165	0	0.525253	0	C|0.662;T|0.338	0.338	strong	.	KRT40	27	.	NM_182497	exon3	c.G305A	p.S102N	AGATAGCTGGCGA	.	PASS	Atlas-SNP
GSG1L	146395	hgsc.bcm.edu	37	16	27974487	27974487	+	Silent	SNP	T	T	C	rs2051743	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	149	126	0	1	0	T|0.424;C|0.576	0.576	strong	.	GSG1L	82	.	NM_001109763	exon2	c.A387G	p.A129A	CTCCGATGCCGGG	.	PASS	Atlas-SNP
E4F1	1877	hgsc.bcm.edu	37	16	2285357	2285357	+	Silent	SNP	C	C	T	rs26840	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	73	62	0	0.986486	0	C|0.702;T|0.298	0.298	strong	.	E4F1	53	.	NM_004424	exon14	c.C2139T	p.I713I	CACCATCGCCACC	.	PASS	Atlas-SNP
SLC9A9	285195	hgsc.bcm.edu	37	3	143371201	143371201	+	Silent	SNP	C	C	T	rs1242069	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	88	109	0	0.53012	0	C|0.969;T|0.031	0.031	strong	.	SLC9A9	117	.	NM_173653	exon6	c.G651A	p.V217V	CACTGTCACTAGG	.	PASS	Atlas-SNP
ACAT2	39	hgsc.bcm.edu	37	6	160198395	160198395	+	Silent	SNP	G	G	A	rs3465	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	231	103	212	0	0.445887	0	G|0.719;A|0.281	0.281	strong	.	ACAT2	32	.	NM_005891	exon7	c.G819A	p.G273G	ACGTGGGCTTACA	.	PASS	Atlas-SNP
FRMPD1	22844	hgsc.bcm.edu	37	9	37745413	37745413	+	Silent	SNP	G	G	A	rs3747541	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	70	155	0	0.429448	0	G|0.618;A|0.382	0.382	strong	.	FRMPD1	237	.	NM_014907	exon16	c.G3384A	p.E1128E	GGAGGAGTCTAGG	.	PASS	Atlas-SNP
ZBTB46	140685	hgsc.bcm.edu	37	20	62378418	62378418	+	Silent	SNP	C	C	T	rs74552928	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	23	14	19	0	0.608696	0	C|0.926;T|0.074	0.074	strong	.	ZBTB46	72	.	NM_025224	exon5	c.G1635A	p.A545A	CTCCTCCGCCTCC	.	PASS	Atlas-SNP
CAST	831	hgsc.bcm.edu	37	5	96076487	96076487	+	Silent	SNP	G	G	A	rs7724759	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	367	172	366	1	0.468665	0.00273224	G|0.780;A|0.220	0.220	strong	CAST,NS,carcinoma,+1,2	CAST	58	2	NM_001042440	exon11	c.G795A	p.S265S	CTCTTCGGTGAGT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	91	150	0	0.484043	0	C|0.927;A|0.073	0.073	strong	.	TTF1	82	.	NM_007344	exon2	c.G1079T	p.G360V	TGTGATCCTTCAG	.	PASS	Atlas-SNP
CDC16	8881	hgsc.bcm.edu	37	13	115004935	115004935	+	Silent	SNP	T	T	C	rs2296970	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	40	86	0	0.465116	0	T|0.563;C|0.437	0.437	strong	.	CDC16	50	.	NM_003903	exon5	c.T351C	p.P117P	AGATCCTTCCAGC	.	PASS	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240791	39240791	+	Silent	SNP	C	C	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	32	5	29	0	0.15625	0	.	.	none	KRTAP4-9_ENST00000377734,NS,carcinoma,0,3	KRTAP4-7	49	3	NM_033061	exon1	c.C333G	p.R111R	CTGCCGCCCCAGC	.	scavenged	Atlas-SNP
AKAP9	10142	hgsc.bcm.edu	37	7	91730338	91730338	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	4	73	0	0.0408163	0	.	.	none	.	AKAP9	788	.	NM_005751	exon45	c.C11065T	p.L3689L	CAAACTCTGAGCC	.	PASS	Atlas-SNP
PRRC2A	7916	hgsc.bcm.edu	37	6	31603045	31603045	+	Missense_Mutation	SNP	A	A	G	rs35201773	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	78	125	0	0.496815	0	A|0.983;G|0.017;T|0.000	0.017	strong	.	PRRC2A	152	.	NM_004638	exon22	c.A5297G	p.D1766G	CTAGTGACAAGGT	.	PASS	Atlas-SNP
CDR2L	30850	hgsc.bcm.edu	37	17	72999773	72999773	+	Silent	SNP	C	C	T	rs3744204	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	43	23	37	0	0.534884	0	C|0.748;T|0.252	0.252	strong	.	.	.	.	NM_014603	exon5	c.C1002T	p.H334H	CCGGCACGCGGGC	.	PASS	Atlas-SNP
ARSH	347527	hgsc.bcm.edu	37	X	2928170	2928170	+	Silent	SNP	C	C	T	rs77183343	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	93	96	0	0.911765	0	C|0.899;T|0.101	0.101	strong	.	ARSH	72	.	NM_001011719	exon2	c.C192T	p.T64T	CCTGACCGGCCGG	.	PASS	Atlas-SNP
KIAA0753	9851	hgsc.bcm.edu	37	17	6511781	6511781	+	Silent	SNP	A	A	G	rs4796519	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	50	128	0	0.403226	0	A|0.360;G|0.640	0.640	strong	KIAA0753,colon,carcinoma,-1,1	KIAA0753	63	1	NM_014804	exon10	c.T1716C	p.A572A	CCATGCAGCACTG	.	PASS	Atlas-SNP
PCDHA10	56139	hgsc.bcm.edu	37	5	140237158	140237158	+	Missense_Mutation	SNP	G	G	A	rs142356019	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	66	202	0	0.536585	0	G|0.957;A|0.043	0.043	strong	.	PCDHA10	358	.	NM_031859	exon1	c.G1525A	p.V509M	GTGTCGGTGCACG	.	PASS	Atlas-SNP
HCFC1	3054	hgsc.bcm.edu	37	X	153215839	153215839	+	Silent	SNP	G	G	A	rs3027875	bycluster;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	69	62	0	0.579832	0	G|0.712;A|0.288	0.288	strong	.	HCFC1	284	.	NM_005334	exon24	c.C5859T	p.C1953C	GGGCCCGCAGTAC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	241	238	193	1	0.987552	0.00518135	C|0.375;T|0.625	0.625	strong	.	DCAF4L1	70	.	NM_001029955	exon1	c.C309T	p.S103S	CATCAGCCTGCGA	.	PASS	Atlas-SNP
ACTR5	79913	hgsc.bcm.edu	37	20	37383640	37383640	+	Silent	SNP	T	T	C	rs2748663	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	259	257	248	0	0.992278	0	C|0.243;N|0.000	0.243	strong	.	ACTR5	44	.	NM_024855	exon4	c.T816C	p.N272N	GAATAATGTCCAC	.	PASS	Atlas-SNP
IRS4	8471	hgsc.bcm.edu	37	X	107978342	107978342	+	Silent	SNP	T	T	A	rs80131334	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	81	69	0	0.964286	0	T|0.950;A|0.050	0.050	strong	.	IRS4	253	.	NM_003604	exon1	c.A1233T	p.R411R	TCTTCCTCGCCTG	.	PASS	Atlas-SNP
VRK1	7443	hgsc.bcm.edu	37	14	97299853	97299853	+	Silent	SNP	A	A	G	rs2145635	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	47	73	0	0.61039	0	A|0.687;G|0.313	0.313	strong	.	VRK1	34	.	NM_003384	exon2	c.A45G	p.A15A	CTCTGCAAAGAGA	.	PASS	Atlas-SNP
FAM166B	730112	hgsc.bcm.edu	37	9	35562549	35562549	+	Silent	SNP	G	G	A	rs755774	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	33	60	0	0.507692	0	G|0.653;A|0.347	0.347	strong	.	FAM166B	19	.	NM_001164310	exon5	c.C567T	p.C189C	GCGGGCGCAGGGC	.	PASS	Atlas-SNP
BYSL	705	hgsc.bcm.edu	37	6	41889505	41889505	+	Missense_Mutation	SNP	C	C	T	rs144207756	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	70	115	0	0.526316	0	C|0.998;T|0.002	0.002	strong	.	BYSL	17	.	NM_004053	exon1	c.C205T	p.L69F	GAGGAACTCGAGG	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	37	7	116339672	116339672	+	Silent	SNP	C	C	T	rs35775721	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	82	115	1	0.546667	0.00869565	C|0.935;T|0.065	0.065	strong	MET,NS,carcinoma,0,1	MET	412	1	NM_000245	exon2	c.C534T	p.S178S	GGTGAGCGCCCTG	.	scavenged	Atlas-SNP
KDM4B	23030	hgsc.bcm.edu	37	19	5131955	5131955	+	Silent	SNP	C	C	T	rs45459493	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	89	189	0	0.473404	0	C|0.981;T|0.019	0.019	strong	.	KDM4B	120	.	NM_015015	exon13	c.C1843T	p.L615L	CATCCCCTGGGCC	.	PASS	Atlas-SNP
FSHB	2488	hgsc.bcm.edu	37	11	30255185	30255185	+	Silent	SNP	C	C	T	rs6169	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	77	80	0	1	0	C|0.436;T|0.564	0.564	strong	.	FSHB	28	.	NM_000510	exon3	c.C228T	p.Y76Y	GGTATACGAAACA	.	PASS	Atlas-SNP
NOP56	10528	hgsc.bcm.edu	37	20	2638579	2638579	+	Missense_Mutation	SNP	T	T	C	rs6753	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	54	111	0	0.453782	0	T|0.637;C|0.363	0.363	strong	NOP56,caecum,carcinoma,-1,1	NOP56	73	1	NM_006392	exon12	c.T1424C	p.M475T	AGGAGATGAGTGA	.	PASS	Atlas-SNP
RAG1	5896	hgsc.bcm.edu	37	11	36595600	36595600	+	Missense_Mutation	SNP	A	A	G	rs3740955	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	43	83	0	0.505882	0	A|0.471;G|0.529	0.529	strong	.	RAG1	151	.	NM_000448	exon2	c.A746G	p.H249R	GTCAGCACAAGAG	.	PASS	Atlas-SNP
DSC1	1823	hgsc.bcm.edu	37	18	28720147	28720147	+	Missense_Mutation	SNP	C	C	T	rs17800159	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	198	92	150	0	0.464646	0	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	.	PASS	Atlas-SNP
TBC1D19	55296	hgsc.bcm.edu	37	4	26719569	26719569	+	Silent	SNP	T	T	C	rs34600164	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	87	90	0	0.988636	0	T|0.953;C|0.047	0.047	strong	TBC1D19,trunk,malignant_melanoma,0,1	TBC1D19	53	1	NM_018317	exon14	c.T969C	p.F323F	TTGTTTTTCCCGG	.	PASS	Atlas-SNP
MYH6	4624	hgsc.bcm.edu	37	14	23874523	23874523	+	Silent	SNP	C	C	T	rs2277474	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	53	108	0	0.424	0	C|0.794;A|0.002	.	strong	.	MYH6	274	.	NM_002471	exon5	c.G411A	p.E137E	CACCACCTCGGCA	.	PASS	Atlas-SNP
FBXW10	10517	hgsc.bcm.edu	37	17	18682505	18682505	+	Missense_Mutation	SNP	T	T	C	rs117160613	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	243	7	441	0	0.0288066	0	T|0.778;C|0.222	0.222	strong	FBXW10,NS,carcinoma,0,2	FBXW10	82	2	NM_001267585	exon14	c.T3053C	p.V1018A	GAAAAGTCAGCAA	.	scavenged	Atlas-SNP
PRKG1	5592	hgsc.bcm.edu	37	10	53822301	53822301	+	Missense_Mutation	SNP	A	A	G	rs34997494	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	55	141	0	0.40146	0	A|0.962;G|0.038	0.038	strong	PRKG1_ENST00000401604,NS,adenoma,0,3	PRKG1	167	3	NM_006258	exon7	c.A845G	p.N282S	AGGTAAATGTCAC	.	PASS	Atlas-SNP
PAK7	57144	hgsc.bcm.edu	37	20	9543622	9543622	+	Missense_Mutation	SNP	C	C	T	rs2297345	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	53	125	0	0.40458	0	C|0.503;T|0.497	0.497	strong	.	PAK7	194	.	NM_177990	exon6	c.G1532A	p.S511N	TAGCTGCTGTACA	.	PASS	Atlas-SNP
SCN1A	6323	hgsc.bcm.edu	37	2	166930049	166930049	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	303	5	268	0	0.0165017	0	.	.	none	SCN1A_ENST00000303395,colon,carcinoma,-1,2	SCN1A	641	2	NM_001165964	exon1	c.G83A	p.R28H	GCAATGCGTCTTT	.	scavenged	Atlas-SNP
C19orf48	84798	hgsc.bcm.edu	37	19	51301456	51301456	+	Missense_Mutation	SNP	G	G	A	rs4802741	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	41	62	0	0.376147	0	G|0.713;A|0.287	0.287	strong	.	C19orf48	11	.	NM_199249	exon5	c.C250T	p.R84C	GGTGGCGTATGGA	.	PASS	Atlas-SNP
ROBO4	54538	hgsc.bcm.edu	37	11	124756406	124756406	+	Silent	SNP	G	G	A	rs7104934	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	72	122	0	0.476821	0	G|0.783;A|0.217	0.217	strong	.	ROBO4	130	.	NM_019055	exon16	c.C2748T	p.S916S	ACCAAAGCTATCC	.	PASS	Atlas-SNP
CLDN14	23562	hgsc.bcm.edu	37	21	37833751	37833751	+	Silent	SNP	G	G	A	rs219779	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	44	56	0	0.453608	0	G|0.759;A|0.241	0.241	strong	.	CLDN14	25	.	NM_144492	exon3	c.C243T	p.R81R	GAGGGCGCGGGCA	.	PASS	Atlas-SNP
DOPEY2	9980	hgsc.bcm.edu	37	21	37617986	37617986	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	2	79	0	0.0188679	0	.	.	none	DOPEY2,NS,carcinoma,+2,1	DOPEY2	184	1	NM_005128	exon19	c.C3708T	p.D1236D	CTACGACTCTCGG	.	scavenged	Atlas-SNP
NOTCH4	4855	hgsc.bcm.edu	37	6	32188642	32188642	+	Silent	SNP	T	T	C	rs520688	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	49	113	0	0.445455	0	T|0.705;C|0.295	0.295	strong	.	NOTCH4	201	.	NM_004557	exon5	c.A813G	p.P271P	ACAGTCTGGGCCT	.	PASS	Atlas-SNP
EN1	2019	hgsc.bcm.edu	37	2	119604255	119604255	+	Silent	SNP	C	C	T	rs79126103	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	4	4	6	0	1	0	C|0.935;T|0.065	0.065	strong	EN1,NS,carcinoma,0,1	EN1	33	1	NM_001426	exon1	c.G489A	p.A163A	GCCTGGCGCCCGG	.	PASS	Atlas-SNP
DNMBP	23268	hgsc.bcm.edu	37	10	101657880	101657880	+	Silent	SNP	G	G	A	rs7919323	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	77	165	0	0.905882	0	G|0.689;A|0.311	0.311	strong	.	DNMBP	173	.	NM_015221	exon9	c.C2883T	p.N961N	GTTAACGTTGATT	.	PASS	Atlas-SNP
RPUSD4	84881	hgsc.bcm.edu	37	11	126081403	126081403	+	Missense_Mutation	SNP	T	T	C	rs2282580	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	54	92	0	0.486486	0	T|0.608;C|0.392	0.392	strong	.	RPUSD4	36	.	NM_001144827	exon1	c.A131G	p.Q44R	AATCTCTGGGCAT	.	PASS	Atlas-SNP
BTK	695	hgsc.bcm.edu	37	X	100612565	100612565	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	140	124	0	0.933333	0	.	.	none	.	BTK	87	.	NM_000061	exon13	c.T1109C	p.I370T	CTGGATATGAGTC	.	PASS	Atlas-SNP
OBP2A	29991	hgsc.bcm.edu	37	9	138439806	138439806	+	Missense_Mutation	SNP	C	C	T	rs72766543	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	56	63	0	0.565657	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
TTLL3	26140	hgsc.bcm.edu	37	3	9874914	9874914	+	Nonsense_Mutation	SNP	C	C	T	rs115917139	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	50	87	0	0.543478	0	C|0.975;T|0.025	0.025	strong	.	TTLL3	51	.	NM_001025930	exon11	c.C2110T	p.R704X	ACCCAGCGAGGCT	.	PASS	Atlas-SNP
CSRNP3	80034	hgsc.bcm.edu	37	2	166535918	166535918	+	Silent	SNP	C	C	T	rs777346	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	56	104	0	0.455285	0	C|0.583;T|0.417	0.417	strong	.	CSRNP3	73	.	NM_001172173	exon7	c.C1413T	p.T471T	TTACACCATGACC	.	PASS	Atlas-SNP
ZNF28	7576	hgsc.bcm.edu	37	19	53304563	53304563	+	Missense_Mutation	SNP	T	T	C	rs13382164	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	44	125	0	0.323529	0	T|0.682;C|0.318	0.318	strong	.	ZNF28	191	.	NM_006969	exon4	c.A535G	p.R179G	AAATTCTTTGGGA	.	PASS	Atlas-SNP
TSC2	7249	hgsc.bcm.edu	37	16	2125834	2125834	+	Silent	SNP	T	T	C	rs13337626	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	48	103	0	0.424779	0	T|0.921;C|0.079	0.079	strong	.	TSC2	364	.	NM_001114382	exon23	c.T2580C	p.F860F	GAACTTTGCCGCG	.	PASS	Atlas-SNP
PDE1C	5137	hgsc.bcm.edu	37	7	32209524	32209524	+	Missense_Mutation	SNP	G	G	C	rs377587504		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	204	104	188	0	0.509804	0	.	.	weak	.	PDE1C	465	.	NM_001191058	exon3	c.C181G	p.L61V	CTGTGAGCCCATC	.	PASS	Atlas-SNP
FBXW9	84261	hgsc.bcm.edu	37	19	12802009	12802009	+	Missense_Mutation	SNP	T	T	C	rs143596846	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	52	87	0	0.485981	0	T|0.999;C|0.001	0.001	strong	.	FBXW9	30	.	NM_032301	exon5	c.A854G	p.D285G	TTCTTGTCATAGG	.	PASS	Atlas-SNP
ZNF860	344787	hgsc.bcm.edu	37	3	32031615	32031615	+	Missense_Mutation	SNP	A	A	C	rs13064905	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	252	80	279	0	0.31746	0	A|0.614;C|0.386	0.386	strong	.	ZNF860	96	.	NM_001137674	exon2	c.A1044C	p.E348D	TTGTGAAAAGGCT	.	PASS	Atlas-SNP
IRF6	3664	hgsc.bcm.edu	37	1	209968684	209968684	+	Silent	SNP	C	C	A	rs2013162	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	119	103	1	0.991667	0.00970874	C|0.631;A|0.369	0.369	strong	.	IRF6	65	.	NM_006147	exon5	c.G459T	p.S153S	GTGCTGCGACTGA	.	PASS	Atlas-SNP
REEP4	80346	hgsc.bcm.edu	37	8	21996453	21996453	+	Missense_Mutation	SNP	C	C	T	rs79793560	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	64	85	0	0.551724	0	C|0.985;T|0.015	0.015	strong	.	REEP4	13	.	NM_025232	exon6	c.G539A	p.R180Q	GGCCTCCGGTGGG	.	PASS	Atlas-SNP
WDR17	116966	hgsc.bcm.edu	37	4	177082069	177082069	+	Missense_Mutation	SNP	G	G	C	rs7693453	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	28	56	0	0.318182	0	G|0.793;C|0.207	0.207	strong	.	WDR17	198	.	NM_170710	exon21	c.G2738C	p.C913S	CTGCTTGTGAAGG	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239802	31239802	+	Missense_Mutation	SNP	C	C	G	rs1050451	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	73	119	0	1	0	G|0.730;C|0.270	0.730	strong	.	HLA-C	92	.	NM_002117	exon1	c.G47C	p.G16A	GCCAGGCCTCCCG	.	PASS	Atlas-SNP
TTC7A	57217	hgsc.bcm.edu	37	2	47301029	47301029	+	Silent	SNP	A	A	G	rs3739099	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	267	114	226	0	0.426966	0	A|0.774;G|0.226	0.226	strong	TTC7A,NS,carcinoma,0,1	TTC7A	80	1	NM_020458	exon20	c.A2544G	p.V848V	CCCTGTACTGCCC	.	PASS	Atlas-SNP
CBR3	874	hgsc.bcm.edu	37	21	37518582	37518582	+	Silent	SNP	G	G	A	rs17849671	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	30	96	0	0.4	0	G|0.964;A|0.036	0.036	strong	CBR3,NS,carcinoma,+1,1	CBR3	11	1	NM_001236	exon3	c.G606A	p.T202T	GGTCACGGTCTTA	.	PASS	Atlas-SNP
SPATA2	9825	hgsc.bcm.edu	37	20	48522585	48522585	+	Silent	SNP	G	G	A	rs492702	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	26	12	32	0	0.461538	0	G|0.593;A|0.407	0.407	strong	.	SPATA2	36	.	NM_006038	exon3	c.C1134T	p.S378S	GAGGGCGGACTCT	.	PASS	Atlas-SNP
PCDH15	65217	hgsc.bcm.edu	37	10	55582905	55582905	+	Silent	SNP	G	G	T	rs10825114	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	59	120	0	0.440298	0	G|0.809;T|0.191	0.191	strong	PCDH15_ENST00000417177,NS,malignant_melanoma,-2,4	PCDH15	1715	4	NM_001142763	exon35	c.C4602A	p.P1534P	ATAAAGGGGATTA	.	PASS	Atlas-SNP
PIR	8544	hgsc.bcm.edu	37	X	15415583	15415583	+	Silent	SNP	C	C	T	rs8094	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	197	196	178	0	0.994924	0	0|0.003;T|0.470	0.470	strong	.	PIR	22	.	NM_001018109	exon8	c.G681A	p.Q227Q	CTCCACCTGGACA	.	PASS	Atlas-SNP
FOCAD	54914	hgsc.bcm.edu	37	9	20764870	20764870	+	Missense_Mutation	SNP	T	T	C	rs10511687	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	110	141	0	1	0	T|0.745;C|0.255	0.255	strong	.	.	.	.	NM_017794	exon9	c.T497C	p.L166S	ATAGGTTAGAAGT	.	PASS	Atlas-SNP
ITFG1	81533	hgsc.bcm.edu	37	16	47271876	47271876	+	Silent	SNP	T	T	C	rs8044842	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	244	126	231	1	0.516393	0.004329	T|0.925;C|0.075	0.075	strong	.	ITFG1	49	.	NM_030790	exon13	c.A1374G	p.T458T	ACTTACTGTTATC	.	PASS	Atlas-SNP
ZBTB38	253461	hgsc.bcm.edu	37	3	141163045	141163045	+	Silent	SNP	T	T	C	rs11714558	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	84	146	0	0.512195	0	T|0.985;C|0.015	0.015	strong	.	ZBTB38	92	.	NM_001080412	exon8	c.T1815C	p.V605V	TGTTGTTCAGAAT	.	PASS	Atlas-SNP
ANKRD30A	91074	hgsc.bcm.edu	37	10	37505192	37505192	+	Missense_Mutation	SNP	C	C	T	rs1200875	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	187	170	0	1	0	C|0.845;T|0.155	0.155	strong	.	ANKRD30A	448	.	NM_052997	exon32	c.C2785T	p.R929C	GAACAACGTACAG	.	PASS	Atlas-SNP
CR2	1380	hgsc.bcm.edu	37	1	207648173	207648173	+	Silent	SNP	T	T	C	rs61735651	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	50	91	0	0.462963	0	T|0.917;C|0.083	0.083	strong	.	CR2	164	.	NM_001006658	exon14	c.T2328C	p.I776I	AGTTATTCACTGT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	93	68	0	0.978947	0	C|0.540;A|0.460	0.460	strong	.	ACTL8	58	.	NM_030812	exon2	c.C63A	p.G21G	GGCCGGCTGGAAT	.	PASS	Atlas-SNP
TCOF1	6949	hgsc.bcm.edu	37	5	149755421	149755421	+	Silent	SNP	A	A	G	rs2071239	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	91	141	0	0.448276	0	A|0.832;G|0.168	0.168	strong	.	TCOF1	154	.	NM_001135243	exon12	c.A1842G	p.S614S	GGAGTCATCGGAC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9047305	9047305	+	Silent	SNP	G	G	A	rs10415818	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	103	122	0	0.990385	0	G|0.797;A|0.203	0.203	strong	.	MUC16	4315	.	NM_024690	exon5	c.C34326T	p.H11442H	ACTTGTGTGTGTC	.	PASS	Atlas-SNP
ZNF860	344787	hgsc.bcm.edu	37	3	32031135	32031135	+	Silent	SNP	A	A	G	rs6419811	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	62	163	0	0.410596	0	A|0.567;G|0.433	0.433	strong	ZNF860_ENST00000360311,NS,carcinoma,0,6	ZNF860	96	6	NM_001137674	exon2	c.A564G	p.S188S	TTCCTCAGTTCTA	.	PASS	Atlas-SNP
FBXO47	494188	hgsc.bcm.edu	37	17	37093510	37093510	+	Missense_Mutation	SNP	T	T	C	rs113358400	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	66	112	0	0.584071	0	T|0.981;C|0.019	0.019	strong	.	FBXO47	34	.	NM_001008777	exon11	c.A1277G	p.N426S	AACAAATTCAAAA	.	PASS	Atlas-SNP
USP17L20	100287441	hgsc.bcm.edu	37	4	9270328	9270328	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	321	15	217	5	0.046729	0.0230415	.	.	none	RP11-1286E23.17,NS,carcinoma,0,1	.	.	1	NM_001256861	exon1	c.G984A	p.W328X	TGGGTGGAGTTGT	.	scavenged	Atlas-SNP
ADGB	79747	hgsc.bcm.edu	37	6	146993392	146993392	+	Silent	SNP	A	A	G	rs77104188	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	94	154	0	0.516484	0	A|0.976;G|0.024	0.024	strong	.	ADGB	93	.	NM_024694	exon8	c.A876G	p.K292K	CCTGAAAGAAATA	.	PASS	Atlas-SNP
LY75	4065	hgsc.bcm.edu	37	2	160673519	160673519	+	Missense_Mutation	SNP	G	G	A	rs35941588	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	55	100	0	0.585106	0	G|0.954;A|0.046	0.046	strong	.	LY75	151	.	NM_002349	exon30	c.C4178T	p.T1393I	AGTGTAGTATTAT	.	PASS	Atlas-SNP
NFATC1	4772	hgsc.bcm.edu	37	18	77227476	77227476	+	Silent	SNP	A	A	G	rs25656	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	95	86	0	0.989583	0	A|0.576;G|0.424	0.424	strong	.	NFATC1	105	.	NM_172390	exon8	c.A1986G	p.P662P	CCCGCCATTTCGG	.	PASS	Atlas-SNP
MYO6	4646	hgsc.bcm.edu	37	6	76542585	76542585	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	26	56	0	0.52	0	.	.	none	.	MYO6	124	.	NM_004999	exon6	c.G418A	p.V140M	ATGAAGGTGCTCA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	39	68	0	0.493671	0	T|0.625;C|0.375	0.375	strong	NOTCH4,NS,carcinoma,0,1	NOTCH4	201	1	NM_004557	exon6	c.A958G	p.T320A	CCTGGGTCTCACA	.	PASS	Atlas-SNP
HMHA1	23526	hgsc.bcm.edu	37	19	1079959	1079959	+	Missense_Mutation	SNP	G	G	A	rs36084354	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	33	72	0	0.589286	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
C11orf16	56673	hgsc.bcm.edu	37	11	8942942	8942942	+	Missense_Mutation	SNP	C	C	T	rs2653601	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	92	180	1	0.453202	0.00555556	T|0.268;G|0.006	0.268	strong	C11orf16,NS,carcinoma,0,1	C11orf16	43	1	NM_020643	exon6	c.G1325A	p.R442Q	GGGGTCCGCGGTG	.	scavenged	Atlas-SNP
OR56A4	120793	hgsc.bcm.edu	37	11	6023640	6023640	+	Missense_Mutation	SNP	T	T	C	rs11040249	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	73	142	0	0.442424	0	T|0.797;C|0.203	0.203	strong	.	OR56A4	66	.	NM_001005179	exon1	c.A739G	p.I247V	AAGTGATGTCATC	.	PASS	Atlas-SNP
PCM1	5108	hgsc.bcm.edu	37	8	17830005	17830005	+	Missense_Mutation	SNP	G	G	A	rs17514547	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	81	163	0	0.47093	0	G|0.986;A|0.014	0.014	strong	.	PCM1	120	.	NM_006197	exon23	c.G3752A	p.R1251H	GAAGACGCCAGTT	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954939	30954939	+	Silent	SNP	A	A	T	rs140285853		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	26	66	0	0.203125	0	A|0.999;T|0.001	0.001	weak	.	MUC21	98	.	NM_001010909	exon2	c.A987T	p.T329T	CAGCACAGCCACC	.	PASS	Atlas-SNP
PSG1	5669	hgsc.bcm.edu	37	19	43373078	43373078	+	Missense_Mutation	SNP	C	C	G	rs143301512	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	20	66	0	0.408163	0	C|0.944;G|0.056	0.056	strong	.	PSG1	196	.	NM_001184826	exon4	c.G818C	p.W273S	AGCCACCAAATGT	.	PASS	Atlas-SNP
IGFBP5	3488	hgsc.bcm.edu	37	2	217543728	217543728	+	Missense_Mutation	SNP	G	G	A	rs11575194	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	183	93	189	0	0.508197	0	G|0.973;A|0.027	0.027	strong	IGFBP5,NS,carcinoma,+2,1	IGFBP5	13	1	NM_000599	exon2	c.C412T	p.R138W	TGGGCCGGAAGAT	.	PASS	Atlas-SNP
SF3B1	23451	hgsc.bcm.edu	37	2	198266831	198266831	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	180	3	234	0	0.0166667	0	.	.	none	SF3B1,NS,haematopoietic_neoplasm,0,4	SF3B1	1038	4	NM_012433	exon15	c.G2101A	p.V701I	TCCGAACTTTCTG	.	scavenged	Atlas-SNP
USP15	9958	hgsc.bcm.edu	37	12	62785663	62785663	+	Silent	SNP	T	T	C	rs11174457	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	339	152	329	0	0.448378	0	T|0.933;C|0.067	0.067	strong	USP15,NS,carcinoma,0,1	USP15	105	1	NM_001252078	exon17	c.T2301C	p.A767A	TGCTGCTGAGGTA	.	PASS	Atlas-SNP
FRAS1	80144	hgsc.bcm.edu	37	4	79385719	79385719	+	Silent	SNP	G	G	A	rs6851427	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	41	46	0	0.5	0	G|0.682;A|0.318	0.318	strong	.	FRAS1	779	.	NM_025074	exon49	c.G7011A	p.A2337A	TAAGGCGGTGGAT	.	PASS	Atlas-SNP
DDR2	4921	hgsc.bcm.edu	37	1	162737116	162737116	+	Silent	SNP	C	C	G	rs2298258	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	234	123	177	0	0.525641	0	C|0.718;G|0.282	0.282	strong	DDR2_ENST00000367922,NS,carcinoma,+2,1	DDR2	228	1	NM_001014796	exon12	c.C1260G	p.L420L	CATCCTCTGGAGG	.	PASS	Atlas-SNP
C22orf42	150297	hgsc.bcm.edu	37	22	32554985	32554985	+	Missense_Mutation	SNP	A	A	G	rs5998267	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	297	144	266	0	0.484848	0	A|0.432;G|0.568	0.568	strong	.	C22orf42	37	.	NM_001010859	exon1	c.T218C	p.L73P	ATCTTCAGCATCT	.	PASS	Atlas-SNP
UTP14A	10813	hgsc.bcm.edu	37	X	129054446	129054446	+	Missense_Mutation	SNP	G	G	A	rs35183830	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	145	155	0	0.935484	0	G|0.984;A|0.016	0.016	strong	.	UTP14A	74	.	NM_006649	exon9	c.G766A	p.V256M	AAAGTCGTGAAGA	.	PASS	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	37	4	126411594	126411594	+	Silent	SNP	G	G	A	rs62312781	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	53	79	0	0.477477	0	G|0.825;A|0.175	0.175	strong	.	FAT4	1752	.	NM_024582	exon17	c.G13617A	p.E4539E	CAAAGAGGAGAAG	.	PASS	Atlas-SNP
HSPD1	3329	hgsc.bcm.edu	37	2	198363534	198363534	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	279	4	247	1	0.0143369	0.00404858	.	.	none	HSPD1_ENST00000426480,NS,haematopoietic_neoplasm,0,3	HSPD1	68	3	NM_002156	exon2	c.G39A	p.P13P	GGACACCGGTCTC	.	scavenged	Atlas-SNP
SHQ1	55164	hgsc.bcm.edu	37	3	72799703	72799703	+	Missense_Mutation	SNP	C	C	T	rs35178407	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	226	100	171	0	0.442478	0	C|0.666;T|0.334	0.334	strong	SHQ1,NS,carcinoma,+1,1	SHQ1	60	1	NM_018130	exon11	c.G1466A	p.S489N	AAAGAACTGACTG	.	PASS	Atlas-SNP
GATAD2A	54815	hgsc.bcm.edu	37	19	19606634	19606634	+	Silent	SNP	G	G	A	rs1047361	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	29	30	0	0.508772	0	A|0.431;G|0.569;T|0.000	0.431	strong	.	GATAD2A	81	.	NM_017660	exon6	c.G696A	p.S232S	GTCCTCGAAGCTG	.	PASS	Atlas-SNP
STK17B	9262	hgsc.bcm.edu	37	2	197021276	197021276	+	Silent	SNP	T	T	C	rs10931726	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	244	95	296	1	0.389344	0.00337838	T|0.540;C|0.460	0.460	strong	STK17B,NS,carcinoma,-1,1	STK17B	28	1	NM_004226	exon3	c.A222G	p.R74R	TTCTGCTCGACAA	.	PASS	Atlas-SNP
KRTAP10-5	386680	hgsc.bcm.edu	37	21	45999716	45999716	+	Missense_Mutation	SNP	T	T	C	rs7509970	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	27	18	32	0	0.666667	0	T|0.893;C|0.107	0.107	strong	.	KRTAP10-5	43	.	NM_198694	exon1	c.A740G	p.Y247C	GCCTGGTAGGAGG	.	PASS	Atlas-SNP
TSC22D2	9819	hgsc.bcm.edu	37	3	150128154	150128154	+	Silent	SNP	T	T	C	rs61734437	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	3	3	12	0	1	0	T|0.904;C|0.096	0.096	strong	TSC22D2,colon,carcinoma,0,1	TSC22D2	42	1	NM_014779	exon1	c.T1017C	p.P339P	CCTGCCTCCGCAG	.	scavenged	Atlas-SNP
FRMPD1	22844	hgsc.bcm.edu	37	9	37735680	37735680	+	Silent	SNP	G	G	A	rs61740795	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	57	91	0	0.522936	0	G|0.877;A|0.123	0.123	strong	FRMPD1,NS,carcinoma,0,1	FRMPD1	237	1	NM_014907	exon13	c.G1350A	p.T450T	GCTAACGGAAGAG	.	PASS	Atlas-SNP
KIF27	55582	hgsc.bcm.edu	37	9	86474115	86474115	+	Missense_Mutation	SNP	T	T	C	rs55654273	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	302	123	262	0	0.407285	0	T|0.869;C|0.131	0.131	strong	.	KIF27	103	.	NM_017576	exon14	c.A3106G	p.N1036D	CCACATTGTGTCT	.	PASS	Atlas-SNP
SERPINB6	5269	hgsc.bcm.edu	37	6	2959513	2959513	+	Silent	SNP	C	C	T	rs2236277	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	167	181	0	0.994048	0	C|0.691;A|0.002	.	strong	SERPINB6,NS,carcinoma,0,1	SERPINB6	31	1	NM_001271823	exon2	c.G111A	p.T37T	ACCCAGCGTTTTC	.	PASS	Atlas-SNP
FOXD4	2298	hgsc.bcm.edu	37	9	116800	116800	+	Missense_Mutation	SNP	C	C	G	rs79220013	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	242	77	193	0	0.318182	0	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	.	PASS	Atlas-SNP
SNX16	64089	hgsc.bcm.edu	37	8	82727569	82727569	+	Silent	SNP	T	T	C	rs16909651	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	54	129	0	0.397059	0	T|0.855;C|0.145	0.145	strong	SNX16,caecum,carcinoma,0,1	SNX16	21	1	NM_152836	exon5	c.A672G	p.E224E	GCTTTCTTCTAGG	.	PASS	Atlas-SNP
FMN1	342184	hgsc.bcm.edu	37	15	33359574	33359574	+	Missense_Mutation	SNP	C	C	A	rs11858145	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	47	110	0	0.522222	0	C|0.298;A|0.702	0.702	strong	.	FMN1	174	.	NM_001103184	exon1	c.G512T	p.G171V	AAAACACCACTAG	.	PASS	Atlas-SNP
ZNF571	51276	hgsc.bcm.edu	37	19	38056763	38056763	+	Missense_Mutation	SNP	C	C	G	rs8111790	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	34	54	0	0.485714	0	C|0.737;G|0.263	0.263	strong	ZNF571,colon,carcinoma,0,1	ZNF571	54	1	NM_016536	exon4	c.G567C	p.Q189H	ACCAGTCTGAATT	.	PASS	Atlas-SNP
PDGFRA	5156	hgsc.bcm.edu	37	4	55152040	55152040	+	Silent	SNP	C	C	T	rs2228230	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	24	66	0	0.375	0	C|0.801;T|0.199	0.199	strong	PDGFRA,NS,carcinoma,0,17	PDGFRA	1583	17	NM_006206	exon18	c.C2472T	p.V824V	CAACGTCCTCCTG	.	PASS	Atlas-SNP
TNS1	7145	hgsc.bcm.edu	37	2	218758200	218758200	+	Missense_Mutation	SNP	T	T	G	rs61745748	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	77	122	0	0.506579	0	T|0.986;G|0.014	0.014	strong	.	TNS1	251	.	NM_022648	exon8	c.A304C	p.N102H	CTGCATTGAGCCA	.	PASS	Atlas-SNP
EDDM3A	10876	hgsc.bcm.edu	37	14	21215997	21215997	+	Silent	SNP	C	C	T	rs11847654	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	68	126	0	0.472222	0	C|0.754;T|0.246	0.246	strong	.	EDDM3A	15	.	NM_006683	exon2	c.C258T	p.S86S	GGGGAGCGACCGA	.	PASS	Atlas-SNP
VWF	7450	hgsc.bcm.edu	37	12	6128170	6128170	+	Missense_Mutation	SNP	C	C	G	rs80313192		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	54	95	0	0.504673	0	.	.	weak	.	VWF	338	.	NM_000552	exon28	c.G4414C	p.D1472H	CCATGTCGGGGGG	.	PASS	Atlas-SNP
KIAA1551	55196	hgsc.bcm.edu	37	12	32135186	32135186	+	Missense_Mutation	SNP	T	T	A	rs3759302	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	26	47	0	0.472727	0	T|0.847;A|0.153	0.153	strong	.	.	.	.	NM_018169	exon4	c.T1297A	p.S433T	AATACTTCTTATA	.	PASS	Atlas-SNP
CHRNA9	55584	hgsc.bcm.edu	37	4	40356041	40356041	+	Missense_Mutation	SNP	C	C	T	rs55633891	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	30	76	0	0.38961	0	C|0.863;T|0.137	0.137	strong	.	CHRNA9	53	.	NM_017581	exon5	c.C944T	p.A315V	CCACTGCGTTGAC	.	PASS	Atlas-SNP
GPR111	222611	hgsc.bcm.edu	37	6	47649222	47649222	+	Silent	SNP	T	T	G	rs8180544	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	89	145	0	0.542683	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
CNTNAP4	85445	hgsc.bcm.edu	37	16	76587331	76587331	+	Silent	SNP	T	T	C	rs7184958	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	178	95	137	0	0.533708	0	T|0.714;C|0.286	0.286	strong	.	CNTNAP4	600	.	NM_138994	exon21	c.T3375C	p.T1125T	CGTGACTGAGTCC	.	PASS	Atlas-SNP
SP2	6668	hgsc.bcm.edu	37	17	46000406	46000406	+	Missense_Mutation	SNP	T	T	C	rs62067380	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	46	80	0	0.45098	0	T|0.895;C|0.105	0.105	strong	.	SP2	38	.	NM_003110	exon4	c.T1138C	p.S380P	GCCACCTCTAACA	.	PASS	Atlas-SNP
ATP2A1	487	hgsc.bcm.edu	37	16	28898793	28898793	+	Silent	SNP	T	T	C	rs6565259	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	49	77	0	0.590361	0	T|0.631;C|0.369	0.369	strong	.	ATP2A1	116	.	NM_004320	exon8	c.T678C	p.T226T	CACCACTGGTGTG	.	PASS	Atlas-SNP
TAS2R31	259290	hgsc.bcm.edu	37	12	11183541	11183541	+	Missense_Mutation	SNP	T	T	C	rs78152338	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	33	195	0	0.179348	0	T|0.750;C|0.250	0.250	strong	.	TAS2R31	24	.	NM_176885	exon1	c.A394G	p.M132V	ACAGCATCACCAG	.	PASS	Atlas-SNP
KAT6B	23522	hgsc.bcm.edu	37	10	76789416	76789416	+	Missense_Mutation	SNP	C	C	T	rs140992439	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	3	85	1	0.0265487	0.0117647	C|1.000;T|0.000	0.000	strong	MYST4,colon,carcinoma,-1,1	.	.	1	NM_012330	exon18	c.C4834T	p.R1612C	TCCGTACGTTCTG	.	scavenged	Atlas-SNP
ABCA7	10347	hgsc.bcm.edu	37	19	1054583	1054583	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	31	53	0	0.3875	0	.	.	none	.	ABCA7	174	.	NM_019112	exon28	c.C3741T	p.A1247A	GCCTGCCCTCTTT	.	PASS	Atlas-SNP
CTCFL	140690	hgsc.bcm.edu	37	20	56090807	56090807	+	Silent	SNP	A	A	G	rs6025601	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	52	86	0	0.553191	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
FADD	8772	hgsc.bcm.edu	37	11	70049752	70049752	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	33	65	0	0.532258	0	.	.	none	.	FADD	14	.	NM_003824	exon1	c.C187T	p.L63L	GAGCTCCTGCGCG	.	PASS	Atlas-SNP
PIEZO1	9780	hgsc.bcm.edu	37	16	88791458	88791458	+	Missense_Mutation	SNP	G	G	A	rs11645197	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	57	111	0	0.553398	0	G|0.827;A|0.173	0.173	strong	.	PIEZO1	79	.	NM_001142864	exon30	c.C4193T	p.P1398L	CTCCGTGGCGGGG	.	PASS	Atlas-SNP
NOTCH4	4855	hgsc.bcm.edu	37	6	32163274	32163274	+	Silent	SNP	G	G	A	rs8192583	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	26	71	0	0.472727	0	G|0.952;A|0.048	0.048	strong	.	NOTCH4	201	.	NM_004557	exon30	c.C5952T	p.D1984D	ACCACAGTCAAGT	.	PASS	Atlas-SNP
KLHL24	54800	hgsc.bcm.edu	37	3	183368891	183368891	+	Silent	SNP	C	C	T	rs2293031	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	100	149	0	0.537634	0	C|0.626;T|0.374	0.374	strong	.	KLHL24	56	.	NM_017644	exon3	c.C747T	p.H249H	GTTACACGAGCTC	.	PASS	Atlas-SNP
FAM217A	222826	hgsc.bcm.edu	37	6	4069133	4069133	+	Missense_Mutation	SNP	T	T	C	rs10485172	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	85	195	0	0.488506	0	T|0.913;C|0.086;A|0.000	0.086	strong	.	.	.	.	NM_173563	exon7	c.A1324G	p.M442V	CTGGCATTGGAGA	.	PASS	Atlas-SNP
ZXDC	79364	hgsc.bcm.edu	37	3	126194076	126194076	+	Silent	SNP	T	T	C	rs812367	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	249	248	197	1	0.995984	0.00507614	T|0.442;C|0.558	0.558	strong	.	ZXDC	87	.	NM_025112	exon1	c.A633G	p.P211P	CTCCAGTGGGCAC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	385	193	332	0	0.501299	0	A|0.529;C|0.471	0.471	strong	.	ALPK2	487	.	NM_052947	exon5	c.T2157G	p.H719Q	TTCTTCATGCTGT	.	PASS	Atlas-SNP
CA3	761	hgsc.bcm.edu	37	8	86351997	86351997	+	Missense_Mutation	SNP	G	G	A	rs20571	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	60	77	0	0.983607	0	G|0.511;A|0.489	0.489	strong	.	CA3	47	.	NM_005181	exon2	c.G91A	p.V31I	TCGCCCGTTGAGC	.	PASS	Atlas-SNP
PCDHGB1	56104	hgsc.bcm.edu	37	5	140730384	140730384	+	Missense_Mutation	SNP	G	G	T	rs62378414	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	47	108	0	0.350746	0	G|0.975;T|0.025	0.025	strong	.	PCDHGB1	198	.	NM_018922	exon1	c.G557T	p.S186I	ATGGAAGTAAATA	.	PASS	Atlas-SNP
CNDP1	84735	hgsc.bcm.edu	37	18	72228136	72228136	+	Missense_Mutation	SNP	G	G	A	rs150779486	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	62	120	0	0.529915	0	G|0.996;A|0.004	0.004	strong	.	CNDP1	98	.	NM_032649	exon4	c.G349A	p.E117K	CTGGCCGAACTGG	.	PASS	Atlas-SNP
GPRC6A	222545	hgsc.bcm.edu	37	6	117130544	117130544	+	Missense_Mutation	SNP	A	A	C	rs28360548	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	65	134	0	0.464286	0	A|0.747;C|0.253	0.253	strong	.	GPRC6A	152	.	NM_148963	exon2	c.T431G	p.I144R	GAACCTATGACAG	.	PASS	Atlas-SNP
FRAS1	80144	hgsc.bcm.edu	37	4	79300993	79300993	+	Missense_Mutation	SNP	G	G	A	rs12512164	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	76	136	1	0.463415	0.00735294	G|0.776;A|0.224	0.224	strong	FRAS1_ENST00000325942,NS,carcinoma,0,3	FRAS1	779	3	NM_001166133	exon27	c.G3406A	p.E1136K	AGGGTCGAAGATC	.	scavenged	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17083778	17083778	+	Silent	SNP	C	C	T	rs78612194	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	83	245	18	0.494048	0.0734694	C|0.312;T|0.688	0.688	strong	Q13209_HUMAN,NS,carcinoma,0,1	.	.	1	NM_001271733	exon15	c.G2019A	p.T673T	GACACGCGTGAAG	.	scavenged	Atlas-SNP
IFNGR1	3459	hgsc.bcm.edu	37	6	137519588	137519588	+	Silent	SNP	A	A	C	rs11914	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	66	115	0	0.519685	0	A|0.874;C|0.126	0.126	strong	.	IFNGR1	46	.	NM_000416	exon7	c.T1050G	p.S350S	TATACTAGAAAGT	.	PASS	Atlas-SNP
MRAP2	112609	hgsc.bcm.edu	37	6	84799059	84799059	+	Silent	SNP	C	C	T	rs9449776	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	73	109	0	0.464968	0	C|0.783;T|0.217	0.217	strong	.	MRAP2	40	.	NM_138409	exon4	c.C477T	p.N159N	GCTGAACAGGCTC	.	PASS	Atlas-SNP
TLR8	51311	hgsc.bcm.edu	37	X	12939412	12939412	+	Silent	SNP	C	C	A	rs3747414	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	98	79	0	0.942308	0	0|0.006;A|0.430	0.430	strong	.	TLR8	134	.	NM_138636	exon2	c.C2253A	p.I751I	AACAATCAACAAA	.	PASS	Atlas-SNP
MCM5	4174	hgsc.bcm.edu	37	22	35802661	35802661	+	Missense_Mutation	SNP	C	C	G	rs2307340	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	25	50	0	0.378788	0	C|0.945;G|0.055	0.055	strong	.	MCM5	54	.	NM_006739	exon5	c.C539G	p.T180S	CCCTCACCAACAT	.	PASS	Atlas-SNP
ZNF207	7756	hgsc.bcm.edu	37	17	30677325	30677325	+	Silent	SNP	G	G	A	rs140451700	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	322	172	298	0	0.534162	0	G|0.996;A|0.004	0.004	strong	.	ZNF207	32	.	NM_003457	exon1	c.G21A	p.K7K	GAAGAAGCAGCTG	.	PASS	Atlas-SNP
OR51G1	79324	hgsc.bcm.edu	37	11	4945233	4945233	+	Missense_Mutation	SNP	C	C	T	rs35264256	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	34	66	0	0.515152	0	C|0.912;T|0.088	0.088	strong	.	OR51G1	74	.	NM_001005237	exon1	c.G337A	p.E113K	ATGACTCCATTGA	.	PASS	Atlas-SNP
ZNF286B	729288	hgsc.bcm.edu	37	17	18584123	18584123	+	Silent	SNP	A	A	G	rs200143783	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	38	150	0	0.281481	0	A|0.962;G|0.038	0.038	strong	.	ZNF286B	75	.	NM_001145045	exon3	c.T57C	p.S19S	ATGGGGAGAATCC	.	PASS	Atlas-SNP
TBL3	10607	hgsc.bcm.edu	37	16	2028402	2028402	+	Silent	SNP	A	A	C	rs8460	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	20	47	0	0.384615	0	A|0.592;C|0.408	0.408	strong	TBL3,NS,carcinoma,0,1	TBL3	54	1	NM_006453	exon21	c.A2223C	p.R741R	GAGGCGAGAGGCC	.	PASS	Atlas-SNP
KRI1	65095	hgsc.bcm.edu	37	19	10668673	10668673	+	Missense_Mutation	SNP	A	A	G	rs1982074	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	43	74	0	0.417476	0	A|0.850;G|0.150	0.150	strong	.	KRI1	65	.	NM_023008	exon14	c.T1352C	p.L451P	CAGTGCAGCTCCT	.	PASS	Atlas-SNP
C4BPA	722	hgsc.bcm.edu	37	1	207287446	207287446	+	Silent	SNP	C	C	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	69	137	0	0.479167	0	.	.	none	.	C4BPA	70	.	NM_000715	exon3	c.C144G	p.G48G	TCCAGGCAATTGT	.	PASS	Atlas-SNP
PHKB	5257	hgsc.bcm.edu	37	16	47697618	47697618	+	Missense_Mutation	SNP	A	A	G	rs16945474	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	270	155	272	2	0.574074	0.00735294	A|0.929;G|0.071	0.071	strong	PHKB_ENST00000323584,NS,carcinoma,0,3	PHKB	298	3	NM_000293	exon24	c.A2309G	p.Y770C	GAGTCTATAGAAG	.	scavenged	Atlas-SNP
C6orf170	221322	hgsc.bcm.edu	37	6	121642790	121642790	+	Silent	SNP	T	T	C	rs10499110	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	294	139	269	0	0.472789	0	T|0.924;C|0.076	0.076	strong	.	C6orf170	146	.	NM_152730	exon2	c.A306G	p.Q102Q	AGATTCTTGAGTT	.	PASS	Atlas-SNP
MADCAM1	8174	hgsc.bcm.edu	37	19	501701	501701	+	Missense_Mutation	SNP	G	G	A	rs72970252	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	52	96	0	0.477064	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
OR5D13	390142	hgsc.bcm.edu	37	11	55541620	55541620	+	Missense_Mutation	SNP	G	G	T	rs7124871	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	79	115	0	0.481707	0	A|0.001;G|0.964;T|0.036	0.036	strong	OR5D13,bladder,carcinoma,+1,4	OR5D13	96	4	NM_001001967	exon1	c.G707T	p.R236L	GTGGGCGCCAGAA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	208	94	177	0	0.451923	0	C|0.556;T|0.444	0.444	strong	.	CAPSL	68	.	NM_144647	exon3	c.G254A	p.R85Q	AACCTCCGGAAAA	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56203120	56203120	+	Silent	SNP	C	C	T	rs3809981	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	170	91	142	1	0.535294	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
MORC1	27136	hgsc.bcm.edu	37	3	108754214	108754214	+	Missense_Mutation	SNP	T	T	C	rs3762697	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	55	145	0	0.407407	0	T|0.839;C|0.161	0.161	strong	.	MORC1	211	.	NM_014429	exon15	c.A1432G	p.M478V	TACCCATGGCTTG	.	PASS	Atlas-SNP
IRS4	8471	hgsc.bcm.edu	37	X	107976940	107976940	+	Missense_Mutation	SNP	G	G	C	rs1801164	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	103	106	0	0.895652	0	G|0.583;C|0.417	0.417	strong	.	IRS4	253	.	NM_003604	exon1	c.C2635G	p.H879D	GCTCATGATCTGA	.	PASS	Atlas-SNP
NPHP3	27031	hgsc.bcm.edu	37	3	132401603	132401603	+	Missense_Mutation	SNP	G	G	C	rs143451766	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	70	179	0	0.39548	0	G|0.999;C|0.001	0.001	strong	.	NPHP3	110	.	NM_153240	exon26	c.C3756G	p.S1252R	ACCCAGGCTATCT	.	PASS	Atlas-SNP
COL27A1	85301	hgsc.bcm.edu	37	9	116931666	116931666	+	Missense_Mutation	SNP	A	A	T	rs2567705	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	38	17	55	0	0.447368	0	A|0.648;T|0.352	0.352	strong	.	COL27A1	200	.	NM_032888	exon3	c.A1831T	p.I611F	TATTCGATCTTCC	.	PASS	Atlas-SNP
ACP5	54	hgsc.bcm.edu	37	19	11687195	11687195	+	Missense_Mutation	SNP	C	C	T	rs2229531	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	26	47	0	0.366197	0	C|0.925;T|0.075	0.075	strong	.	ACP5	30	.	NM_001111034	exon5	c.G598A	p.V200M	CCAGCACGTAGTC	.	PASS	Atlas-SNP
IL32	9235	hgsc.bcm.edu	37	16	3119167	3119167	+	Silent	SNP	T	T	C	rs4786372	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	410	200	272	1	0.487805	0.00367647	T|0.235;C|0.765	0.765	strong	.	IL32	32	.	NM_004221	exon7	c.T378C	p.V126V	CGGGGTTCTGGCC	.	PASS	Atlas-SNP
IFNA17	3451	hgsc.bcm.edu	37	9	21227821	21227821	+	Missense_Mutation	SNP	T	T	C	rs141849715	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	365	127	454	0	0.347945	0	T|0.997;C|0.003	0.003	strong	.	IFNA17	17	.	NM_021268	exon1	c.A352G	p.N118D	CCAGGTTATTCAG	.	PASS	Atlas-SNP
ZNF845	91664	hgsc.bcm.edu	37	19	53848779	53848779	+	Silent	SNP	T	T	C	rs75887836	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	30	63	0	0.625	0	T|0.880;C|0.120	0.120	strong	.	ZNF845	101	.	NM_138374	exon3	c.T36C	p.D12D	CAGGGATGTGGCC	.	PASS	Atlas-SNP
GCC2	9648	hgsc.bcm.edu	37	2	109087167	109087167	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	58	124	0	0.379085	0	.	.	none	GCC2,NS,carcinoma,-1,1	GCC2	129	1	NM_181453	exon6	c.G1382T	p.G461V	TACAGGGTCTTAA	.	PASS	Atlas-SNP
FTCD	10841	hgsc.bcm.edu	37	21	47558552	47558552	+	Missense_Mutation	SNP	G	G	A	rs61735841	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	23	11	9	0	0.478261	0	G|0.952;A|0.048	0.048	strong	FTCD,caecum,carcinoma,-1,1	FTCD	59	1	NM_206965	exon12	c.C1313T	p.A438V	AGGGCCGCCGTGC	.	PASS	Atlas-SNP
ATP9A	10079	hgsc.bcm.edu	37	20	50287736	50287736	+	Silent	SNP	C	C	T	rs2255341	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	43	103	0	0.544304	0	C|0.500;T|0.500	0.500	strong	.	ATP9A	135	.	NM_006045	exon12	c.G1098A	p.S366S	GATTTTCGAGTCC	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49427652	49427652	+	Silent	SNP	C	C	T	rs3782357	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	31	54	0	0.553571	0	C|0.590;T|0.410	0.410	strong	MLL2_ENST00000301067,NS,carcinoma,0,2	MLL2	1173	2	NM_003482	exon39	c.G10836A	p.Q3612Q	TGAGTGCTGTTGC	.	PASS	Atlas-SNP
SCYL1	57410	hgsc.bcm.edu	37	11	65293819	65293819	+	Silent	SNP	G	G	A	rs75169347	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	52	86	0	0.468468	0	G|0.968;A|0.032	0.032	strong	.	SCYL1	76	.	NM_020680	exon4	c.G600A	p.K200K	AGAGAAGTGGTGG	.	PASS	Atlas-SNP
GART	2618	hgsc.bcm.edu	37	21	34883618	34883618	+	Missense_Mutation	SNP	T	T	C	rs8971	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	84	202	0	0.469274	0	T|0.835;C|0.165	0.165	strong	.	GART	81	.	NM_001136005	exon17	c.A2255G	p.D752G	TGGATATCCCTCA	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239057	31239057	+	Missense_Mutation	SNP	C	C	T	rs2308575	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	104	168	0	0.587571	0	T|0.306;C|0.694	0.306	strong	.	HLA-C	92	.	NM_002117	exon3	c.G412A	p.D138N	ACTGGTCATACCC	.	PASS	Atlas-SNP
SLC7A13	157724	hgsc.bcm.edu	37	8	87229948	87229948	+	Silent	SNP	T	T	A	rs4621787	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	39	85	0	0.40625	0	A|0.126;G|0.000;T|0.873	0.126	strong	.	SLC7A13	97	.	NM_138817	exon3	c.A930T	p.S310S	TCTCGATGATTTA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195517909	195517909	+	Missense_Mutation	SNP	G	G	T	rs729593	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	369	169	311	1	0.457995	0.00321543	T|0.073;G|0.923;A|0.004	0.073	strong	MUC4_ENST00000463781,lymph_node,lymphoid_neoplasm,0,2	MUC4	1505	2	NM_018406	exon2	c.C542A	p.T181K	GAAGTTGTTCGTG	.	PASS	Atlas-SNP
C9orf24	84688	hgsc.bcm.edu	37	9	34385757	34385757	+	Missense_Mutation	SNP	C	C	T	rs112332239	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	33	60	0	0.507692	0	C|0.989;T|0.011	0.011	strong	.	C9orf24	15	.	NM_032596	exon2	c.G158A	p.R53Q	ACATGTCGCTCCA	.	PASS	Atlas-SNP
NFASC	23114	hgsc.bcm.edu	37	1	204948659	204948659	+	Silent	SNP	A	A	G	rs6667532	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	83	125	0	0.512346	0	A|0.875;G|0.125	0.125	strong	.	NFASC	396	.	NM_001160331	exon17	c.A2181G	p.P727P	CCTCCCATCCGAG	.	PASS	Atlas-SNP
ATRNL1	26033	hgsc.bcm.edu	37	10	117228794	117228794	+	Silent	SNP	A	A	G	rs10885721	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	168	162	0	0.994083	0	A|0.586;G|0.414	0.414	strong	.	ATRNL1	219	.	NM_207303	exon24	c.A3609G	p.T1203T	CATTACATTCTAT	.	PASS	Atlas-SNP
WNK1	65125	hgsc.bcm.edu	37	12	968489	968489	+	Silent	SNP	T	T	C	rs2286006	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	59	147	0	0.464567	0	T|0.899;C|0.101	0.101	strong	.	WNK1	403	.	NM_001184985	exon6	c.T1479C	p.D493D	AGAAGATGATGGA	.	PASS	Atlas-SNP
FAM153B	202134	hgsc.bcm.edu	37	5	175528584	175528584	+	Missense_Mutation	SNP	C	C	T	rs2014864	bycluster;byfrequency;bysubmitter;by2hit2allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	464	10	551	0	0.0215517	0	C|0.500;T|0.500	0.500	strong	FAM153B,NS,carcinoma,0,1	FAM153B	28	1	NM_001265615	exon11	c.C433T	p.L145F	GCCGAACGTACGT	.	scavenged	Atlas-SNP
SH2D7	646892	hgsc.bcm.edu	37	15	78390414	78390414	+	Missense_Mutation	SNP	T	T	C	rs2289524	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	55	93	0	0.462185	0	T|0.570;C|0.430	0.430	strong	.	SH2D7	26	.	NM_001101404	exon3	c.T410C	p.M137T	AAGAGATGCTGAC	.	PASS	Atlas-SNP
ANKRD44	91526	hgsc.bcm.edu	37	2	198001319	198001319	+	Silent	SNP	A	A	G	rs3731569	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	49	73	0	0.466667	0	A|0.672;G|0.328	0.328	strong	ANKRD44,NS,carcinoma,0,1	ANKRD44	281	1	NM_153697	exon4	c.T258C	p.S86S	CACTTCACTTCTG	.	PASS	Atlas-SNP
SLC37A2	219855	hgsc.bcm.edu	37	11	124949044	124949044	+	Silent	SNP	C	C	T	rs33932952	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	208	106	212	0	0.509615	0	C|0.814;T|0.186	0.186	strong	SLC37A2,NS,carcinoma,0,1	SLC37A2	105	1	NM_001145290	exon5	c.C351T	p.Y117Y	TTACTACCTCTCA	.	PASS	Atlas-SNP
ZNF407	55628	hgsc.bcm.edu	37	18	72344509	72344509	+	Missense_Mutation	SNP	G	G	A	rs7227263	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	52	100	0	0.452174	0	G|0.910;A|0.090	0.090	strong	.	ZNF407	231	.	NM_001146190	exon1	c.G1534A	p.G512R	GACTCCGGGCTGC	.	PASS	Atlas-SNP
TLN2	83660	hgsc.bcm.edu	37	15	63111739	63111739	+	Missense_Mutation	SNP	T	T	C	rs3816988	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	31	88	0	0.3875	0	T|0.827;C|0.173	0.173	strong	.	TLN2	253	.	NM_015059	exon50	c.T6796C	p.F2266L	CCAGAATTCAAGC	.	PASS	Atlas-SNP
METAP2	10988	hgsc.bcm.edu	37	12	95879734	95879734	+	Silent	SNP	C	C	T	rs2305293	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	32	78	0	0.438356	0	C|0.954;T|0.046	0.046	strong	.	METAP2	28	.	NM_006838	exon4	c.C405T	p.C135C	AGAATGCGAATAC	.	PASS	Atlas-SNP
DNAH3	55567	hgsc.bcm.edu	37	16	20966362	20966362	+	Missense_Mutation	SNP	T	T	C	rs34051490	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	118	114	0	0.983333	0	T|0.927;C|0.073	0.073	strong	.	DNAH3	1142	.	NM_017539	exon55	c.A10844G	p.Y3615C	GATGGATAGCTGG	.	PASS	Atlas-SNP
GIMAP8	155038	hgsc.bcm.edu	37	7	150163837	150163837	+	Silent	SNP	A	A	G	rs2140595	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	41	76	0	0.518987	0	A|0.649;G|0.351	0.351	strong	GIMAP8,trunk,malignant_melanoma,+1,1	GIMAP8	136	1	NM_175571	exon2	c.A51G	p.G17G	CCTGGGAAAATGC	.	PASS	Atlas-SNP
DCST1	149095	hgsc.bcm.edu	37	1	155019710	155019710	+	Missense_Mutation	SNP	A	A	C	rs11264300	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	72	173	0	0.358209	0	A|0.559;C|0.441	0.441	strong	DCST1,rectum,carcinoma,0,1	DCST1	69	1	NM_152494	exon14	c.A1534C	p.M512L	GACTCCATGCTAG	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105416994	105416994	+	Silent	SNP	A	A	G	rs191772734	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	81	169	0	0.490909	0	A|0.991;G|0.009	0.009	strong	.	AHNAK2	719	.	NM_138420	exon7	c.T4794C	p.V1598V	GCCCTTAACATCT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179464527	179464527	+	Missense_Mutation	SNP	T	T	C	rs1001238	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	66	89	0	0.464789	0	T|0.561;C|0.439	0.439	strong	.	TTN	18412	.	NM_001267550	exon289	c.A56101G	p.N18701D	TAACATTGGTTCC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	257	115	179	1	0.447471	0.00558659	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	.	scavenged	Atlas-SNP
ZP1	22917	hgsc.bcm.edu	37	11	60638461	60638461	+	Silent	SNP	C	C	T	rs10897122	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	110	123	1	0.990991	0.00813008	C|0.776;N|0.000	.	strong	.	ZP1	69	.	NM_207341	exon5	c.C858T	p.F286F	CTACTTCGTCCTC	.	PASS	Atlas-SNP
FAM131B	9715	hgsc.bcm.edu	37	7	143053723	143053723	+	Missense_Mutation	SNP	C	C	T	rs17854363	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	74	115	0	0.4625	0	C|0.809;T|0.191	0.191	strong	.	FAM131B	104	.	NM_001031690	exon7	c.G1003A	p.A335T	TGAGAGCGGTAGA	.	PASS	Atlas-SNP
PLEKHH3	79990	hgsc.bcm.edu	37	17	40824339	40824339	+	Missense_Mutation	SNP	G	G	A	rs200210041	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	15	12	6	0	0.8	0	G|0.996;A|0.004	0.004	strong	.	PLEKHH3	49	.	NM_024927	exon7	c.C841T	p.R281W	GGCGCCGCGCCCC	.	PASS	Atlas-SNP
SPG11	80208	hgsc.bcm.edu	37	15	44943757	44943757	+	Missense_Mutation	SNP	A	A	G	rs3759871	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	65	139	0	0.902778	0	A|0.523;G|0.477	0.477	strong	SPG11,NS,carcinoma,0,1	SPG11	207	1	NM_025137	exon6	c.T1388C	p.F463S	AGGGAAAAACACT	.	PASS	Atlas-SNP
DMXL1	1657	hgsc.bcm.edu	37	5	118480316	118480316	+	Missense_Mutation	SNP	G	G	A	rs4895362	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	272	125	258	0	0.459559	0	G|0.959;A|0.041	0.041	strong	.	DMXL1	268	.	NM_005509	exon15	c.G2552A	p.S851N	AAGACAGCATTTT	.	PASS	Atlas-SNP
ISM2	145501	hgsc.bcm.edu	37	14	77944624	77944624	+	Missense_Mutation	SNP	T	T	C	rs149849326	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	72	141	0	0.461538	0	T|0.987;C|0.013	0.013	strong	.	ISM2	68	.	NM_199296	exon6	c.A1159G	p.K387E	GGAGCTTCCACTC	.	PASS	Atlas-SNP
BAAT	570	hgsc.bcm.edu	37	9	104130469	104130469	+	Missense_Mutation	SNP	C	C	G	rs41281027	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	52	118	1	0.396947	0.00847458	C|0.839;G|0.161	0.161	strong	BAAT,bladder,carcinoma,-1,1	BAAT	52	1	NM_001127610	exon3	c.G602C	p.R201P	GGTTTGCGGGGCA	.	scavenged	Atlas-SNP
DACT1	51339	hgsc.bcm.edu	37	14	59112732	59112732	+	Missense_Mutation	SNP	C	C	T	rs17832998	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	31	14	22	0	0.451613	0	C|0.713;T|0.287	0.287	strong	.	DACT1	119	.	NM_016651	exon4	c.C1391T	p.A464V	AACATGCTCGGTG	.	PASS	Atlas-SNP
OR2J3	442186	hgsc.bcm.edu	37	6	29080344	29080344	+	Missense_Mutation	SNP	G	G	A	rs3749977	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	370	169	338	0	0.456757	0	G|0.651;A|0.349	0.349	strong	.	OR2J3	53	.	NM_001005216	exon1	c.G677A	p.R226Q	TCGTCCGAGCTAT	.	PASS	Atlas-SNP
WDR25	79446	hgsc.bcm.edu	37	14	100996312	100996312	+	Silent	SNP	T	T	C	rs13065	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	74	100	0	0.490066	0	T|0.409;C|0.591	0.591	strong	WDR25,NS,carcinoma,0,1	WDR25	37	1	NM_001161476	exon7	c.T1569C	p.Y523Y	CACCTATCACCCC	.	PASS	Atlas-SNP
EPHX2	2053	hgsc.bcm.edu	37	8	27394366	27394366	+	Silent	SNP	C	C	T	rs13439459	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	61	113	0	0.491935	0	C|0.918;T|0.082	0.082	strong	.	EPHX2	57	.	NM_001979	exon13	c.C1236T	p.S412S	AGCAAGCGATGAG	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31237124	31237124	+	Missense_Mutation	SNP	T	T	C	rs1130838	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	134	194	1	0.978102	0.00515464	T|0.266;C|0.734	0.734	strong	.	HLA-C	92	.	NM_002117	exon7	c.A1087G	p.T363A	TACAAGTGATGAG	.	PASS	Atlas-SNP
IQCC	55721	hgsc.bcm.edu	37	1	32672908	32672908	+	Missense_Mutation	SNP	T	T	G	rs3903683	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	97	138	0	0.560694	0	T|0.842;G|0.158	0.158	strong	.	IQCC	46	.	NM_001160042	exon5	c.T866G	p.F289C	GCGTGTTCCTAGA	.	PASS	Atlas-SNP
AMZ1	155185	hgsc.bcm.edu	37	7	2748803	2748803	+	Silent	SNP	C	C	T	rs58726146	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	63	89	0	0.504	0	C|0.791;T|0.209	0.209	strong	AMZ1,NS,carcinoma,0,1	AMZ1	41	1	NM_133463	exon5	c.C696T	p.D232D	AGCAGACGGCCCC	.	PASS	Atlas-SNP
OR10AG1	282770	hgsc.bcm.edu	37	11	55735857	55735857	+	Missense_Mutation	SNP	A	A	G	rs76700680	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	46	157	0	0.308725	0	A|0.951;G|0.049	0.049	strong	.	OR10AG1	100	.	NM_001005491	exon1	c.T83C	p.M28T	AGGATCATCAAAT	.	PASS	Atlas-SNP
MARCH10	162333	hgsc.bcm.edu	37	17	60814473	60814473	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	2	190	0	0.01	0	.	.	none	MARCH10,colon,carcinoma,-1,1	MARCH10	102	1	NM_001100875	exon6	c.G756A	p.S252S	TGGCCCCGAGAAC	.	scavenged	Atlas-SNP
OR4D6	219983	hgsc.bcm.edu	37	11	59224885	59224885	+	Missense_Mutation	SNP	G	G	C	rs1453542	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	181	91	141	0	0.502762	0	G|0.782;C|0.218	0.218	strong	.	OR4D6	65	.	NM_001004708	exon1	c.G452C	p.S151T	GGGTGAGTGGTGG	.	PASS	Atlas-SNP
IRG1	730249	hgsc.bcm.edu	37	13	77531361	77531361	+	Silent	SNP	C	C	T	rs41287034	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	85	111	0	0.52795	0	C|0.960;T|0.040	0.040	strong	.	IRG1	1	.	NM_001258406	exon4	c.C675T	p.L225L	GGGTCTCCAAGGA	.	PASS	Atlas-SNP
PDCD6IP	10015	hgsc.bcm.edu	37	3	33907945	33907945	+	Silent	SNP	A	A	G	rs3183987	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	89	150	0	0.502825	0	A|0.707;G|0.293	0.293	strong	.	PDCD6IP	62	.	NM_001162429	exon18	c.A2550G	p.P850P	GGCTCCATACCCG	.	PASS	Atlas-SNP
HOPX	84525	hgsc.bcm.edu	37	4	57522134	57522134	+	Silent	SNP	C	C	T	rs11555052	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	27	73	0	0.397059	0	C|0.981;T|0.019	0.019	strong	HOPX_ENST00000554144,NS,carcinoma,-1,2	HOPX	28	2	NM_032495	exon3	c.G87A	p.E29E	CTGGTCCTCTGTG	.	PASS	Atlas-SNP
CCSER2	54462	hgsc.bcm.edu	37	10	86131059	86131059	+	Missense_Mutation	SNP	A	A	G	rs3814205	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	11	178	0	0.0990991	0	A|0.798;G|0.202	0.202	strong	FAM190B,NS,carcinoma,+1,1	CCSER2	7	1	NM_018999	exon2	c.A251G	p.N84S	CTAACAATACTCA	.	PASS	Atlas-SNP
HECTD4	283450	hgsc.bcm.edu	37	12	112638486	112638486	+	Silent	SNP	G	G	T	rs61739678	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	265	120	210	0	0.45283	0	G|0.989;T|0.011	0.011	strong	.	.	.	.	NM_001109662	exon55	c.C8121A	p.T2707T	CCCATTGGTGGCA	.	PASS	Atlas-SNP
ERRFI1	54206	hgsc.bcm.edu	37	1	8074334	8074334	+	Missense_Mutation	SNP	C	C	T	rs34781518	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	47	74	0	0.580247	0	C|0.989;T|0.011	0.011	strong	.	ERRFI1	42	.	NM_018948	exon4	c.G325A	p.D109N	CTTGATCCTCTTC	.	PASS	Atlas-SNP
WDFY4	57705	hgsc.bcm.edu	37	10	50022040	50022040	+	Silent	SNP	G	G	A	rs41283275	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	23	11	20	0	0.478261	0	G|0.855;A|0.145	0.145	strong	.	WDFY4	205	.	NM_020945	exon31	c.G5253A	p.R1751R	GCAGAGGCACCAC	.	PASS	Atlas-SNP
OR2T27	403239	hgsc.bcm.edu	37	1	248813821	248813821	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	217	4	315	0	0.0184332	0	.	.	none	OR2T27,NS,carcinoma,-1,1	OR2T27	52	1	NM_001001824	exon1	c.G365A	p.R122H	ACGTAGCGATCAT	.	scavenged	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158631171	158631171	+	Silent	SNP	A	A	C	rs2518493	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	269	129	258	1	0.479554	0.00387597	A|0.736;C|0.264	0.264	strong	.	SPTA1	720	.	NM_003126	exon18	c.T2493G	p.L831L	ATTCAGAAGCTTT	.	PASS	Atlas-SNP
SLC16A13	201232	hgsc.bcm.edu	37	17	6942108	6942108	+	Silent	SNP	C	C	T	rs11078663	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	107	89	0	0.990741	0	C|0.571;T|0.429	0.429	strong	.	SLC16A13	28	.	NM_201566	exon3	c.C981T	p.S327S	CTTCTCCGTGCTG	.	PASS	Atlas-SNP
OR2T4	127074	hgsc.bcm.edu	37	1	248525657	248525657	+	Missense_Mutation	SNP	G	G	A	rs28718027	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	703	330	660	8	0.469417	0.0121212	G|0.795;A|0.205	0.205	strong	OR2T4,right_upper_lobe,carcinoma,-1,1	OR2T4	126	1	NM_001004696	exon1	c.G775A	p.G259R	ATCCACGGGATGA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	47	74	0	0.494737	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
SPATA31A6	389730	hgsc.bcm.edu	37	9	43626820	43626820	+	Missense_Mutation	SNP	G	G	C	rs138779714	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	31	14	13	0	0.451613	0	G|0.760;C|0.240	0.240	strong	FAM75A6,NS,carcinoma,0,2	.	.	2	NM_001145196	exon4	c.C1867G	p.R623G	CGTCCCGAAGCTG	.	scavenged	Atlas-SNP
CAMLG	819	hgsc.bcm.edu	37	5	134076812	134076812	+	Missense_Mutation	SNP	G	G	A	rs12657663	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	71	108	0	0.628319	0	G|0.890;A|0.110	0.110	strong	.	CAMLG	27	.	NM_001745	exon2	c.G232A	p.V78I	CTCAGCGTTCCTT	.	PASS	Atlas-SNP
TMEM131	23505	hgsc.bcm.edu	37	2	98409046	98409046	+	Missense_Mutation	SNP	G	G	A	rs12995673	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	78	107	0	0.561151	0	G|0.781;A|0.219	0.219	strong	.	TMEM131	258	.	NM_015348	exon31	c.C3947T	p.P1316L	GGCTGCGGCTCCT	.	PASS	Atlas-SNP
EMP2	2013	hgsc.bcm.edu	37	16	10631912	10631912	+	Silent	SNP	C	C	T	rs2279868	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	54	77	0	0.524272	0	C|0.762;T|0.238	0.238	strong	.	EMP2	21	.	NM_001424	exon4	c.G189A	p.A63A	CTGGACCGCCTGC	.	PASS	Atlas-SNP
TMEM116	89894	hgsc.bcm.edu	37	12	112375990	112375990	+	Missense_Mutation	SNP	A	A	C	rs3752630	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	209	97	211	0	0.464115	0	A|0.783;C|0.217	0.217	strong	.	TMEM116	17	.	NM_001193531	exon6	c.T340G	p.C114G	TTTGACAAACTCG	.	PASS	Atlas-SNP
ZNF577	84765	hgsc.bcm.edu	37	19	52376507	52376507	+	Missense_Mutation	SNP	T	T	C	rs2288868	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	48	94	0	0.521739	0	T|0.520;C|0.480	0.480	strong	.	ZNF577	63	.	NM_032679	exon7	c.A736G	p.K246E	CGCATTTGCTGCA	.	PASS	Atlas-SNP
CR2	1380	hgsc.bcm.edu	37	1	207648456	207648456	+	Missense_Mutation	SNP	G	G	T	rs144572703	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	83	159	0	0.479769	0	G|0.996;T|0.004	0.004	strong	.	CR2	164	.	NM_001006658	exon14	c.G2611T	p.V871L	GACATAGTGTATG	.	PASS	Atlas-SNP
PLG	5340	hgsc.bcm.edu	37	6	161152240	161152240	+	Missense_Mutation	SNP	G	G	A	rs4252125	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	64	94	0	0.48855	0	G|0.784;A|0.216	0.216	strong	.	PLG	150	.	NM_000301	exon11	c.G1414A	p.D472N	CTTCCAGATGTAG	.	PASS	Atlas-SNP
ASB15	142685	hgsc.bcm.edu	37	7	123264804	123264804	+	Silent	SNP	C	C	T	rs11769381	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	210	209	213	0	0.995238	0	C|0.569;N|0.000	.	strong	.	ASB15	94	.	NM_080928	exon6	c.C633T	p.V211V	TGGAGTCACACCA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	147	144	0	1	0	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	.	PASS	Atlas-SNP
TNIK	23043	hgsc.bcm.edu	37	3	170802910	170802910	+	Missense_Mutation	SNP	C	C	T	rs17857452	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	53	107	0	0.434426	0	C|0.934;G|0.013;T|0.052	0.052	strong	.	TNIK	313	.	NM_015028	exon25	c.G2995A	p.A999T	TACCTGCGGCTGA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	31	72	0	0.534483	0	T|0.698;C|0.302	0.302	strong	.	IGFN1	220	.	NM_001164586	exon13	c.T8826C	p.P2942P	GGGACCTGGCACC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	218	101	217	1	0.463303	0.00460829	C|0.458;A|0.542	0.542	strong	.	CWH43	101	.	NM_025087	exon16	c.C2065A	p.H689N	AACCATCATTTTC	.	PASS	Atlas-SNP
KCNJ18	100134444	hgsc.bcm.edu	37	17	21319488	21319488	+	Silent	SNP	C	C	T	rs77176173	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	217	37	174	25	0.170507	0.143678	C|0.625;T|0.375	0.375	strong	KCNJ12,NS,carcinoma,0,1	.	.	1	NM_001194958	exon3	c.C834T	p.S278S	GGCCAGCCCGCTC	.	scavenged	Atlas-SNP
C15orf39	56905	hgsc.bcm.edu	37	15	75499995	75499995	+	Missense_Mutation	SNP	T	T	G	rs28509789	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	37	78	0	0.440476	0	T|0.662;G|0.338	0.338	strong	C15orf39,bladder,carcinoma,-1,1	C15orf39	64	1	NM_015492	exon2	c.T1606G	p.S536A	CCTGACTCAGCCC	.	PASS	Atlas-SNP
HAP1	9001	hgsc.bcm.edu	37	17	39884065	39884065	+	Missense_Mutation	SNP	C	C	A	rs35612698	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	22	50	0	0.44898	0	C|0.692;A|0.308	0.308	strong	.	HAP1	48	.	NM_177977	exon8	c.G1224T	p.L408F	CTTCTGCAACTTT	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954434	30954434	+	Missense_Mutation	SNP	A	A	G	rs9262337	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	47	63	6	0.447619	0.0952381	A|0.875;G|0.125	0.125	strong	MUC21,NS,carcinoma,0,3	MUC21	98	3	NM_001010909	exon2	c.A482G	p.E161G	CCAGTGAGGCCAG	.	scavenged	Atlas-SNP
TSPYL1	7259	hgsc.bcm.edu	37	6	116600774	116600774	+	Missense_Mutation	SNP	C	C	G	rs3749895	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	27	10	16	0	0.37037	0	C|0.657;G|0.343	0.343	strong	TSPYL1,NS,carcinoma,0,1	TSPYL1	28	1	NM_003309	exon1	c.G220C	p.A74P	CCGCGGCATCCTG	.	PASS	Atlas-SNP
EHBP1L1	254102	hgsc.bcm.edu	37	11	65349063	65349063	+	Missense_Mutation	SNP	G	G	A	rs3741380	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	87	165	0	0.491525	0	G|0.543;A|0.457	0.457	strong	.	EHBP1L1	64	.	NM_001099409	exon9	c.G920A	p.R307Q	GGCTCCGGAAAGG	.	PASS	Atlas-SNP
UMODL1	89766	hgsc.bcm.edu	37	21	43557559	43557559	+	Silent	SNP	T	T	A	rs3819141	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	87	138	0	0.517857	0	T|0.652;A|0.348	0.348	strong	.	UMODL1	186	.	NM_173568	exon21	c.T4170A	p.P1390P	GCCTCCTCATGCA	.	PASS	Atlas-SNP
CAPN14	440854	hgsc.bcm.edu	37	2	31411184	31411184	+	Missense_Mutation	SNP	C	C	A	rs1465972	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	32	73	0	0.533333	0	C|0.704;A|0.296	0.296	strong	CAPN14,NS,carcinoma,0,1	CAPN14	36	1	NM_001145122	exon14	c.G1530T	p.K510N	ACTCACCTTTGAG	.	PASS	Atlas-SNP
TSKS	60385	hgsc.bcm.edu	37	19	50249950	50249950	+	Missense_Mutation	SNP	C	C	T	rs76911687	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	31	3	44	0	0.0967742	0	.	.	weak	TSKS,NS,carcinoma,0,1	TSKS	97	1	NM_021733	exon6	c.G769A	p.E257K	CCGGCTCCTGCTT	.	scavenged	Atlas-SNP
TTLL12	23170	hgsc.bcm.edu	37	22	43568512	43568512	+	Missense_Mutation	SNP	C	C	T	rs34074034	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	227	89	178	0	0.39207	0	C|0.803;G|0.000;T|0.197	0.197	strong	.	TTLL12	50	.	NM_015140	exon10	c.G1390A	p.V464M	TTCCCACGTCTTC	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144996408	144996408	+	Silent	SNP	T	T	G	rs11778026	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	21	52	0	0.446809	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
DEFB118	117285	hgsc.bcm.edu	37	20	29956480	29956480	+	Silent	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	3	152	0	0.0218978	0	.	.	none	DEFB118,NS,malignant_melanoma,+2,1	DEFB118	30	1	NM_054112	exon1	c.T27C	p.P9P	TCTTCCTATGCTT	.	scavenged	Atlas-SNP
ABCC12	94160	hgsc.bcm.edu	37	16	48164777	48164777	+	Silent	SNP	T	T	C	rs12149826	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	98	87	0	0.989899	0	T|0.827;C|0.173	0.173	strong	.	ABCC12	190	.	NM_033226	exon8	c.A1158G	p.V386V	CTTCATTACATTA	.	PASS	Atlas-SNP
APOBR	55911	hgsc.bcm.edu	37	16	28508048	28508048	+	Silent	SNP	A	A	G	rs180744	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	65	175	0	0.419355	0	A|0.690;G|0.310	0.310	strong	.	APOBR	89	.	NM_018690	exon2	c.A1686G	p.Q562Q	AGGCCAAGGACCT	.	PASS	Atlas-SNP
TLE1	7088	hgsc.bcm.edu	37	9	84302311	84302311	+	Silent	SNP	A	A	G	rs147523347	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	61	97	1	0.462121	0.0103093	A|0.995;G|0.005	0.005	strong	TLE1,NS,haematopoietic_neoplasm,0,1	TLE1	81	1	NM_005077	exon2	c.T63C	p.T21T	CGGGATAGTGAAC	.	scavenged	Atlas-SNP
LRRC3B	116135	hgsc.bcm.edu	37	3	26751493	26751493	+	Silent	SNP	A	A	T	rs35497952	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	78	120	0	0.509804	0	A|0.898;T|0.102	0.102	strong	.	LRRC3B	51	.	NM_052953	exon2	c.A330T	p.G110G	CAAAGGAGTAGCT	.	PASS	Atlas-SNP
POLQ	10721	hgsc.bcm.edu	37	3	121151812	121151812	+	Missense_Mutation	SNP	G	G	C	rs3218634	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	68	149	0	0.465753	0	A|0.000;C|0.102;G|0.898	0.102	strong	.	POLQ	273	.	NM_199420	exon29	c.C7612G	p.L2538V	CATGGAGTTGAAG	.	PASS	Atlas-SNP
SCN7A	6332	hgsc.bcm.edu	37	2	167269629	167269629	+	Silent	SNP	T	T	G	rs33922582	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	424	192	349	0	0.45283	0	T|0.945;G|0.055	0.055	strong	.	SCN7A	410	.	NM_002976	exon21	c.A3417C	p.A1139A	AAATGTTGCCTGT	.	PASS	Atlas-SNP
GAL3ST2	64090	hgsc.bcm.edu	37	2	242742875	242742875	+	Missense_Mutation	SNP	C	C	T	rs62620233	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	66	126	0	0.528	0	C|0.884;T|0.116	0.116	strong	GAL3ST2,colon,carcinoma,+1,1	GAL3ST2	34	1	NM_022134	exon4	c.C491T	p.A164V	GGGGCGCCCCGAG	.	PASS	Atlas-SNP
MAP9	79884	hgsc.bcm.edu	37	4	156276289	156276289	+	Silent	SNP	C	C	T	rs2341894	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	89	206	0	0.445	0	C|0.324;T|0.676	0.676	strong	.	MAP9	79	.	NM_001039580	exon10	c.G1314A	p.V438V	TAAATACACATTT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	212	108	157	0	0.509434	0	C|0.609;N|0.000	.	strong	.	ALPK2	487	.	NM_052947	exon5	c.G4651T	p.A1551S	GAGAAGCGTGAGT	.	PASS	Atlas-SNP
AIM1L	55057	hgsc.bcm.edu	37	1	26673108	26673108	+	Missense_Mutation	SNP	C	C	T	rs11247925	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	28	73	0	0.411765	0	C|0.834;T|0.166	0.166	strong	.	AIM1L	98	.	NM_001039775	exon2	c.G41A	p.R14Q	ACCACTCGGGCCT	.	PASS	Atlas-SNP
POLD1	5424	hgsc.bcm.edu	37	19	50905074	50905074	+	Missense_Mutation	SNP	G	G	A	rs1726801	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	57	79	0	0.537736	0	G|0.838;A|0.162	0.162	strong	.	POLD1	174	.	NM_002691	exon4	c.G356A	p.R119H	CATCCCGCGGCTC	.	PASS	Atlas-SNP
TECTA	7007	hgsc.bcm.edu	37	11	121038810	121038810	+	Silent	SNP	C	C	T	rs2155369	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	301	127	273	1	0.421927	0.003663	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
PXMP2	5827	hgsc.bcm.edu	37	12	133272590	133272590	+	Silent	SNP	G	G	T	rs145883118	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	57	108	0	0.467213	0	G|0.999;T|0.001	0.001	strong	.	PXMP2	15	.	NM_018663	exon3	c.G357T	p.P119P	TGCACCGGCCTTC	.	PASS	Atlas-SNP
EXOC3L4	91828	hgsc.bcm.edu	37	14	103576444	103576444	+	Missense_Mutation	SNP	C	C	G	rs744153	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	52	63	0	0.541667	0	C|0.580;G|0.420	0.420	strong	.	EXOC3L4	35	.	NM_001077594	exon11	c.C2053G	p.Q685E	CACACTCAAGACC	.	PASS	Atlas-SNP
MICAL2	9645	hgsc.bcm.edu	37	11	12183846	12183846	+	Silent	SNP	C	C	T	rs28625145	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	65	125	0	0.474453	0	C|0.813;T|0.187	0.187	strong	.	MICAL2	114	.	NM_014632	exon3	c.C144T	p.N48N	CAGAAACTTTTAT	.	PASS	Atlas-SNP
RADIL	55698	hgsc.bcm.edu	37	7	4876057	4876057	+	Missense_Mutation	SNP	C	C	T	rs3763384	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	31	70	0	0.62	0	C|0.745;T|0.255	0.255	strong	.	RADIL	110	.	NM_018059	exon3	c.G715A	p.D239N	TGGCGTCGGGGCC	.	PASS	Atlas-SNP
MYOM1	8736	hgsc.bcm.edu	37	18	3129297	3129297	+	Silent	SNP	C	C	T	rs72860212	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	231	121	253	0	0.52381	0	C|0.998;T|0.002	0.002	strong	MYOM1,bladder,carcinoma,-1,1	MYOM1	192	1	NM_003803	exon18	c.G2727A	p.P909P	TGGTGGCGGGGTA	.	PASS	Atlas-SNP
TPSAB1	7177	hgsc.bcm.edu	37	16	1291597	1291597	+	Missense_Mutation	SNP	C	C	G	rs1800991	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	575	204	481	0	0.354783	0	C|0.500;G|0.500	0.500	strong	.	TPSAB1	24	.	NM_003294	exon4	c.C396G	p.N132K	GGTGAACGTCTCC	.	PASS	Atlas-SNP
ZSWIM6	57688	hgsc.bcm.edu	37	5	60628414	60628414	+	Silent	SNP	G	G	T	rs111274143	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	133	113	0	0.992537	0	G|0.894;T|0.106	0.106	strong	.	ZSWIM6	51	.	NM_020928	exon1	c.G315T	p.V105V	GCCGGTGCAGCGC	.	PASS	Atlas-SNP
TNC	3371	hgsc.bcm.edu	37	9	117804544	117804544	+	Silent	SNP	T	T	C	rs1061495	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	44	93	0	0.44898	0	T|0.688;C|0.312	0.312	strong	.	TNC	282	.	NM_002160	exon18	c.A5202G	p.T1734T	TTGGGCTGTGGGT	.	PASS	Atlas-SNP
MED27	9442	hgsc.bcm.edu	37	9	134735980	134735980	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	5	106	0	0.0381679	0	.	.	none	MED27,NS,carcinoma,0,4	MED27	37	4	NM_004269	exon8	c.C881T	p.P294L	CATGTCGGGGGAA	.	scavenged	Atlas-SNP
LY75	4065	hgsc.bcm.edu	37	2	160710922	160710922	+	Silent	SNP	T	T	C	rs2729705	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	143	134	0	0.993056	0	T|0.417;C|0.583	0.583	strong	.	LY75	151	.	NM_002349	exon18	c.A2544G	p.A848A	TATAGTTGCAAGA	.	PASS	Atlas-SNP
NOL10	79954	hgsc.bcm.edu	37	2	10740989	10740989	+	Missense_Mutation	SNP	T	T	C	rs115424813	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	71	150	0	0.507143	0	T|0.998;C|0.002	0.002	strong	.	NOL10	22	.	NM_024894	exon17	c.A1412G	p.K471R	ACTTTCTTTTTCC	.	PASS	Atlas-SNP
EID2B	126272	hgsc.bcm.edu	37	19	40023308	40023308	+	Silent	SNP	A	A	G	rs1123301	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	4	4	6	0	1	0	A|0.234;G|0.766	0.766	strong	EID2B,NS,carcinoma,0,1	EID2B	9	1	NM_152361	exon1	c.T135C	p.A45A	TTCCCGAGCCTCC	.	scavenged	Atlas-SNP
LDHAL6B	92483	hgsc.bcm.edu	37	15	59499228	59499228	+	Missense_Mutation	SNP	C	C	T	rs3809529	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	67	89	0	0.51145	0	C|0.613;T|0.387	0.387	strong	.	LDHAL6B	30	.	NM_033195	exon1	c.C89T	p.P30L	TGTGTCCGCGTCA	.	PASS	Atlas-SNP
KLK14	43847	hgsc.bcm.edu	37	19	51584916	51584916	+	Missense_Mutation	SNP	G	G	A	rs2569491	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	104	136	0	0.990476	0	G|0.632;A|0.368	0.368	strong	.	KLK14	49	.	NM_022046	exon4	c.C133T	p.H45Y	ACGTATGGCCACC	.	PASS	Atlas-SNP
REPS1	85021	hgsc.bcm.edu	37	6	139229872	139229872	+	Missense_Mutation	SNP	C	C	T	rs1044418	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	290	147	324	0	0.506897	0	C|0.886;T|0.114	0.114	strong	.	REPS1	58	.	NM_031922	exon18	c.G2146A	p.V716I	CATCAACTTCTGG	.	PASS	Atlas-SNP
KIAA1199	57214	hgsc.bcm.edu	37	15	81230195	81230195	+	Silent	SNP	G	G	A	rs376777316		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	2	111	0	0.012987	0	.	.	weak	KIAA1199,NS,carcinoma,+1,1	KIAA1199	118	1	NM_018689	exon24	c.G3282A	p.S1094S	CCTCTCGGATGTT	.	scavenged	Atlas-SNP
VWA3B	200403	hgsc.bcm.edu	37	2	98709684	98709684	+	Silent	SNP	T	T	C	rs298917	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	274	116	265	1	0.423358	0.00377358	T|0.871;C|0.129	0.129	strong	.	VWA3B	138	.	NM_144992	exon2	c.T129C	p.H43H	ACTGCATGGGCTT	.	PASS	Atlas-SNP
EPHA10	284656	hgsc.bcm.edu	37	1	38187447	38187447	+	Silent	SNP	A	A	G	rs579908	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	236	124	167	0	0.525424	0	A|0.805;G|0.195	0.195	strong	.	EPHA10	120	.	NM_001099439	exon11	c.T2031C	p.H677H	CAGCATATGCACG	.	PASS	Atlas-SNP
FERMT1	55612	hgsc.bcm.edu	37	20	6093177	6093177	+	Missense_Mutation	SNP	A	A	G	rs16991866	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	39	81	0	0.464286	0	A|0.898;G|0.102	0.102	strong	.	FERMT1	106	.	NM_017671	exon4	c.T479C	p.I160T	TCAATTATGGGTT	.	PASS	Atlas-SNP
TSPYL1	7259	hgsc.bcm.edu	37	6	116600810	116600810	+	Missense_Mutation	SNP	G	G	A	rs3828743	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	31	13	21	0	0.419355	0	G|0.757;A|0.243	0.243	strong	.	TSPYL1	28	.	NM_003309	exon1	c.C184T	p.P62S	GCGGTGGAGGCGG	.	PASS	Atlas-SNP
ZNF821	55565	hgsc.bcm.edu	37	16	71893981	71893981	+	Silent	SNP	C	C	T	rs17850869	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	54	71	0	0.675	0	C|0.988;T|0.012	0.012	strong	.	ZNF821	25	.	NM_001201553	exon7	c.G1179A	p.L393L	GCTGTCCAACTCC	.	PASS	Atlas-SNP
TSEN2	80746	hgsc.bcm.edu	37	3	12544829	12544829	+	Missense_Mutation	SNP	G	G	A	rs33955793	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	70	115	0	0.4375	0	G|0.936;A|0.064	0.064	strong	.	TSEN2	46	.	NM_001145394	exon5	c.G377A	p.R126H	CAGTGCGCAGAAT	.	PASS	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	37	4	126412106	126412106	+	Missense_Mutation	SNP	C	C	G	rs147662558	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	56	95	0	0.478632	0	C|0.986;G|0.014	0.014	strong	.	FAT4	1752	.	NM_024582	exon17	c.C14129G	p.S4710C	AATCTTCTACGTT	.	PASS	Atlas-SNP
DPY19L3	147991	hgsc.bcm.edu	37	19	32973077	32973077	+	Silent	SNP	C	C	T	rs7253039	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	53	112	0	0.464912	0	C|0.821;T|0.179	0.179	strong	.	DPY19L3	70	.	NM_001172774	exon19	c.C2082T	p.Y694Y	TCCCTACGTGGCC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	26	20	38	0	0.769231	0	C|0.695;T|0.305	0.305	strong	.	THAP8	11	.	NM_152658	exon3	c.G554A	p.R185Q	AGCCTCCGCACCC	.	PASS	Atlas-SNP
PCDHGB3	56102	hgsc.bcm.edu	37	5	140751696	140751696	+	Missense_Mutation	SNP	C	C	A	rs62620756	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	97	119	0	0.595092	0	C|0.968;A|0.032	0.032	strong	.	PCDHGB3	168	.	NM_018924	exon1	c.C1735A	p.P579T	ATGGTGCCGCGCT	.	PASS	Atlas-SNP
LPCAT3	10162	hgsc.bcm.edu	37	12	7125672	7125672	+	Silent	SNP	C	C	G	rs61733160	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	43	122	0	0.398148	0	C|0.950;G|0.050	0.050	strong	.	LPCAT3	33	.	NM_005768	exon1	c.G57C	p.L19L	CGACTGCAGAACC	.	PASS	Atlas-SNP
RPUSD2	27079	hgsc.bcm.edu	37	15	40862064	40862064	+	Silent	SNP	C	C	T	rs1058734	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	29	27	54	0	0.931035	0	C|0.669;T|0.331	0.331	strong	.	RPUSD2	28	.	NM_152260	exon1	c.C528T	p.A176A	CCTGGCCTACTAT	.	PASS	Atlas-SNP
YME1L1	10730	hgsc.bcm.edu	37	10	27437964	27437964	+	Silent	SNP	T	T	C	rs11538750	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	35	74	0	0.522388	0	T|0.905;C|0.095	0.095	strong	.	YME1L1	71	.	NM_139312	exon2	c.A39G	p.T13T	AGGAACTGTAACC	.	PASS	Atlas-SNP
TARBP1	6894	hgsc.bcm.edu	37	1	234584231	234584231	+	Silent	SNP	C	C	T	rs2102596	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	95	104	0	1	0	C|0.714;T|0.286	0.286	strong	.	TARBP1	111	.	NM_005646	exon11	c.G1956A	p.Q652Q	CCTATACTGAGTC	.	PASS	Atlas-SNP
FAM90A1	55138	hgsc.bcm.edu	37	12	8375112	8375112	+	Missense_Mutation	SNP	G	G	T	rs9668582	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	46	198	0	0.958333	0	G|0.793;T|0.207	0.207	strong	.	FAM90A1	68	.	NM_018088	exon7	c.C701A	p.A234E	CCACCCGCAGGGC	.	PASS	Atlas-SNP
PITRM1	10531	hgsc.bcm.edu	37	10	3180288	3180288	+	Missense_Mutation	SNP	C	C	T	rs35779348	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	65	97	0	0.507812	0	T|0.016;G|0.000;C|0.984	0.016	strong	.	PITRM1	109	.	NM_001242307	exon27	c.G3052A	p.G1018S	CCAGGCCGTGTGT	.	PASS	Atlas-SNP
ATRN	8455	hgsc.bcm.edu	37	20	3515951	3515951	+	Silent	SNP	C	C	T	rs151519	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	59	125	0	0.388158	0	C|0.751;T|0.249	0.249	strong	.	ATRN	118	.	NM_139321	exon2	c.C462T	p.Y154Y	TAAATACAAAACG	.	PASS	Atlas-SNP
OR12D2	26529	hgsc.bcm.edu	37	6	29364615	29364615	+	Missense_Mutation	SNP	G	G	T	rs9257834	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	231	110	236	1	0.47619	0.00423729	G|0.636;T|0.364	0.364	strong	.	OR12D2	42	.	NM_013936	exon1	c.G139T	p.V47F	ATGATTGTCATCT	.	PASS	Atlas-SNP
GGT7	2686	hgsc.bcm.edu	37	20	33451148	33451148	+	Silent	SNP	G	G	A	rs11546155	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	217	109	193	1	0.502304	0.00518135	G|0.875;A|0.125	0.125	strong	GGT7,NS,carcinoma,0,2	GGT7	41	2	NM_178026	exon2	c.C373T	p.L125L	TGACCAGCGCCAC	.	scavenged	Atlas-SNP
OR8B2	26595	hgsc.bcm.edu	37	11	124253147	124253147	+	Silent	SNP	A	A	G	rs530704	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	326	76	362	0	0.233129	0	A|0.680;G|0.320	0.320	strong	.	OR8B2	42	.	NM_001005468	exon1	c.T93C	p.F31F	CACTAGAAACAGG	.	PASS	Atlas-SNP
ZNF57	126295	hgsc.bcm.edu	37	19	2917287	2917287	+	Missense_Mutation	SNP	C	C	A	rs2288958	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	40	61	0	0.645161	0	C|0.581;A|0.419	0.419	strong	.	ZNF57	57	.	NM_173480	exon4	c.C668A	p.T223N	AGAAAACCTACAA	.	PASS	Atlas-SNP
UCP3	7352	hgsc.bcm.edu	37	11	73717254	73717254	+	Silent	SNP	A	A	G	rs1800006	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	73	68	0	1	0	A|0.651;G|0.349	0.349	strong	.	UCP3	31	.	NM_003356	exon3	c.T297C	p.Y99Y	GGAGTCATAGAGG	.	PASS	Atlas-SNP
SVOPL	136306	hgsc.bcm.edu	37	7	138363746	138363746	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	6	162	1	0.0295567	0.00617284	.	.	none	SVOPL_ENST00000419765,colon,carcinoma,-1,2	SVOPL	111	2	NM_001139456	exon1	c.G45A	p.R15R	CAATTTCCGAAGG	.	scavenged	Atlas-SNP
KCNMA1	3778	hgsc.bcm.edu	37	10	78944590	78944590	+	Silent	SNP	G	G	A	rs1131824	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	73	62	0	1	0	G|0.579;A|0.421	0.421	strong	.	KCNMA1	370	.	NM_001161352	exon4	c.C687T	p.F229F	CAAGCCGAAGTAG	.	PASS	Atlas-SNP
GRIN2D	2906	hgsc.bcm.edu	37	19	48908597	48908597	+	Missense_Mutation	SNP	G	G	A	rs372406980	alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	40	25	22	0	0.625	0	.	.	alt	.	GRIN2D	76	.	NM_000836	exon3	c.G1072A	p.E358K	CGCGGCGAGAGTC	.	PASS	Atlas-SNP
ABHD12B	145447	hgsc.bcm.edu	37	14	51368610	51368610	+	Missense_Mutation	SNP	A	A	G	rs28564871	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	47	143	0	0.398305	0	A|0.765;G|0.235	0.235	strong	ABHD12B_ENST00000337334,colon,carcinoma,-1,5	ABHD12B	53	5	NM_001206673	exon10	c.A844G	p.I282V	AAAATAATCTTTC	.	PASS	Atlas-SNP
MYBPH	4608	hgsc.bcm.edu	37	1	203140671	203140671	+	Silent	SNP	G	G	A	rs3737875	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	38	61	0	0.463415	0	G|0.870;A|0.130	0.130	strong	.	MYBPH	41	.	NM_004997	exon5	c.C633T	p.N211N	ATGGCCGTTGTGG	.	PASS	Atlas-SNP
GRIN2A	2903	hgsc.bcm.edu	37	16	9862741	9862741	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	28	50	0	0.411765	0	.	.	none	.	GRIN2A	366	.	NM_000833	exon13	c.C2562T	p.S854S	CCGGTCGGAGCAC	.	PASS	Atlas-SNP
USPL1	10208	hgsc.bcm.edu	37	13	31231806	31231806	+	Missense_Mutation	SNP	T	T	C	rs7984952	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	81	107	0	0.952941	0	T|0.507;C|0.493	0.493	strong	.	USPL1	82	.	NM_005800	exon9	c.T1592C	p.L531S	TATCTTTAACATC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	198	196	198	1	0.989899	0.00505051	C|0.504;A|0.496	0.496	strong	.	SEMA3E	125	.	NM_012431	exon6	c.G603T	p.A201A	GAAGATCGCAGCG	.	PASS	Atlas-SNP
BPIFB3	359710	hgsc.bcm.edu	37	20	31656632	31656632	+	Missense_Mutation	SNP	C	C	G	rs6057717	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	79	73	0	0.9875	0	C|0.625;G|0.375	0.375	strong	C20orf185,NS,carcinoma,0,1	.	.	1	NM_182658	exon10	c.C1002G	p.H334Q	CCTGCACCAGCAA	.	PASS	Atlas-SNP
TINAGL1	64129	hgsc.bcm.edu	37	1	32050533	32050533	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	202	3	160	0	0.0148515	0	.	.	none	TINAGL1,colon,carcinoma,+1,1	TINAGL1	35	1	NM_022164	exon7	c.G753A	p.T251T	CATGACGCCTGTC	.	scavenged	Atlas-SNP
ERAP2	64167	hgsc.bcm.edu	37	5	96249115	96249115	+	Silent	SNP	C	C	T	rs2255546	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	277	134	250	1	0.483755	0.004	C|0.452;T|0.548	0.548	strong	.	ERAP2	77	.	NM_001130140	exon17	c.C2611T	p.L871L	CAGCAACTAGCAT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	30	38	0	1	0	G|0.437;A|0.563	0.563	strong	.	PKD1L2	361	.	NM_001076780	exon4	c.C754T	p.R252W	CTTCCCGGCACTG	.	PASS	Atlas-SNP
ROR2	4920	hgsc.bcm.edu	37	9	94538040	94538040	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	3	79	1	0.0283019	0.0126582	.	.	none	ROR2,NS,carcinoma,0,1	ROR2	167	1	NM_004560	exon2	c.C158T	p.P53L	GGAATCGGGCCGT	.	scavenged	Atlas-SNP
FTSJ3	117246	hgsc.bcm.edu	37	17	61903445	61903445	+	Missense_Mutation	SNP	G	G	C	rs2584625	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	71	111	0	0.541985	0	G|0.317;C|0.682	0.682	strong	.	FTSJ3	63	.	NM_017647	exon5	c.C271G	p.Q91E	TGTCCTGCTGGAG	.	PASS	Atlas-SNP
ADAMTS14	140766	hgsc.bcm.edu	37	10	72503344	72503344	+	Silent	SNP	G	G	A	rs10999502	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	92	145	0	0.486772	0	G|0.768;A|0.232	0.232	strong	ADAMTS14,NS,adenoma,0,1	ADAMTS14	148	1	NM_139155	exon13	c.G1974A	p.T658T	GGACACGGGGGAC	.	PASS	Atlas-SNP
CCDC159	126075	hgsc.bcm.edu	37	19	11465316	11465316	+	Missense_Mutation	SNP	G	G	C	rs6887	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	60	100	0	0.588235	0	G|0.619;C|0.381	0.381	strong	.	CCDC159	35	.	NM_001080503	exon10	c.G833C	p.C278S	CCGACTGTGACCA	.	PASS	Atlas-SNP
BAIAP2L1	55971	hgsc.bcm.edu	37	7	97922875	97922875	+	Silent	SNP	G	G	A	rs13008	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	41	91	0	0.341667	0	G|0.717;A|0.283	0.283	strong	.	BAIAP2L1	61	.	NM_018842	exon14	c.C1494T	p.R498R	AGTCGGGCGGAGT	.	PASS	Atlas-SNP
PITRM1	10531	hgsc.bcm.edu	37	10	3207632	3207632	+	Missense_Mutation	SNP	A	A	G	rs3814596	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	219	112	161	1	0.511416	0.00621118	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	.	scavenged	Atlas-SNP
RYR2	6262	hgsc.bcm.edu	37	1	237841390	237841390	+	Missense_Mutation	SNP	A	A	G	rs34967813	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	66	119	0	0.437086	0	A|0.827;G|0.173	0.173	strong	.	RYR2	1273	.	NM_001035	exon61	c.A8873G	p.Q2958R	ATGAACAAGAAAT	.	PASS	Atlas-SNP
ZC3H7A	29066	hgsc.bcm.edu	37	16	11852354	11852354	+	Silent	SNP	A	A	C	rs8743	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	55	83	0	0.533981	0	A|0.507;C|0.493	0.493	strong	.	ZC3H7A	72	.	NM_014153	exon20	c.T2361G	p.V787V	GTTTCCAACATAT	.	PASS	Atlas-SNP
COG6	57511	hgsc.bcm.edu	37	13	40229891	40229891	+	Missense_Mutation	SNP	G	G	A	rs3812882	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	34	53	0	0.944444	0	G|0.525;A|0.475	0.475	strong	.	COG6	49	.	NM_001145079	exon1	c.G28A	p.A10T	GTGGTCGCAGTGT	.	PASS	Atlas-SNP
PRRT3	285368	hgsc.bcm.edu	37	3	9991101	9991101	+	Missense_Mutation	SNP	C	C	G	rs55847233	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	27	55	0	0.391304	0	C|0.673;G|0.327	0.327	strong	.	PRRT3	35	.	NM_207351	exon2	c.G699C	p.L233F	CTCCTGCAAGTGT	.	PASS	Atlas-SNP
CABP5	56344	hgsc.bcm.edu	37	19	48537585	48537585	+	Missense_Mutation	SNP	A	A	G	rs3745746	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	36	81	0	0.371134	0	G|0.275;N|0.000	0.275	strong	.	CABP5	28	.	NM_019855	exon5	c.T383C	p.V128A	AGCTCCACCAGGG	.	PASS	Atlas-SNP
TEAD2	8463	hgsc.bcm.edu	37	19	49862722	49862722	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	197	86	145	0	0.436548	0	.	.	none	.	TEAD2	70	.	NM_001256658	exon3	c.G267A	p.L89L	CGTTCTCAGCTTG	.	PASS	Atlas-SNP
CCDC60	160777	hgsc.bcm.edu	37	12	119916900	119916900	+	Missense_Mutation	SNP	A	A	G	rs2519540	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	13	37	0	0.333333	0	A|0.905;G|0.095	0.095	strong	.	CCDC60	84	.	NM_178499	exon4	c.A343G	p.T115A	TTCAGCACATATG	.	PASS	Atlas-SNP
FAM160B2	64760	hgsc.bcm.edu	37	8	21954017	21954017	+	Silent	SNP	C	C	T	rs117838157	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	48	79	0	0.648649	0	C|0.990;T|0.010	0.010	strong	.	FAM160B2	35	.	NM_022749	exon3	c.C294T	p.A98A	CAAGGCCGAGGTG	.	PASS	Atlas-SNP
PGM3	5238	hgsc.bcm.edu	37	6	83881740	83881740	+	Silent	SNP	T	T	C	rs542948	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	92	62	0	0.989247	0	T|0.636;G|0.002	.	strong	.	PGM3	39	.	NM_001199917	exon12	c.A1365G	p.E455E	GATTGCTTCAATC	.	PASS	Atlas-SNP
C5orf60	285679	hgsc.bcm.edu	37	5	179071947	179071947	+	Silent	SNP	A	A	G	rs4645306	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	357	169	271	1	0.473389	0.00369004	A|0.743;G|0.257	0.257	strong	.	C5orf60	24	.	NM_001142306	exon1	c.T75C	p.I25I	TGTACCAATAACA	.	PASS	Atlas-SNP
RPP40	10799	hgsc.bcm.edu	37	6	4998963	4998963	+	Silent	SNP	A	A	G	rs1749144	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	81	151	0	0.509434	0	A|0.671;G|0.329	0.329	strong	.	RPP40	36	.	NM_006638	exon5	c.T546C	p.A182A	ATGCCAAGCCAAA	.	PASS	Atlas-SNP
CATSPER1	117144	hgsc.bcm.edu	37	11	65787666	65787666	+	Silent	SNP	G	G	A	rs3829937	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	134	134	1	0.992593	0.00746269	G|0.834;A|0.166	0.166	strong	.	CATSPER1	101	.	NM_053054	exon9	c.C2070T	p.A690A	CCGGGCGGCCCTC	.	PASS	Atlas-SNP
OR51Q1	390061	hgsc.bcm.edu	37	11	5444061	5444061	+	Missense_Mutation	SNP	G	G	A	rs2736586	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	304	152	268	0	0.5	0	G|0.599;A|0.401	0.401	strong	.	OR51Q1	79	.	NM_001004757	exon1	c.G631A	p.V211M	ATTATCGTGGATC	.	PASS	Atlas-SNP
GUCY2D	3000	hgsc.bcm.edu	37	17	7915920	7915920	+	Silent	SNP	G	G	A	rs56130505	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	22	33	0	0.488889	0	G|0.888;A|0.112	0.112	strong	.	GUCY2D	82	.	NM_000180	exon10	c.G2109A	p.A703A	CAGAGCGGAGGGT	.	PASS	Atlas-SNP
ALPP	250	hgsc.bcm.edu	37	2	233244930	233244930	+	Missense_Mutation	SNP	G	G	C	rs1048988	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	451	21	437	0	0.0465632	0	G|0.823;C|0.177	0.177	strong	.	ALPP	53	.	NM_001632	exon6	c.G692C	p.R231P	TGTTTCGCATGGG	.	PASS	Atlas-SNP
SPARCL1	8404	hgsc.bcm.edu	37	4	88415636	88415636	+	Missense_Mutation	SNP	G	G	C	rs1049544	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	282	130	327	1	0.460993	0.0030581	G|0.488;C|0.512	0.512	strong	SPARCL1,NS,carcinoma,0,1	SPARCL1	59	1	NM_004684	exon4	c.C316G	p.H106D	TTAAGTGACCATC	.	PASS	Atlas-SNP
LMLN	89782	hgsc.bcm.edu	37	3	197712759	197712759	+	Silent	SNP	T	T	C	rs7373242	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	44	118	0	0.415094	0	T|0.785;C|0.215	0.215	strong	.	LMLN	53	.	NM_001136049	exon8	c.T927C	p.Y309Y	TAATTATAGGTAT	.	PASS	Atlas-SNP
GAB1	2549	hgsc.bcm.edu	37	4	144359490	144359490	+	Missense_Mutation	SNP	C	C	T	rs28925904	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	56	115	0	0.478632	0	C|0.986;T|0.014	0.014	strong	.	GAB1	80	.	NM_207123	exon4	c.C932T	p.P311L	TTCCTCCAACACC	.	PASS	Atlas-SNP
DOPEY1	23033	hgsc.bcm.edu	37	6	83838673	83838673	+	Missense_Mutation	SNP	G	G	A	rs4706980	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	67	125	0	0.489051	0	G|0.899;A|0.101	0.101	strong	.	DOPEY1	190	.	NM_015018	exon16	c.G1787A	p.R596Q	GTAGTCGATCATC	.	PASS	Atlas-SNP
DDX41	51428	hgsc.bcm.edu	37	5	176940384	176940384	+	Silent	SNP	G	G	A	rs335438	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	67	113	0	0.435065	0	G|0.576;A|0.424	0.424	strong	.	DDX41	49	.	NM_016222	exon11	c.C1200T	p.R400R	CCCAGCGCGCCCC	.	PASS	Atlas-SNP
DCSTAMP	81501	hgsc.bcm.edu	37	8	105368408	105368408	+	Silent	SNP	A	A	G	rs4734780	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	20	54	0	0.444444	0	A|0.929;G|0.071	0.071	strong	.	.	.	.	NM_030788	exon4	c.A1395G	p.A465A	CATGGCAAGTGCA	.	PASS	Atlas-SNP
POLD1	5424	hgsc.bcm.edu	37	19	50905042	50905042	+	Silent	SNP	G	G	A	rs20582	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	43	46	0	0.671875	0	A|0.170;G|0.829;T|0.000	0.170	strong	.	POLD1	174	.	NM_002691	exon4	c.G324A	p.A108A	CCCAGCGCAGCCT	.	PASS	Atlas-SNP
AQPEP	0	hgsc.bcm.edu	37	5	115351066	115351066	+	Silent	SNP	T	T	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	2	42	0	0.037037	0	.	.	none	FLJ90650,caecum,carcinoma,0,1	.	.	1	NM_173800	exon17	c.T2568A	p.I856I	AAAGATTCAACTT	.	scavenged	Atlas-SNP
PLIN4	729359	hgsc.bcm.edu	37	19	4511908	4511908	+	Silent	SNP	C	C	T	rs10423606	bycluster;byfrequency;by2hit2allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	289	97	224	0	0.33564	0	C|0.500;T|0.500	0.500	strong	.	PLIN4	191	.	NM_001080400	exon3	c.G2022A	p.T674T	CTTGGCCGTGTCT	.	PASS	Atlas-SNP
KIAA1211	57482	hgsc.bcm.edu	37	4	57180473	57180473	+	Missense_Mutation	SNP	C	C	A	rs6823339	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	77	56	0	0.987179	0	C|0.703;A|0.297	0.297	strong	.	KIAA1211	178	.	NM_020722	exon8	c.C805A	p.L269I	CAGGAGCTCTTGG	.	PASS	Atlas-SNP
CTAGE1	64693	hgsc.bcm.edu	37	18	19996805	19996805	+	Missense_Mutation	SNP	T	T	C	rs12961009	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	74	119	0	0.503401	0	T|0.976;C|0.024	0.024	strong	.	CTAGE1	146	.	NM_172241	exon1	c.A970G	p.I324V	TTTTAATATGCTC	.	PASS	Atlas-SNP
RNASE3	6037	hgsc.bcm.edu	37	14	21360157	21360157	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	4	156	0	0.0216216	0	.	.	none	RNASE3,NS,carcinoma,+2,2	RNASE3	24	2	NM_002935	exon2	c.G312A	p.R104R	ATTCCGGGTGCCT	.	scavenged	Atlas-SNP
ZC3H7A	29066	hgsc.bcm.edu	37	16	11873158	11873158	+	Missense_Mutation	SNP	T	T	C	rs16958654	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	75	175	0	0.449102	0	T|0.928;C|0.072	0.072	strong	.	ZC3H7A	72	.	NM_014153	exon4	c.A170G	p.H57R	CAATCATGTTCCC	.	PASS	Atlas-SNP
PITRM1	10531	hgsc.bcm.edu	37	10	3191823	3191823	+	Missense_Mutation	SNP	C	C	T	rs2388556	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	41	58	0	0.539474	0	C|0.892;T|0.108	0.108	strong	.	PITRM1	109	.	NM_014889	exon16	c.G1861A	p.V621I	TGAGGACGCTGCA	.	PASS	Atlas-SNP
BCAM	4059	hgsc.bcm.edu	37	19	45316804	45316804	+	Silent	SNP	C	C	T	rs3810141	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	55	82	0	0.56701	0	T|0.064;C|0.936	0.064	strong	.	BCAM	53	.	NM_001013257	exon6	c.C711T	p.C237C	CCACTGCGCCGCC	.	PASS	Atlas-SNP
BTNL2	56244	hgsc.bcm.edu	37	6	32370975	32370975	+	Missense_Mutation	SNP	C	C	T	rs60263670	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	28	50	0	0.430769	0	C|0.893;T|0.107	0.107	strong	.	BTNL2	50	.	NM_019602	exon3	c.G446A	p.S149N	TGGATGCTAGGGG	.	PASS	Atlas-SNP
TRIM3	10612	hgsc.bcm.edu	37	11	6486914	6486914	+	Silent	SNP	C	C	T	rs144521953	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	45	92	0	0.424528	0	C|0.999;T|0.001	0.001	strong	.	TRIM3	67	.	NM_001248006	exon2	c.G12A	p.R4R	GTCCTCCCTCTTT	.	PASS	Atlas-SNP
PCCA	5095	hgsc.bcm.edu	37	13	100888122	100888122	+	Silent	SNP	A	A	G	rs538229	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	74	147	0	0.440476	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
ABCC1	4363	hgsc.bcm.edu	37	16	16162039	16162039	+	Silent	SNP	C	C	T	rs8187858	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	79	169	0	0.512987	0	C|0.953;T|0.047	0.047	strong	.	ABCC1	156	.	NM_004996	exon13	c.C1704T	p.Y568Y	CGTCTACGTGACC	.	PASS	Atlas-SNP
PIWIL4	143689	hgsc.bcm.edu	37	11	94320237	94320237	+	Silent	SNP	T	T	C	rs7110167	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	86	67	0	1	0	T|0.476;C|0.524	0.524	strong	PIWIL4,NS,carcinoma,+2,1	PIWIL4	70	1	NM_152431	exon7	c.T738C	p.F246F	TGGGTTTGCCATT	.	PASS	Atlas-SNP
DVL2	1856	hgsc.bcm.edu	37	17	7129840	7129840	+	Silent	SNP	T	T	C	rs35594616	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	49	35	0	1	0	T|0.449;C|0.551	0.551	strong	.	DVL2	49	.	NM_004422	exon14	c.A1662G	p.Q554Q	AGGGTATTGGTAG	.	PASS	Atlas-SNP
GLI1	2735	hgsc.bcm.edu	37	12	57865821	57865821	+	Missense_Mutation	SNP	G	G	C	rs2228226	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	52	75	0	0.547368	0	G|0.340;C|0.660	0.660	strong	.	GLI1	141	.	NM_005269	exon12	c.G3298C	p.E1100Q	GAAACAGAATTCC	.	PASS	Atlas-SNP
HTT	3064	hgsc.bcm.edu	37	4	3240312	3240312	+	Silent	SNP	G	G	A	rs141927489	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	55	92	0	0.52381	0	G|0.998;A|0.002	0.002	strong	.	HTT	221	.	NM_002111	exon65	c.G9030A	p.Q3010Q	CCCCCAGTTCATG	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954977	30954977	+	Missense_Mutation	SNP	C	C	T	rs55638653	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	24	84	0	0.181818	0	C|0.999;T|0.001	0.001	weak	MUC21,NS,carcinoma,0,1	MUC21	98	1	NM_001010909	exon2	c.C1025T	p.A342V	GTGGGGCCAGCAC	.	PASS	Atlas-SNP
ELAVL3	1995	hgsc.bcm.edu	37	19	11569397	11569397	+	Silent	SNP	G	G	A	rs61744781	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	38	72	1	0.481013	0.0138889	G|0.922;A|0.078	0.078	strong	ELAVL3,NS,carcinoma,-2,1	ELAVL3	58	1	NM_032281	exon4	c.C363T	p.S121S	CCGGATGGATGCT	.	scavenged	Atlas-SNP
MTUS1	57509	hgsc.bcm.edu	37	8	17611924	17611924	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	244	48	180	0	0.196721	0	.	.	none	.	MTUS1	144	.	NM_001001924	exon2	c.C1393T	p.P465S	AGTCTGGTATGTT	.	PASS	Atlas-SNP
MDH2	4191	hgsc.bcm.edu	37	7	75677504	75677504	+	Missense_Mutation	SNP	C	C	T	rs6720	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	13	13	6	0	1	0	C|0.494;T|0.506	0.506	strong	MDH2,NS,carcinoma,0,1	MDH2	35	1	NM_005918	exon1	c.C26T	p.A9V	GGCCTGCCAGCGC	.	PASS	Atlas-SNP
ACTL7B	10880	hgsc.bcm.edu	37	9	111617341	111617341	+	Silent	SNP	A	A	G	rs3750467	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	60	157	0	0.521739	0	A|0.890;G|0.110	0.110	strong	.	ACTL7B	57	.	NM_006686	exon1	c.T870C	p.T290T	GCCAATAGTGATG	.	PASS	Atlas-SNP
RB1CC1	9821	hgsc.bcm.edu	37	8	53569680	53569680	+	Silent	SNP	C	C	T	rs62499947	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	68	129	0	0.535433	0	C|0.970;T|0.030	0.030	strong	.	RB1CC1	163	.	NM_001083617	exon15	c.G2709A	p.E903E	AACCTCCTCAAGG	.	PASS	Atlas-SNP
SERPINF2	5345	hgsc.bcm.edu	37	17	1648502	1648502	+	Missense_Mutation	SNP	C	C	T	rs2070863	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	19	60	0	0.372549	0	C|0.794;T|0.206	0.206	strong	.	SERPINF2	33	.	NM_000934	exon3	c.C97T	p.R33W	TTGGGCCGGCAGG	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	37	MT	13135	13135	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	22	22	8	0	1	0	.	.	none	.	.	.	.	ENST00000361567	exon1	c.G799A	p.A267T	CCCCTAGCAGAAA	.	PASS	Atlas-SNP
KIAA1614	57710	hgsc.bcm.edu	37	1	180897634	180897634	+	Missense_Mutation	SNP	G	G	A	rs140222211	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	202	95	177	0	0.470297	0	G|0.997;A|0.003	0.003	strong	.	KIAA1614	75	.	NM_020950	exon4	c.G1130A	p.R377H	TGCAGCGTGCCCG	.	PASS	Atlas-SNP
PTPRH	5794	hgsc.bcm.edu	37	19	55698955	55698955	+	Missense_Mutation	SNP	C	C	T	rs36092369	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	53	93	0	0.540816	0	C|0.985;T|0.015	0.015	strong	.	PTPRH	139	.	NM_002842	exon14	c.G2492A	p.G831D	CTGTGGCCCACCA	.	PASS	Atlas-SNP
PARP12	64761	hgsc.bcm.edu	37	7	139724555	139724555	+	Silent	SNP	C	C	G	rs3735352	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	76	127	0	0.513514	0	T|0.364;G|0.008;C|0.628	0.008	strong	.	PARP12	59	.	NM_022750	exon12	c.G1911C	p.P637P	GGCCGGCGGACGG	.	PASS	Atlas-SNP
TPCN2	219931	hgsc.bcm.edu	37	11	68846399	68846399	+	Missense_Mutation	SNP	A	A	T	rs35264875	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	74	106	0	0.517483	0	A|0.879;T|0.121	0.121	strong	.	TPCN2	63	.	NM_139075	exon16	c.A1450T	p.M484L	TTGGAGATGCTGC	.	PASS	Atlas-SNP
WDR81	124997	hgsc.bcm.edu	37	17	1636934	1636934	+	Missense_Mutation	SNP	A	A	G	rs3809870	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	25	107	0	0.373134	0	A|0.743;G|0.257	0.257	strong	.	WDR81	180	.	NM_001163809	exon7	c.A4603G	p.M1535V	CCCACCATGCCCG	.	PASS	Atlas-SNP
AKAP13	11214	hgsc.bcm.edu	37	15	86124419	86124419	+	Silent	SNP	C	C	T	rs4843073	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	151	138	0	1	0	C|0.387;T|0.613	0.613	strong	.	AKAP13	394	.	NM_007200	exon7	c.C3120T	p.S1040S	CAGCTCCGCTCTG	.	PASS	Atlas-SNP
RARS2	57038	hgsc.bcm.edu	37	6	88231226	88231226	+	Missense_Mutation	SNP	T	T	C	rs3757370	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	70	92	0	0.551181	0	T|0.970;C|0.030	0.030	strong	.	RARS2	61	.	NM_020320	exon12	c.A991G	p.I331V	GATCTATAGCAGC	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30955019	30955019	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	6	83	0	0.0560748	0	.	.	none	MUC21,NS,carcinoma,0,3	MUC21	98	3	NM_001010909	exon2	c.G1067A	p.G356E	CCAGTGGGGCCAG	.	scavenged	Atlas-SNP
TTBK1	84630	hgsc.bcm.edu	37	6	43231048	43231048	+	Missense_Mutation	SNP	C	C	G	rs35175743	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	28	61	0	0.444444	0	C|0.984;G|0.016	0.016	strong	.	TTBK1	124	.	NM_032538	exon13	c.C1946G	p.P649R	CCCGCCCTCGACG	.	PASS	Atlas-SNP
SEC14L3	266629	hgsc.bcm.edu	37	22	30860830	30860830	+	Missense_Mutation	SNP	C	C	T	rs2269961	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	123	144	1	0.968504	0.00694444	C|0.774;N|0.001	.	strong	.	SEC14L3	46	.	NM_174975	exon8	c.G641A	p.R214H	TTCCTGCGAGTGT	.	PASS	Atlas-SNP
HIGD1B	51751	hgsc.bcm.edu	37	17	42927721	42927721	+	Missense_Mutation	SNP	G	G	A	rs1071682	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	28	60	0	0.424242	0	G|0.720;A|0.280	0.280	strong	.	HIGD1B	8	.	NM_001271880	exon4	c.G257A	p.S86N	TGTACAGCGATTA	.	PASS	Atlas-SNP
HLA-DPA1	3113	hgsc.bcm.edu	37	6	33036971	33036971	+	Silent	SNP	C	C	T	rs2308928	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	51	107	0	0.421488	0	C|0.695;T|0.305	0.305	strong	.	HLA-DPA1	20	.	NM_033554	exon3	c.G453A	p.T151T	CAGCCACGTGACG	.	PASS	Atlas-SNP
JMJD4	65094	hgsc.bcm.edu	37	1	227920186	227920186	+	Silent	SNP	G	G	A	rs35575794	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	271	145	206	1	0.535055	0.00485437	G|0.956;A|0.044	0.044	strong	.	JMJD4	28	.	NM_023007	exon6	c.C1299T	p.D433D	CTGGAAGTCGGGG	.	PASS	Atlas-SNP
PTCHD2	57540	hgsc.bcm.edu	37	1	11561593	11561593	+	Missense_Mutation	SNP	G	G	A	rs2817580	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	58	49	0	1	0	G|0.586;A|0.414	0.414	strong	.	PTCHD2	193	.	NM_020780	exon2	c.G544A	p.G182S	CTCGGTGGCCCAG	.	PASS	Atlas-SNP
SLIT2	9353	hgsc.bcm.edu	37	4	20490493	20490493	+	Silent	SNP	C	C	T	rs117793863	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	80	114	0	0.484848	0	C|0.989;T|0.011	0.011	strong	.	SLIT2	290	.	NM_004787	exon8	c.C663T	p.S221S	GCTCTCCGACTGG	.	PASS	Atlas-SNP
NOL10	79954	hgsc.bcm.edu	37	2	10784491	10784491	+	Silent	SNP	A	A	G	rs3732111	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	65	189	0	0.403727	0	A|0.770;G|0.230	0.230	strong	.	NOL10	22	.	NM_024894	exon13	c.T981C	p.L327L	CGTCAGAAGCATG	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30955043	30955043	+	Missense_Mutation	SNP	G	G	A	rs9262385	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	17	90	2	0.226667	0.0222222	G|0.992;A|0.008	0.008	strong	MUC21,NS,neuroblastoma,0,1	MUC21	98	1	NM_001010909	exon2	c.G1091A	p.G364E	ACTCTGGGTCCAG	.	scavenged	Atlas-SNP
OR10AG1	282770	hgsc.bcm.edu	37	11	55735808	55735808	+	Silent	SNP	G	G	A	rs78226543	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	50	147	0	0.310559	0	G|0.951;A|0.049	0.049	strong	.	OR10AG1	100	.	NM_001005491	exon1	c.C132T	p.P44P	GAGAGCGGGGTGA	.	PASS	Atlas-SNP
MYBBP1A	10514	hgsc.bcm.edu	37	17	4455266	4455266	+	Missense_Mutation	SNP	G	G	T	rs117615621	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	50	78	0	0.49505	0	G|0.987;T|0.013	0.013	strong	.	MYBBP1A	69	.	NM_014520	exon8	c.C932A	p.A311E	AGGGCCGCGCCCA	.	PASS	Atlas-SNP
PDLIM2	64236	hgsc.bcm.edu	37	8	22449181	22449181	+	Missense_Mutation	SNP	C	C	T	rs73229817	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	42	85	0	0.4375	0	C|0.969;T|0.031	0.031	strong	.	PDLIM2	42	.	NM_021630	exon9	c.C1631T	p.A544V	GCATCGCGTGAGT	.	PASS	Atlas-SNP
LIPC	3990	hgsc.bcm.edu	37	15	58838010	58838010	+	Missense_Mutation	SNP	A	A	G	rs6083	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	48	83	0	0.55814	0	A|0.457;G|0.543	0.543	strong	.	LIPC	56	.	NM_000236	exon5	c.A644G	p.N215S	ATGCCAATTTTGT	.	PASS	Atlas-SNP
PRDM2	7799	hgsc.bcm.edu	37	1	14105049	14105049	+	Missense_Mutation	SNP	C	C	A	rs61747667	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	62	113	0	0.512397	0	A|0.016;C|0.984;T|0.000	0.016	strong	.	PRDM2	147	.	NM_015866	exon8	c.C759A	p.D253E	ACCAGACGAGCGA	.	PASS	Atlas-SNP
NEB	4703	hgsc.bcm.edu	37	2	152500449	152500449	+	Missense_Mutation	SNP	C	C	G	rs13013209	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	356	354	297	1	0.994382	0.003367	C|0.678;G|0.322	0.322	strong	.	NEB	1697	.	NM_004543	exon57	c.G7839C	p.K2613N	GCACTTCTTGGCC	.	PASS	Atlas-SNP
FAM86A	196483	hgsc.bcm.edu	37	16	5140561	5140561	+	Silent	SNP	C	C	T	rs9673770	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	74	105	0	0.540146	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
C7orf72	100130988	hgsc.bcm.edu	37	7	50143938	50143938	+	Silent	SNP	C	C	T	rs17133685	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	92	200	0	0.497297	0	C|0.927;T|0.073	0.073	strong	.	C7orf72	26	.	NM_001161834	exon2	c.C582T	p.P194P	TACTCCCTTACAA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	31	77	0	0.430556	0	C|0.611;T|0.389	0.389	strong	.	APIP	21	.	NM_015957	exon4	c.G227A	p.C76Y	ATATCACAAACAA	.	PASS	Atlas-SNP
BMP2	650	hgsc.bcm.edu	37	20	6759115	6759115	+	Missense_Mutation	SNP	A	A	T	rs235768	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	62	134	0	0.416107	0	A|0.265;T|0.735	0.735	strong	.	BMP2	45	.	NM_001200	exon3	c.A570T	p.R190S	GACCAGACTTTTG	.	PASS	Atlas-SNP
ADAMTSL1	92949	hgsc.bcm.edu	37	9	18777422	18777422	+	Silent	SNP	G	G	A	rs45579937	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	38	76	1	0.487179	0.0131579	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	.	scavenged	Atlas-SNP
DNAH3	55567	hgsc.bcm.edu	37	16	20981162	20981162	+	Missense_Mutation	SNP	T	T	C	rs12929546	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	96	111	0	0.989691	0	T|0.856;C|0.144	0.144	strong	.	DNAH3	1142	.	NM_017539	exon52	c.A8410G	p.I2804V	TCATGATGCAGAT	.	PASS	Atlas-SNP
NXPE4	54827	hgsc.bcm.edu	37	11	114453549	114453549	+	Silent	SNP	G	G	A	rs371147789		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	325	142	251	0	0.436923	0	.	.	weak	FAM55D,NS,carcinoma,-2,1	.	.	1	NM_001077639	exon3	c.C291T	p.A97A	ATGTGTGGCGCTG	.	PASS	Atlas-SNP
CFH	3075	hgsc.bcm.edu	37	1	196682947	196682947	+	Silent	SNP	G	G	A	rs2274700	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	321	129	310	0	0.401869	0	G|0.570;A|0.430	0.430	strong	.	CFH	251	.	NM_000186	exon10	c.G1419A	p.A473A	AAAAGCGAAATAT	.	PASS	Atlas-SNP
IDUA	3425	hgsc.bcm.edu	37	4	994452	994452	+	Silent	SNP	C	C	T	rs3755954	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	240	124	207	0	0.516667	0	C|0.784;T|0.216	0.216	strong	.	IDUA	33	.	NM_000203	exon3	c.C352T	p.L118L	GGGTACCTGGACC	.	PASS	Atlas-SNP
CNTN4	152330	hgsc.bcm.edu	37	3	3081750	3081750	+	Silent	SNP	A	A	T	rs6802588	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	223	99	198	0	0.443946	0	A|0.660;T|0.340	0.340	strong	CNTN4_ENST00000418658,caecum,carcinoma,+1,6	CNTN4	335	6	NM_175607	exon20	c.A2193T	p.R731R	TGGTCGAGGCTTT	.	PASS	Atlas-SNP
HTATIP2	10553	hgsc.bcm.edu	37	11	20403763	20403763	+	Missense_Mutation	SNP	C	C	T	rs376468659		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	4	73	0	0.0487805	0	.	.	weak	.	HTATIP2	30	.	NM_001098520	exon5	c.C583T	p.R195C	TTTGATCGTTACT	.	PASS	Atlas-SNP
OR1S2	219958	hgsc.bcm.edu	37	11	57970967	57970967	+	Silent	SNP	G	G	A	rs138762515		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	7	107	0	0.0514706	0	G|0.999;A|0.001	0.001	weak	OR1S2,NS,carcinoma,0,2	OR1S2	119	2	NM_001004459	exon1	c.C687T	p.F229F	ATAGGAGAAGAAG	.	scavenged	Atlas-SNP
TRIM9	114088	hgsc.bcm.edu	37	14	51446216	51446216	+	Missense_Mutation	SNP	T	T	G	rs2275462	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	68	104	1	0.485714	0.00961538	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	.	scavenged	Atlas-SNP
CCDC83	220047	hgsc.bcm.edu	37	11	85627108	85627108	+	Silent	SNP	T	T	C	rs7927222	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	82	215	0	0.458101	0	T|0.812;C|0.188	0.188	strong	.	CCDC83	48	.	NM_173556	exon11	c.T1005C	p.S335S	AGAAAGTAGAGAC	.	PASS	Atlas-SNP
HLA-DPA1	3113	hgsc.bcm.edu	37	6	33037419	33037419	+	Silent	SNP	G	G	A	rs1126543	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	45	186	0	0.292208	0	G|0.700;A|0.300	0.300	strong	.	HLA-DPA1	20	.	NM_033554	exon2	c.C345T	p.N115N	CGTACCGTTGGTG	.	PASS	Atlas-SNP
SLC4A7	9497	hgsc.bcm.edu	37	3	27490194	27490194	+	Silent	SNP	T	T	C	rs13096477	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	225	94	203	0	0.417778	0	T|0.851;C|0.149	0.149	strong	.	SLC4A7	119	.	NM_001258379	exon3	c.A225G	p.R75R	TTTTCTTCTCCGG	.	PASS	Atlas-SNP
ADRA1D	146	hgsc.bcm.edu	37	20	4228735	4228735	+	Silent	SNP	C	C	T	rs35105284	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	16	16	20	0	1	0	C|0.787;T|0.213	0.213	strong	.	ADRA1D	36	.	NM_000678	exon1	c.G870A	p.A290A	GACGCCCGCCTCG	.	PASS	Atlas-SNP
UBR5	51366	hgsc.bcm.edu	37	8	103276753	103276753	+	Silent	SNP	T	T	G	rs12707772	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	185	131	0	1	0	T|0.889;G|0.111	0.111	strong	.	UBR5	285	.	NM_015902	exon54	c.A7635C	p.L2545L	AGGACATAGTTCA	.	PASS	Atlas-SNP
GPR50	9248	hgsc.bcm.edu	37	X	150349871	150349871	+	Missense_Mutation	SNP	A	A	G	rs13440581	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	27	21	0	0.6	0	A|0.687;G|0.313	0.313	strong	.	GPR50	195	.	NM_004224	exon2	c.A1816G	p.I606V	GTGGTTATTGATG	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	711712	711712	+	Silent	SNP	C	C	T	rs3177415	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	134	119	0	0.950355	0	C|0.451;T|0.549	0.549	strong	.	WDR90	107	.	NM_145294	exon31	c.C3789T	p.G1263G	CGCCGGCGAGCTC	.	PASS	Atlas-SNP
MIIP	60672	hgsc.bcm.edu	37	1	12082334	12082334	+	Missense_Mutation	SNP	A	A	T	rs11553925	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	69	129	0	0.469388	0	A|0.799;T|0.201	0.201	strong	MIIP,brain,glioma,0,1	MIIP	34	1	NM_021933	exon3	c.A297T	p.K99N	TGCCAAATGCCAG	.	PASS	Atlas-SNP
IL17RE	132014	hgsc.bcm.edu	37	3	9952706	9952706	+	Silent	SNP	A	A	G	rs279572	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	53	115	0	0.524752	0	A|0.492;G|0.508	0.508	strong	.	IL17RE	62	.	NM_153483	exon10	c.A1080G	p.T360T	TGCCACAGCTCGA	.	PASS	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	37	11	92623877	92623877	+	Silent	SNP	G	G	A	rs12277422	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	54	88	0	0.477876	0	A|0.259;G|0.741	0.259	strong	.	FAT3	1822	.	NM_001008781	exon25	c.G13272A	p.P4424P	TCTCCCGGAGGAC	.	PASS	Atlas-SNP
VARS2	57176	hgsc.bcm.edu	37	6	30882689	30882689	+	Missense_Mutation	SNP	C	C	T	rs6926224	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	47	65	0	0.580247	0	C|0.929;T|0.071	0.071	strong	.	VARS2	60	.	NM_001167734	exon2	c.C166T	p.H56Y	AGGTTTCACTCCG	.	PASS	Atlas-SNP
TAB1	10454	hgsc.bcm.edu	37	22	39813801	39813801	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	66	109	0	0.511628	0	.	.	none	.	TAB1	36	.	NM_153497	exon5	c.C497A	p.A166D	GAGGGGCCATGGC	.	PASS	Atlas-SNP
ZNF287	57336	hgsc.bcm.edu	37	17	16455760	16455760	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	4	65	0	0.0416667	0	.	.	none	.	ZNF287	60	.	NM_020653	exon6	c.T1696C	p.C566R	CATTACATTTATA	.	PASS	Atlas-SNP
VCAN	1462	hgsc.bcm.edu	37	5	82789647	82789647	+	Silent	SNP	A	A	G	rs4470745	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	287	283	256	0	0.986063	0	A|0.691;G|0.309	0.309	strong	.	VCAN	498	.	NM_004385	exon5	c.A645G	p.V215V	CAGAGTAGGCTGT	.	PASS	Atlas-SNP
LRP1B	53353	hgsc.bcm.edu	37	2	141260668	141260668	+	Silent	SNP	A	A	G	rs4444457	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	95	143	0	0.494792	0	A|0.460;G|0.540	0.540	strong	.	LRP1B	1315	.	NM_018557	exon54	c.T8526C	p.Y2842Y	CTGTCGATATCCT	.	PASS	Atlas-SNP
OR1S2	219958	hgsc.bcm.edu	37	11	57971195	57971195	+	Silent	SNP	G	G	A	rs11229279	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	261	100	195	0	0.383142	0	G|0.677;A|0.323	0.323	strong	OR1S2,caecum,carcinoma,-2,2	OR1S2	119	2	NM_001004459	exon1	c.C459T	p.F153F	AGTGCCGAACCTG	.	PASS	Atlas-SNP
CATSPER4	378807	hgsc.bcm.edu	37	1	26517891	26517891	+	Silent	SNP	C	C	T	rs11247867	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	180	69	158	1	0.383333	0.00632911	C|0.822;T|0.178	0.178	strong	CATSPER4,caecum,carcinoma,0,1	CATSPER4	59	1	NM_198137	exon2	c.C327T	p.I109I	CACCATCGCTCTC	.	scavenged	Atlas-SNP
CACNA1D	776	hgsc.bcm.edu	37	3	53769479	53769479	+	Silent	SNP	C	C	T	rs1045958	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	161	146	0	0.981707	0	C|0.761;T|0.239	0.239	strong	.	CACNA1D	324	.	NM_000720	exon21	c.C2760T	p.S920S	GAGCAGCGCTGCC	.	PASS	Atlas-SNP
NASP	4678	hgsc.bcm.edu	37	1	46073489	46073489	+	Silent	SNP	G	G	A	rs2230657	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	74	108	1	0.569231	0.00925926	G|0.444;A|0.556	0.556	strong	NASP,colon,carcinoma,0,1	NASP	77	1	NM_002482	exon6	c.G906A	p.P302P	AGACCCGACAGTC	.	scavenged	Atlas-SNP
TLN2	83660	hgsc.bcm.edu	37	15	63127983	63127983	+	Silent	SNP	G	G	A	rs8038919	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	115	171	0	0.513393	0	G|0.912;A|0.088	0.088	strong	.	TLN2	253	.	NM_015059	exon53	c.G7176A	p.Q2392Q	GTCACAGGGGCTG	.	PASS	Atlas-SNP
SPPL2C	162540	hgsc.bcm.edu	37	17	43923703	43923703	+	Silent	SNP	C	C	T	rs12185235	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	47	95	0	0.427273	0	C|0.853;T|0.147	0.147	strong	.	.	.	.	NM_175882	exon1	c.C1431T	p.T477T	CTGCACCGTGGCC	.	PASS	Atlas-SNP
SLC12A2	6558	hgsc.bcm.edu	37	5	127488456	127488456	+	Silent	SNP	A	A	C	rs115357531	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	339	165	317	0	0.486726	0	A|0.999;C|0.001	0.001	strong	.	SLC12A2	119	.	NM_001046	exon15	c.A2322C	p.S774S	GCATTCAATTCGT	.	PASS	Atlas-SNP
METTL11B	149281	hgsc.bcm.edu	37	1	170135828	170135828	+	Silent	SNP	C	C	T	rs41272487	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	231	231	203	0	1	0	C|0.929;T|0.071	0.071	strong	.	METTL11B	18	.	NM_001136107	exon3	c.C516T	p.Y172Y	CTGCTACAGCCTG	.	PASS	Atlas-SNP
OR2G2	81470	hgsc.bcm.edu	37	1	247752109	247752109	+	Missense_Mutation	SNP	A	A	G	rs61732336	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	312	162	247	1	0.519231	0.00404858	A|0.915;G|0.085	0.085	strong	.	OR2G2	88	.	NM_001001915	exon1	c.A448G	p.M150V	GCATCTATGGCAT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	62	129	0	0.504065	0	C|0.789;T|0.211	0.211	strong	.	SLC11A1	41	.	NM_000578	exon3	c.C198T	p.F66F	TGGCTTCCTCATG	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31323134	31323134	+	Silent	SNP	T	T	C	rs1050240	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	46	109	0	0.259887	0	.	.	weak	.	HLA-B	54	.	NM_005514	exon4	c.A855G	p.V285V	ATGCTGTACATGG	.	PASS	Atlas-SNP
DNASE1L3	1776	hgsc.bcm.edu	37	3	58183636	58183636	+	Missense_Mutation	SNP	G	G	A	rs35677470	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	238	133	184	0	0.558824	0	G|0.954;A|0.046	0.046	strong	DNASE1L3,colon,carcinoma,+1,1	DNASE1L3	36	1	NM_004944	exon6	c.C616T	p.R206C	TCAAGCGGATGTT	.	PASS	Atlas-SNP
UBE3C	9690	hgsc.bcm.edu	37	7	157000176	157000176	+	Silent	SNP	T	T	C	rs2301914	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	226	120	256	0	0.530973	0	T|0.498;C|0.502	0.502	strong	.	UBE3C	124	.	NM_014671	exon12	c.T1503C	p.Y501Y	CTTTTATCTTTTT	.	PASS	Atlas-SNP
FRAS1	80144	hgsc.bcm.edu	37	4	79240063	79240063	+	Missense_Mutation	SNP	A	A	G	rs345513	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	156	141	1	1	0.0070922	A|0.566;G|0.434	0.434	strong	.	FRAS1	779	.	NM_001166133	exon18	c.A2060G	p.D687G	TGTCTGACGTGGG	.	PASS	Atlas-SNP
ITGB4	3691	hgsc.bcm.edu	37	17	73725481	73725481	+	Silent	SNP	C	C	T	rs61751843	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	62	91	0	0.5	0	C|0.972;T|0.028	0.028	strong	.	ITGB4	165	.	NM_001005731	exon7	c.C702T	p.G234G	TGAGGGCGGCTTC	.	PASS	Atlas-SNP
OR8H2	390151	hgsc.bcm.edu	37	11	55873293	55873293	+	Missense_Mutation	SNP	T	T	C	rs61731255	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	214	118	186	0	0.551402	0	T|0.947;C|0.053	0.053	strong	.	OR8H2	117	.	NM_001005200	exon1	c.T775C	p.Y259H	TTTACTTATTTAA	.	PASS	Atlas-SNP
DEPDC5	9681	hgsc.bcm.edu	37	22	32211412	32211412	+	Silent	SNP	A	A	C	rs5749334	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	19	19	12	0	1	0	A|0.346;C|0.654	0.654	strong	.	DEPDC5	266	.	NM_001007188	exon22	c.A1677C	p.G559G	CCTAGGATAAAGT	.	PASS	Atlas-SNP
CCT4	10575	hgsc.bcm.edu	37	2	62103327	62103327	+	Silent	SNP	G	G	T	rs115496486	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	231	87	150	0	0.376623	0	G|0.996;T|0.004	0.004	strong	.	CCT4	38	.	NM_006430	exon8	c.C820A	p.R274R	GCACTCGGTCCAT	.	PASS	Atlas-SNP
ADAR	103	hgsc.bcm.edu	37	1	154561925	154561925	+	Silent	SNP	C	C	T	rs1127309	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	101	94	0	1	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
HDAC4	9759	hgsc.bcm.edu	37	2	240078400	240078400	+	Silent	SNP	G	G	A	rs148880349	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	42	57	0	0.545455	0	G|0.999;A|0.001	0.001	strong	.	HDAC4	127	.	NM_006037	exon7	c.C681T	p.H227H	GACCGGGTGGTTA	.	PASS	Atlas-SNP
KRTAP10-5	386680	hgsc.bcm.edu	37	21	46000398	46000398	+	Missense_Mutation	SNP	C	C	T	rs2020221	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	56	83	0	0.528302	0	C|0.669;T|0.331	0.331	strong	.	KRTAP10-5	43	.	NM_198694	exon1	c.G58A	p.D20N	AGTCGTCCACTCG	.	PASS	Atlas-SNP
CLIP1	6249	hgsc.bcm.edu	37	12	122817580	122817580	+	Missense_Mutation	SNP	A	A	G	rs17883517	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	288	163	293	0	0.565972	0	A|0.939;G|0.061	0.061	strong	.	CLIP1	126	.	NM_001247997	exon15	c.T2821C	p.S941P	GAGAAGAGTTATC	.	PASS	Atlas-SNP
KRT32	3882	hgsc.bcm.edu	37	17	39623431	39623431	+	Silent	SNP	C	C	T	rs117028403	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	52	89	0	0.525253	0	C|0.981;T|0.019	0.019	strong	.	KRT32	57	.	NM_002278	exon1	c.G147A	p.S49S	GCAGACCGAAGGC	.	PASS	Atlas-SNP
ACP2	53	hgsc.bcm.edu	37	11	47261762	47261762	+	Missense_Mutation	SNP	A	A	G	rs145420520	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	29	63	0	0.460317	0	A|0.991;G|0.009	0.009	strong	.	ACP2	36	.	NM_001610	exon11	c.T1177C	p.F393L	GGAGGAAGAGGAT	.	PASS	Atlas-SNP
EPB49	2039	hgsc.bcm.edu	37	8	21924633	21924633	+	Missense_Mutation	SNP	G	G	A	rs113145439	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	65	133	0	0.511811	0	G|0.989;A|0.011	0.011	strong	.	EPB49	35	.	NM_001978	exon3	c.G56A	p.R19Q	CCTCCCGAGATTC	.	PASS	Atlas-SNP
NEDD9	4739	hgsc.bcm.edu	37	6	11185533	11185533	+	Silent	SNP	G	G	A	rs1050775	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	226	224	187	0	0.99115	0	G|0.457;A|0.543	0.543	strong	NEDD9_ENST00000379446,NS,carcinoma,0,1	NEDD9	191	1	NM_001142393	exon8	c.C2367T	p.T789T	GACTATGGTCTTG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9060125	9060125	+	Silent	SNP	G	G	A	rs12972088	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	171	171	161	0	1	0	G|0.760;A|0.240	0.240	strong	.	MUC16	4315	.	NM_024690	exon3	c.C27321T	p.H9107H	AGTTGAGTGGGTC	.	PASS	Atlas-SNP
SCN9A	6335	hgsc.bcm.edu	37	2	167144974	167144974	+	Silent	SNP	A	A	T	rs6747673	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	81	99	0	1	0	A|0.462;T|0.538	0.538	strong	.	SCN9A	296	.	NM_002977	exon10	c.T1287A	p.R429R	TTTAAGACGGTCT	.	PASS	Atlas-SNP
IL23R	149233	hgsc.bcm.edu	37	1	67633812	67633812	+	Missense_Mutation	SNP	G	G	T	rs1884444	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	141	162	0	1	0	G|0.477;T|0.523	0.523	strong	.	IL23R	52	.	NM_144701	exon2	c.G9T	p.Q3H	GAATCAGGTCACT	.	PASS	Atlas-SNP
TSPAN18	90139	hgsc.bcm.edu	37	11	44940828	44940828	+	Missense_Mutation	SNP	G	G	A	rs2291334	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	47	109	0	0.370079	0	G|0.711;A|0.289	0.289	strong	TSPAN18,colon,carcinoma,-2,1	TSPAN18	38	1	NM_130783	exon6	c.G397A	p.V133I	ACAGACGTCTTCT	.	PASS	Atlas-SNP
RNF213	57674	hgsc.bcm.edu	37	17	78261805	78261805	+	Silent	SNP	A	A	G	rs7215243	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	35	14	61	0	0.4	0	A|0.731;G|0.269	0.269	strong	RNF213_ENST00000456466,NS,carcinoma,0,3	RNF213	766	3	NM_001256071	exon4	c.A453G	p.P151P	GCCCCCAGGCACA	.	PASS	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	37	1	22200473	22200473	+	Missense_Mutation	SNP	C	C	T	rs28546127	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	207	98	198	0	0.47343	0	C|0.928;G|0.000;T|0.071	0.071	strong	.	HSPG2	311	.	NM_005529	exon29	c.G3688A	p.G1230S	GGTGGCCGTCTGT	.	PASS	Atlas-SNP
SPPL2C	162540	hgsc.bcm.edu	37	17	43924200	43924200	+	Missense_Mutation	SNP	C	C	G	rs12373142	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	36	60	0	0.461538	0	C|0.473;G|0.527	0.527	strong	.	.	.	.	NM_175882	exon1	c.C1928G	p.P643R	TGCCCCCGCCCTC	.	PASS	Atlas-SNP
ITGA7	3679	hgsc.bcm.edu	37	12	56082025	56082025	+	Silent	SNP	G	G	C	rs17117883	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	227	88	224	0	0.387665	0	G|0.944;C|0.056	0.056	strong	ITGA7_ENST00000553804,NS,carcinoma,0,2	ITGA7	194	2	NM_001144996	exon23	c.C3030G	p.S1010S	TATGGAGGACTTC	.	PASS	Atlas-SNP
GLDC	2731	hgsc.bcm.edu	37	9	6645251	6645251	+	Silent	SNP	C	C	T	rs12341698	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	45	98	0	0.548781	0	C|0.786;T|0.214	0.214	strong	.	GLDC	118	.	NM_000170	exon1	c.G249A	p.G83G	CGCCAGCCCCAAG	.	PASS	Atlas-SNP
NAT16	375607	hgsc.bcm.edu	37	7	100817901	100817901	+	Missense_Mutation	SNP	A	A	G	rs34985488	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	38	64	0	0.550725	0	A|0.859;G|0.141	0.141	strong	.	.	.	.	NM_198571	exon2	c.T188C	p.F63S	TCCTCAAACTCCC	.	PASS	Atlas-SNP
AKAP13	11214	hgsc.bcm.edu	37	15	86124555	86124555	+	Missense_Mutation	SNP	G	G	A	rs4843075	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	153	170	0	0.980769	0	G|0.387;A|0.613	0.613	strong	.	AKAP13	394	.	NM_007200	exon7	c.G3256A	p.D1086N	AGTGGAGATGTGA	.	PASS	Atlas-SNP
IBSP	3381	hgsc.bcm.edu	37	4	88732911	88732911	+	Missense_Mutation	SNP	C	C	T	rs1054628	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	39	73	0	0.513158	0	C|0.800;T|0.200	0.200	strong	IBSP,colon,carcinoma,+1,1	IBSP	53	1	NM_004967	exon7	c.C803T	p.A268V	CGGGCGCCAATGA	.	PASS	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	37	22	29885567	29885567	+	Silent	SNP	A	A	C	rs75808076	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	17	47	0	0.386364	0	.	.	weak	NEFH,rectum,carcinoma,0,1	NEFH	178	1	NM_021076	exon4	c.A1938C	p.A646A	GGAAGCAAAGTCC	.	PASS	Atlas-SNP
ABCA8	10351	hgsc.bcm.edu	37	17	66878099	66878099	+	Missense_Mutation	SNP	C	C	T	rs34987539	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	46	69	0	0.433962	0	C|0.992;T|0.008	0.008	strong	.	ABCA8	213	.	NM_007168	exon29	c.G3731A	p.C1244Y	CGTAGACAGCTGG	.	PASS	Atlas-SNP
EXO1	9156	hgsc.bcm.edu	37	1	242048674	242048674	+	Missense_Mutation	SNP	C	C	T	rs9350	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	42	109	0	0.477273	0	C|0.786;T|0.214	0.214	strong	.	EXO1	103	.	NM_006027	exon13	c.C2270T	p.P757L	TCAAACCTCTAGG	.	PASS	Atlas-SNP
SPATA9	83890	hgsc.bcm.edu	37	5	94994467	94994467	+	Missense_Mutation	SNP	T	T	C	rs34297786	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	73	142	0	0.45625	0	T|0.957;C|0.043	0.043	strong	.	SPATA9	17	.	NM_031952	exon5	c.A625G	p.K209E	TTGCTTTGATTTC	.	PASS	Atlas-SNP
SLC7A13	157724	hgsc.bcm.edu	37	8	87226700	87226700	+	Missense_Mutation	SNP	A	A	G	rs9656982	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	20	13	28	0	0.65	0	A|0.866;G|0.134	0.134	strong	.	SLC7A13	97	.	NM_138817	exon4	c.T1355C	p.M452T	CAAGTCATCTTCT	.	PASS	Atlas-SNP
SMARCAL1	50485	hgsc.bcm.edu	37	2	217315787	217315787	+	Silent	SNP	T	T	C	rs2066527	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	47	97	0	0.456311	0	T|0.912;C|0.088	0.088	strong	SMARCAL1,NS,carcinoma,0,1	SMARCAL1	93	1	NM_014140	exon12	c.T2070C	p.T690T	CAAAACTGTGAGT	.	PASS	Atlas-SNP
C21orf58	54058	hgsc.bcm.edu	37	21	47734659	47734659	+	Missense_Mutation	SNP	G	G	A	rs13047478	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	49	79	0	0.515789	0	G|0.726;A|0.274	0.274	strong	.	C21orf58	25	.	NM_058180	exon5	c.C580T	p.P194S	GGTCTGGGGCCAG	.	PASS	Atlas-SNP
TBC1D28	254272	hgsc.bcm.edu	37	17	18542519	18542519	+	Missense_Mutation	SNP	T	T	G	rs74452761	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	209	94	321	0	0.449761	0	T|0.485;G|0.515	0.515	strong	.	TBC1D28	14	.	NM_001039397	exon6	c.A167C	p.E56A	GGCAGCTCCATCT	.	PASS	Atlas-SNP
OR5AS1	219447	hgsc.bcm.edu	37	11	55798823	55798823	+	Missense_Mutation	SNP	A	A	G	rs17600939	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	37	16	26	0	0.432432	0	A|0.948;G|0.052	0.052	strong	OR5AS1,NS,carcinoma,0,1	OR5AS1	121	1	NM_001001921	exon1	c.A929G	p.Y310C	TTGGATATTCAAA	.	PASS	Atlas-SNP
BTBD11	121551	hgsc.bcm.edu	37	12	108051406	108051406	+	Missense_Mutation	SNP	G	G	A	rs12303478	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	245	143	207	0	0.583673	0	G|0.891;A|0.109	0.109	strong	.	BTBD11	122	.	NM_001018072	exon17	c.G3226A	p.G1076S	GGGACCGGCCAGG	.	PASS	Atlas-SNP
NHSL1	57224	hgsc.bcm.edu	37	6	138745896	138745896	+	Silent	SNP	A	A	G	rs117203533	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	55	82	0	0.470085	0	A|0.989;G|0.011	0.011	strong	.	NHSL1	99	.	NM_020464	exon7	c.T4155C	p.H1385H	GGGAGAATGGTTT	.	PASS	Atlas-SNP
MAP2K7	5609	hgsc.bcm.edu	37	19	7975183	7975183	+	Silent	SNP	C	C	T	rs34562033	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	50	126	0	0.5	0	C|0.990;T|0.010	0.010	strong	.	MAP2K7	66	.	NM_145185	exon4	c.C372T	p.G124G	CTTGGGCGAGATG	.	PASS	Atlas-SNP
ABCG8	64241	hgsc.bcm.edu	37	2	44102491	44102491	+	Silent	SNP	C	C	T	rs4148221	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	37	63	0	0.596774	0	C|0.850;T|0.150	0.150	strong	.	ABCG8	98	.	NM_022437	exon11	c.C1695T	p.A565A	CAATGCCCTCTAC	.	PASS	Atlas-SNP
EDNRA	1909	hgsc.bcm.edu	37	4	148461073	148461073	+	Silent	SNP	G	G	A	rs5334	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	89	139	1	0.463542	0.00719424	G|0.644;A|0.356	0.356	strong	EDNRA,NS,carcinoma,+1,2	EDNRA	48	2	NM_001957	exon6	c.G1005A	p.E335E	TAACGAGATGGAC	.	scavenged	Atlas-SNP
IRAK2	3656	hgsc.bcm.edu	37	3	10251340	10251340	+	Silent	SNP	C	C	G	rs464286	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	31	54	0	0.534483	0	C|0.933;G|0.067	0.067	strong	.	IRAK2	113	.	NM_001570	exon4	c.C492G	p.S164S	TCATTCCTTGAGA	.	PASS	Atlas-SNP
CACNA1H	8912	hgsc.bcm.edu	37	16	1268494	1268494	+	Silent	SNP	C	C	T	rs2745136	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	52	42	1	1	0.0238095	C|0.275;G|0.000;T|0.724	0.724	strong	CACNA1H_ENST00000358590,NS,carcinoma,0,2	CACNA1H	317	2	NM_021098	exon33	c.C5730T	p.D1910D	CAGGGACGCCCCA	.	scavenged	Atlas-SNP
TIMELESS	8914	hgsc.bcm.edu	37	12	56825311	56825311	+	Silent	SNP	C	C	T	rs774033	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	44	84	0	0.444444	0	C|0.565;T|0.435	0.435	strong	.	TIMELESS	107	.	NM_003920	exon8	c.G765A	p.V255V	GCGCAACACCTCC	.	PASS	Atlas-SNP
NID2	22795	hgsc.bcm.edu	37	14	52520368	52520368	+	Missense_Mutation	SNP	C	C	T	rs2101919	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	196	104	175	0	0.530612	0	T|0.617;G|0.003	0.617	strong	.	NID2	201	.	NM_007361	exon5	c.G1358A	p.G453D	GTGTGACCTGAAG	.	PASS	Atlas-SNP
MTMR2	8898	hgsc.bcm.edu	37	11	95578270	95578270	+	Silent	SNP	C	C	T	rs113897932	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	52	125	0	0.530612	0	C|0.983;G|0.000;T|0.017	0.017	strong	MTMR2_ENST00000346299,NS,carcinoma,-1,2	MTMR2	79	2	NM_016156	exon11	c.G1233A	p.T411T	CACAGACGTCTTC	.	PASS	Atlas-SNP
AASDHPPT	60496	hgsc.bcm.edu	37	11	105950335	105950335	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	72	144	0	0.521739	0	.	.	none	.	AASDHPPT	40	.	NM_015423	exon2	c.A325G	p.I109V	TTTAACATCTCTC	.	PASS	Atlas-SNP
MTMR11	10903	hgsc.bcm.edu	37	1	149906413	149906413	+	Missense_Mutation	SNP	T	T	C	rs11205303	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	278	273	235	0	0.982014	0	T|0.730;C|0.270	0.270	strong	MTMR11,NS,carcinoma,0,1	MTMR11	136	1	NM_001145862	exon6	c.A475G	p.M159V	TGGCCATGGTCAC	.	PASS	Atlas-SNP
RNF135	84282	hgsc.bcm.edu	37	17	29326155	29326155	+	Missense_Mutation	SNP	G	G	T	rs61749868	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	40	78	0	0.392157	0	G|0.995;T|0.005	0.005	strong	.	RNF135	19	.	NM_032322	exon5	c.G1245T	p.W415C	CTTCTGGCTGTAT	.	PASS	Atlas-SNP
TRPV4	59341	hgsc.bcm.edu	37	12	110226379	110226379	+	Silent	SNP	G	G	A	rs3742037	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	49	138	0	0.415254	0	G|0.862;A|0.138	0.138	strong	.	TRPV4	88	.	NM_021625	exon13	c.C2034T	p.I678I	CATGCCGATGGTC	.	PASS	Atlas-SNP
TRPV2	51393	hgsc.bcm.edu	37	17	16326005	16326005	+	Silent	SNP	A	A	C	rs1129235	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	68	110	0	0.535433	0	A|0.578;C|0.422	0.422	strong	.	TRPV2	74	.	NM_016113	exon4	c.A427C	p.R143R	ATCGACAGGGACT	.	PASS	Atlas-SNP
MPDZ	8777	hgsc.bcm.edu	37	9	13150531	13150531	+	Silent	SNP	T	T	C	rs10756457	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	126	143	0	1	0	T|0.540;C|0.460	0.460	strong	.	MPDZ	324	.	NM_003829	exon25	c.A3609G	p.K1203K	TCCAGGTTTCAAG	.	PASS	Atlas-SNP
EPB41L4A	64097	hgsc.bcm.edu	37	5	111611076	111611076	+	Silent	SNP	A	A	G	rs12521830	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	157	181	0	0.98125	0	A|0.639;G|0.361	0.361	strong	.	EPB41L4A	130	.	NM_022140	exon4	c.T282C	p.F94F	AATACCAAAATAC	.	PASS	Atlas-SNP
ZFHX4	79776	hgsc.bcm.edu	37	8	77763355	77763355	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	238	108	166	0	0.453782	0	.	.	none	ZFHX4,NS,carcinoma,0,1	ZFHX4	878	1	NM_024721	exon10	c.A4198C	p.N1400H	CGCTGTAACCATT	.	PASS	Atlas-SNP
ATP2A3	489	hgsc.bcm.edu	37	17	3828702	3828702	+	Silent	SNP	T	T	C	rs887387	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	34	13	35	0	0.382353	0	T|0.680;C|0.320	0.320	strong	.	ATP2A3	148	.	NM_174955	exon22	c.A3102G	p.R1034R	CTCCACTCTGTTC	.	PASS	Atlas-SNP
MYCBPAP	84073	hgsc.bcm.edu	37	17	48598785	48598785	+	Missense_Mutation	SNP	G	G	A	rs1380657	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	171	83	145	0	0.48538	0	G|0.199;A|0.801	0.801	strong	.	MYCBPAP	135	.	NM_032133	exon9	c.G1270A	p.A424T	GACACAGCATACT	.	PASS	Atlas-SNP
LONRF2	164832	hgsc.bcm.edu	37	2	100917109	100917109	+	Silent	SNP	C	C	T	rs13006224	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	31	82	0	0.378049	0	C|0.610;T|0.390	0.390	strong	.	LONRF2	62	.	NM_198461	exon4	c.G1062A	p.S354S	TACCTCCGAGCTC	.	PASS	Atlas-SNP
STEAP1B	256227	hgsc.bcm.edu	37	7	22533033	22533033	+	Missense_Mutation	SNP	C	C	G	rs148687847	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	269	96	288	0	0.356877	0	C|0.942;G|0.058	0.058	strong	.	STEAP1B	22	.	NM_001164460	exon3	c.G507C	p.L169F	AAAAAACAAACTG	.	PASS	Atlas-SNP
CATSPER3	347732	hgsc.bcm.edu	37	5	134343799	134343799	+	Silent	SNP	A	A	G	rs177252	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	237	105	245	0	0.443038	0	A|0.562;G|0.438	0.438	strong	.	CATSPER3	38	.	NM_178019	exon4	c.A645G	p.A215A	GGCTGCAGCTTTT	.	PASS	Atlas-SNP
CDH19	28513	hgsc.bcm.edu	37	18	64176386	64176386	+	Silent	SNP	C	C	T	rs150353589	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	221	125	210	0	0.565611	0	A|0.000;C|0.996;T|0.004	0.004	strong	CDH19,mucosal,malignant_melanoma,-2,2	CDH19	141	2	NM_021153	exon11	c.G1674A	p.P558P	AAGTGACGGGATT	.	PASS	Atlas-SNP
ZSWIM2	151112	hgsc.bcm.edu	37	2	187693104	187693104	+	Silent	SNP	C	C	T	rs10172225	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	69	138	0	0.469388	0	C|0.805;T|0.195	0.195	strong	.	ZSWIM2	119	.	NM_182521	exon9	c.G1509A	p.V503V	AAATGACACAGTG	.	PASS	Atlas-SNP
PJA1	64219	hgsc.bcm.edu	37	X	68381787	68381787	+	Missense_Mutation	SNP	C	C	T	rs5937160	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	70	63	0	0.958904	0	C|0.855;T|0.145	0.145	strong	.	PJA1	106	.	NM_145119	exon2	c.G1295A	p.S432N	CCAGCACTGGCCC	.	PASS	Atlas-SNP
CSPG4	1464	hgsc.bcm.edu	37	15	75982239	75982239	+	Silent	SNP	G	G	A	rs148229217	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	42	118	0	0.362069	0	G|0.899;A|0.101	0.101	strong	CSPG4,NS,carcinoma,0,2	CSPG4	175	2	NM_001897	exon3	c.C1167T	p.D389D	GGCATCGTCCTCA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	133	162	0	0.992537	0	C|0.744;N|0.001	.	strong	.	HIVEP1	242	.	NM_002114	exon4	c.C560T	p.T187M	GCACTACGTCCCC	.	PASS	Atlas-SNP
NXPE1	120400	hgsc.bcm.edu	37	11	114398591	114398591	+	Missense_Mutation	SNP	C	C	T	rs143110380		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	4	108	0	0.0344828	0	C|1.000;T|0.000	0.000	weak	FAM55A,NS,carcinoma,0,1	NXPE1	8	1	NM_152315	exon4	c.G440A	p.R147H	TGTTTACGATCCT	.	scavenged	Atlas-SNP
PBRM1	55193	hgsc.bcm.edu	37	3	52676038	52676038	+	Missense_Mutation	SNP	C	C	G	rs200106731	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	54	97	0	0.529412	0	C|0.999;G|0.001	0.001	weak	.	PBRM1	1252	.	NM_018313	exon11	c.G1019C	p.G340A	AAACGACCTCCTT	.	PASS	Atlas-SNP
COL6A1	1291	hgsc.bcm.edu	37	21	47423389	47423389	+	Missense_Mutation	SNP	G	G	A	rs1053312	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	16	8	17	0	0.5	0	G|0.703;A|0.297	0.297	strong	.	COL6A1	101	.	NM_001848	exon35	c.G2549A	p.R850H	CCAAGCGCTTCGC	.	PASS	Atlas-SNP
CCDC135	84229	hgsc.bcm.edu	37	16	57735900	57735900	+	Missense_Mutation	SNP	G	G	C	rs7196016	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	72	108	0	0.473684	0	G|0.731;C|0.269	0.269	strong	.	CCDC135	97	.	NM_032269	exon5	c.G557C	p.C186S	GGAACTGCTTTGA	.	PASS	Atlas-SNP
LSG1	55341	hgsc.bcm.edu	37	3	194387186	194387186	+	Silent	SNP	C	C	T	rs35670721	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	83	213	0	0.439153	0	C|0.920;T|0.080	0.080	strong	.	LSG1	38	.	NM_018385	exon3	c.G342A	p.P114P	CCTCCTCGGTATA	.	PASS	Atlas-SNP
IQGAP3	128239	hgsc.bcm.edu	37	1	156499969	156499969	+	Silent	SNP	T	T	C	rs1171566	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	58	104	1	0.42963	0.00961538	T|0.489;C|0.511	0.511	strong	IQGAP3,NS,carcinoma,0,1	IQGAP3	146	1	NM_178229	exon34	c.A4332G	p.L1444L	TCGGCGTAGGTTC	.	scavenged	Atlas-SNP
ECH1	1891	hgsc.bcm.edu	37	19	39307103	39307103	+	Missense_Mutation	SNP	C	C	T	rs2229259	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	48	108	0	0.461538	0	C|0.921;T|0.079	0.079	strong	.	ECH1	14	.	NM_001398	exon7	c.G649A	p.G217R	GGTTCCCGATGAC	.	PASS	Atlas-SNP
PDF	64146	hgsc.bcm.edu	37	16	69364030	69364030	+	Silent	SNP	G	G	A	rs3852691	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	33	22	21	0	0.666667	0	G|0.930;A|0.070	0.070	strong	PDF,NS,carcinoma,0,1	PDF	4	1	NM_022341	exon1	c.C444T	p.F148F	CAGGGGGAAGGGC	.	PASS	Atlas-SNP
SLC13A2	9058	hgsc.bcm.edu	37	17	26824156	26824156	+	Missense_Mutation	SNP	A	A	G	rs11567842	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	309	138	243	0	0.446602	0	A|0.560;G|0.440	0.440	strong	SLC13A2,NS,carcinoma,0,1	SLC13A2	125	1	NM_001145975	exon12	c.A1795G	p.I599V	GTCCTGATCATCG	.	PASS	Atlas-SNP
CASS4	57091	hgsc.bcm.edu	37	20	55033647	55033647	+	Silent	SNP	T	T	C	rs3746625	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	42	90	0	0.424242	0	T|0.588;C|0.412	0.412	strong	.	CASS4	121	.	NM_020356	exon6	c.T2205C	p.R735R	CCTCCGTGGCAGC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179427536	179427536	+	Missense_Mutation	SNP	T	T	C	rs3829746	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	80	158	0	0.5	0	T|0.555;C|0.445	0.445	strong	.	TTN	18412	.	NM_001267550	exon326	c.A83323G	p.I27775V	CTCTTATGGTCAA	.	PASS	Atlas-SNP
KIF2B	84643	hgsc.bcm.edu	37	17	51900729	51900729	+	Missense_Mutation	SNP	C	C	T	rs3803824	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	29	43	0	0.402778	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
BDP1	55814	hgsc.bcm.edu	37	5	70840233	70840233	+	Silent	SNP	C	C	T	rs182190	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	222	104	170	0	0.468468	0	C|0.591;T|0.408	0.408	strong	.	BDP1	204	.	NM_018429	exon31	c.C6462T	p.L2154L	AAACCTCGGACCA	.	PASS	Atlas-SNP
EGF	1950	hgsc.bcm.edu	37	4	110901198	110901198	+	Missense_Mutation	SNP	G	G	A	rs2237051	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	106	176	0	0.473214	0	G|0.425;A|0.575	0.575	strong	.	EGF	113	.	NM_001963	exon14	c.G2124A	p.M708I	AGTAATGAGAGTA	.	PASS	Atlas-SNP
HS6ST1	9394	hgsc.bcm.edu	37	2	129075939	129075939	+	Nonsense_Mutation	SNP	T	T	A	rs202247387	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	11	113	0	0.108911	0	T|0.992;A|0.008	0.008	strong	HS6ST1,NS,carcinoma,0,1	HS6ST1	31	1	NM_004807	exon1	c.A199T	p.K67X	AGTACTTCTTCTC	.	scavenged	Atlas-SNP
OR52E4	390081	hgsc.bcm.edu	37	11	5906203	5906203	+	Missense_Mutation	SNP	T	T	G	rs11823828	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	348	168	276	0	0.482759	0	T|0.612;G|0.388	0.388	strong	.	OR52E4	65	.	NM_001005165	exon1	c.T681G	p.F227L	TGTTTTTCGCCTT	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134698678	134698678	+	Missense_Mutation	SNP	G	G	A	rs185087227	by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	35	72	0	0.454545	0	G|1.000;A|0.000	0.000	strong	.	TTC40	100	.	NM_001200049	exon27	c.C3556T	p.R1186C	CCAGGCGGTGCCA	.	PASS	Atlas-SNP
NOXRED1	122945	hgsc.bcm.edu	37	14	77880305	77880305	+	Silent	SNP	C	C	T	rs10130481	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	56	119	0	0.474576	0	C|0.851;T|0.149	0.149	strong	NOXRED1,NS,carcinoma,-1,2	NOXRED1	23	2	NM_001113475	exon2	c.G321A	p.R107R	GGAGATCCGCAGG	.	PASS	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	37	11	62285665	62285665	+	Silent	SNP	C	C	T	rs61625484	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	63	122	0	0.446809	0	A|0.000;C|0.950;G|0.000;T|0.050	0.050	strong	.	AHNAK	532	.	NM_001620	exon5	c.G16224A	p.L5408L	TTGGGGCAGCTTC	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8176009	8176009	+	Silent	SNP	C	C	T	rs17160196	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	29	60	0	0.439394	0	C|0.891;T|0.109	0.109	strong	.	FBN3	300	.	NM_032447	exon32	c.G4143A	p.A1381A	GCCGGGCGCATTG	.	PASS	Atlas-SNP
ANKRD53	79998	hgsc.bcm.edu	37	2	71212405	71212405	+	Missense_Mutation	SNP	T	T	C	rs61732279	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	219	87	141	2	0.39726	0.0141844	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	.	scavenged	Atlas-SNP
KLHDC8A	55220	hgsc.bcm.edu	37	1	205308347	205308347	+	Silent	SNP	C	C	A	rs1105386	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	24	39	0	0.436364	0	C|0.980;A|0.020	0.020	strong	.	KLHDC8A	31	.	NM_018203	exon4	c.G732T	p.T244T	GTCCATCGTCCGC	.	PASS	Atlas-SNP
ITPKB	3707	hgsc.bcm.edu	37	1	226923264	226923264	+	Silent	SNP	G	G	A	rs708775	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	95	187	0	0.472637	0	G|0.716;A|0.284	0.284	strong	ITPKB_ENST00000429204,NS,carcinoma,0,1	ITPKB	158	1	NM_002221	exon2	c.C1896T	p.A632A	CAGGAAGGCTGAG	.	PASS	Atlas-SNP
CCPG1	9236	hgsc.bcm.edu	37	15	55652969	55652969	+	Missense_Mutation	SNP	C	C	G	rs200417770		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	57	179	1	0.354037	0.00558659	C|0.999;G|0.001	0.001	weak	CCPG1,NS,carcinoma,0,1	CCPG1	74	1	NM_020739	exon8	c.G1002C	p.Q334H	TCTAATCTGTTCT	.	scavenged	Atlas-SNP
MADD	8567	hgsc.bcm.edu	37	11	47303275	47303275	+	Silent	SNP	T	T	C	rs326217	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	64	108	0	0.48855	0	T|0.698;C|0.302	0.302	strong	.	MADD	172	.	NM_130474	exon8	c.T1440C	p.N480N	TGGCAATGATGTG	.	PASS	Atlas-SNP
LLGL2	3993	hgsc.bcm.edu	37	17	73565171	73565171	+	Missense_Mutation	SNP	T	T	C	rs1671021	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	65	135	0	0.457746	0	T|0.486;C|0.514	0.514	strong	.	LLGL2	155	.	NM_004524	exon13	c.T1435C	p.F479L	GAGAACTTCAGTG	.	PASS	Atlas-SNP
MFSD6	54842	hgsc.bcm.edu	37	2	191302144	191302144	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	408	38	372	13	0.0931373	0.0349462	.	.	none	MFSD6,rectum,carcinoma,0,1	MFSD6	58	1	NM_017694	exon3	c.C1389T	p.F463F	TGGCTTCGTGTTC	.	scavenged	Atlas-SNP
IFIT1B	439996	hgsc.bcm.edu	37	10	91143529	91143529	+	Silent	SNP	T	T	A	rs55902039		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	55	116	0	0.901639	0	.	.	weak	IFIT1B,right_upper_lobe,carcinoma,+2,1	IFIT1B	39	1	NM_001010987	exon2	c.T459A	p.G153G	GTGTGGTGGAAAG	.	PASS	Atlas-SNP
SYK	6850	hgsc.bcm.edu	37	9	93637015	93637015	+	Silent	SNP	C	C	T	rs2290890	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	53	74	0	0.56383	0	C|0.825;T|0.175	0.175	strong	.	SYK	132	.	NM_003177	exon9	c.C1065T	p.P355P	GGACCCCGAGGAG	.	PASS	Atlas-SNP
SH2D4B	387694	hgsc.bcm.edu	37	10	82348395	82348395	+	Missense_Mutation	SNP	G	G	A	rs140909202	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	32	12	21	0	0.375	0	G|0.999;A|0.001	0.001	strong	.	SH2D4B	44	.	NM_207372	exon4	c.G505A	p.E169K	AAAGAGGAAGAGG	.	PASS	Atlas-SNP
OR2AK2	391191	hgsc.bcm.edu	37	1	248128929	248128929	+	Missense_Mutation	SNP	G	G	A	rs6664332	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	99	151	0	0.543956	0	G|0.663;A|0.337	0.337	strong	.	OR2AK2	90	.	NM_001004491	exon1	c.G296A	p.S99N	CAGTCAGCTTCCT	.	PASS	Atlas-SNP
FCN2	2220	hgsc.bcm.edu	37	9	137775155	137775155	+	Silent	SNP	T	T	C	rs4520243	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	42	81	0	0.512195	0	T|0.642;C|0.358	0.358	strong	.	FCN2	55	.	NM_004108	exon3	c.T222C	p.R74R	AGAACGTGGCCCC	.	PASS	Atlas-SNP
AMY2B	280	hgsc.bcm.edu	37	1	104117892	104117892	+	Missense_Mutation	SNP	T	T	C	rs140209167	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	261	137	192	0	0.524904	0	T|0.998;C|0.002	0.002	strong	.	AMY2B	80	.	NM_020978	exon8	c.T926C	p.V309A	CACTTGTCTTTGT	.	PASS	Atlas-SNP
MAPT	4137	hgsc.bcm.edu	37	17	44061036	44061036	+	Missense_Mutation	SNP	T	T	C	rs62063787	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	66	120	0	0.515625	0	T|0.849;C|0.151	0.151	strong	.	MAPT	135	.	NM_001123066	exon6	c.T866C	p.V289A	CCAGTGTAGGGCG	.	PASS	Atlas-SNP
OR1S1	219959	hgsc.bcm.edu	37	11	57982726	57982726	+	Silent	SNP	G	G	T	rs1993089	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	260	82	272	0	0.315385	0	G|0.609;T|0.391	0.391	strong	OR1S1,NS,carcinoma,0,1	OR1S1	139	1	NM_001004458	exon1	c.G510T	p.L170L	TGCTCTGACACAC	.	PASS	Atlas-SNP
ZSWIM6	57688	hgsc.bcm.edu	37	5	60628411	60628411	+	Silent	SNP	G	G	T	rs75429795	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	132	113	0	0.992481	0	G|0.881;T|0.119	0.119	strong	.	ZSWIM6	51	.	NM_020928	exon1	c.G312T	p.P104P	GGAGCCGGTGCAG	.	PASS	Atlas-SNP
DNAH3	55567	hgsc.bcm.edu	37	16	20976360	20976360	+	Missense_Mutation	SNP	T	T	G	rs33928718	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	184	171	1	1	0.00584795	T|0.933;G|0.067	0.067	strong	.	DNAH3	1142	.	NM_017539	exon53	c.A8846C	p.K2949T	TTTTTCTTGGTGT	.	PASS	Atlas-SNP
BPIFB4	149954	hgsc.bcm.edu	37	20	31673846	31673846	+	Missense_Mutation	SNP	A	A	G	rs2070325	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	47	85	0	0.546512	0	A|0.615;G|0.385	0.385	strong	.	.	.	.	NM_182519	exon5	c.A802G	p.I268V	CTGGACATCGCAG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	196	95	170	0	0.484694	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
PDE2A	5138	hgsc.bcm.edu	37	11	72289291	72289291	+	Silent	SNP	T	T	C	rs1135029	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	130	124	0	0.992366	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
KLC2	64837	hgsc.bcm.edu	37	11	66033430	66033430	+	Missense_Mutation	SNP	C	C	T	rs2276036	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	219	205	210	0	0.936073	0	C|0.818;T|0.182	0.182	strong	.	KLC2	50	.	NM_022822	exon13	c.C1549T	p.P517S	GCCGGGCCTCGGT	.	PASS	Atlas-SNP
STEAP1B	256227	hgsc.bcm.edu	37	7	22533350	22533350	+	Missense_Mutation	SNP	C	C	T	rs17875208	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	367	142	377	0	0.386921	0	.	.	weak	.	STEAP1B	22	.	NM_001164460	exon3	c.G190A	p.A64T	CCTGTGCGTGCTG	.	PASS	Atlas-SNP
NAT1	9	hgsc.bcm.edu	37	8	18080128	18080128	+	Missense_Mutation	SNP	C	C	T	rs141552883	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	62	116	0	0.449275	0	C|1.000;T|0.000	0.000	strong	.	NAT1	38	.	NM_001160176	exon4	c.C758T	p.S253F	TCTACTCCTTTAC	.	PASS	Atlas-SNP
TSPAN11	441631	hgsc.bcm.edu	37	12	31135579	31135579	+	Missense_Mutation	SNP	T	T	C	rs2075333	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	37	166	0	0.316239	0	T|0.327;C|0.673	0.673	strong	TSPAN11,NS,carcinoma,0,1	TSPAN11	30	1	NM_001080509	exon6	c.T569C	p.V190A	TGGTGGTGCGCTG	.	PASS	Atlas-SNP
PLEKHH2	130271	hgsc.bcm.edu	37	2	43989525	43989525	+	Missense_Mutation	SNP	C	C	G	rs76859622	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	69	203	0	0.375	0	C|0.975;G|0.025	0.025	strong	.	PLEKHH2	156	.	NM_172069	exon28	c.C4154G	p.S1385C	ACAACTCCATGGT	.	PASS	Atlas-SNP
EGR2	1959	hgsc.bcm.edu	37	10	64575663	64575663	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	3	142	0	0.0157068	0	.	.	none	EGR2,bladder,carcinoma,0,1	EGR2	77	1	NM_000399	exon1	c.G127A	p.E43K	CCAGTTCGGCATT	.	scavenged	Atlas-SNP
DKKL1	27120	hgsc.bcm.edu	37	19	49878115	49878115	+	Missense_Mutation	SNP	G	G	A	rs1054770	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	40	80	0	0.43956	0	G|0.733;A|0.267	0.267	strong	.	DKKL1	23	.	NM_014419	exon5	c.G559A	p.G187S	GAGGGCGGCCACT	.	PASS	Atlas-SNP
SPZ1	84654	hgsc.bcm.edu	37	5	79616936	79616936	+	Missense_Mutation	SNP	A	A	C	rs35337118	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	93	205	1	0.519553	0.00487805	A|0.872;C|0.128	0.128	strong	.	SPZ1	60	.	NM_032567	exon1	c.A902C	p.H301P	CTAAGCATGAGCT	.	PASS	Atlas-SNP
USP32	84669	hgsc.bcm.edu	37	17	58285542	58285542	+	Missense_Mutation	SNP	G	G	A	rs76478630		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	563	138	461	3	0.245115	0.00650759	.	.	weak	USP32,NS,malignant_melanoma,0,2	USP32	128	2	NM_032582	exon24	c.C2803T	p.R935W	CATACCGTACAGG	.	scavenged	Atlas-SNP
PLCG2	5336	hgsc.bcm.edu	37	16	81990441	81990441	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	34	52	0	0.404762	0	.	.	none	.	PLCG2	276	.	NM_002661	exon32	c.A3712T	p.N1238Y	AGTGTTAATGAGA	.	PASS	Atlas-SNP
WNT8B	7479	hgsc.bcm.edu	37	10	102241724	102241724	+	Silent	SNP	G	G	A	rs76078607	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	7	92	0	0.102941	0	G|0.998;A|0.002	0.002	strong	.	WNT8B	31	.	NM_003393	exon5	c.G423A	p.A141A	AGAGGCGATTTCC	.	PASS	Atlas-SNP
PAPL	0	hgsc.bcm.edu	37	19	39592138	39592138	+	Silent	SNP	C	C	T	rs1313617	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	17	42	0	0.472222	0	C|0.765;T|0.235	0.235	strong	.	.	.	.	NM_001004318	exon11	c.C1074T	p.T358T	CTACACCAACCCG	.	PASS	Atlas-SNP
GIMAP8	155038	hgsc.bcm.edu	37	7	150171710	150171710	+	Silent	SNP	T	T	C	rs60114833	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	38	83	0	0.463415	0	T|0.704;C|0.296	0.296	strong	.	GIMAP8	136	.	NM_175571	exon4	c.T1293C	p.C431C	GCATTGTGTTTTC	.	PASS	Atlas-SNP
RBMXL3	139804	hgsc.bcm.edu	37	X	114424505	114424505	+	Silent	SNP	G	G	A	rs62601528	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	17	14	4	0	0.823529	0	G|0.928;A|0.072	0.072	strong	.	RBMXL3	83	.	NM_001145346	exon1	c.G501A	p.P167P	CACGCCGTCGAGC	.	PASS	Atlas-SNP
FLNB	2317	hgsc.bcm.edu	37	3	58154327	58154327	+	Silent	SNP	C	C	T	rs8640	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	62	116	0	0.455882	0	C|0.573;T|0.427	0.427	strong	.	FLNB	430	.	NM_001164317	exon45	c.C7452T	p.S2484S	GATCAGCGTCAAA	.	PASS	Atlas-SNP
CASC5	57082	hgsc.bcm.edu	37	15	40915190	40915190	+	Missense_Mutation	SNP	A	A	G	rs8040502	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	96	171	0	1	0	A|0.259;G|0.741	0.741	strong	CASC5,NS,carcinoma,0,1	CASC5	269	1	NM_170589	exon11	c.A2806G	p.R936G	ACATGTAGGCAGG	.	PASS	Atlas-SNP
RPGRIP1L	23322	hgsc.bcm.edu	37	16	53639448	53639448	+	Silent	SNP	G	G	A	rs144924117	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	65	86	0	0.619048	0	G|1.000;A|0.000	0.000	strong	.	RPGRIP1L	118	.	NM_015272	exon26	c.C3780T	p.V1260V	AAGGTCGACGTGA	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954356	30954356	+	Missense_Mutation	SNP	C	C	T	rs138756149	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	20	81	0	0.140845	0	.	.	weak	MUC21,NS,carcinoma,0,3	MUC21	98	3	NM_001010909	exon2	c.C404T	p.A135V	GCACAGCCACCAA	.	PASS	Atlas-SNP
FAM179A	165186	hgsc.bcm.edu	37	2	29246044	29246044	+	Missense_Mutation	SNP	T	T	C	rs6721861	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	68	161	0	0.373626	0	T|0.456;C|0.544	0.544	strong	FAM179A,NS,carcinoma,0,1	FAM179A	106	1	NM_199280	exon12	c.T1604C	p.V535A	GCTTGGTGGTGAC	.	PASS	Atlas-SNP
TMEM88B	643965	hgsc.bcm.edu	37	1	1361633	1361633	+	Silent	SNP	G	G	A	rs12022947	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	11	8	8	0	0.727273	0	G|0.633;A|0.367	0.367	strong	.	.	.	.	NM_001146685	exon1	c.G126A	p.S42S	GTGGTCGGGGCCC	.	PASS	Atlas-SNP
EYS	346007	hgsc.bcm.edu	37	6	66005857	66005857	+	Missense_Mutation	SNP	T	T	A	rs17411795	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	72	126	0	0.444444	0	A|0.141;N|0.000	0.141	strong	EYS_ENST00000370621,NS,carcinoma,0,1	EYS	527	1	NM_001142800	exon12	c.A1922T	p.E641V	TCTATCTCACAGA	.	PASS	Atlas-SNP
ZNF667	63934	hgsc.bcm.edu	37	19	56952615	56952615	+	Silent	SNP	A	A	G	rs61740673	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	44	87	0	0.54321	0	A|0.965;G|0.035	0.035	strong	ZNF667,NS,NS,-2,1	ZNF667	95	1	NM_022103	exon5	c.T1749C	p.Y583Y	ACATTCATAGGGT	.	PASS	Atlas-SNP
INHA	3623	hgsc.bcm.edu	37	2	220439678	220439678	+	Silent	SNP	C	C	T	rs12720063	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	65	97	0	0.546219	0	C|0.826;T|0.174	0.174	strong	.	INHA	30	.	NM_002191	exon2	c.C531T	p.A177A	CTGGGCCGTGCTG	.	PASS	Atlas-SNP
BRPF3	27154	hgsc.bcm.edu	37	6	36185759	36185759	+	Missense_Mutation	SNP	A	A	G	rs145016452	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	243	99	174	0	0.407407	0	A|0.997;G|0.003	0.003	strong	.	BRPF3	93	.	NM_015695	exon9	c.A3055G	p.S1019G	GGTCTCAGTGGTG	.	PASS	Atlas-SNP
GDPD4	220032	hgsc.bcm.edu	37	11	76954833	76954833	+	Missense_Mutation	SNP	G	G	A	rs11237146	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	27	90	0	0.350649	0	G|0.770;A|0.229	0.229	strong	.	GDPD4	49	.	NM_182833	exon12	c.C1147T	p.H383Y	CCACATGCTGAAA	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179587130	179587130	+	Missense_Mutation	SNP	C	C	G	rs12693166	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	52	77	0	0.477064	0	C|0.765;G|0.235	0.235	strong	.	TTN	18412	.	NM_001267550	exon77	c.G22384C	p.D7462H	TTTCATCGTCTCT	.	PASS	Atlas-SNP
KIAA0586	9786	hgsc.bcm.edu	37	14	58943847	58943847	+	Silent	SNP	G	G	A	rs373201020		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	39	72	0	0.443182	0	.	.	weak	.	KIAA0586	180	.	NM_001244189	exon22	c.G2991A	p.E997E	GGTAGAGCAAGAA	.	PASS	Atlas-SNP
IQCF6	440956	hgsc.bcm.edu	37	3	51812952	51812952	+	Missense_Mutation	SNP	C	C	T	rs11130296	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	39	85	0	0.443182	0	C|0.837;T|0.163	0.163	strong	.	IQCF6	2	.	NM_001143833	exon2	c.G11A	p.R4Q	AACGTCCGGCGCA	.	PASS	Atlas-SNP
LYPD3	27076	hgsc.bcm.edu	37	19	43965594	43965594	+	Missense_Mutation	SNP	C	C	T	rs149095976	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	48	91	0	0.466019	0	C|0.999;T|0.001	0.001	strong	.	LYPD3	24	.	NM_014400	exon5	c.G950A	p.G317E	TGGGGCCCCCCTT	.	PASS	Atlas-SNP
DSC3	1825	hgsc.bcm.edu	37	18	28586964	28586964	+	Silent	SNP	A	A	G	rs1313586	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	75	122	0	0.503356	0	A|0.478;G|0.521	0.521	strong	DSC3,NS,carcinoma,0,1	DSC3	225	1	NM_024423	exon12	c.T1797C	p.P599P	TTCATCAGGATCA	.	PASS	Atlas-SNP
ART3	419	hgsc.bcm.edu	37	4	77033590	77033590	+	Missense_Mutation	SNP	C	C	T	rs1128864	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	46	110	0	0.422018	0	C|0.574;T|0.426	0.426	strong	.	ART3	34	.	NM_001130016	exon12	c.C1088T	p.S363L	CATCCTCGGGCAA	.	PASS	Atlas-SNP
ACTB	60	hgsc.bcm.edu	37	7	5567677	5567677	+	Silent	SNP	C	C	T	rs11546939	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	50	130	0	0.396825	0	C|0.965;T|0.035	0.035	strong	.	ACTB	45	.	NM_001101	exon5	c.G942A	p.Q314Q	CTCCTTCTGCATC	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100684149	100684149	+	Missense_Mutation	SNP	G	G	A	rs201455288	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	13	71	0	0.236364	0	G|0.997;A|0.003	0.003	strong	MUC17,colon,carcinoma,+1,1	MUC17	804	1	NM_001040105	exon3	c.G9452A	p.G3151D	CTGAAGGTACCAG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	38	50	0	0.513514	0	G|0.875;A|0.125	0.125	strong	.	C6orf195	10	.	NM_152554	exon3	c.C127T	p.P43S	GAGCGGGCCTGGC	.	PASS	Atlas-SNP
ASB5	140458	hgsc.bcm.edu	37	4	177142611	177142611	+	Silent	SNP	G	G	A	rs35698542	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	79	129	0	0.544828	0	G|0.978;A|0.022	0.022	strong	ASB5,NS,carcinoma,0,1	ASB5	88	1	NM_080874	exon4	c.C525T	p.A175A	ACTGGCGGCCTCA	.	PASS	Atlas-SNP
DFNB31	25861	hgsc.bcm.edu	37	9	117166246	117166246	+	Missense_Mutation	SNP	A	A	G	rs2274159	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	60	74	0	1	0	A|0.575;G|0.425	0.425	strong	.	DFNB31	100	.	NM_015404	exon10	c.T2348C	p.V783A	GTGGACACCGACT	.	PASS	Atlas-SNP
OR5AS1	219447	hgsc.bcm.edu	37	11	55798764	55798764	+	Silent	SNP	T	T	C	rs61889975	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	38	58	0	0.506667	0	T|0.948;C|0.052	0.052	strong	.	OR5AS1	121	.	NM_001001921	exon1	c.T870C	p.Y290Y	AATTTATAGTTTC	.	PASS	Atlas-SNP
GLTSCR1	29998	hgsc.bcm.edu	37	19	48183771	48183771	+	Silent	SNP	C	C	T	rs1035938	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	24	11	21	0	0.458333	0	C|0.666;T|0.334	0.334	strong	.	GLTSCR1	79	.	NM_015711	exon6	c.C1344T	p.S448S	CATGAGCGTCCAC	.	PASS	Atlas-SNP
LPO	4025	hgsc.bcm.edu	37	17	56326521	56326521	+	Silent	SNP	G	G	C	rs8178329	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	33	86	0	0.407407	0	G|0.937;C|0.063	0.063	strong	.	LPO	73	.	NM_006151	exon5	c.G426C	p.T142T	CATTACGGGAGAC	.	PASS	Atlas-SNP
KLHDC7A	127707	hgsc.bcm.edu	37	1	18807897	18807897	+	Missense_Mutation	SNP	C	C	G	rs2992755	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	130	118	1	0.992366	0.00847458	C|0.324;G|0.676	0.676	strong	.	KLHDC7A	60	.	NM_152375	exon1	c.C422G	p.P141R	GCTGCCCCAGCCA	.	PASS	Atlas-SNP
TMC2	117532	hgsc.bcm.edu	37	20	2552884	2552884	+	Missense_Mutation	SNP	A	A	G	rs11908093	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	31	107	0	0.336957	0	A|0.878;G|0.122	0.122	strong	.	TMC2	121	.	NM_080751	exon5	c.A614G	p.Q205R	GCAAGCAACTATA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	278	132	288	0	0.47482	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
FXR2	9513	hgsc.bcm.edu	37	17	7497292	7497292	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	3	55	0	0.0410959	0	.	.	none	FXR2,NS,carcinoma,+2,1	FXR2	44	1	NM_004860	exon11	c.C1051T	p.R351X	TCTCTCGGGTGCC	.	scavenged	Atlas-SNP
VRK2	7444	hgsc.bcm.edu	37	2	58316814	58316814	+	Missense_Mutation	SNP	A	A	G	rs1051061	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	429	202	293	1	0.470862	0.00341297	A|0.683;G|0.317	0.317	strong	.	VRK2	46	.	NM_001130480	exon7	c.A499G	p.I167V	GGTGATATAAAAG	.	PASS	Atlas-SNP
GRIN2B	2904	hgsc.bcm.edu	37	12	14019128	14019128	+	Silent	SNP	C	C	T	rs34315573	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	25	13	14	0	0.52	0	C|0.972;T|0.028	0.028	strong	GRIN2B,NS,carcinoma,-1,1	GRIN2B	303	1	NM_000834	exon2	c.G15A	p.A5A	GCACTCCGCTCTG	.	PASS	Atlas-SNP
C1orf173	127254	hgsc.bcm.edu	37	1	75078423	75078423	+	Missense_Mutation	SNP	C	C	T	rs150709786	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	38	64	0	0.527778	0	C|0.999;T|0.001	0.001	strong	C1orf173,NS,lymphoid_neoplasm,-2,1	C1orf173	380	1	NM_001002912	exon9	c.G1071A	p.M357I	CACCTGCATCCCA	.	PASS	Atlas-SNP
UBR5	51366	hgsc.bcm.edu	37	8	103307533	103307533	+	Silent	SNP	T	T	C	rs9650002	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	136	139	0	1	0	T|0.905;C|0.095	0.095	strong	.	UBR5	285	.	NM_015902	exon31	c.A3957G	p.L1319L	AGGCTCTAAATCA	.	PASS	Atlas-SNP
FEZ2	9637	hgsc.bcm.edu	37	2	36782886	36782886	+	Missense_Mutation	SNP	G	G	A	rs848642	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	88	137	0	0.539877	0	G|0.476;T|0.006	.	strong	.	FEZ2	13	.	NM_001042548	exon8	c.C1066T	p.R356C	TGGCACGAAGAAC	.	PASS	Atlas-SNP
KCNA6	3742	hgsc.bcm.edu	37	12	4920767	4920767	+	Silent	SNP	T	T	C	rs34642709	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	47	68	0	0.479592	0	T|0.987;C|0.013	0.013	strong	.	KCNA6	122	.	NM_002235	exon1	c.T1560C	p.Y520Y	GGCCTATGCAGAG	.	PASS	Atlas-SNP
JAG1	182	hgsc.bcm.edu	37	20	10625624	10625624	+	Missense_Mutation	SNP	C	C	T	rs147809756	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	63	77	1	0.543103	0.012987	C|0.999;T|0.001	0.001	strong	JAG1_ENST00000254958,NS,malignant_melanoma,-1,6	JAG1	213	6	NM_000214	exon18	c.G2231A	p.R744Q	CTGTTTCGGGCTA	.	scavenged	Atlas-SNP
ZNF705A	440077	hgsc.bcm.edu	37	12	8329676	8329676	+	Missense_Mutation	SNP	C	C	T	rs10743252	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	258	114	250	1	0.44186	0.004	C|0.481;T|0.519	0.519	strong	ZNF705A,NS,carcinoma,0,1	ZNF705A	32	1	NM_001004328	exon5	c.C400T	p.R134C	ACTCAGCGTTTGT	.	PASS	Atlas-SNP
TTC27	55622	hgsc.bcm.edu	37	2	32961858	32961858	+	Missense_Mutation	SNP	A	A	G	rs2273660	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	70	146	0	0.522388	0	A|0.866;G|0.134	0.134	strong	.	TTC27	71	.	NM_017735	exon12	c.A1427G	p.Y476C	TTTGTTATGAAAG	.	PASS	Atlas-SNP
ZNF468	90333	hgsc.bcm.edu	37	19	53345321	53345321	+	Silent	SNP	T	T	G	rs8100893	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	60	103	0	0.576923	0	T|0.847;G|0.153	0.153	strong	ZNF468,NS,carcinoma,0,1	ZNF468	46	1	NM_001008801	exon4	c.A226C	p.R76R	CTTGTCTGTGCAA	.	PASS	Atlas-SNP
PANK1	53354	hgsc.bcm.edu	37	10	91344169	91344169	+	Silent	SNP	G	G	A	rs1063943	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	5	98	0	0.0769231	0	G|0.912;A|0.088	0.088	strong	.	PANK1	35	.	NM_148977	exon7	c.C1791T	p.D597D	CTACTTGTCATCA	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1103873	1103873	+	Silent	SNP	C	C	T	rs11245957	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	46	111	1	0.429907	0.00900901	C|0.867;T|0.133	0.133	strong	MUC2_ENST00000441003,NS,carcinoma,0,1	MUC2	614	1	NM_002457	exon49	c.C8160T	p.Y2720Y	TTCGTACGCCGGC	.	scavenged	Atlas-SNP
PARP15	165631	hgsc.bcm.edu	37	3	122296647	122296647	+	Missense_Mutation	SNP	G	G	A	rs7632426	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	61	81	0	0.616162	0	G|0.835;A|0.165	0.165	strong	.	PARP15	115	.	NM_001113523	exon1	c.G133A	p.A45T	CTGCCGGCCGGGA	.	PASS	Atlas-SNP
LPP	4026	hgsc.bcm.edu	37	3	188327461	188327461	+	Silent	SNP	C	C	T	rs1059380	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	42	81	0	0.407767	0	C|0.403;T|0.597	0.597	strong	.	LPP	72	.	NM_005578	exon6	c.C942T	p.D314D	CTCTGACCCTACC	.	PASS	Atlas-SNP
PATZ1	23598	hgsc.bcm.edu	37	22	31741067	31741067	+	Silent	SNP	G	G	A	rs714909	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	149	126	1	1	0.00793651	G|0.818;A|0.182	0.182	strong	.	PATZ1	24	.	NM_032050	exon1	c.C522T	p.L174L	GCGAAAGAGCATT	.	PASS	Atlas-SNP
WDR67	93594	hgsc.bcm.edu	37	8	124121798	124121798	+	Silent	SNP	A	A	G	rs16897969	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	38	117	0	0.368932	0	A|0.694;G|0.306	0.306	strong	.	WDR67	97	.	NM_001145088	exon10	c.A1374G	p.A458A	TGTGGCATTTCTC	.	PASS	Atlas-SNP
PSEN2	5664	hgsc.bcm.edu	37	1	227071525	227071525	+	Silent	SNP	C	C	T	rs1046240	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	157	160	0	0.993671	0	C|0.514;T|0.486	0.486	strong	.	PSEN2	55	.	NM_012486	exon5	c.C261T	p.H87H	GAAGCACGTGATC	.	PASS	Atlas-SNP
CEP55	55165	hgsc.bcm.edu	37	10	95259979	95259979	+	Missense_Mutation	SNP	C	C	G	rs3740370	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	26	25	53	0	0.961538	0	C|0.756;G|0.244	0.244	strong	.	CEP55	35	.	NM_018131	exon2	c.C171G	p.H57Q	GAGACACAGACTT	.	PASS	Atlas-SNP
SCGB1D2	10647	hgsc.bcm.edu	37	11	62010863	62010863	+	Missense_Mutation	SNP	C	C	T	rs2232950	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	244	243	232	0	0.995902	0	C|0.614;N|0.000	.	strong	.	SCGB1D2	11	.	NM_006551	exon2	c.C158T	p.P53L	CCCCTCCGGAAGC	.	PASS	Atlas-SNP
HLA-DPB1	3115	hgsc.bcm.edu	37	6	33048457	33048457	+	Missense_Mutation	SNP	C	C	G	rs1126504	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	21	43	0	0.355932	0	C|0.687;G|0.313	0.313	strong	.	HLA-DPB1	28	.	NM_002121	exon2	c.C109G	p.L37V	AATTACCTTTTCC	.	PASS	Atlas-SNP
KLHDC8A	55220	hgsc.bcm.edu	37	1	205308368	205308368	+	Silent	SNP	C	C	T	rs1105387	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	26	46	0	0.440678	0	C|0.754;T|0.246	0.246	strong	.	KLHDC8A	31	.	NM_018203	exon4	c.G711A	p.R237R	GGGCTGCCGGTAG	.	PASS	Atlas-SNP
RGL3	57139	hgsc.bcm.edu	37	19	11508177	11508177	+	Missense_Mutation	SNP	G	G	A	rs2291516	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	68	99	0	0.586207	0	G|0.856;A|0.144	0.144	strong	.	RGL3	100	.	NM_001161616	exon17	c.C1861T	p.R621C	TGACACGGGCCTC	.	PASS	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	37	11	62299517	62299517	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	2	147	0	0.0114943	0	.	.	none	AHNAK,caecum,carcinoma,0,1	AHNAK	532	1	NM_001620	exon5	c.A2372G	p.D791G	CTCACATCAGGAG	.	scavenged	Atlas-SNP
NCKAP5	344148	hgsc.bcm.edu	37	2	133541107	133541107	+	Missense_Mutation	SNP	T	T	A	rs16841277	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	277	130	278	1	0.469314	0.00359712	T|0.780;A|0.220	0.220	strong	.	NCKAP5	322	.	NM_207363	exon14	c.A3277T	p.N1093Y	TATCATTCAATTG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	90	188	0	0.48913	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
ADAMTS5	11096	hgsc.bcm.edu	37	21	28338423	28338423	+	Silent	SNP	C	C	G	rs55933916	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	82	171	0	0.543046	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
OR8B2	26595	hgsc.bcm.edu	37	11	124253170	124253170	+	Missense_Mutation	SNP	G	G	A	rs530765	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	340	73	423	0	0.214706	0	G|0.878;A|0.122	0.122	strong	.	OR8B2	42	.	NM_001005468	exon1	c.C70T	p.R24W	GTTGCCGGAACTC	.	PASS	Atlas-SNP
SASH1	23328	hgsc.bcm.edu	37	6	148865257	148865257	+	Missense_Mutation	SNP	A	A	G	rs208696	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	38	74	0	0.408602	0	A|0.398;G|0.602	0.602	strong	.	SASH1	123	.	NM_015278	exon18	c.A2651G	p.Q884R	TGGAGCAAGACTC	.	PASS	Atlas-SNP
EPX	8288	hgsc.bcm.edu	37	17	56272390	56272390	+	Silent	SNP	A	A	G	rs2240815	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	55	83	0	0.572917	0	A|0.474;G|0.526	0.526	strong	.	EPX	95	.	NM_000502	exon6	c.A660G	p.R220R	TGGCCGAGCCCTC	.	PASS	Atlas-SNP
TRIM67	440730	hgsc.bcm.edu	37	1	231339713	231339713	+	Silent	SNP	C	C	T	rs11806609	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	19	37	0	0.345455	0	C|0.892;T|0.108	0.108	strong	.	TRIM67	160	.	NM_001004342	exon6	c.C1635T	p.D545D	CGTGGACGGCTAC	.	PASS	Atlas-SNP
GALNT10	55568	hgsc.bcm.edu	37	5	153783753	153783753	+	Silent	SNP	C	C	T	rs6580076	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	64	145	0	0.453901	0	C|0.733;T|0.267	0.267	strong	GALNT10,NS,carcinoma,0,1	GALNT10	70	1	NM_198321	exon8	c.C1146T	p.A382A	CCCGGCCGGAGTC	.	PASS	Atlas-SNP
TMEM156	80008	hgsc.bcm.edu	37	4	39000305	39000305	+	Missense_Mutation	SNP	A	A	G	rs11542133	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	66	176	0	0.519685	0	A|0.747;G|0.253	0.253	strong	.	TMEM156	31	.	NM_024943	exon2	c.T313C	p.S105P	CTTTAGACTCACA	.	PASS	Atlas-SNP
MOGS	7841	hgsc.bcm.edu	37	2	74690378	74690378	+	Missense_Mutation	SNP	C	C	T	rs1063588	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	433	280	292	1	0.646651	0.00342466	C|0.531;T|0.469	0.469	strong	.	MOGS	58	.	NM_006302	exon3	c.G715A	p.D239N	GGAAGTCACCAAG	.	PASS	Atlas-SNP
FREM1	158326	hgsc.bcm.edu	37	9	14775859	14775859	+	Silent	SNP	G	G	A	rs10733289	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	234	122	221	0	0.521368	0	G|0.593;A|0.407	0.407	strong	.	FREM1	261	.	NM_144966	exon26	c.C4785T	p.A1595A	ATCTGTGGCCATG	.	PASS	Atlas-SNP
SLC26A8	116369	hgsc.bcm.edu	37	6	35967772	35967772	+	Missense_Mutation	SNP	T	T	C	rs17713154	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	32	64	0	0.492308	0	T|0.887;C|0.113	0.113	strong	SLC26A8,colon,carcinoma,+2,1	SLC26A8	95	1	NM_052961	exon4	c.A442G	p.I148V	CACCAATGGACAT	.	PASS	Atlas-SNP
CCDC103	388389	hgsc.bcm.edu	37	17	42979026	42979026	+	Splice_Site	SNP	T	T	C	rs74349463	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	64	139	0	0.474074	0	T|0.873;C|0.127	0.127	strong	.	CCDC103	15	.	NM_001258399	exon3	c.280+2T>C	.	GGTAGGTGAGGCC	.	PASS	Atlas-SNP
OR5T2	219464	hgsc.bcm.edu	37	11	56000288	56000288	+	Missense_Mutation	SNP	G	G	A	rs7122514	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	67	134	0	0.523438	0	G|0.953;A|0.047	0.047	strong	.	OR5T2	107	.	NM_001004746	exon1	c.C374T	p.T125M	TTTGTCGTAAAAT	.	PASS	Atlas-SNP
SLC9C2	284525	hgsc.bcm.edu	37	1	173516871	173516871	+	Missense_Mutation	SNP	G	G	C	rs16846206	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	66	159	0	0.442953	0	G|0.763;C|0.237	0.237	strong	.	.	.	.	NM_178527	exon13	c.C1514G	p.A505G	ATTAAAGCTTCAT	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1090343	1090343	+	Silent	SNP	T	T	C	rs12221966	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	106	136	0	0.560847	0	T|0.916;C|0.084	0.084	strong	.	MUC2	614	.	NM_002457	exon27	c.T3639C	p.C1213C	CGTGTGTACCAAC	.	PASS	Atlas-SNP
HLA-DMA	3108	hgsc.bcm.edu	37	6	32917544	32917544	+	Missense_Mutation	SNP	C	C	T	rs201644248		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	55	80	0	0.486726	0	.	.	weak	.	HLA-DMA	20	.	NM_006120	exon3	c.G496A	p.V166I	CAGGGACGGAATG	.	PASS	Atlas-SNP
OR2T3	343173	hgsc.bcm.edu	37	1	248637065	248637065	+	Silent	SNP	A	A	G	rs139758663	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	655	169	454	0	0.258015	0	A|0.884;G|0.116	0.116	strong	.	OR2T3	79	.	NM_001005495	exon1	c.A414G	p.P138P	TTACCCACTGCTG	.	PASS	Atlas-SNP
CCDC129	223075	hgsc.bcm.edu	37	7	31682853	31682853	+	Silent	SNP	T	T	C	rs38397	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	20	55	0	0.408163	0	T|0.862;C|0.138	0.138	strong	LOC223075,caecum,carcinoma,+1,2	CCDC129	127	2	NM_001257968	exon11	c.T1947C	p.S649S	AAGCAGTGGATTC	.	PASS	Atlas-SNP
ATF7IP2	80063	hgsc.bcm.edu	37	16	10524957	10524957	+	Silent	SNP	G	G	T	rs34430103	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	228	95	204	0	0.416667	0	G|0.848;T|0.152	0.152	strong	.	ATF7IP2	40	.	NM_024997	exon3	c.G480T	p.G160G	TGAGGGGGCTTGT	.	PASS	Atlas-SNP
OR8H3	390152	hgsc.bcm.edu	37	11	55890355	55890355	+	Silent	SNP	T	T	C	rs78856925	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	282	114	257	1	0.404255	0.00389105	T|0.952;C|0.048	0.048	strong	.	OR8H3	92	.	NM_001005201	exon1	c.T507C	p.C169C	TTTCTGTGACTCA	.	PASS	Atlas-SNP
COL18A1	80781	hgsc.bcm.edu	37	21	46898243	46898243	+	Silent	SNP	C	C	G	rs13046486	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	330	166	275	1	0.50303	0.00363636	C|0.921;G|0.079	0.079	strong	.	COL18A1	129	.	NM_030582	exon8	c.C1764G	p.G588G	CCAGGGCGACCCC	.	PASS	Atlas-SNP
SLC16A12	387700	hgsc.bcm.edu	37	10	91222287	91222287	+	Missense_Mutation	SNP	A	A	C	rs3740030	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	28	24	31	0	0.857143	0	A|0.895;C|0.105	0.105	strong	.	SLC16A12	40	.	NM_213606	exon3	c.T49G	p.W17G	ACAGCCAAGTTAT	.	PASS	Atlas-SNP
SMCR8	140775	hgsc.bcm.edu	37	17	18221134	18221134	+	Silent	SNP	C	C	T	rs1563631	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	53	108	1	0.486239	0.00925926	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	.	scavenged	Atlas-SNP
SLC1A4	6509	hgsc.bcm.edu	37	2	65248271	65248271	+	Silent	SNP	G	G	A	rs7563131	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	40	70	0	0.363636	0	G|0.846;A|0.154	0.154	strong	.	SLC1A4	33	.	NM_003038	exon8	c.G1590A	p.S530S	GGAGTCGGTTCTG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	77	84	0	1	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
UTP18	51096	hgsc.bcm.edu	37	17	49350802	49350802	+	Silent	SNP	A	A	C	rs2318789	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	40	40	51	0	1	0	A|0.569;C|0.431	0.431	strong	.	UTP18	28	.	NM_016001	exon5	c.A702C	p.G234G	AAGAGGAATCTTG	.	PASS	Atlas-SNP
CACNA1A	773	hgsc.bcm.edu	37	19	13414594	13414594	+	Silent	SNP	C	C	T	rs16016	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	46	102	0	0.455446	0	C|0.834;T|0.166	0.166	strong	.	CACNA1A	715	.	NM_001127221	exon16	c.G2094A	p.T698T	AAAGAGCGTCAGT	.	PASS	Atlas-SNP
IL4R	3566	hgsc.bcm.edu	37	16	27373972	27373972	+	Silent	SNP	T	T	C	rs2234900	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	57	81	0	0.504425	0	T|0.727;C|0.273	0.273	strong	.	IL4R	70	.	NM_000418	exon11	c.T1299C	p.L433L	CCTTCTTCCACCT	.	PASS	Atlas-SNP
CASP10	843	hgsc.bcm.edu	37	2	202082459	202082459	+	Missense_Mutation	SNP	T	T	A	rs13006529	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	72	175	0	0.455696	0	A|0.399;N|0.000	0.399	strong	.	CASP10	95	.	NM_032977	exon10	c.T1564A	p.L522I	CTTTCATTATAGC	.	PASS	Atlas-SNP
PTPN3	5774	hgsc.bcm.edu	37	9	112219474	112219474	+	Missense_Mutation	SNP	C	C	G	rs3793524	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	151	133	1	0.993421	0.0075188	C|0.619;G|0.380	0.380	strong	.	PTPN3	106	.	NM_001145368	exon4	c.G268C	p.A90P	TGATGGCTTTGCT	.	PASS	Atlas-SNP
EPHA8	2046	hgsc.bcm.edu	37	1	22903102	22903102	+	Silent	SNP	C	C	T	rs55844027	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	74	123	0	0.477419	0	C|0.960;T|0.040	0.040	strong	.	EPHA8	221	.	NM_020526	exon3	c.C552T	p.A184A	CCTGGCCTTCCAG	.	PASS	Atlas-SNP
SERPINF2	5345	hgsc.bcm.edu	37	17	1657653	1657653	+	Missense_Mutation	SNP	G	G	A	rs1057335	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	97	129	0	0.595092	0	G|0.814;A|0.186	0.186	strong	.	SERPINF2	33	.	NM_000934	exon10	c.G1301A	p.R434K	GCGTGAGGAACCC	.	PASS	Atlas-SNP
PSAPL1	768239	hgsc.bcm.edu	37	4	7435443	7435443	+	Silent	SNP	G	G	A	rs6843370	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	42	71	0	0.47191	0	G|0.886;A|0.114	0.114	strong	.	PSAPL1	51	.	NM_001085382	exon1	c.C1164T	p.D388D	CTCCGCGTCCCAC	.	PASS	Atlas-SNP
OVGP1	5016	hgsc.bcm.edu	37	1	111966291	111966291	+	Silent	SNP	C	C	T	rs954739	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	79	172	0	0.420213	0	C|0.825;T|0.175	0.175	strong	.	OVGP1	177	.	NM_002557	exon5	c.G357A	p.K119K	AATAAACTTTTCA	.	PASS	Atlas-SNP
PREX2	80243	hgsc.bcm.edu	37	8	68968171	68968171	+	Silent	SNP	G	G	A	rs1434775	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	82	114	0	0.987952	0	G|0.421;A|0.579	0.579	strong	.	PREX2	614	.	NM_025170	exon10	c.G1200A	p.K400K	CCGAAAGAGAAAA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	243	120	221	0	0.493827	0	C|0.531;G|0.469	0.469	strong	.	ALPK2	487	.	NM_052947	exon5	c.G2474C	p.R825T	ACTGGTCTCCCAA	.	PASS	Atlas-SNP
EPHA10	284656	hgsc.bcm.edu	37	1	38184470	38184470	+	Silent	SNP	C	C	G	rs610213	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	88	193	0	0.52071	0	C|0.889;G|0.111	0.111	strong	.	EPHA10	120	.	NM_001099439	exon16	c.G2775C	p.A925A	ACGGTCCGCTAGT	.	PASS	Atlas-SNP
SLC35G5	83650	hgsc.bcm.edu	37	8	11188703	11188703	+	Missense_Mutation	SNP	C	C	T	rs4841520	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	57	119	0	0.6	0	C|0.939;T|0.061	0.061	strong	.	.	.	.	NM_054028	exon1	c.C88T	p.R30C	CACCAGCGCTGCC	.	PASS	Atlas-SNP
FAM71B	153745	hgsc.bcm.edu	37	5	156590355	156590355	+	Silent	SNP	A	A	G	rs31220	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	43	83	0	0.452632	0	A|0.813;G|0.187	0.187	strong	.	FAM71B	145	.	NM_130899	exon2	c.T921C	p.G307G	CACTTGACCTGGG	.	PASS	Atlas-SNP
RUFY4	285180	hgsc.bcm.edu	37	2	218940418	218940418	+	Silent	SNP	C	C	T	rs4674246	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	289	147	233	1	0.508651	0.00429185	C|0.836;T|0.164	0.164	strong	.	RUFY4	59	.	NM_198483	exon9	c.C1203T	p.A401A	TGTGGCCAGAAGG	.	PASS	Atlas-SNP
FEM1C	56929	hgsc.bcm.edu	37	5	114860161	114860161	+	Silent	SNP	G	G	A	rs73253005	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	202	110	218	0	0.544554	0	G|0.899;A|0.101	0.101	strong	.	FEM1C	50	.	NM_020177	exon3	c.C1698T	p.D566D	CAGCAAGTCACTA	.	PASS	Atlas-SNP
PFKP	5214	hgsc.bcm.edu	37	10	3172145	3172145	+	Silent	SNP	C	C	T	rs1052337	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	41	76	1	0.465909	0.0131579	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	.	scavenged	Atlas-SNP
C1orf74	148304	hgsc.bcm.edu	37	1	209956542	209956542	+	Missense_Mutation	SNP	C	C	A	rs7550857	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	122	100	0	1	0	C|0.831;A|0.169	0.169	strong	.	C1orf74	30	.	NM_152485	exon2	c.G438T	p.L146F	CCCCTGCAAATGT	.	PASS	Atlas-SNP
UNC13B	10497	hgsc.bcm.edu	37	9	35398605	35398605	+	Missense_Mutation	SNP	G	G	A	rs41315995	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	51	87	0	0.459459	0	G|0.987;A|0.013	0.013	strong	.	UNC13B	153	.	NM_006377	exon31	c.G3640A	p.V1214I	AATACGGTTCTGG	.	PASS	Atlas-SNP
DNAH17	8632	hgsc.bcm.edu	37	17	76503585	76503585	+	Silent	SNP	G	G	C	rs12943086	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	59	140	0	0.468254	0	G|0.977;C|0.023	0.023	strong	.	DNAH17	347	.	NM_173628	exon28	c.C4539G	p.L1513L	CCCCGGGAGCTGG	.	PASS	Atlas-SNP
MDM2	4193	hgsc.bcm.edu	37	12	69233215	69233215	+	Silent	SNP	A	A	G	rs769412	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	53	118	0	0.430894	0	A|0.927;G|0.073	0.073	strong	.	MDM2	92	.	NM_002392	exon11	c.A1080G	p.E360E	AGCTGAAGAGGGC	.	PASS	Atlas-SNP
ELL2	22936	hgsc.bcm.edu	37	5	95234392	95234392	+	Silent	SNP	A	A	C	rs3777202	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	316	150	341	0	0.474684	0	A|0.674;C|0.326	0.326	strong	ELL2,NS,carcinoma,-1,1	ELL2	63	1	NM_012081	exon8	c.T1077G	p.S359S	TGCAGCAGATTTT	.	PASS	Atlas-SNP
ZNF780B	163131	hgsc.bcm.edu	37	19	40541845	40541845	+	Silent	SNP	A	A	G	rs371876870		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	38	94	0	0.383838	0	.	.	weak	.	ZNF780B	143	.	NM_001005851	exon5	c.T921C	p.C307C	TTCCCTACATACA	.	PASS	Atlas-SNP
ADCY10	55811	hgsc.bcm.edu	37	1	167825485	167825485	+	Missense_Mutation	SNP	T	T	C	rs2071921	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	290	286	319	0	0.986207	0	C|0.470;N|0.000	0.470	strong	.	ADCY10	175	.	NM_018417	exon17	c.A2089G	p.I697V	CACCAATGACAAT	.	PASS	Atlas-SNP
MAMLD1	10046	hgsc.bcm.edu	37	X	149639035	149639035	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	20	45	0	0.16129	0	.	.	none	.	MAMLD1	263	.	NM_005491	exon3	c.C1190A	p.A397D	GCAATGCTGCCCT	.	PASS	Atlas-SNP
MOGS	7841	hgsc.bcm.edu	37	2	74690039	74690039	+	Missense_Mutation	SNP	G	G	A	rs2268416	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	40	37	0	0.655738	0	G|0.582;A|0.418	0.418	strong	.	MOGS	58	.	NM_006302	exon4	c.C877T	p.P293S	CAGGGGGGGCCCC	.	PASS	Atlas-SNP
KIAA1462	57608	hgsc.bcm.edu	37	10	30317826	30317826	+	Silent	SNP	A	A	G	rs7920682	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	95	107	0	0.989583	0	A|0.463;G|0.537	0.537	strong	.	KIAA1462	162	.	NM_020848	exon3	c.T1251C	p.Y417Y	GCCGTCATAGGCA	.	PASS	Atlas-SNP
ALX4	60529	hgsc.bcm.edu	37	11	44331509	44331509	+	Missense_Mutation	SNP	C	C	G	rs3824915	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	79	137	0	0.49375	0	C|0.594;G|0.406	0.406	strong	.	ALX4	58	.	NM_021926	exon1	c.G104C	p.R35T	AATGCCCTAAAAG	.	PASS	Atlas-SNP
SLC2A14	144195	hgsc.bcm.edu	37	12	7967076	7967076	+	Silent	SNP	A	A	G	rs10845983	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	54	122	0	0.425197	0	A|0.760;G|0.240	0.240	strong	SLC2A14,NS,carcinoma,+2,1	SLC2A14	78	1	NM_153449	exon12	c.T1399C	p.L467L	AGGCCAAGAAGGT	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144996029	144996029	+	Missense_Mutation	SNP	A	A	G	rs7833924	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	26	7	27	0	0.269231	0	A|0.560;G|0.440	0.440	strong	PLEC_ENST00000436759,NS,carcinoma,0,9	PLEC	1144	9	NM_201380	exon32	c.T8371C	p.S2791P	GAGCTGACACCTT	.	PASS	Atlas-SNP
METTL7B	196410	hgsc.bcm.edu	37	12	56077599	56077599	+	Silent	SNP	A	A	T	rs73117273	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	250	126	265	0	0.504	0	A|0.993;T|0.007	0.007	strong	.	METTL7B	35	.	NM_152637	exon2	c.A501T	p.G167G	CCAGGGAGGTGTG	.	PASS	Atlas-SNP
GPER	2852	hgsc.bcm.edu	37	7	1131411	1131411	+	Missense_Mutation	SNP	C	C	T	rs11544331	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	80	129	0	0.522876	0	C|0.808;T|0.192	0.192	strong	.	GPER	25	.	NM_001505	exon2	c.C47T	p.P16L	TGTACCCAGGCAC	.	PASS	Atlas-SNP
AMPD3	272	hgsc.bcm.edu	37	11	10503756	10503756	+	Silent	SNP	G	G	A	rs16907852	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	53	31	41	0	0.584906	0	G|0.846;A|0.154	0.154	strong	.	AMPD3	68	.	NM_000480	exon4	c.G600A	p.P200P	ACCTCCGGAAGAG	.	PASS	Atlas-SNP
UCP3	7352	hgsc.bcm.edu	37	11	73715542	73715542	+	Silent	SNP	G	G	A	rs2075577	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	150	139	0	0.980392	0	G|0.383;A|0.617	0.617	strong	.	UCP3	31	.	NM_003356	exon5	c.C630T	p.Y210Y	CAGGTGGTAGTCC	.	PASS	Atlas-SNP
SMIM8	57150	hgsc.bcm.edu	37	6	88046800	88046800	+	Silent	SNP	G	G	A	rs1048893	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	28	86	0	0.56	0	G|0.896;A|0.104	0.104	strong	.	.	.	.	NM_001042493	exon3	c.G51A	p.E17E	CAAAGAGAAAGAG	.	PASS	Atlas-SNP
ZNF577	84765	hgsc.bcm.edu	37	19	52376952	52376952	+	Silent	SNP	T	T	A	rs8107969	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	29	56	0	0.446154	0	T|0.527;A|0.473	0.473	strong	.	ZNF577	63	.	NM_032679	exon7	c.A291T	p.V97V	CTGGATTACAAAA	.	PASS	Atlas-SNP
SPTBN1	6711	hgsc.bcm.edu	37	2	54886347	54886347	+	Silent	SNP	G	G	A	rs1052820	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	82	115	0	0.577465	0	G|0.724;A|0.276	0.276	strong	SPTBN1,NS,carcinoma,0,1	SPTBN1	378	1	NM_003128	exon31	c.G6300A	p.P2100P	GCGGCCGCCTTCT	.	PASS	Atlas-SNP
HPS5	11234	hgsc.bcm.edu	37	11	18319180	18319180	+	Missense_Mutation	SNP	G	G	T	rs7128017	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	66	118	0	0.515625	0	G|0.868;T|0.132	0.132	strong	HPS5,NS,carcinoma,0,1	HPS5	70	1	NM_181507	exon11	c.C1249A	p.L417M	CTTCCAGTTGAGA	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	37	7	116436097	116436097	+	Silent	SNP	G	G	A	rs41737	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	88	173	0	0.458333	0	G|0.615;A|0.385	0.385	strong	MET,NS,carcinoma,0,1	MET	412	1	NM_001127500	exon21	c.G4146A	p.P1382P	CGCTCCGTATCCT	.	PASS	Atlas-SNP
DHRS3	9249	hgsc.bcm.edu	37	1	12640650	12640650	+	Silent	SNP	C	C	T	rs11540058	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	88	134	0	0.460733	0	C|0.868;T|0.132	0.132	strong	.	DHRS3	18	.	NM_004753	exon2	c.G240A	p.T80T	CTCCTCCGTCGTC	.	PASS	Atlas-SNP
PNPT1	87178	hgsc.bcm.edu	37	2	55883317	55883317	+	Silent	SNP	G	G	T	rs2627765	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	229	227	224	0	0.991266	0	G|0.559;T|0.441	0.441	strong	.	PNPT1	68	.	NM_033109	exon17	c.C1390A	p.R464R	AATCTCGGGGAAT	.	PASS	Atlas-SNP
GBP4	115361	hgsc.bcm.edu	37	1	89652097	89652097	+	Missense_Mutation	SNP	C	C	T	rs1142886	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	132	357	0	1	0	C|0.619;T|0.381	0.381	strong	.	GBP4	89	.	NM_052941	exon10	c.G1626A	p.M542I	TTGGGCCATGTAT	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225452983	225452983	+	Missense_Mutation	SNP	A	A	G	rs76767146	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	175	94	207	0	0.537143	0	A|0.953;G|0.047	0.047	strong	.	DNAH14	300	.	NM_001373	exon48	c.A7304G	p.N2435S	GCACCAATGTAAC	.	PASS	Atlas-SNP
ALAD	210	hgsc.bcm.edu	37	9	116153900	116153900	+	Silent	SNP	A	A	G	rs1139488	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	62	120	0	0.504065	0	G|0.353;N|0.001	0.353	strong	ALAD,NS,carcinoma,0,1	ALAD	36	1	NM_000031	exon4	c.T168C	p.Y56Y	CACACCATACCTG	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	37	7	116340262	116340262	+	Missense_Mutation	SNP	A	A	G	rs33917957	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	33	39	0	0.589286	0	A|0.977;G|0.023	0.023	strong	MET,NS,carcinoma,0,3	MET	412	3	NM_000245	exon2	c.A1124G	p.N375S	TCTTCAACAAGAT	.	PASS	Atlas-SNP
KRTAP9-2	83899	hgsc.bcm.edu	37	17	39383027	39383027	+	Missense_Mutation	SNP	G	G	T	rs71371478	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	12	40	0	0.181818	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
GTF2IRD2	84163	hgsc.bcm.edu	37	7	74212048	74212048	+	Silent	SNP	C	C	T	rs707395	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	770	351	688	2	0.455844	0.00290698	C|0.860;T|0.140	0.140	strong	.	GTF2IRD2	38	.	NM_173537	exon16	c.G1803A	p.K601K	CAGGCTCTTCTCA	.	PASS	Atlas-SNP
ZNF462	58499	hgsc.bcm.edu	37	9	109685748	109685748	+	Silent	SNP	G	G	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	231	81	204	0	0.350649	0	.	.	none	.	ZNF462	322	.	NM_021224	exon2	c.G84T	p.T28T	CCACACGGCATTT	.	PASS	Atlas-SNP
ITGA2	3673	hgsc.bcm.edu	37	5	52351413	52351413	+	Silent	SNP	G	G	A	rs1062535	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	47	109	0	0.398305	0	G|0.627;A|0.373	0.373	strong	.	ITGA2	211	.	NM_002203	exon8	c.G825A	p.T275T	TGCTACGAAAGTA	.	PASS	Atlas-SNP
CILP2	148113	hgsc.bcm.edu	37	19	19655670	19655670	+	Silent	SNP	C	C	T	rs11669558	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	19	11	17	0	0.578947	0	C|0.874;T|0.126	0.126	strong	.	CILP2	84	.	NM_153221	exon8	c.C2316T	p.S772S	CTTCTCCGCCAAC	.	PASS	Atlas-SNP
OR2Z1	284383	hgsc.bcm.edu	37	19	8841558	8841558	+	Silent	SNP	T	T	C	rs28324	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	190	189	0	0.994764	0	T|0.299;C|0.701	0.701	strong	.	OR2Z1	53	.	NM_001004699	exon1	c.T168C	p.H56H	GCTCCATACACCC	.	PASS	Atlas-SNP
CR2	1380	hgsc.bcm.edu	37	1	207646322	207646322	+	Silent	SNP	G	G	A	rs1048971	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	65	130	0	0.496183	0	G|0.556;A|0.444	0.444	strong	.	CR2	164	.	NM_001006658	exon10	c.G1776A	p.L592L	TCCCCTGTGTAAA	.	PASS	Atlas-SNP
CABS1	85438	hgsc.bcm.edu	37	4	71201943	71201943	+	Silent	SNP	A	A	G	rs13039	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	70	115	0	0.530303	0	A|0.812;G|0.188	0.188	strong	.	CABS1	75	.	NM_033122	exon1	c.A1187G	p.X396X	TGATTTAAAAGCA	.	PASS	Atlas-SNP
CPVL	54504	hgsc.bcm.edu	37	7	29070209	29070209	+	Missense_Mutation	SNP	G	G	A	rs7313	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	181	157	0	0.973118	0	G|0.638;T|0.004	.	strong	CPVL,bladder,carcinoma,-1,2	CPVL	60	2	NM_019029	exon12	c.C1304T	p.A435V	TCACCCGCTTGCC	.	PASS	Atlas-SNP
NDC80	10403	hgsc.bcm.edu	37	18	2616457	2616457	+	Missense_Mutation	SNP	G	G	C	rs9051	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	218	109	268	0	0.5	0	G|0.806;C|0.194	0.194	strong	.	NDC80	62	.	NM_006101	exon17	c.G1813C	p.A605P	CAGATTGCTAAAG	.	PASS	Atlas-SNP
NXPE4	54827	hgsc.bcm.edu	37	11	114441936	114441936	+	Silent	SNP	A	A	G	rs12421748	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	271	133	231	1	0.490775	0.004329	A|0.894;G|0.106	0.106	strong	.	.	.	.	NM_001077639	exon6	c.T1359C	p.N453N	GTGGACATTGAGG	.	PASS	Atlas-SNP
DEGS1	8560	hgsc.bcm.edu	37	1	224377383	224377383	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	3	161	0	0.0180723	0	.	.	none	DEGS1,NS,carcinoma,0,1	DEGS1	24	1	NM_003676	exon2	c.G187A	p.D63N	GTAAAAGACTTGG	.	scavenged	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39135214	39135214	+	Silent	SNP	T	T	C	rs8068970	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	55	129	0	0.443548	0	T|0.653;C|0.347	0.347	strong	.	KRT40	27	.	NM_182497	exon8	c.A1038G	p.Q346Q	CTGAATTTGGGCC	.	PASS	Atlas-SNP
CEACAM18	729767	hgsc.bcm.edu	37	19	51981946	51981946	+	Missense_Mutation	SNP	T	T	C	rs75588884	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	21	30	0	0.477273	0	T|0.977;C|0.023	0.023	strong	CEACAM18_ENST00000451626,NS,chondrosarcoma,-1,1	CEACAM18	96	1	NM_001080405	exon2	c.T233C	p.M78T	TCCTCATGGGTAA	.	PASS	Atlas-SNP
TMEM132D	121256	hgsc.bcm.edu	37	12	130184612	130184612	+	Silent	SNP	C	C	T	rs140064887	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	53	94	0	0.490741	0	C|0.995;T|0.005	0.005	strong	.	TMEM132D	299	.	NM_133448	exon2	c.G711A	p.G237G	GCAGTCCCCTCTC	.	PASS	Atlas-SNP
CACNA1E	777	hgsc.bcm.edu	37	1	181725110	181725110	+	Silent	SNP	T	T	C	rs4652678	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	43	108	0	0.457447	0	T|0.710;C|0.290	0.290	strong	.	CACNA1E	778	.	NM_001205293	exon29	c.T4008C	p.H1336H	AGATCATGAGAAA	.	PASS	Atlas-SNP
GLTSCR1	29998	hgsc.bcm.edu	37	19	48182946	48182946	+	Silent	SNP	T	T	C	rs2911006	bycluster;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	20	20	35	0	1	0	T|0.191;C|0.809	0.809	strong	.	GLTSCR1	79	.	NM_015711	exon6	c.T519C	p.P173P	CCCGCCTACCGTG	.	PASS	Atlas-SNP
ADAMTS12	81792	hgsc.bcm.edu	37	5	33576602	33576602	+	Missense_Mutation	SNP	A	A	G	rs3813474	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	227	98	212	0	0.431718	0	A|0.925;G|0.075	0.075	strong	ADAMTS12,NS,carcinoma,+1,1	ADAMTS12	464	1	NM_030955	exon19	c.T3529C	p.W1177R	TGGTCCATATTAC	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324151	31324151	+	Missense_Mutation	SNP	C	C	G	rs709055	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	25	81	0	0.446429	0	T|0.462;G|0.008;C|0.530	0.008	strong	.	HLA-B	54	.	NM_005514	exon3	c.G412C	p.D138H	ACTGGTCATGCCC	.	PASS	Atlas-SNP
ALOX15B	247	hgsc.bcm.edu	37	17	7951819	7951819	+	Missense_Mutation	SNP	A	A	G	rs4792147	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	54	55	0	1	0	A|0.391;C|0.000;G|0.609	0.609	strong	.	ALOX15B	66	.	NM_001141	exon14	c.A1967G	p.Q656R	GGAACCAGGGCCT	.	PASS	Atlas-SNP
ALDH1A3	220	hgsc.bcm.edu	37	15	101440917	101440917	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	3	76	0	0.0222222	0	.	.	none	ALDH1A3,NS,carcinoma,-1,1	ALDH1A3	61	1	NM_000693	exon9	c.C1021T	p.R341W	AAGAAACGGCCCG	.	scavenged	Atlas-SNP
PTPRQ	374462	hgsc.bcm.edu	37	12	80935345	80935345	+	Missense_Mutation	SNP	T	T	C	rs6539524	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	35	63	0	0.507246	0	T|0.587;C|0.413	0.413	strong	.	PTPRQ	119	.	NM_001145026	exon18	c.T2650C	p.F884L	GAAGGGTTTGTTG	.	PASS	Atlas-SNP
PHC1	1911	hgsc.bcm.edu	37	12	9086553	9086553	+	Silent	SNP	G	G	A	rs1805773	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	227	124	205	0	0.546256	0	G|0.834;A|0.166	0.166	strong	.	PHC1	67	.	NM_004426	exon9	c.G1986A	p.K662K	TGCCAAGGCATCT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	47	105	0	0.460784	0	G|0.820;A|0.180	0.180	strong	.	OR5A2	35	.	NM_001001954	exon1	c.C515T	p.P172L	ATATAGGGCCCAC	.	PASS	Atlas-SNP
MYOM1	8736	hgsc.bcm.edu	37	18	3215158	3215158	+	Missense_Mutation	SNP	C	C	G	rs1791085	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	55	102	0	0.544554	0	C|0.887;G|0.113	0.113	strong	.	MYOM1	192	.	NM_003803	exon2	c.G64C	p.V22L	TGCGCACGTCCTT	.	PASS	Atlas-SNP
ATP13A2	23400	hgsc.bcm.edu	37	1	17313654	17313654	+	Silent	SNP	C	C	T	rs761421	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	62	35	0	1	0	C|0.600;T|0.400	0.400	strong	.	ATP13A2	85	.	NM_022089	exon26	c.G2970A	p.V990V	TGGCCGCACCCGT	.	PASS	Atlas-SNP
SLC10A6	345274	hgsc.bcm.edu	37	4	87769929	87769929	+	Missense_Mutation	SNP	T	T	C	rs13106574	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	73	144	0	0.51773	0	T|0.854;C|0.146	0.146	strong	.	SLC10A6	40	.	NM_197965	exon1	c.A340G	p.I114V	TGAAAATGTTAGA	.	PASS	Atlas-SNP
PAX5	5079	hgsc.bcm.edu	37	9	37020669	37020669	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	2	91	0	0.0190476	0	.	.	none	PAX5,lymph_node,lymphoid_neoplasm,-1,1	PAX5	250	1	NM_016734	exon2	c.G176A	p.R59Q	CTGACCCGAAGCT	.	scavenged	Atlas-SNP
C19orf44	84167	hgsc.bcm.edu	37	19	16611978	16611978	+	Silent	SNP	T	T	C	rs728116	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	34	75	0	0.43038	0	T|0.621;C|0.379	0.379	strong	.	C19orf44	47	.	NM_032207	exon2	c.T375C	p.A125A	CGATGCTGGTCTT	.	PASS	Atlas-SNP
SUMF1	285362	hgsc.bcm.edu	37	3	4508802	4508802	+	Missense_Mutation	SNP	G	G	A	rs200789939	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	19	12	18	0	0.631579	0	G|0.999;A|0.001	0.001	strong	.	SUMF1	23	.	NM_001164675	exon1	c.C128T	p.A43V	GACCCCGCGCCCG	.	PASS	Atlas-SNP
RDH8	50700	hgsc.bcm.edu	37	19	10129552	10129552	+	Missense_Mutation	SNP	C	C	G	rs1122206	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	44	67	0	0.52381	0	C|0.810;G|0.190	0.190	strong	RDH8,NS,carcinoma,0,1	RDH8	51	1	NM_015725	exon3	c.C468G	p.H156Q	GGGCCACATCGTG	.	PASS	Atlas-SNP
CES5A	221223	hgsc.bcm.edu	37	16	55880534	55880534	+	Silent	SNP	G	G	C	rs11860488	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	82	147	0	0.525641	0	G|0.695;C|0.305	0.305	strong	.	CES5A	206	.	NM_001190158	exon14	c.C1644G	p.L548L	CAGCTGGAGGTAC	.	PASS	Atlas-SNP
AP1G2	8906	hgsc.bcm.edu	37	14	24033027	24033027	+	Missense_Mutation	SNP	G	G	A	rs12897422	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	68	106	0	0.571429	0	G|0.919;A|0.081	0.081	strong	.	AP1G2	75	.	NM_003917	exon12	c.C1130T	p.S377F	ACATTGGAGCTAT	.	PASS	Atlas-SNP
PRKD3	23683	hgsc.bcm.edu	37	2	37518045	37518045	+	Silent	SNP	G	G	C	rs10177176	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	122	123	1	0.99187	0.00813008	G|0.650;C|0.350	0.350	strong	.	PRKD3	170	.	NM_005813	exon3	c.C525G	p.L175L	TCCCCAGAGCATC	.	PASS	Atlas-SNP
PIK3CG	5294	hgsc.bcm.edu	37	7	106522592	106522592	+	Missense_Mutation	SNP	A	A	G	rs28763991	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	22	95	0	0.37931	0	A|0.942;G|0.058	0.058	strong	.	PIK3CG	279	.	NM_002649	exon7	c.A2569G	p.T857A	TGGGAGACTGAAT	.	PASS	Atlas-SNP
UBXN6	80700	hgsc.bcm.edu	37	19	4454000	4454000	+	Silent	SNP	G	G	A	rs11909	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	28	44	0	0.571429	0	G|0.653;A|0.347	0.347	strong	.	UBXN6	27	.	NM_025241	exon2	c.C174T	p.A58A	TAGGGCGGCAGCG	.	PASS	Atlas-SNP
PCNT	5116	hgsc.bcm.edu	37	21	47841933	47841933	+	Silent	SNP	T	T	C	rs61735815	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	34	71	0	0.386364	0	T|0.952;C|0.048	0.048	strong	.	PCNT	283	.	NM_006031	exon32	c.T7074C	p.P2358P	AGGCCCTGAGGCT	.	PASS	Atlas-SNP
WDR11	55717	hgsc.bcm.edu	37	10	122665489	122665489	+	Silent	SNP	C	C	T	rs12268298	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	64	94	0	0.598131	0	C|0.933;T|0.067	0.067	strong	.	WDR11	95	.	NM_018117	exon27	c.C3393T	p.L1131L	GGTTCTCCTCTCT	.	PASS	Atlas-SNP
DSG4	147409	hgsc.bcm.edu	37	18	28968426	28968426	+	Missense_Mutation	SNP	C	C	T	rs374554073		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	3	117	0	0.0344828	0	.	.	weak	DSG4_ENST00000359747,NS,carcinoma,-1,2	DSG4	343	2	NM_001134453	exon4	c.C313T	p.R105C	AATCCTCGCACTG	.	scavenged	Atlas-SNP
RHOT2	89941	hgsc.bcm.edu	37	16	719592	719592	+	Missense_Mutation	SNP	G	G	A	rs11557858	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	39	58	0	0.573529	0	G|0.760;A|0.240	0.240	strong	.	RHOT2	35	.	NM_138769	exon5	c.G262A	p.A88T	GAGGAGGCCACCA	.	PASS	Atlas-SNP
ZNF658	26149	hgsc.bcm.edu	37	9	40772563	40772563	+	Silent	SNP	G	G	A	rs77619302	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	206	98	147	1	0.475728	0.00680272	G|0.814;A|0.186	0.186	strong	ZNF658,NS,carcinoma,-1,1	ZNF658	100	1	NM_033160	exon5	c.C2712T	p.R904R	CCCTGAGCGAGTT	.	scavenged	Atlas-SNP
GRIN2A	2903	hgsc.bcm.edu	37	16	9916204	9916204	+	Silent	SNP	C	C	G	rs9806806	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	359	161	354	0	0.448468	0	C|0.671;G|0.329	0.329	strong	.	GRIN2A	366	.	NM_000833	exon11	c.G2085C	p.R695R	GTTATTCCGAATG	.	PASS	Atlas-SNP
CAMK2B	816	hgsc.bcm.edu	37	7	44259871	44259871	+	Silent	SNP	C	C	T	rs1127065	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	216	100	150	0	0.462963	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
TRERF1	55809	hgsc.bcm.edu	37	6	42233518	42233518	+	Silent	SNP	C	C	T	rs17704222	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	37	102	0	0.45679	0	C|0.950;T|0.050	0.050	strong	.	TRERF1	124	.	NM_033502	exon6	c.G1455A	p.G485G	GGCTCTCCCATCA	.	PASS	Atlas-SNP
SLC41A1	254428	hgsc.bcm.edu	37	1	205779231	205779231	+	Silent	SNP	G	G	A	rs11240569	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	121	105	0	1	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
DST	667	hgsc.bcm.edu	37	6	56484758	56484758	+	Silent	SNP	C	C	T	rs2230862	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	267	123	219	0	0.460674	0	C|0.609;T|0.391	0.391	strong	.	DST	1427	.	NM_001723	exon23	c.G4074A	p.K1358K	TTTCTGCTTGTCA	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8159339	8159339	+	Missense_Mutation	SNP	G	G	C	rs34167077	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	26	52	0	0.356164	0	G|0.937;C|0.063	0.063	strong	.	FBN3	300	.	NM_032447	exon46	c.C5896G	p.H1966D	TGCAGTGGTCACT	.	PASS	Atlas-SNP
KANSL1	284058	hgsc.bcm.edu	37	17	44248814	44248814	+	Silent	SNP	G	G	A	rs1881194	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	514	216	426	0	0.420233	0	G|0.848;A|0.152	0.152	strong	.	.	.	.	NM_001193466	exon2	c.C696T	p.S232S	GACAGAGGATTTG	.	PASS	Atlas-SNP
FLNA	2316	hgsc.bcm.edu	37	X	153594932	153594932	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	231	126	98	0	0.545455	0	.	.	none	.	FLNA	373	.	NM_001456	exon7	c.A1063C	p.K355Q	TCACCTTATGAGT	.	PASS	Atlas-SNP
DPP6	1804	hgsc.bcm.edu	37	7	154684153	154684153	+	Missense_Mutation	SNP	T	T	C	rs3734960	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	83	125	0	0.584507	0	T|0.670;C|0.330	0.330	strong	.	DPP6	383	.	NM_130797	exon26	c.T2561C	p.L854P	AACTGCTGACAGT	.	PASS	Atlas-SNP
SLC35G5	83650	hgsc.bcm.edu	37	8	11189601	11189601	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	10	122	0	0.0884956	0	.	.	none	AMAC1L2,NS,carcinoma,-1,1	.	.	1	NM_054028	exon1	c.G986T	p.S329I	ACCTCAGCTGTGA	.	scavenged	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179543217	179543217	+	Silent	SNP	C	C	T	rs35112591	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	57	164	3	0.401408	0.0182927	C|0.788;T|0.212	0.212	strong	TTN_ENST00000356127,NS,carcinoma,0,1	TTN	18412	1	NM_001267550	exon144	c.G33834A	p.E11278E	GGGTACCTCTGGC	.	scavenged	Atlas-SNP
MAGEB2	4113	hgsc.bcm.edu	37	X	30236913	30236913	+	Silent	SNP	G	G	A	rs5973792	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	64	57	0	0.941176	0	G|0.782;A|0.218	0.218	strong	.	MAGEB2	133	.	NM_002364	exon2	c.G216A	p.A72A	TGCTGCGGCTGCG	.	PASS	Atlas-SNP
DYNC1H1	1778	hgsc.bcm.edu	37	14	102514227	102514227	+	Silent	SNP	T	T	C	rs13749	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	35	51	0	0.522388	0	T|0.681;C|0.319	0.319	strong	DYNC1H1,NS,carcinoma,0,1	DYNC1H1	395	1	NM_001376	exon73	c.T13080C	p.T4360T	AGAGACTGAGAAG	.	PASS	Atlas-SNP
CAPN9	10753	hgsc.bcm.edu	37	1	230914729	230914729	+	Missense_Mutation	SNP	A	A	C	rs1933631	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	25	59	0	0.416667	0	A|0.692;C|0.308	0.308	strong	.	CAPN9	116	.	NM_006615	exon9	c.A964C	p.K322Q	GCATTTAAGGACT	.	PASS	Atlas-SNP
ABCC2	1244	hgsc.bcm.edu	37	10	101563815	101563815	+	Missense_Mutation	SNP	G	G	A	rs2273697	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	7	250	0	0.0510949	0	A|0.183;C|0.005	0.183	strong	ABCC2,NS,adenoma,0,1	ABCC2	160	1	NM_000392	exon10	c.G1249A	p.V417I	TACACCGTTGGAG	.	PASS	Atlas-SNP
OR1B1	347169	hgsc.bcm.edu	37	9	125391409	125391409	+	Silent	SNP	A	A	G	rs1536928	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	32	55	0	0.571429	0	A|0.554;G|0.446	0.446	strong	.	OR1B1	48	.	NM_001004450	exon1	c.T406C	p.L136L	TTACCAAAGCATA	.	PASS	Atlas-SNP
FERMT3	83706	hgsc.bcm.edu	37	11	63974995	63974995	+	Missense_Mutation	SNP	C	C	G	rs142815441	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	52	96	0	0.422764	0	C|0.997;G|0.003	0.003	strong	.	FERMT3	51	.	NM_031471	exon2	c.C159G	p.I53M	GCAGATCAGTGAG	.	PASS	Atlas-SNP
PPARG	5468	hgsc.bcm.edu	37	3	12475557	12475557	+	Silent	SNP	C	C	T	rs3856806	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	206	166	1	0.976303	0.0060241	C|0.887;T|0.113	0.113	strong	.	PPARG	49	.	NM_015869	exon7	c.C1431T	p.H477H	GGAACACGTGCAG	.	PASS	Atlas-SNP
CCDC174	51244	hgsc.bcm.edu	37	3	14712473	14712473	+	Silent	SNP	G	G	A	rs1901	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	187	181	1	0.994681	0.00552486	G|0.630;A|0.370	0.370	strong	.	.	.	.	NM_016474	exon11	c.G1176A	p.P392P	TGCCCCGCCGTCA	.	PASS	Atlas-SNP
LDHA	3939	hgsc.bcm.edu	37	11	18422487	18422487	+	Silent	SNP	C	C	A	rs6498	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	44	103	0	0.444444	0	C|0.911;A|0.089	0.089	strong	.	LDHA	118	.	NM_001165414	exon4	c.C435A	p.I145I	GAACATCTTTAAA	.	PASS	Atlas-SNP
STEAP1B	256227	hgsc.bcm.edu	37	7	22533182	22533182	+	Missense_Mutation	SNP	T	T	C	rs62619777	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	337	119	329	0	0.353116	0	T|0.936;C|0.064	0.064	strong	.	STEAP1B	22	.	NM_001164460	exon3	c.A358G	p.M120V	AAACCATTGGCAA	.	PASS	Atlas-SNP
TM4SF4	7104	hgsc.bcm.edu	37	3	149192676	149192676	+	Silent	SNP	G	G	A	rs12488126	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	72	93	0	0.529412	0	G|0.791;A|0.209	0.209	strong	.	TM4SF4	27	.	NM_004617	exon1	c.G12A	p.G4G	CACTGGGGGCTGT	.	PASS	Atlas-SNP
ADCY8	114	hgsc.bcm.edu	37	8	131921956	131921956	+	Silent	SNP	A	A	G	rs12547243	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	247	245	196	1	0.991903	0.00510204	A|0.424;G|0.576	0.576	strong	.	ADCY8	291	.	NM_001115	exon6	c.T1638C	p.P546P	TTACCCAGGGATT	.	PASS	Atlas-SNP
TUBD1	51174	hgsc.bcm.edu	37	17	57963537	57963537	+	Missense_Mutation	SNP	A	A	G	rs1292053	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	62	151	0	0.410596	0	A|0.522;G|0.478	0.478	strong	TUBD1,NS,carcinoma,0,1	TUBD1	38	1	NM_016261	exon3	c.T227C	p.M76T	GACAGCATTTGAT	.	PASS	Atlas-SNP
IRS2	8660	hgsc.bcm.edu	37	13	110435953	110435953	+	Silent	SNP	A	A	G	rs4773092	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	16	55	0	0.32	0	A|0.452;G|0.548	0.548	strong	IRS2,NS,carcinoma,0,1	IRS2	44	1	NM_003749	exon1	c.T2448C	p.C816C	CCCGCCACAGGTG	.	PASS	Atlas-SNP
TTC39A	22996	hgsc.bcm.edu	37	1	51767352	51767352	+	Silent	SNP	G	G	A	rs41287290	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	51	91	0	0.504951	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
PHF20L1	51105	hgsc.bcm.edu	37	8	133851776	133851776	+	Missense_Mutation	SNP	A	A	G	rs184173196	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	54	84	0	0.5	0	A|1.000;G|0.000	0.000	strong	.	PHF20L1	129	.	NM_016018	exon18	c.A2336G	p.Y779C	ATGTCTATGGTGT	.	PASS	Atlas-SNP
S100A5	6276	hgsc.bcm.edu	37	1	153509890	153509890	+	Missense_Mutation	SNP	T	T	C	rs3795393	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	66	110	1	0.423077	0.00909091	T|0.916;C|0.084	0.084	strong	S100A5,NS,carcinoma,-1,2	S100A5	10	2	NM_002962	exon4	c.A161G	p.D54G	ATCAAGTCATCGA	.	scavenged	Atlas-SNP
KDR	3791	hgsc.bcm.edu	37	4	55946171	55946171	+	Silent	SNP	G	G	A	rs35961234	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	109	150	0	0.516588	0	G|0.983;A|0.017	0.017	strong	KDR,colon,carcinoma,0,5	KDR	307	5	NM_002253	exon30	c.C4008T	p.T1336T	GCTACCGGTTTGC	.	PASS	Atlas-SNP
OCSTAMP	128506	hgsc.bcm.edu	37	20	45174632	45174632	+	Silent	SNP	A	A	G	rs184507425	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	41	62	0	0.482353	0	A|0.994;G|0.006	0.006	strong	.	OCSTAMP	34	.	NM_080721	exon2	c.T381C	p.T127T	GGTGGCAGTGCTG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	227	117	195	0	0.515419	0	T|0.651;C|0.349	0.349	strong	.	GABRR1	63	.	NM_001256703	exon1	c.A76G	p.M26V	AGTGCATTCTGCT	.	PASS	Atlas-SNP
ACP1	52	hgsc.bcm.edu	37	2	272203	272203	+	Missense_Mutation	SNP	C	C	T	rs11553746	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	229	126	198	2	0.550218	0.010101	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	.	scavenged	Atlas-SNP
SSC5D	284297	hgsc.bcm.edu	37	19	56011915	56011915	+	Silent	SNP	G	G	A	rs61107130	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	84	123	0	0.521739	0	G|0.790;A|0.210	0.210	strong	.	SSC5D	65	.	NM_001195267	exon11	c.G2361A	p.V787V	GGAAGTGTGGCAT	.	PASS	Atlas-SNP
COL3A1	1281	hgsc.bcm.edu	37	2	189864080	189864080	+	Missense_Mutation	SNP	G	G	A	rs1800255	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	42	83	0	0.482759	0	G|0.808;A|0.192	0.192	strong	.	COL3A1	292	.	NM_000090	exon30	c.G2092A	p.A698T	GGTGGAGCTGGTC	.	PASS	Atlas-SNP
CSPG4	1464	hgsc.bcm.edu	37	15	75982428	75982428	+	Silent	SNP	C	C	T	rs7182906	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	81	134	0	0.547297	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
STARD13	90627	hgsc.bcm.edu	37	13	33703666	33703666	+	Missense_Mutation	SNP	C	C	G	rs34425674	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	75	169	1	0.974026	0.00591716	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
TTC23L	153657	hgsc.bcm.edu	37	5	34863034	34863034	+	Silent	SNP	A	A	T	rs3906383	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	59	106	0	0.479675	0	A|0.947;T|0.053	0.053	strong	.	TTC23L	47	.	NM_144725	exon5	c.A411T	p.T137T	TGCTACATCAGCC	.	PASS	Atlas-SNP
H2BFM	286436	hgsc.bcm.edu	37	X	103294760	103294760	+	Nonsense_Mutation	SNP	C	C	T	rs2301384	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	137	73	0	0.944828	0	C|0.676;T|0.324	0.324	strong	.	H2BFM	25	.	NM_001164416	exon1	c.C217T	p.Q73X	GTTCACCAGGGCC	.	PASS	Atlas-SNP
ELMSAN1	91748	hgsc.bcm.edu	37	14	74196686	74196686	+	Silent	SNP	T	T	C	rs2075025	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	42	54	0	0.525	0	T|0.490;C|0.510	0.510	strong	.	.	.	.	NM_194278	exon4	c.A1752G	p.A584A	GTCCTCTGCCTGG	.	PASS	Atlas-SNP
DDN	23109	hgsc.bcm.edu	37	12	49390677	49390677	+	Missense_Mutation	SNP	T	T	C	rs10783299	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	48	117	1	0.377953	0.00854701	T|0.588;C|0.412	0.412	strong	DDN_ENST00000421952,NS,carcinoma,0,3	DDN	54	3	NM_015086	exon2	c.A1982G	p.E661G	CCAACCTCGGGCA	.	scavenged	Atlas-SNP
PLXNB3	5365	hgsc.bcm.edu	37	X	153041868	153041868	+	Missense_Mutation	SNP	T	T	A	rs146832392	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	230	131	144	0	0.569565	0	T|0.965;A|0.035	0.035	strong	.	PLXNB3	208	.	NM_001163257	exon29	c.T4856A	p.V1619E	CCTCCGTGACCCA	.	PASS	Atlas-SNP
PIGN	23556	hgsc.bcm.edu	37	18	59774037	59774037	+	Silent	SNP	C	C	T	rs9319997	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	50	158	0	0.314465	0	C|0.912;T|0.088	0.088	strong	.	PIGN	62	.	NM_176787	exon19	c.G1752A	p.L584L	AGTCCACAGCCGA	.	PASS	Atlas-SNP
GALP	85569	hgsc.bcm.edu	37	19	56694505	56694505	+	Silent	SNP	C	C	T	rs575756	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	222	222	226	0	1	0	C|0.685;N|0.001	.	strong	.	GALP	13	.	NM_033106	exon5	c.C219T	p.D73D	TCTAGACGGGCTC	.	PASS	Atlas-SNP
EPG5	57724	hgsc.bcm.edu	37	18	43534824	43534824	+	Missense_Mutation	SNP	T	T	C	rs59422275	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	88	151	0	0.571429	0	T|0.904;C|0.096	0.096	strong	.	EPG5	199	.	NM_020964	exon2	c.A544G	p.K182E	CTTGTTTGTCTTC	.	PASS	Atlas-SNP
PLXNA2	5362	hgsc.bcm.edu	37	1	208390086	208390086	+	Silent	SNP	G	G	C	rs1664227	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	35	17	29	0	0.485714	0	G|0.664;C|0.336	0.336	strong	.	PLXNA2	178	.	NM_025179	exon2	c.C1182G	p.T394T	CGCCTTGGTGCAC	.	PASS	Atlas-SNP
HMHA1	23526	hgsc.bcm.edu	37	19	1085966	1085966	+	Silent	SNP	A	A	G	rs3761028	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	46	134	0	0.4	0	T|0.000;G|0.587;C|0.000;A|0.413	0.587	strong	HMHA1,NS,carcinoma,0,1	HMHA1	78	1	NM_001258328	exon23	c.A3420G	p.T1140T	GATGACACTGGGC	.	PASS	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	37	10	129899543	129899543	+	Silent	SNP	C	C	T	rs10082504	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	59	100	1	0.433824	0.01	C|0.913;T|0.087	0.087	strong	MKI67,NS,carcinoma,0,1	MKI67	363	1	NM_002417	exon14	c.G9684A	p.R3228R	TGCACACCTCTTG	.	scavenged	Atlas-SNP
PIKFYVE	200576	hgsc.bcm.edu	37	2	209190070	209190070	+	Silent	SNP	T	T	C	rs138885638	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	51	104	0	0.504951	0	T|0.999;C|0.001	0.001	strong	.	PIKFYVE	223	.	NM_015040	exon20	c.T2535C	p.S845S	AGGCTCTGATTAT	.	PASS	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	37	7	48563913	48563913	+	Silent	SNP	A	A	G	rs61705907	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	227	113	169	0	0.497797	0	A|0.939;G|0.061	0.061	strong	.	ABCA13	1192	.	NM_152701	exon54	c.A14121G	p.R4707R	AAAGAGAGTGTTT	.	PASS	Atlas-SNP
DMKN	93099	hgsc.bcm.edu	37	19	36002404	36002404	+	Missense_Mutation	SNP	C	C	T	rs138902616		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	11	46	0	0.2	0	.	.	weak	DMKN,NS,carcinoma,0,2	DMKN	116	2	NM_001126058	exon5	c.G827A	p.S276N	CTGCTGCTGCCAC	.	PASS	Atlas-SNP
C20orf141	128653	hgsc.bcm.edu	37	20	2796007	2796007	+	Silent	SNP	G	G	A	rs12625619	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	53	77	0	0.477477	0	G|0.860;A|0.140	0.140	strong	.	C20orf141	21	.	NM_080739	exon1	c.G177A	p.L59L	AGGACTGACAATC	.	PASS	Atlas-SNP
SALL1	6299	hgsc.bcm.edu	37	16	51172677	51172677	+	Silent	SNP	G	G	A	rs11645288	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	89	168	0	0.458763	0	G|0.822;A|0.178	0.178	strong	.	SALL1	301	.	NM_002968	exon2	c.C3456T	p.H1152H	TCTCTCGTGAATC	.	PASS	Atlas-SNP
DDX20	11218	hgsc.bcm.edu	37	1	112298582	112298582	+	Silent	SNP	A	A	G	rs197392	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	239	109	210	1	0.456067	0.0047619	A|0.755;G|0.245	0.245	strong	DDX20,NS,carcinoma,0,1	DDX20	50	1	NM_007204	exon1	c.A36G	p.A12A	CTTAGCAGCAGTG	.	scavenged	Atlas-SNP
PLXNA2	5362	hgsc.bcm.edu	37	1	208391085	208391085	+	Silent	SNP	G	G	A	rs12120681	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	263	138	214	0	0.524715	0	G|0.894;A|0.106	0.106	strong	PLXNA2,colon,carcinoma,-1,1	PLXNA2	178	1	NM_025179	exon2	c.C183T	p.A61A	ATAGACGGCCCCC	.	PASS	Atlas-SNP
OR2D3	120775	hgsc.bcm.edu	37	11	6942695	6942695	+	Missense_Mutation	SNP	C	C	T	rs12806437	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	328	170	283	1	0.518293	0.00353357	C|0.859;T|0.141	0.141	strong	OR2D3,NS,carcinoma,0,1	OR2D3	51	1	NM_001004684	exon1	c.C463T	p.R155W	ACACAACGGGTGT	.	PASS	Atlas-SNP
BEST1	7439	hgsc.bcm.edu	37	11	61722645	61722645	+	Silent	SNP	C	C	A	rs1109748	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	69	147	0	0.45098	0	C|0.838;A|0.162	0.162	strong	.	BEST1	85	.	NM_004183	exon3	c.C219A	p.I73I	CTACATCCAGCTC	.	PASS	Atlas-SNP
MUC20	200958	hgsc.bcm.edu	37	3	195453406	195453406	+	Silent	SNP	G	G	C	rs3210209	bycluster;byfrequency;byhapmap	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	28	94	0	0.321839	0	G|0.915;C|0.085	0.085	strong	MUC20_ENST00000381954,NS,carcinoma,0,2	MUC20	84	2	NM_152673	exon3	c.G1419C	p.T473T	GCCCACGACTGCC	.	PASS	Atlas-SNP
FAM118A	55007	hgsc.bcm.edu	37	22	45723842	45723842	+	Silent	SNP	G	G	A	rs17851057	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	98	143	0	0.583333	0	G|0.539;A|0.461	0.461	strong	.	FAM118A	32	.	NM_017911	exon4	c.G420A	p.R140R	GGACAGGGGCGCC	.	PASS	Atlas-SNP
RNF175	285533	hgsc.bcm.edu	37	4	154644537	154644537	+	Missense_Mutation	SNP	T	T	C	rs10517577	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	75	114	0	0.510204	0	T|0.917;C|0.083	0.083	strong	.	RNF175	40	.	NM_173662	exon5	c.A475G	p.M159V	TAAACATGATCGC	.	PASS	Atlas-SNP
OR2T6	254879	hgsc.bcm.edu	37	1	248550970	248550970	+	Missense_Mutation	SNP	A	A	G	rs7417616	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	58	103	0	0.464	0	A|0.702;G|0.298	0.298	strong	.	OR2T6	101	.	NM_001005471	exon1	c.A61G	p.N21D	ACTCACAATAAAT	.	PASS	Atlas-SNP
CASQ2	845	hgsc.bcm.edu	37	1	116243877	116243877	+	Silent	SNP	G	G	A	rs7413162	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	342	342	258	0	1	0	G|0.586;A|0.414	0.414	strong	.	CASQ2	54	.	NM_001232	exon11	c.C1185T	p.D395D	ATCATCGTCATCA	.	PASS	Atlas-SNP
CELF4	56853	hgsc.bcm.edu	37	18	34850846	34850846	+	Silent	SNP	G	G	A	rs1443638	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	27	27	35	0	1	0	G|0.726;A|0.274	0.274	strong	.	CELF4	90	.	NM_020180	exon8	c.C984T	p.A328A	AGGCACGGCTGGT	.	PASS	Atlas-SNP
ZNF229	7772	hgsc.bcm.edu	37	19	44934653	44934653	+	Silent	SNP	T	T	C	rs8113370	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	61	122	0	0.535088	0	T|0.846;C|0.154	0.154	strong	.	ZNF229	123	.	NM_014518	exon6	c.A303G	p.K101K	GAGCTCTTTGTGT	.	PASS	Atlas-SNP
RBM19	9904	hgsc.bcm.edu	37	12	114386639	114386639	+	Silent	SNP	A	A	G	rs7966348	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	52	88	0	0.514852	0	A|0.823;G|0.177	0.177	strong	RBM19,NS,carcinoma,0,1	RBM19	117	1	NM_001146699	exon10	c.T1275C	p.Y425Y	CCTACCATATTTG	.	PASS	Atlas-SNP
HKR1	284459	hgsc.bcm.edu	37	19	37854235	37854235	+	Missense_Mutation	SNP	G	G	T	rs3745765	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	29	74	0	0.42029	0	G|0.704;T|0.296	0.296	strong	.	HKR1	74	.	NM_181786	exon6	c.G1538T	p.S513I	CCCTGAGCACGCA	.	PASS	Atlas-SNP
CACNA1G	8913	hgsc.bcm.edu	37	17	48703986	48703986	+	Silent	SNP	G	G	A	rs9893223	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	66	87	0	0.488889	0	G|0.876;A|0.124	0.124	strong	CACNA1G_ENST00000359106,NS,carcinoma,0,6	CACNA1G	659	6	NM_018896	exon38	c.G7008A	p.P2336P	GGCTCCGTCCAGC	.	PASS	Atlas-SNP
MRGPRX4	117196	hgsc.bcm.edu	37	11	18194827	18194827	+	Missense_Mutation	SNP	C	C	G	rs2468774	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	74	134	0	0.521127	0	C|0.699;G|0.301	0.301	strong	.	MRGPRX4	68	.	NM_054032	exon1	c.C24G	p.F8L	AGTCTTCGGTACA	.	PASS	Atlas-SNP
KRTAP1-3	81850	hgsc.bcm.edu	37	17	39190954	39190954	+	Silent	SNP	G	G	A	rs75033421		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	31	169	0	0.173184	0	A|1.000;|0.000	1.000	weak	.	KRTAP1-3	18	.	NM_030966	exon1	c.C120T	p.C40C	GGTCTGGCAGCAG	.	PASS	Atlas-SNP
PARP1	142	hgsc.bcm.edu	37	1	226589958	226589958	+	Silent	SNP	G	G	A	rs1805404	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	23	45	0	0.46	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
PKD1	5310	hgsc.bcm.edu	37	16	2164294	2164294	+	Silent	SNP	G	G	A	rs35965348	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	55	122	0	0.495495	0	G|0.950;A|0.050	0.050	strong	.	PKD1	184	.	NM_000296	exon11	c.C2730T	p.D910D	CACCACGTCCACC	.	PASS	Atlas-SNP
MPHOSPH9	10198	hgsc.bcm.edu	37	12	123664514	123664514	+	Silent	SNP	G	G	A	rs1727301	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	109	237	0	0.486607	0	G|0.666;A|0.334	0.334	strong	.	MPHOSPH9	75	.	NM_022782	exon11	c.C1857T	p.N619N	CAATTTGTTCTCA	.	PASS	Atlas-SNP
TULP4	56995	hgsc.bcm.edu	37	6	158924595	158924595	+	Silent	SNP	A	A	G	rs3749853	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	54	90	0	0.425197	0	A|0.827;G|0.173	0.173	strong	.	TULP4	137	.	NM_020245	exon13	c.A3900G	p.Q1300Q	CCTCCAAAGCCAC	.	PASS	Atlas-SNP
TTC32	130502	hgsc.bcm.edu	37	2	20101487	20101487	+	Silent	SNP	G	G	A	rs2304589	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	65	40	0	1	0	G|0.740;A|0.260	0.260	strong	.	TTC32	13	.	NM_001008237	exon1	c.C129T	p.S43S	GTCGCTGGAGGCC	.	PASS	Atlas-SNP
PEPD	5184	hgsc.bcm.edu	37	19	33882222	33882222	+	Silent	SNP	G	G	A	rs17569	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	79	111	0	0.523179	0	T|0.045;G|0.545;C|0.327;A|0.083	0.083	strong	.	PEPD	48	.	NM_000285	exon13	c.C1131T	p.H377H	CACGTCGTGCACG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	21	47	0	0.446809	0	C|0.468;N|0.000	.	strong	.	MAST3	83	.	NM_015016	exon7	c.C522T	p.H174H	GAATCACGTGTAC	.	PASS	Atlas-SNP
SERHL2	253190	hgsc.bcm.edu	37	22	42970032	42970032	+	Missense_Mutation	SNP	T	T	C	rs52818842	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	470	218	485	0	0.46383	0	.	.	weak	SERHL2,NS,carcinoma,0,1	SERHL2	23	1	NM_014509	exon12	c.T916C	p.C306R	TTACAGTGCACAC	.	PASS	Atlas-SNP
RRM2B	50484	hgsc.bcm.edu	37	8	103250991	103250991	+	Silent	SNP	C	C	T	rs28999669	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	22	22	25	0	1	0	C|0.922;T|0.078	0.078	strong	.	RRM2B	31	.	NM_001172477	exon1	c.G60A	p.L20L	GTCCTGCAACTTG	.	PASS	Atlas-SNP
BAIAP2	10458	hgsc.bcm.edu	37	17	79089590	79089590	+	Missense_Mutation	SNP	A	A	G	rs4969391	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	44	77	1	0.488889	0.012987	A|0.843;G|0.157	0.157	strong	BAIAP2_ENST00000321300,colon,carcinoma,0,1	BAIAP2	74	1	NM_001144888	exon14	c.A1556G	p.Q519R	ACGTCCAGCTGAA	.	scavenged	Atlas-SNP
OR5F1	338674	hgsc.bcm.edu	37	11	55761256	55761256	+	Silent	SNP	A	A	G	rs77110658	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	48	136	0	0.475248	0	A|0.952;G|0.048	0.048	strong	.	OR5F1	116	.	NM_003697	exon1	c.T846C	p.I282I	CATGGGAATCACC	.	PASS	Atlas-SNP
DGKE	8526	hgsc.bcm.edu	37	17	54912339	54912339	+	Silent	SNP	G	G	A	rs1048159	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	48	84	0	0.631579	0	G|0.882;A|0.118	0.118	strong	DGKE,NS,carcinoma,+2,1	DGKE	47	1	NM_003647	exon2	c.G183A	p.G61G	GCACGGGTGGCGC	.	PASS	Atlas-SNP
ERAP2	64167	hgsc.bcm.edu	37	5	96215680	96215680	+	Silent	SNP	C	C	T	rs41506651	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	86	180	0	0.521212	0	C|0.928;T|0.072	0.072	strong	.	ERAP2	77	.	NM_001130140	exon2	c.C291T	p.I97I	GAAGATCGAAGTC	.	PASS	Atlas-SNP
GALNT2	2590	hgsc.bcm.edu	37	1	230386238	230386238	+	Missense_Mutation	SNP	A	A	C	rs78164071	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	69	118	0	0.507353	0	A|0.997;C|0.003	0.003	strong	.	GALNT2	83	.	NM_004481	exon10	c.A941C	p.D314A	TGATGGATAAGTT	.	PASS	Atlas-SNP
PCNT	5116	hgsc.bcm.edu	37	21	47766113	47766113	+	Missense_Mutation	SNP	T	T	G	rs34500739	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	80	122	0	0.533333	0	T|0.949;G|0.051	0.051	strong	.	PCNT	283	.	NM_006031	exon4	c.T711G	p.H237Q	CCTGCATCAGAGT	.	PASS	Atlas-SNP
ND4	0	hgsc.bcm.edu	37	MT	11299	11299	+	Silent	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	24	24	6	0	1	0	.	.	none	.	.	.	.	ENST00000361381	exon1	c.T540C	p.T180T	ACTCACTCTCACT	.	PASS	Atlas-SNP
PSMA7	5688	hgsc.bcm.edu	37	20	60713311	60713311	+	Silent	SNP	G	G	A	rs7076	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	153	154	0	0.980769	0	G|0.369;A|0.631	0.631	strong	.	PSMA7	13	.	NM_002792	exon5	c.C507T	p.R169R	GAACTCGCGCACT	.	PASS	Atlas-SNP
ARL17B	100506084	hgsc.bcm.edu	37	17	44430254	44430254	+	Missense_Mutation	SNP	G	G	C	rs35595570	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	967	179	739	2	0.185109	0.00270636	G|0.905;C|0.095	0.095	strong	ARL17B,NS,other,0,1	ARL17B	3	1	NM_001039083	exon3	c.C191G	p.A64G	CAGACAGCGAAGG	.	scavenged	Atlas-SNP
NDNF	79625	hgsc.bcm.edu	37	4	121958697	121958697	+	Silent	SNP	G	G	A	rs3733560	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	48	100	0	0.413793	0	G|0.554;A|0.446	0.446	strong	.	NDNF	72	.	NM_024574	exon4	c.C429T	p.S143S	TAAACCGGATGGG	.	PASS	Atlas-SNP
SEMA3G	56920	hgsc.bcm.edu	37	3	52476246	52476246	+	Silent	SNP	G	G	A	rs34900551	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	109	183	0	0.516588	0	G|0.978;A|0.022	0.022	strong	.	SEMA3G	58	.	NM_020163	exon4	c.C414T	p.A138A	CTGGAAGGCCCCA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9057704	9057704	+	Silent	SNP	G	G	T	rs12984130	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	269	268	245	0	0.996283	0	G|0.768;T|0.232	0.232	strong	.	MUC16	4315	.	NM_024690	exon3	c.C29742A	p.I9914I	GGACATGATTTCT	.	PASS	Atlas-SNP
DUS2L	54920	hgsc.bcm.edu	37	16	68087517	68087517	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	3	116	0	0.023622	0	.	.	none	DUS2L,NS,carcinoma,-1,2	DUS2L	39	2	NM_001271762	exon4	c.C223T	p.R75C	GTCTTCCGCACCT	.	scavenged	Atlas-SNP
CDH17	1015	hgsc.bcm.edu	37	8	95161102	95161102	+	Silent	SNP	G	G	A	rs35792427	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	59	109	0	0.546296	0	G|0.892;A|0.108	0.108	strong	.	CDH17	119	.	NM_004063	exon14	c.C1797T	p.S599S	TGAATAGCTTCAT	.	PASS	Atlas-SNP
C2orf54	79919	hgsc.bcm.edu	37	2	241828012	241828012	+	Silent	SNP	T	T	C	rs6708304	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	63	115	0	0.969231	0	T|0.464;C|0.536	0.536	strong	C2orf54,colon,carcinoma,0,1	C2orf54	14	1	NM_001085437	exon4	c.A948G	p.E316E	CTGCAGTTCTGCC	.	PASS	Atlas-SNP
ACSM1	116285	hgsc.bcm.edu	37	16	20648702	20648702	+	Silent	SNP	G	G	A	rs151328	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	39	78	0	0.481481	0	G|0.685;A|0.315	0.315	strong	.	ACSM1	118	.	NM_052956	exon8	c.C1188T	p.Y396Y	GACGTCGTAGGGT	.	PASS	Atlas-SNP
SYNRG	11276	hgsc.bcm.edu	37	17	35896123	35896123	+	Silent	SNP	T	T	C	rs1045000	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	117	110	0	0.983193	0	T|0.778;C|0.222	0.222	strong	.	SYNRG	101	.	NM_007247	exon19	c.A3624G	p.V1208V	ATTCCATACTTTA	.	PASS	Atlas-SNP
CCDC170	80129	hgsc.bcm.edu	37	6	151894505	151894505	+	Missense_Mutation	SNP	T	T	C	rs953767	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	170	170	145	0	1	0	T|0.077;G|0.001	.	strong	.	.	.	.	NM_025059	exon6	c.T971C	p.F324S	AGTACTTCTCATT	.	PASS	Atlas-SNP
LRCH4	4034	hgsc.bcm.edu	37	7	100172858	100172858	+	Missense_Mutation	SNP	C	C	T	rs3197597	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	38	29	25	0	0.763158	0	C|0.922;T|0.078	0.078	strong	.	LRCH4	53	.	NM_002319	exon18	c.G1924A	p.V642M	GCTTCACGGCCTC	.	PASS	Atlas-SNP
TPCN2	219931	hgsc.bcm.edu	37	11	68854012	68854012	+	Silent	SNP	A	A	G	rs35337391	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	293	143	231	0	0.488055	0	A|0.871;G|0.129	0.129	strong	.	TPCN2	63	.	NM_139075	exon23	c.A2025G	p.V675V	TTTTGTATTGTGG	.	PASS	Atlas-SNP
NRAP	4892	hgsc.bcm.edu	37	10	115374670	115374670	+	Silent	SNP	A	A	G	rs3121453	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	67	132	0	0.458904	0	A|0.825;G|0.175	0.175	strong	.	NRAP	208	.	NM_001261463	exon28	c.T3114C	p.D1038D	GCCACCATCTCGA	.	PASS	Atlas-SNP
RBMXL1	494115	hgsc.bcm.edu	37	1	89448812	89448812	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	346	7	260	3	0.0202312	0.0115385	.	.	none	CCBL2,NS,carcinoma,0,3	.	.	3	NM_001162536	exon3	c.A698C	p.D233A	GCATAATCTCTTG	.	scavenged	Atlas-SNP
SYNGAP1	8831	hgsc.bcm.edu	37	6	33408542	33408542	+	Silent	SNP	G	G	A	rs411136	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	30	55	0	0.375	0	G|0.608;A|0.392	0.392	strong	SYNGAP1_ENST00000293748,NS,carcinoma,0,2	SYNGAP1	202	2	NM_006772	exon11	c.G1713A	p.S571S	TGCTTCGTGGCGG	.	PASS	Atlas-SNP
ZNF705A	440077	hgsc.bcm.edu	37	12	8329700	8329700	+	Missense_Mutation	SNP	A	A	C	rs10743253	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	309	146	267	0	0.472492	0	A|0.528;C|0.471	0.471	strong	ZNF705A,NS,carcinoma,0,1	ZNF705A	32	1	NM_001004328	exon5	c.A424C	p.K142Q	GGAAAGAAACCCT	.	PASS	Atlas-SNP
OR7A17	26333	hgsc.bcm.edu	37	19	14992042	14992042	+	Silent	SNP	A	A	G	rs76014757		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	34	64	0	0.43038	0	.	.	weak	.	OR7A17	37	.	NM_030901	exon1	c.T126C	p.N42N	GAGCAGATTCCCG	.	PASS	Atlas-SNP
ARHGAP44	9912	hgsc.bcm.edu	37	17	12852459	12852459	+	Silent	SNP	A	A	G	rs2072254	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	23	10	26	0	0.434783	0	A|0.902;G|0.098	0.098	strong	.	ARHGAP44	55	.	NM_014859	exon11	c.A864G	p.G288G	GTAGGGACTCTTC	.	PASS	Atlas-SNP
EFS	10278	hgsc.bcm.edu	37	14	23826822	23826822	+	Silent	SNP	C	C	T	rs2231809	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	54	94	0	0.421875	0	C|0.549;T|0.451	0.451	strong	.	EFS	37	.	NM_005864	exon6	c.G1299A	p.L433L	GAGCTGCAGATCT	.	PASS	Atlas-SNP
CIDEC	63924	hgsc.bcm.edu	37	3	9918861	9918861	+	Silent	SNP	C	C	A	rs456168	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	46	79	0	0.638889	0	C|0.678;A|0.322	0.322	strong	CIDEC,NS,carcinoma,0,1	CIDEC	22	1	NM_001199623	exon3	c.G135T	p.L45L	CTCCGACAGCAGC	.	PASS	Atlas-SNP
CYB5A	1528	hgsc.bcm.edu	37	18	71959075	71959075	+	Silent	SNP	G	G	A	rs76198400	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	90	107	0	0.502793	0	A|0.107;C|0.000;G|0.893	0.107	strong	.	CYB5A	9	.	NM_148923	exon1	c.C36T	p.Y12Y	TAGGGTGTAGTAC	.	PASS	Atlas-SNP
CILP2	148113	hgsc.bcm.edu	37	19	19654189	19654189	+	Silent	SNP	G	G	A	rs45556231	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	219	100	186	0	0.456621	0	G|0.842;A|0.158	0.158	strong	CILP2,NS,carcinoma,0,1	CILP2	84	1	NM_153221	exon7	c.G1110A	p.S370S	GCGCTCGGGCACT	.	PASS	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	37	18	6977844	6977844	+	Missense_Mutation	SNP	A	A	G	rs671871	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	68	67	0	1	0	A|0.717;G|0.283	0.283	strong	.	LAMA1	458	.	NM_005559	exon44	c.T6227C	p.I2076T	GCTTGAATTTCCA	.	PASS	Atlas-SNP
ACP5	54	hgsc.bcm.edu	37	19	11687908	11687908	+	Silent	SNP	G	G	A	rs62638747	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	170	88	166	0	0.517647	0	G|0.911;A|0.089	0.089	strong	ACP5,NS,carcinoma,0,1	ACP5	30	1	NM_001111034	exon3	c.C225T	p.F75F	ACCAGTGAAGTAA	.	PASS	Atlas-SNP
TPSD1	23430	hgsc.bcm.edu	37	16	1306927	1306927	+	Silent	SNP	C	C	T	rs79472859	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	596	113	407	0	0.189597	0	C|0.643;T|0.357	0.357	strong	TPSD1,NS,carcinoma,0,1	TPSD1	47	1	NM_012217	exon3	c.C384T	p.D128D	GGCGGACATCGCC	.	PASS	Atlas-SNP
IPO4	79711	hgsc.bcm.edu	37	14	24649669	24649669	+	Silent	SNP	C	C	T	rs2273912	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	26	56	0	0.448276	0	C|0.876;T|0.124	0.124	strong	IPO4,NS,carcinoma,0,1	IPO4	74	1	NM_024658	exon30	c.G3225A	p.Q1075Q	TACAGCCTGGAGC	.	PASS	Atlas-SNP
EXD3	54932	hgsc.bcm.edu	37	9	140243968	140243968	+	Missense_Mutation	SNP	C	C	T	rs79140116	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	33	69	0	0.568965	0	C|0.870;T|0.130	0.130	strong	.	EXD3	86	.	NM_017820	exon15	c.G1510A	p.V504M	CTGGCACGCTCGC	.	PASS	Atlas-SNP
N4BP2L2	10443	hgsc.bcm.edu	37	13	33017043	33017043	+	Missense_Mutation	SNP	T	T	C	rs3742318	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	6	208	0	0.05	0	T|0.777;C|0.223	0.223	strong	.	N4BP2L2	90	.	NM_033111	exon7	c.A1631G	p.N544S	TGTTTATTCTCCT	.	PASS	Atlas-SNP
P2RY2	5029	hgsc.bcm.edu	37	11	72946140	72946140	+	Missense_Mutation	SNP	G	G	C	rs3741156	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	41	41	55	0	1	0	C|0.211;G|0.789	0.211	strong	.	P2RY2	54	.	NM_176071	exon3	c.G936C	p.R312S	GCAGAGGCTCGTA	.	PASS	Atlas-SNP
DOCK6	57572	hgsc.bcm.edu	37	19	11326119	11326119	+	Silent	SNP	A	A	G	rs2304155	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	44	104	0	0.44898	0	G|0.539;N|0.001	0.539	strong	.	DOCK6	104	.	NM_020812	exon32	c.T4050C	p.N1350N	GCGCACATTCTCC	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	708275	708275	+	Missense_Mutation	SNP	C	C	A	rs45613635	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	66	127	0	0.455172	0	C|0.694;A|0.306	0.306	strong	.	WDR90	107	.	NM_145294	exon22	c.C2697A	p.H899Q	GGGCCACCTGCTG	.	PASS	Atlas-SNP
PPP1R15A	23645	hgsc.bcm.edu	37	19	49377918	49377918	+	Missense_Mutation	SNP	G	G	T	rs35087747	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	36	64	0	0.428571	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
COL6A3	1293	hgsc.bcm.edu	37	2	238253149	238253149	+	Silent	SNP	G	G	A	rs2646258	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	348	163	286	0	0.468391	0	G|0.896;A|0.104	0.104	strong	.	COL6A3	608	.	NM_004369	exon36	c.C7512T	p.N2504N	GAATCCGTTCCTC	.	PASS	Atlas-SNP
FAM153B	202134	hgsc.bcm.edu	37	5	175528119	175528119	+	Missense_Mutation	SNP	T	T	C	rs2006825		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	598	6	732	0	0.0100334	0	T|0.500;C|0.500	0.500	weak	FAM153B,NS,carcinoma,0,4	FAM153B	28	4	NM_001265615	exon10	c.T401C	p.M134T	TTCACATGGTAAA	.	scavenged	Atlas-SNP
SIGLEC8	27181	hgsc.bcm.edu	37	19	51957556	51957556	+	Missense_Mutation	SNP	T	T	C	rs3829659	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	70	119	0	0.510949	0	T|0.647;C|0.353	0.353	strong	SIGLEC8,NS,carcinoma,0,1	SIGLEC8	130	1	NM_014442	exon6	c.A1162G	p.R388G	TCTTCCTGCAGGA	.	PASS	Atlas-SNP
CTSF	8722	hgsc.bcm.edu	37	11	66331458	66331458	+	Silent	SNP	A	A	G	rs572846	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	87	87	0	1	0	A|0.380;G|0.620	0.620	strong	.	CTSF	42	.	NM_003793	exon13	c.T1401C	p.R467R	GGACCCACGATGC	.	PASS	Atlas-SNP
PSMG2	56984	hgsc.bcm.edu	37	18	12718593	12718593	+	Silent	SNP	A	A	G	rs2302768	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	111	114	0	0.982301	0	A|0.636;G|0.364	0.364	strong	.	PSMG2	17	.	NM_020232	exon4	c.A366G	p.S122S	TCTTTCAAGCAGT	.	PASS	Atlas-SNP
CACNA1E	777	hgsc.bcm.edu	37	1	181701799	181701799	+	Missense_Mutation	SNP	T	T	A	rs35737760	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	95	123	0	0.536723	0	T|0.879;A|0.121	0.121	strong	CACNA1E,trunk,malignant_melanoma,+2,1	CACNA1E	778	1	NM_001205293	exon20	c.T2577A	p.D859E	GGGGGATGGAGGG	.	PASS	Atlas-SNP
ERI1	90459	hgsc.bcm.edu	37	8	8869199	8869199	+	Silent	SNP	T	T	G	rs9650616	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	45	68	0	0.459184	0	T|0.605;G|0.395	0.395	strong	.	ERI1	20	.	NM_153332	exon3	c.T435G	p.P145P	CCCACCTGAGTTT	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239518	31239518	+	Silent	SNP	C	C	T	rs1050420	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	148	156	0	0.980132	0	C|0.581;T|0.419	0.419	strong	.	HLA-C	92	.	NM_002117	exon2	c.G201A	p.P67P	CCCTCTCGGACTC	.	PASS	Atlas-SNP
ZNF471	57573	hgsc.bcm.edu	37	19	57036653	57036653	+	Missense_Mutation	SNP	G	G	A	rs3752176	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	71	86	0	0.986111	0	G|0.559;A|0.441	0.441	strong	.	ZNF471	99	.	NM_020813	exon5	c.G1217A	p.G406D	AATGTGGTGTGTG	.	PASS	Atlas-SNP
SPARCL1	8404	hgsc.bcm.edu	37	4	88412806	88412806	+	Missense_Mutation	SNP	T	T	C	rs1130643	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	64	151	0	0.397516	0	T|0.777;C|0.223	0.223	strong	.	SPARCL1	59	.	NM_004684	exon5	c.A1255G	p.T419A	TTGACGTTTCCTC	.	PASS	Atlas-SNP
KIAA1009	22832	hgsc.bcm.edu	37	6	84884544	84884544	+	Missense_Mutation	SNP	T	T	G	rs149892489		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	205	17	174	0	0.0829268	0	.	.	weak	.	KIAA1009	119	.	NM_014895	exon15	c.A1927C	p.K643Q	TCTCCTTTTCTGA	.	PASS	Atlas-SNP
SMPD4	55627	hgsc.bcm.edu	37	2	130912789	130912789	+	Missense_Mutation	SNP	A	A	C	rs148027738	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	11	101	0	0.0733333	0	A|0.999;C|0.001	0.001	weak	SMPD4,NS,adenoma,0,1	SMPD4	67	1	NM_017951	exon15	c.T1450G	p.F484V	CCACAAACAACTT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	153	146	1	0.993506	0.00684932	G|0.532;A|0.468	0.468	strong	.	.	.	.	NM_001257098	exon3	c.G489A	p.S163S	GTCATCGTCTGTG	.	PASS	Atlas-SNP
DTHD1	401124	hgsc.bcm.edu	37	4	36345377	36345377	+	Silent	SNP	G	G	A	rs2270880	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	43	76	0	0.5	0	G|0.895;A|0.105	0.105	strong	.	DTHD1	63	.	NM_001170700	exon9	c.G2277A	p.E759E	AGAAGAGCTCAAA	.	PASS	Atlas-SNP
MARCH7	64844	hgsc.bcm.edu	37	2	160604452	160604452	+	Silent	SNP	C	C	T	rs11555185	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	348	166	295	0	0.477012	0	C|0.761;T|0.239	0.239	strong	MARCH7,colon,carcinoma,0,2	MARCH7	48	2	NM_022826	exon5	c.C651T	p.D217D	TAGGGACTCCAGA	.	PASS	Atlas-SNP
FZD10	11211	hgsc.bcm.edu	37	12	130648246	130648246	+	Silent	SNP	G	G	C	rs80190592	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	49	111	0	0.475728	0	G|0.981;C|0.019	0.019	strong	.	FZD10	95	.	NM_007197	exon1	c.G759C	p.P253P	CGACCCGGCCCGC	.	PASS	Atlas-SNP
ZNF304	57343	hgsc.bcm.edu	37	19	57868879	57868879	+	Silent	SNP	T	T	C	rs34411126	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	33	14	53	0	0.424242	0	T|0.850;C|0.150	0.150	strong	.	ZNF304	74	.	NM_020657	exon3	c.T1642C	p.L548L	CTCATTTTGCACC	.	PASS	Atlas-SNP
CCDC88B	283234	hgsc.bcm.edu	37	11	64124515	64124515	+	Silent	SNP	T	T	C	rs612448	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	63	133	0	0.496063	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
NARG2	79664	hgsc.bcm.edu	37	15	60745788	60745788	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	74	151	0	0.453988	0	.	.	none	.	NARG2	82	.	NM_001276385	exon9	c.T1139C	p.F380S	AAAAAAAAAGCAT	.	PASS	Atlas-SNP
PARP10	84875	hgsc.bcm.edu	37	8	145060112	145060112	+	Silent	SNP	G	G	A	rs11136345	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	59	147	0	0.472	0	G|0.551;A|0.449	0.449	strong	.	PARP10	57	.	NM_032789	exon3	c.C213T	p.H71H	TAGTTCGTGATCT	.	PASS	Atlas-SNP
CYB5RL	606495	hgsc.bcm.edu	37	1	54661150	54661150	+	Missense_Mutation	SNP	C	C	T	rs946448	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	72	59	0	1	0	C|0.708;T|0.292	0.292	strong	.	CYB5RL	17	.	NM_001031672	exon3	c.G140A	p.R47K	TCCCACCTTGCCA	.	PASS	Atlas-SNP
WDR35	57539	hgsc.bcm.edu	37	2	20189015	20189015	+	Missense_Mutation	SNP	T	T	C	rs1060742	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	72	150	0	0.467532	0	T|0.913;C|0.087	0.087	strong	WDR35,NS,carcinoma,0,1	WDR35	92	1	NM_020779	exon2	c.A53G	p.Q18R	ACACACTGCAGCT	.	PASS	Atlas-SNP
C15orf40	123207	hgsc.bcm.edu	37	15	83657894	83657894	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	352	151	274	0	0.428977	0	.	.	none	.	C15orf40	18	.	NM_001160116	exon4	c.C382T	p.P128S	GTTGAGGAATGGA	.	PASS	Atlas-SNP
PGR	5241	hgsc.bcm.edu	37	11	100998771	100998771	+	Missense_Mutation	SNP	C	C	G	rs3740753	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	23	12	32	0	0.521739	0	C|0.884;G|0.116	0.116	strong	.	PGR	115	.	NM_000926	exon1	c.G1031C	p.S344T	GGTGAACTCCGCG	.	PASS	Atlas-SNP
TMC2	117532	hgsc.bcm.edu	37	20	2593863	2593863	+	Silent	SNP	T	T	C	rs6515646	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	269	131	246	0	0.486989	0	T|0.752;C|0.248	0.248	strong	.	TMC2	121	.	NM_080751	exon14	c.T1767C	p.S589S	GGTGTCTGACATG	.	PASS	Atlas-SNP
OR12D3	81797	hgsc.bcm.edu	37	6	29342630	29342630	+	Silent	SNP	C	C	T	rs34525583	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	51	71	0	0.495146	0	C|0.949;T|0.051	0.051	strong	OR12D3,NS,carcinoma,-1,1	OR12D3	55	1	NM_030959	exon1	c.G435A	p.A145A	CCAGGCCGCAGCT	.	PASS	Atlas-SNP
TUBA1B	10376	hgsc.bcm.edu	37	12	49522605	49522605	+	Silent	SNP	C	C	T	rs1057548	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	219	90	258	0	0.410959	0	C|0.576;T|0.424	0.424	strong	.	TUBA1B	24	.	NM_006082	exon4	c.G492A	p.K164K	CTTGGACTTCTTG	.	PASS	Atlas-SNP
GPR55	9290	hgsc.bcm.edu	37	2	231774844	231774844	+	Silent	SNP	G	G	A	rs2396777	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	71	132	0	0.482993	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
MAPK13	5603	hgsc.bcm.edu	37	6	36098410	36098410	+	Silent	SNP	A	A	C	rs1059227	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	91	89	0	0.98913	0	A|0.271;C|0.729	0.729	strong	MAPK13_ENST00000211287,NS,carcinoma,0,4	MAPK13	65	4	NM_002754	exon1	c.A51C	p.T17T	CAAGACAGCCTGG	.	PASS	Atlas-SNP
SPTBN5	51332	hgsc.bcm.edu	37	15	42154738	42154738	+	Missense_Mutation	SNP	G	G	A	rs16972193	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	75	154	0	0.882353	0	G|0.799;A|0.201	0.201	strong	.	SPTBN5	171	.	NM_016642	exon43	c.C7279T	p.R2427W	CATACCGCTTCTG	.	PASS	Atlas-SNP
C3orf20	84077	hgsc.bcm.edu	37	3	14724345	14724345	+	Missense_Mutation	SNP	G	G	A	rs17040154	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	40	71	0	0.5	0	G|0.950;A|0.050	0.050	strong	.	C3orf20	109	.	NM_032137	exon3	c.G125A	p.G42D	CAAAAGGCATCAG	.	PASS	Atlas-SNP
VANGL2	57216	hgsc.bcm.edu	37	1	160395003	160395003	+	Silent	SNP	G	G	A	rs17380141	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	70	151	1	0.463576	0.00662252	G|0.745;A|0.255	0.255	strong	VANGL2,NS,carcinoma,0,1	VANGL2	83	1	NM_020335	exon8	c.G1401A	p.P467P	GGAGCCGGTGACC	.	scavenged	Atlas-SNP
PLCH1	23007	hgsc.bcm.edu	37	3	155203301	155203301	+	Missense_Mutation	SNP	C	C	T	rs143905522	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	100	167	0	0.5	0	C|1.000;T|0.000	0.000	strong	PLCH1_ENST00000340059,bladder,carcinoma,+1,2	PLCH1	406	2	NM_001130960	exon22	c.G2842A	p.E948K	TGGCCTCGGACAC	.	PASS	Atlas-SNP
PPP1R15A	23645	hgsc.bcm.edu	37	19	49376582	49376582	+	Missense_Mutation	SNP	G	G	A	rs564196	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	35	18	20	0	0.514286	0	G|0.729;A|0.271	0.271	strong	.	PPP1R15A	48	.	NM_014330	exon2	c.G92A	p.R31H	TCAGCCGCGCCTG	.	PASS	Atlas-SNP
DACT2	168002	hgsc.bcm.edu	37	6	168708816	168708816	+	Missense_Mutation	SNP	T	T	G	rs10945501	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	10	42	0	0.333333	0	T|0.545;G|0.455	0.455	strong	DACT2_ENST00000366795,rectum,carcinoma,0,2	DACT2	46	2	NM_214462	exon4	c.A1621C	p.T541P	TCCCTGTGGGCCA	.	PASS	Atlas-SNP
OR8B3	390271	hgsc.bcm.edu	37	11	124266906	124266906	+	Missense_Mutation	SNP	C	C	T	rs530992	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	439	191	303	0	0.43508	0	C|0.689;T|0.311	0.311	strong	.	OR8B3	36	.	NM_001005467	exon1	c.G342A	p.M114I	GGTCAACATGTAA	.	PASS	Atlas-SNP
UROC1	131669	hgsc.bcm.edu	37	3	126202257	126202257	+	Silent	SNP	G	G	A	rs1687477	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	73	61	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
TMEM259	91304	hgsc.bcm.edu	37	19	1010406	1010406	+	Silent	SNP	G	G	A	rs62131162	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	9	6	14	0	0.666667	0	G|0.903;A|0.097	0.097	strong	.	.	.	.	NM_001033026	exon11	c.C1806T	p.G602G	AGGCCCGCCTACC	.	PASS	Atlas-SNP
EFCAB12	90288	hgsc.bcm.edu	37	3	129134242	129134242	+	Silent	SNP	G	G	A	rs16859327	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	96	186	0	0.454976	0	G|0.849;A|0.151	0.151	strong	.	.	.	.	NM_207307	exon4	c.C684T	p.V228V	GACTCCGACCTGA	.	PASS	Atlas-SNP
EPB41L2	2037	hgsc.bcm.edu	37	6	131190838	131190838	+	Silent	SNP	G	G	A	rs17059736	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	222	116	188	0	0.522523	0	G|0.841;A|0.159	0.159	strong	.	EPB41L2	96	.	NM_001431	exon15	c.C2472T	p.P824P	CTCTCCGGGTATC	.	PASS	Atlas-SNP
SPHKAP	80309	hgsc.bcm.edu	37	2	228855993	228855993	+	Missense_Mutation	SNP	C	C	T	rs61752221	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	237	102	198	0	0.43038	0	C|0.991;T|0.009	0.009	strong	.	SPHKAP	750	.	NM_001142644	exon10	c.G4771A	p.E1591K	TACCCTCTGTGCT	.	PASS	Atlas-SNP
CDH12	1010	hgsc.bcm.edu	37	5	21752056	21752056	+	Silent	SNP	A	A	G	rs6451993	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	232	114	201	0	0.491379	0	A|0.402;G|0.598	0.598	strong	CDH12,NS,carcinoma,0,1	CDH12	238	1	NM_004061	exon15	c.T2175C	p.D725D	ATCCACATCATTT	.	PASS	Atlas-SNP
WDR18	57418	hgsc.bcm.edu	37	19	984533	984533	+	Silent	SNP	T	T	C	rs2301810	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	22	8	41	0	0.363636	0	T|0.552;C|0.448	0.448	strong	.	WDR18	20	.	NM_024100	exon1	c.T180C	p.N60N	CAAGAATTACATC	.	PASS	Atlas-SNP
TACC2	10579	hgsc.bcm.edu	37	10	123996970	123996970	+	Missense_Mutation	SNP	G	G	A	rs61753077	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	36	69	0	0.521739	0	G|0.976;A|0.024	0.024	strong	.	TACC2	271	.	NM_206862	exon17	c.G8188A	p.G2730R	CGCATCGGGACCG	.	PASS	Atlas-SNP
FCRLA	84824	hgsc.bcm.edu	37	1	161682975	161682975	+	Silent	SNP	G	G	T	rs6688140	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	83	155	0	0.497006	0	A|0.000;G|0.978;T|0.022	0.022	strong	.	FCRLA	101	.	NM_001184866	exon6	c.G954T	p.P318P	GCCTCCGCCGCCA	.	PASS	Atlas-SNP
SHKBP1	92799	hgsc.bcm.edu	37	19	41082868	41082868	+	Silent	SNP	T	T	C	rs16974365	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	19	7	15	0	0.368421	0	T|0.842;C|0.158	0.158	strong	SHKBP1,NS,carcinoma,0,1	SHKBP1	68	1	NM_138392	exon1	c.T63C	p.I21I	AGTCATTCATCTG	.	PASS	Atlas-SNP
EPHX2	2053	hgsc.bcm.edu	37	8	27358505	27358505	+	Missense_Mutation	SNP	A	A	G	rs41507953	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	39	67	0	0.513158	0	A|0.878;G|0.122	0.122	strong	.	EPHX2	57	.	NM_001979	exon2	c.A164G	p.K55R	TTATGAAAGGAGA	.	PASS	Atlas-SNP
MYRIP	25924	hgsc.bcm.edu	37	3	40251392	40251392	+	Silent	SNP	T	T	C	rs1799418	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	212	104	189	0	0.490566	0	C|0.439;N|0.001	0.439	strong	.	MYRIP	98	.	NM_015460	exon11	c.T1713C	p.D571D	TCGGGATCCCCAG	.	PASS	Atlas-SNP
UBA1	7317	hgsc.bcm.edu	37	X	47062534	47062534	+	Missense_Mutation	SNP	G	G	A	rs2070169	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	16	101	0	0.0952381	0	0|0.003;A|0.142	0.142	strong	.	UBA1	89	.	NM_153280	exon13	c.G1340A	p.R447H	CTTAGCGCCAGAA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	164	134	0	1	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
PCMTD1	115294	hgsc.bcm.edu	37	8	52733050	52733050	+	Missense_Mutation	SNP	T	T	A	rs12335014	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	94	200	0	0.484536	0	T|0.570;A|0.430	0.430	strong	.	PCMTD1	73	.	NM_052937	exon6	c.A935T	p.N312I	TCTTTGTTATCCT	.	PASS	Atlas-SNP
EPPK1	83481	hgsc.bcm.edu	37	8	144941181	144941181	+	Missense_Mutation	SNP	G	G	C	rs7839934	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	71	129	0	0.510791	0	G|0.737;C|0.263	0.263	strong	.	EPPK1	199	.	NM_031308	exon1	c.C6241G	p.L2081V	ACAGCAGCCAGCC	.	PASS	Atlas-SNP
TRMT61B	55006	hgsc.bcm.edu	37	2	29092850	29092850	+	Silent	SNP	G	G	T	rs4666122	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	27	71	0	0.428571	0	G|0.539;N|0.000	.	strong	.	TRMT61B	28	.	NM_017910	exon1	c.C294A	p.S98S	TCGAGGGGATGAC	.	PASS	Atlas-SNP
RERE	473	hgsc.bcm.edu	37	1	8421186	8421186	+	Missense_Mutation	SNP	G	G	A	rs201922249	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	19	13	21	0	0.684211	0	G|0.994;A|0.006	0.006	strong	.	RERE	129	.	NM_012102	exon19	c.C2381T	p.P794L	GGAACAGGCGCTG	.	PASS	Atlas-SNP
SLC25A52	147407	hgsc.bcm.edu	37	18	29340051	29340051	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	292	19	211	1	0.0650685	0.00473934	.	.	none	MCART2_ENST00000269205,NS,carcinoma,+1,2	.	.	2	NM_001034172	exon1	c.G604A	p.G202S	GAAGGCCGAAAAA	.	scavenged	Atlas-SNP
CCHCR1	54535	hgsc.bcm.edu	37	6	31124849	31124849	+	Nonsense_Mutation	SNP	C	C	T	rs3130453	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	29	47	0	0.5	0	C|0.528;T|0.472	0.472	strong	.	CCHCR1	68	.	NM_001105563	exon2	c.G234A	p.W78X	CTGTCTCCAGCCA	.	PASS	Atlas-SNP
FANCA	2175	hgsc.bcm.edu	37	16	89815152	89815152	+	Missense_Mutation	SNP	G	G	A	rs17233497	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	19	61	0	0.322034	0	G|0.954;A|0.046	0.046	strong	FANCA,lymph_node,lymphoid_neoplasm,0,1	FANCA	99	1	NM_000135	exon33	c.C3263T	p.S1088F	AGGACAGACGAAG	.	PASS	Atlas-SNP
ITIH4	3700	hgsc.bcm.edu	37	3	52861211	52861211	+	Missense_Mutation	SNP	A	A	T	rs13072536	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	64	128	0	0.492308	0	A|0.744;T|0.256	0.256	strong	.	ITIH4	74	.	NM_001166449	exon3	c.T254A	p.I85N	TCGATGATCCTGG	.	PASS	Atlas-SNP
ADAM7	8756	hgsc.bcm.edu	37	8	24339679	24339679	+	Missense_Mutation	SNP	G	G	A	rs13255694	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	103	93	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
MYNN	55892	hgsc.bcm.edu	37	3	169492101	169492101	+	Silent	SNP	C	C	T	rs10936599	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	77	153	0	0.506579	0	C|0.763;T|0.237	0.237	strong	.	MYNN	36	.	NM_001185118	exon3	c.C18T	p.H6H	GCACCACTGTGAG	.	PASS	Atlas-SNP
CXCR1	3577	hgsc.bcm.edu	37	2	219029932	219029932	+	Missense_Mutation	SNP	C	C	T	rs55808468	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	38	69	0	0.447059	0	C|0.996;T|0.004	0.004	strong	.	CXCR1	42	.	NM_000634	exon2	c.G3A	p.M1I	ATTTGACATGTCC	.	PASS	Atlas-SNP
OR5I1	10798	hgsc.bcm.edu	37	11	55703861	55703861	+	Missense_Mutation	SNP	T	T	C	rs17597625	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	39	47	0	0.573529	0	T|0.952;C|0.048	0.048	strong	OR5I1,caecum,carcinoma,0,1	OR5I1	110	1	NM_006637	exon1	c.A16G	p.R6G	AGTTTCTATCTGT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	91	104	0	1	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
POU5F1	5460	hgsc.bcm.edu	37	6	31138107	31138107	+	Silent	SNP	G	G	A	rs1062630	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	52	82	0	0.604651	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
TSHZ2	128553	hgsc.bcm.edu	37	20	51871489	51871489	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	2	117	0	0.013245	0	.	.	none	TSHZ2,colon,carcinoma,-1,1	TSHZ2	209	1	NM_173485	exon2	c.T1492C	p.Y498H	ATCAAATATCAAT	.	scavenged	Atlas-SNP
ECSIT	51295	hgsc.bcm.edu	37	19	11618630	11618630	+	Missense_Mutation	SNP	G	G	A	rs34803265	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	50	71	0	0.537634	0	G|0.959;A|0.041	0.041	strong	.	ECSIT	32	.	NM_016581	exon6	c.C832T	p.R278C	TGTGGCGGGCCAG	.	PASS	Atlas-SNP
GPBP1	65056	hgsc.bcm.edu	37	5	56526783	56526783	+	Silent	SNP	G	G	A	rs1130203	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	260	114	299	0	0.438462	0	G|0.224;A|0.776	0.776	strong	.	GPBP1	51	.	NM_001127236	exon3	c.G195A	p.G65G	TATTGGGCGTCCT	.	PASS	Atlas-SNP
TIAM2	26230	hgsc.bcm.edu	37	6	155569168	155569168	+	Silent	SNP	C	C	T	rs41284218	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	52	117	0	0.40625	0	C|0.903;T|0.097	0.097	strong	.	TIAM2	161	.	NM_012454	exon19	c.C3687T	p.D1229D	TCTGGACGCCCGG	.	PASS	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25052261	25052261	+	Silent	SNP	C	C	T	rs4770696	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	72	59	1	0.986301	0.0169492	C|0.494;T|0.506	0.506	strong	PARP4,mouth,carcinoma,-1,1	PARP4	142	1	NM_006437	exon13	c.G1602A	p.S534S	TGTTTGCGAAACT	.	scavenged	Atlas-SNP
SLC6A18	348932	hgsc.bcm.edu	37	5	1240757	1240757	+	Nonsense_Mutation	SNP	C	C	G	rs7447815	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	62	90	0	0.529915	0	C|0.649;G|0.351	0.351	strong	.	SLC6A18	84	.	NM_182632	exon7	c.C957G	p.Y319X	TGACTACGAGCAC	.	PASS	Atlas-SNP
ZNF789	285989	hgsc.bcm.edu	37	7	99081730	99081730	+	Missense_Mutation	SNP	A	A	G	rs6962772	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	56	129	0	0.518519	0	A|0.607;G|0.393	0.393	strong	.	ZNF789	33	.	NM_213603	exon4	c.A229G	p.T77A	CCGAGAACTGGGA	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100679720	100679720	+	Missense_Mutation	SNP	G	G	A	rs140695064		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	32	78	0	0.615385	0	.	.	weak	.	MUC17	804	.	NM_001040105	exon3	c.G5023A	p.A1675T	ACACCTGCTGAAG	.	PASS	Atlas-SNP
SSTR3	6753	hgsc.bcm.edu	37	22	37603051	37603051	+	Silent	SNP	C	C	T	rs229569	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	34	52	0	0.62963	0	C|0.666;T|0.334	0.334	strong	.	SSTR3	42	.	NM_001051	exon2	c.G792A	p.A264A	GAAGAGCGCCACC	.	PASS	Atlas-SNP
PLG	5340	hgsc.bcm.edu	37	6	161139857	161139857	+	Silent	SNP	A	A	G	rs13231	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	55	94	0	0.474138	0	A|0.787;G|0.213	0.213	strong	.	PLG	150	.	NM_000301	exon9	c.A1083G	p.Q361Q	GGAACAATTGGCT	.	PASS	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	37	18	6985631	6985631	+	Silent	SNP	C	C	T	rs617206	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	240	116	221	0	0.483333	0	C|0.506;T|0.494	0.494	strong	.	LAMA1	458	.	NM_005559	exon38	c.G5391A	p.L1797L	AACATGCAGCTTT	.	PASS	Atlas-SNP
HTR3C	170572	hgsc.bcm.edu	37	3	183774762	183774762	+	Missense_Mutation	SNP	C	C	A	rs6766410	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	90	166	0	0.494505	0	C|0.546;A|0.454	0.454	strong	HTR3C,NS,carcinoma,0,1	HTR3C	65	1	NM_130770	exon5	c.C489A	p.N163K	CTGTAACCTGGAC	.	PASS	Atlas-SNP
CTRC	11330	hgsc.bcm.edu	37	1	15767036	15767036	+	Silent	SNP	C	C	T	rs497078	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	89	93	0	1	0	A|0.000;C|0.887;T|0.113	0.113	strong	.	CTRC	28	.	NM_007272	exon3	c.C180T	p.G60G	GTGTGGCGGGACT	.	PASS	Atlas-SNP
NUDT18	79873	hgsc.bcm.edu	37	8	21965801	21965801	+	Silent	SNP	C	C	A	rs184414226	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	48	65	0	0.592593	0	C|0.996;A|0.004	0.004	strong	.	NUDT18	13	.	NM_024815	exon4	c.G219T	p.L73L	CGCAGGCAGGTAC	.	PASS	Atlas-SNP
BLM	641	hgsc.bcm.edu	37	15	91337479	91337479	+	Silent	SNP	G	G	A	rs2227933	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	235	113	298	0	0.480851	0	A|0.170;G|0.830	0.170	strong	.	BLM	122	.	NM_000057	exon16	c.G3102A	p.T1034T	TATAACGGAATGC	.	PASS	Atlas-SNP
SBNO2	22904	hgsc.bcm.edu	37	19	1122147	1122147	+	Silent	SNP	G	G	A	rs2072280	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	40	77	0	0.493827	0	G|0.572;A|0.428	0.428	strong	.	SBNO2	112	.	NM_014963	exon11	c.C1140T	p.F380F	GCCCTCGAAGGCC	.	PASS	Atlas-SNP
SLC7A3	84889	hgsc.bcm.edu	37	X	70146398	70146398	+	Silent	SNP	A	A	G	rs4360450	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	9	129	0	0.0756303	0	A|0.284;G|0.716	0.716	strong	.	SLC7A3	76	.	NM_032803	exon10	c.T1599C	p.S533S	AGTGGAACTCTGT	.	PASS	Atlas-SNP
MAN2A2	4122	hgsc.bcm.edu	37	15	91455455	91455455	+	Silent	SNP	C	C	T	rs140404658	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	169	155	0	0.971264	0	C|0.991;T|0.009	0.009	strong	MAN2A2,NS,carcinoma,+2,2	MAN2A2	99	2	NM_006122	exon14	c.C2292T	p.A764A	CTTCGCCCTCAGC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	280	118	241	0	0.421429	0	C|0.693;T|0.307	0.307	strong	.	PRDM7	53	.	NM_001098173	exon5	c.G392A	p.R131K	AATTCTCTCAAAC	.	PASS	Atlas-SNP
OR2T3	343173	hgsc.bcm.edu	37	1	248637480	248637480	+	Missense_Mutation	SNP	A	A	G	rs74498773	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	1053	266	965	1	0.252612	0.00103627	A|0.974;G|0.026	0.026	strong	.	OR2T3	79	.	NM_001005495	exon1	c.A829G	p.M277V	CAGGACATGATGG	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134748331	134748331	+	Missense_Mutation	SNP	C	C	T	rs12781609	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	91	94	0	0.978495	0	C|0.636;T|0.364	0.364	strong	.	TTC40	100	.	NM_001200049	exon8	c.G791A	p.S264N	ATGACACTGATGT	.	PASS	Atlas-SNP
CATSPER4	378807	hgsc.bcm.edu	37	1	26520292	26520292	+	Missense_Mutation	SNP	G	G	T	rs12138368	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	56	128	1	0.451613	0.0078125	G|0.946;T|0.054	0.054	strong	CATSPER4,NS,carcinoma,0,1	CATSPER4	59	1	NM_198137	exon3	c.G372T	p.L124F	TGAGTTGTTCTCT	.	scavenged	Atlas-SNP
EHBP1	23301	hgsc.bcm.edu	37	2	63176139	63176139	+	Missense_Mutation	SNP	A	A	C	rs17432615	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	341	226	204	0	0.662757	0	A|0.917;C|0.083	0.083	strong	.	EHBP1	127	.	NM_015252	exon14	c.A2263C	p.K755Q	ATCAAAAAAACAA	.	PASS	Atlas-SNP
GPER	2852	hgsc.bcm.edu	37	7	1132456	1132456	+	Silent	SNP	C	C	T	rs10246354	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	97	122	0	0.541899	0	C|0.820;T|0.180	0.180	strong	.	GPER	25	.	NM_001505	exon2	c.C1092T	p.T364T	CAGCACCGAGCAG	.	PASS	Atlas-SNP
CRISP3	10321	hgsc.bcm.edu	37	6	49696473	49696473	+	Silent	SNP	G	G	T	rs488132	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	45	75	0	0.505618	0	G|0.848;T|0.152	0.152	strong	.	CRISP3	67	.	NM_001190986	exon8	c.C777A	p.A259A	GCAGGAGGCCTTG	.	PASS	Atlas-SNP
C17orf64	124773	hgsc.bcm.edu	37	17	58508618	58508618	+	Silent	SNP	T	T	C	rs3760332	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	33	56	0	0.434211	0	T|0.702;C|0.298	0.298	strong	.	C17orf64	19	.	NM_181707	exon6	c.T702C	p.T234T	AGAGACTGAACCG	.	PASS	Atlas-SNP
XDH	7498	hgsc.bcm.edu	37	2	31593265	31593265	+	Missense_Mutation	SNP	T	T	C	rs17323225	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	64	108	0	0.528926	0	T|0.978;C|0.022	0.022	strong	.	XDH	191	.	NM_000379	exon18	c.A1936G	p.I646V	CAGTTATGTTACT	.	PASS	Atlas-SNP
CYB5D1	124637	hgsc.bcm.edu	37	17	7761926	7761926	+	Silent	SNP	C	C	T	rs3744252	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	67	120	0	0.489051	0	C|0.920;T|0.080	0.080	strong	CYB5D1,NS,carcinoma,0,1	CYB5D1	16	1	NM_144607	exon3	c.C240T	p.I80I	AAAGATCCGCAAG	.	PASS	Atlas-SNP
CYB5RL	606495	hgsc.bcm.edu	37	1	54644859	54644859	+	Missense_Mutation	SNP	C	C	T	rs61738851	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	38	79	0	0.44186	0	C|0.933;T|0.067	0.067	strong	.	CYB5RL	17	.	NM_001031672	exon7	c.G707A	p.R236H	CAGAAACGGGCCT	.	PASS	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	95	199	0	0.513514	0	G|0.614;C|0.386	0.386	strong	.	ZSCAN12	35	.	NM_001163391	exon4	c.C1732G	p.R578G	TACCACGTCTATT	.	PASS	Atlas-SNP
CYP4A22	284541	hgsc.bcm.edu	37	1	47609489	47609489	+	Missense_Mutation	SNP	T	T	C	rs10789501	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	262	137	228	0	0.522901	0	T|0.527;C|0.473	0.473	strong	.	CYP4A22	60	.	NM_001010969	exon6	c.T691C	p.C231R	TTTTGCTGTATGA	.	PASS	Atlas-SNP
DACT2	168002	hgsc.bcm.edu	37	6	168708751	168708751	+	Silent	SNP	A	A	G	rs10945499	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	20	54	1	0.425532	0.0185185	A|0.525;G|0.475	0.475	strong	DACT2_ENST00000366795,NS,carcinoma,0,2	DACT2	46	2	NM_214462	exon4	c.T1686C	p.S562S	GGACTCAGAACAG	.	scavenged	Atlas-SNP
SPATA31D1	389763	hgsc.bcm.edu	37	9	84609057	84609057	+	Silent	SNP	C	C	T	rs12340419	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	90	146	0	0.612245	0	C|0.944;T|0.056	0.056	strong	.	.	.	.	NM_001001670	exon4	c.C3672T	p.D1224D	CACTGACATGTCT	.	PASS	Atlas-SNP
TRIM69	140691	hgsc.bcm.edu	37	15	45047402	45047402	+	Missense_Mutation	SNP	A	A	G	rs17588988	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	213	97	158	0	0.455399	0	A|0.936;G|0.064	0.064	strong	.	TRIM69	47	.	NM_182985	exon2	c.A311G	p.K104R	AGATTAAGAAGTT	.	PASS	Atlas-SNP
RNF126	55658	hgsc.bcm.edu	37	19	651852	651852	+	Missense_Mutation	SNP	C	C	T	rs2285751	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	35	19	33	0	0.542857	0	C|0.942;T|0.058	0.058	strong	.	RNF126	15	.	NM_194460	exon4	c.G202A	p.V68M	GGTCCACGTGCTG	.	PASS	Atlas-SNP
PCDH19	57526	hgsc.bcm.edu	37	X	99663194	99663194	+	Silent	SNP	G	G	T	rs41300169	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	7	87	0	0.0534351	0	G|0.871;T|0.129	0.129	strong	.	PCDH19	269	.	NM_001184880	exon1	c.C402A	p.I134I	CAGCTCGATCTGT	.	PASS	Atlas-SNP
CDRT15	146822	hgsc.bcm.edu	37	17	14139702	14139702	+	Missense_Mutation	SNP	G	G	A	rs138924466	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	27	109	1	0.198529	0.00917431	G|0.979;A|0.021	0.021	strong	CDRT15,NS,carcinoma,0,1	CDRT15	20	1	NM_001007530	exon2	c.C308T	p.A103V	GGCTCCGCCGCTG	.	scavenged	Atlas-SNP
MUC20	200958	hgsc.bcm.edu	37	3	195453412	195453412	+	Silent	SNP	C	C	T	rs1063306	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	26	91	0	0.329114	0	C|0.928;T|0.072	0.072	strong	MUC20,NS,carcinoma,0,1	MUC20	84	1	NM_152673	exon3	c.C1425T	p.A475A	GACTGCCCGGACG	.	PASS	Atlas-SNP
OR10AD1	121275	hgsc.bcm.edu	37	12	48597053	48597053	+	Missense_Mutation	SNP	A	A	G	rs17122812	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	26	51	0	0.52	0	A|0.830;G|0.170	0.170	strong	OR10AD1,NS,carcinoma,0,1	OR10AD1	24	1	NM_001004134	exon1	c.T23C	p.V8A	TCCGTCACTATGC	.	PASS	Atlas-SNP
FXYD3	5349	hgsc.bcm.edu	37	19	35612168	35612168	+	Missense_Mutation	SNP	T	T	A	rs1688016	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	230	139	218	0	0.604348	0	T|0.672;A|0.328	0.328	strong	.	FXYD3	15	.	NM_001136010	exon5	c.T116A	p.L39H	GCCCCCTTTCCCC	.	PASS	Atlas-SNP
ARHGAP9	64333	hgsc.bcm.edu	37	12	57869681	57869681	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	47	120	0	0.401709	0	.	.	none	.	ARHGAP9	79	.	NM_001080157	exon9	c.C1246T	p.Q416X	CCGACTGCAGCAG	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238179	31238179	+	Missense_Mutation	SNP	C	C	T	rs41562012	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	62	143	0	0.652632	0	C|0.973;T|0.027	0.027	strong	.	HLA-C	92	.	NM_002117	exon4	c.G703A	p.A235T	TCTCCGCAGGGTA	.	PASS	Atlas-SNP
TSC22D2	9819	hgsc.bcm.edu	37	3	150128994	150128994	+	Silent	SNP	T	T	G	rs34647320	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	153	112	0	1	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
MICA	100507436	hgsc.bcm.edu	37	6	31382911	31382911	+	Missense_Mutation	SNP	A	A	G	rs1882	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	103	95	0	0.990385	0	A|0.320;G|0.680	0.680	strong	.	MICA	21	.	NM_000247	exon7	c.A1147G	p.T383A	GAGGGCACCTAGA	.	PASS	Atlas-SNP
FRG2B	441581	hgsc.bcm.edu	37	10	135438967	135438967	+	Missense_Mutation	SNP	C	C	T	rs145018822	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	352	124	367	4	0.352273	0.0108992	.	.	weak	FRG2B,NS,carcinoma,+1,1	FRG2B	47	1	NM_001080998	exon4	c.G473A	p.R158Q	CTATGCCGCTTGC	.	scavenged	Atlas-SNP
ALPP	250	hgsc.bcm.edu	37	2	233243796	233243796	+	Silent	SNP	T	T	C	rs200958062	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	33	94	0	0.388235	0	T|0.989;C|0.011	0.011	strong	.	ALPP	53	.	NM_001632	exon2	c.T192C	p.D64D	GGGCGATGGTGAG	.	PASS	Atlas-SNP
EFCAB4B	84766	hgsc.bcm.edu	37	12	3782701	3782701	+	Silent	SNP	C	C	T	rs17697920	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	66	132	0	0.44	0	C|0.860;N|0.000	.	strong	.	EFCAB4B	100	.	NM_001144958	exon7	c.G582A	p.L194L	GTTGGACAGTAAA	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	716494	716494	+	Missense_Mutation	SNP	G	G	A	rs373898012		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	51	98	0	0.481132	0	.	.	weak	.	WDR90	107	.	NM_145294	exon38	c.G4780A	p.A1594T	TGGCTGGCTGCCA	.	PASS	Atlas-SNP
CYP2W1	54905	hgsc.bcm.edu	37	7	1023013	1023013	+	Silent	SNP	C	C	T	rs2272375	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	15	4	11	0	0.266667	0	C|0.645;T|0.355	0.355	strong	.	CYP2W1	28	.	NM_017781	exon1	c.C166T	p.L56L	CGGTCCCTGATGG	.	PASS	Atlas-SNP
UNC119	9094	hgsc.bcm.edu	37	17	26874803	26874803	+	Missense_Mutation	SNP	G	G	A	rs146916036	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	259	122	216	0	0.471042	0	G|0.999;A|0.001	0.001	strong	.	UNC119	27	.	NM_005148	exon4	c.C502T	p.R168C	GGTTGCGGAAGTA	.	PASS	Atlas-SNP
CTIF	9811	hgsc.bcm.edu	37	18	46163049	46163049	+	Missense_Mutation	SNP	C	C	T	rs2277712	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	49	100	0	0.5	0	A|0.000;C|0.956;T|0.044	0.044	strong	.	CTIF	102	.	NM_014772	exon3	c.C245T	p.P82L	CCCCCCCACAGCA	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	145011204	145011204	+	Silent	SNP	A	A	G	rs6993938	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	73	167	1	0.459119	0.00598802	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	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	197	106	197	1	0.538071	0.00507614	T|0.734;C|0.266	0.266	strong	.	FAM120AOS	13	.	NM_198841	exon3	c.A721G	p.K241E	TTTTCTTTGAGAC	.	PASS	Atlas-SNP
PREX2	80243	hgsc.bcm.edu	37	8	69143589	69143589	+	Silent	SNP	A	A	G	rs2280637	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	25	50	0	0.423729	0	A|0.724;G|0.276	0.276	strong	.	PREX2	614	.	NM_024870	exon40	c.A4797G	p.P1599P	CGAGCCACCTCCC	.	PASS	Atlas-SNP
PRSS16	10279	hgsc.bcm.edu	37	6	27216699	27216699	+	Missense_Mutation	SNP	G	G	T	rs5030965	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	72	107	0	0.549618	0	G|0.940;T|0.060	0.060	strong	.	PRSS16	66	.	NM_005865	exon3	c.G311T	p.S104I	AGGGCAGCCTTGG	.	PASS	Atlas-SNP
NBEAL2	23218	hgsc.bcm.edu	37	3	47033970	47033970	+	Silent	SNP	C	C	T	rs201015016	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	37	96	0	0.420455	0	C|0.998;T|0.002	0.002	weak	.	NBEAL2	267	.	NM_015175	exon10	c.C1038T	p.Y346Y	GCTGTACCTGCAG	.	PASS	Atlas-SNP
RFX5	5993	hgsc.bcm.edu	37	1	151315287	151315287	+	Missense_Mutation	SNP	G	G	C	rs2233854	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	72	102	0	0.489796	0	G|0.896;C|0.104	0.104	strong	.	RFX5	69	.	NM_000449	exon11	c.C1226G	p.P409R	CCCCGGGGCTGAG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	83	89	0	1	0	A|0.745;C|0.002	.	strong	.	HIVEP1	242	.	NM_002114	exon4	c.A417G	p.Q139Q	GCAGCAACCATCT	.	PASS	Atlas-SNP
CCDC114	93233	hgsc.bcm.edu	37	19	48806094	48806094	+	Missense_Mutation	SNP	C	C	T	rs35361179	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	47	95	0	0.505376	0	C|0.977;T|0.023	0.023	strong	CCDC114,caecum,carcinoma,-1,1	CCDC114	100	1	NM_144577	exon10	c.G986A	p.R329H	CTGGCACGTGCGC	.	PASS	Atlas-SNP
P2RY2	5029	hgsc.bcm.edu	37	11	72946279	72946279	+	Missense_Mutation	SNP	T	T	C	rs74472890	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	64	104	0	0.528926	0	T|0.971;C|0.029	0.029	strong	.	P2RY2	54	.	NM_176071	exon3	c.T1075C	p.S359P	GAGGACTCTAGGC	.	PASS	Atlas-SNP
EZH2	2146	hgsc.bcm.edu	37	7	148508727	148508727	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	24	46	0	0.421053	0	.	.	none	EZH2_ENST00000350995,face,carcinoma,-1,214	EZH2	823	214	NM_004456	exon16	c.A1937C	p.Y646S	CCACAGTATTCTG	.	PASS	Atlas-SNP
TUBD1	51174	hgsc.bcm.edu	37	17	57951973	57951973	+	Silent	SNP	G	G	A	rs2250526	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	66	199	0	0.404908	0	G|0.781;A|0.219	0.219	strong	TUBD1,NS,carcinoma,0,1	TUBD1	38	1	NM_016261	exon6	c.C861T	p.Y287Y	TGTGGTGTATGCC	.	PASS	Atlas-SNP
SACS	26278	hgsc.bcm.edu	37	13	23929842	23929842	+	Silent	SNP	T	T	C	rs41315020	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	258	125	172	0	0.484496	0	T|0.956;C|0.044	0.044	strong	SACS,NS,carcinoma,0,1	SACS	871	1	NM_014363	exon8	c.A909G	p.A303A	TGTGTCTGCATCT	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1103855	1103855	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	62	97	0	0.584906	0	.	.	none	.	MUC2	614	.	NM_002457	exon49	c.C8142T	p.V2714V	CCCCGTCACCACG	.	PASS	Atlas-SNP
LAMC1	3915	hgsc.bcm.edu	37	1	182993025	182993025	+	Silent	SNP	C	C	T	rs10911194	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	75	140	0	0.443787	0	C|0.512;T|0.488	0.488	strong	.	LAMC1	176	.	NM_002293	exon1	c.C174T	p.A58A	CGCCGCCTTCAAC	.	PASS	Atlas-SNP
TRUB1	142940	hgsc.bcm.edu	37	10	116719543	116719543	+	Missense_Mutation	SNP	G	G	A	rs7099565	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	87	106	0	1	0	G|0.500;A|0.500	0.500	strong	.	TRUB1	30	.	NM_139169	exon4	c.G500A	p.R167K	CGGGGAGGGTAAC	.	PASS	Atlas-SNP
OR6Y1	391112	hgsc.bcm.edu	37	1	158517353	158517353	+	Silent	SNP	G	G	A	rs16840314	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	73	112	0	0.462025	0	G|0.800;A|0.200	0.200	strong	.	OR6Y1	73	.	NM_001005189	exon1	c.C543T	p.H181H	AAAGTAGTGATTG	.	PASS	Atlas-SNP
FAM189B	10712	hgsc.bcm.edu	37	1	155217614	155217614	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	400	205	373	0	0.5125	0	.	.	none	.	FAM189B	51	.	NM_006589	exon12	c.A1966G	p.S656G	TGAGGCTGTGGGG	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31323116	31323116	+	Silent	SNP	C	C	T	rs1131446	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	15	98	0	0.0867052	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
FRG2B	441581	hgsc.bcm.edu	37	10	135438753	135438753	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	258	57	271	28	0.22093	0.103321	.	.	none	FRG2B,NS,carcinoma,0,3	FRG2B	47	3	NM_001080998	exon4	c.C687T	p.T229T	TGCCTGGGTGGCC	.	scavenged	Atlas-SNP
NKAIN2	154215	hgsc.bcm.edu	37	6	124604203	124604203	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	190	2	184	0	0.0105263	0	.	.	none	NKAIN2,NS,carcinoma,-1,1	NKAIN2	34	1	NM_153355	exon2	c.C107T	p.P36L	GGGCACCTATCCT	.	scavenged	Atlas-SNP
OR4N2	390429	hgsc.bcm.edu	37	14	20295834	20295834	+	Missense_Mutation	SNP	T	T	C	rs79065635		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	180	177	0	0.978261	0	.	.	weak	.	OR4N2	125	.	NM_001004723	exon1	c.T227C	p.I76T	CCTTCATTGTGGC	.	PASS	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	37	11	62290719	62290719	+	Missense_Mutation	SNP	A	A	G	rs11231128	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	62	101	0	0.466165	0	A|0.947;G|0.053	0.053	strong	.	AHNAK	532	.	NM_001620	exon5	c.T11170C	p.S3724P	CCTCTGAGCCTTC	.	PASS	Atlas-SNP
PDE9A	5152	hgsc.bcm.edu	37	21	44189166	44189166	+	Silent	SNP	T	T	C	rs1045382	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	80	196	0	0.42328	0	T|0.555;C|0.445	0.445	strong	.	PDE9A	69	.	NM_002606	exon17	c.T1491C	p.P497P	CCTTCCTGTGGCA	.	PASS	Atlas-SNP
ZNF688	146542	hgsc.bcm.edu	37	16	30582855	30582855	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	41	109	0	0.398058	0	.	.	none	.	ZNF688	37	.	NM_145271	exon1	c.C96T	p.A32A	GTACACGGCCACG	.	PASS	Atlas-SNP
SLC11A2	4891	hgsc.bcm.edu	37	12	51386017	51386017	+	Missense_Mutation	SNP	G	G	T	rs144863268	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	39	101	0	0.419355	0	G|0.998;T|0.002	0.002	strong	.	SLC11A2	51	.	NM_001174125	exon13	c.C1390A	p.L464I	CTGTTAGATGCTC	.	PASS	Atlas-SNP
ADCY2	108	hgsc.bcm.edu	37	5	7802363	7802363	+	Silent	SNP	C	C	T	rs2290910	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	95	88	0	1	0	C|0.772;T|0.228	0.228	strong	ADCY2,rectum,carcinoma,0,1	ADCY2	337	1	NM_020546	exon21	c.C2661T	p.C887C	CGTCTGCGTCATG	.	PASS	Atlas-SNP
PRUNE2	158471	hgsc.bcm.edu	37	9	79322711	79322711	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	45	83	0	0.45	0	.	.	none	.	PRUNE2	331	.	NM_015225	exon8	c.C4479T	p.D1493D	AGGGACGTCCCCA	.	PASS	Atlas-SNP
PPL	5493	hgsc.bcm.edu	37	16	4935146	4935146	+	Silent	SNP	C	C	T	rs1049206	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	76	124	0	0.562963	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
ZNF768	79724	hgsc.bcm.edu	37	16	30536672	30536672	+	Silent	SNP	A	A	G	rs3751847	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	46	107	0	0.484211	0	A|0.389;G|0.611	0.611	strong	.	ZNF768	28	.	NM_024671	exon2	c.T789C	p.C263C	GATGCCACAGATG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	70	130	0	0.534351	0	C|0.558;T|0.442	0.442	strong	.	UAP1L1	46	.	NM_207309	exon5	c.C956T	p.A319V	TACGTGCCTCCGA	.	PASS	Atlas-SNP
SMIM8	57150	hgsc.bcm.edu	37	6	88046818	88046818	+	Silent	SNP	A	A	G	rs138902411	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	39	89	0	0.573529	0	A|0.998;G|0.002	0.002	strong	.	.	.	.	NM_001042493	exon3	c.A69G	p.P23P	AAGCCCAGGGCTC	.	PASS	Atlas-SNP
RADIL	55698	hgsc.bcm.edu	37	7	4874250	4874250	+	Silent	SNP	G	G	A	rs76862906	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	49	106	0	0.505155	0	G|0.921;A|0.079	0.079	strong	.	RADIL	110	.	NM_018059	exon4	c.C1404T	p.R468R	AGTCTCGCGGATC	.	PASS	Atlas-SNP
TULP2	7288	hgsc.bcm.edu	37	19	49391404	49391404	+	Missense_Mutation	SNP	C	C	T	rs8112811	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	81	127	0	0.529412	0	C|0.790;T|0.210	0.210	strong	.	TULP2	60	.	NM_003323	exon8	c.G751A	p.D251N	TATGGTCGCTGTC	.	PASS	Atlas-SNP
AMDHD2	51005	hgsc.bcm.edu	37	16	2580755	2580755	+	Missense_Mutation	SNP	G	G	C	rs76722821	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	32	54	0	0.5	0	G|0.990;C|0.010	0.010	strong	.	AMDHD2	33	.	NM_001145815	exon11	c.G1780C	p.A594P	GGCCTCGCCTGAG	.	PASS	Atlas-SNP
SPATA20	64847	hgsc.bcm.edu	37	17	48625928	48625928	+	Missense_Mutation	SNP	C	C	G	rs8076632	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	43	20	32	0	0.465116	0	C|0.583;G|0.417	0.417	strong	SPATA20,NS,carcinoma,0,1	SPATA20	59	1	NM_022827	exon4	c.C310G	p.Q104E	TGGGGACAGGAAG	.	PASS	Atlas-SNP
VIPR1	7433	hgsc.bcm.edu	37	3	42568929	42568929	+	Silent	SNP	T	T	C	rs2229722	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	49	77	0	0.576471	0	T|0.722;C|0.278	0.278	strong	.	VIPR1	45	.	NM_004624	exon5	c.T444C	p.I148I	CACCATTGGCTAC	.	PASS	Atlas-SNP
FRG1	2483	hgsc.bcm.edu	37	4	190878589	190878589	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	6	172	3	0.0314136	0.0174419	.	.	none	FRG1,NS,carcinoma,0,1	FRG1	76	1	NM_004477	exon6	c.A469G	p.I157V	TGCTTTATTAGAT	.	scavenged	Atlas-SNP
HLA-DPA1	3113	hgsc.bcm.edu	37	6	33036951	33036951	+	Missense_Mutation	SNP	A	A	G	rs2308930	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	45	101	0	0.401786	0	A|0.698;G|0.302	0.302	strong	.	HLA-DPA1	20	.	NM_033554	exon3	c.T473C	p.L158P	GTGACCAGCTCCC	.	PASS	Atlas-SNP
NRCAM	4897	hgsc.bcm.edu	37	7	107800936	107800936	+	Silent	SNP	C	C	T	rs17155094	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	66	118	0	0.481752	0	C|0.975;T|0.025	0.025	strong	.	NRCAM	267	.	NM_001037132	exon28	c.G3468A	p.A1156A	TGCCATCGCTGGA	.	PASS	Atlas-SNP
ZFPM2	23414	hgsc.bcm.edu	37	8	106814029	106814029	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	93	125	0	0.502703	0	.	.	none	.	ZFPM2	219	.	NM_012082	exon8	c.C1719A	p.S573R	CAGCAGCCGATGG	.	PASS	Atlas-SNP
CARS2	79587	hgsc.bcm.edu	37	13	111293915	111293915	+	Missense_Mutation	SNP	T	T	G	rs1043886	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	197	89	161	0	0.451777	0	T|0.901;G|0.099	0.099	strong	.	CARS2	37	.	NM_024537	exon15	c.A1664C	p.Q555P	GTCCTTTGATCCA	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100682571	100682571	+	Missense_Mutation	SNP	T	T	C	rs142739196	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	13	95	0	0.240741	0	T|0.993;C|0.007	0.007	strong	.	MUC17	804	.	NM_001040105	exon3	c.T7874C	p.I2625T	TGCCAATCTCAAC	.	PASS	Atlas-SNP
H6PD	9563	hgsc.bcm.edu	37	1	9307033	9307033	+	Silent	SNP	G	G	A	rs7524046	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	54	105	0	0.495413	0	G|0.772;A|0.228	0.228	strong	.	H6PD	71	.	NM_004285	exon3	c.G636A	p.A212A	TGTGGCGCAGATC	.	PASS	Atlas-SNP
IGSF9B	22997	hgsc.bcm.edu	37	11	133815981	133815981	+	Silent	SNP	C	C	G	rs10894768	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	36	114	0	0.276923	0	C|0.633;G|0.367	0.367	strong	.	IGSF9B	290	.	NM_014987	exon2	c.G237C	p.P79P	GTGCGGCGGGTAG	.	PASS	Atlas-SNP
SLC35G5	83650	hgsc.bcm.edu	37	8	11189215	11189215	+	Silent	SNP	C	C	A	rs151245433	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	25	111	0	0.144509	0	C|0.988;A|0.011	0.011	strong	AMAC1L2,NS,carcinoma,0,1	.	.	1	NM_054028	exon1	c.C600A	p.G200G	GGGAGGCCTGGCG	.	PASS	Atlas-SNP
KCNJ9	3765	hgsc.bcm.edu	37	1	160057522	160057522	+	Missense_Mutation	SNP	C	C	T	rs3001040	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	34	9	25	0	0.264706	0	C|0.709;T|0.291	0.291	strong	.	KCNJ9	35	.	NM_004983	exon3	c.C1097T	p.A366V	AGGGGGCGGGGGA	.	PASS	Atlas-SNP
ZNF516	9658	hgsc.bcm.edu	37	18	74091541	74091541	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	2	151	0	0.0114943	0	.	.	none	ZNF516,NS,carcinoma,-1,2	ZNF516	102	2	NM_014643	exon4	c.G2529A	p.G843G	CGGCATCCCCCCT	.	scavenged	Atlas-SNP
PICALM	8301	hgsc.bcm.edu	37	11	85692181	85692181	+	Silent	SNP	A	A	C	rs76719109	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	50	137	0	0.458716	0	A|0.399;C|0.601	0.601	strong	PICALM,colon,carcinoma,0,4	PICALM	82	4	NM_007166	exon17	c.T1770G	p.A590A	TGTTGCAGCATTC	.	PASS	Atlas-SNP
MICAL2	9645	hgsc.bcm.edu	37	11	12225946	12225946	+	Silent	SNP	T	T	G	rs3763823	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	123	85	0	1	0	T|0.332;G|0.668	0.668	strong	MICAL2,colon,carcinoma,0,2	MICAL2	114	2	NM_014632	exon4	c.T414G	p.R138R	CCTTCGTGGCCTG	.	PASS	Atlas-SNP
BLM	641	hgsc.bcm.edu	37	15	91354505	91354505	+	Silent	SNP	C	C	T	rs1063147	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	69	109	0	0.543307	0	C|0.847;T|0.153	0.153	strong	.	BLM	122	.	NM_000057	exon21	c.C3945T	p.L1315L	GGAGCTCGACGAG	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225211422	225211422	+	Missense_Mutation	SNP	T	T	C	rs75568712	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	280	133	284	0	0.475	0	T|0.955;C|0.045	0.045	strong	.	DNAH14	300	.	NM_001373	exon11	c.T1213C	p.F405L	ACATTTTTCAAGT	.	PASS	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	37	1	22214127	22214127	+	Silent	SNP	A	A	G	rs2229478	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	221	114	202	1	0.515837	0.00495049	A|0.549;G|0.451	0.451	strong	.	HSPG2	311	.	NM_005529	exon8	c.T744C	p.L248L	CTCCACAAGGAGA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	66	95	0	0.488889	0	A|0.636;T|0.364	0.364	strong	.	KRTAP13-2	29	.	NM_181621	exon1	c.T405A	p.C135X	GAAGCCACAGCTT	.	PASS	Atlas-SNP
PTGFR	5737	hgsc.bcm.edu	37	1	78958491	78958491	+	Silent	SNP	C	C	T	rs35227129	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	81	95	0	0.50625	0	C|0.937;T|0.063	0.063	strong	.	PTGFR	121	.	NM_000959	exon2	c.C63T	p.T21T	CACAACCTGCCAG	.	PASS	Atlas-SNP
UBXN2B	137886	hgsc.bcm.edu	37	8	59329438	59329438	+	Silent	SNP	A	A	G	rs13277646	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	21	85	0	0.313433	0	A|0.746;G|0.254	0.254	strong	.	UBXN2B	36	.	NM_001077619	exon2	c.A114G	p.E38E	AGATGAAGTGAAG	.	PASS	Atlas-SNP
DCLRE1C	64421	hgsc.bcm.edu	37	10	14976727	14976727	+	Missense_Mutation	SNP	G	G	C	rs35441642	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	61	178	0	0.412162	0	G|0.900;C|0.100	0.100	strong	DCLRE1C_ENST00000378278,NS,carcinoma,0,1	DCLRE1C	136	1	NM_001033855	exon7	c.C512G	p.P171R	AATCTTGGATCAC	.	PASS	Atlas-SNP
CLDN14	23562	hgsc.bcm.edu	37	21	37833307	37833307	+	Silent	SNP	C	C	T	rs219780	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	215	88	181	0	0.409302	0	C|0.804;T|0.196	0.196	strong	.	CLDN14	25	.	NM_144492	exon3	c.G687A	p.T229T	GCTGTGCGTGGCC	.	PASS	Atlas-SNP
PACSIN2	11252	hgsc.bcm.edu	37	22	43278220	43278220	+	Silent	SNP	C	C	T	rs2899365	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	95	89	0	0.989583	0	C|0.642;T|0.358	0.358	strong	.	PACSIN2	48	.	NM_007229	exon7	c.G876A	p.P292P	CATGCCCGGCCCG	.	PASS	Atlas-SNP
OR14I1	401994	hgsc.bcm.edu	37	1	248844959	248844959	+	Missense_Mutation	SNP	T	T	C	rs55871516	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	46	78	0	0.45098	0	T|0.871;C|0.129	0.129	strong	OR14I1,right_lower_lobe,carcinoma,-1,2	OR14I1	64	2	NM_001004734	exon1	c.A647G	p.Y216C	TGGAAATAGGAGA	.	PASS	Atlas-SNP
MYLK4	340156	hgsc.bcm.edu	37	6	2749381	2749381	+	Missense_Mutation	SNP	C	C	T	rs2296356	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	60	120	0	0.441176	0	C|0.865;T|0.135	0.135	strong	.	MYLK4	74	.	NM_001012418	exon2	c.G148A	p.G50R	TATGTCCAGATCT	.	PASS	Atlas-SNP
COL10A1	1300	hgsc.bcm.edu	37	6	116441470	116441470	+	Silent	SNP	C	C	G	rs2228548	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	75	176	0	0.390625	0	C|0.955;G|0.045	0.045	strong	.	COL10A1	51	.	NM_000493	exon3	c.G1809C	p.V603V	CACATGCACGTGG	.	PASS	Atlas-SNP
SLFNL1	200172	hgsc.bcm.edu	37	1	41485902	41485902	+	Missense_Mutation	SNP	C	C	G	rs3738368	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	39	83	0	0.481481	0	C|0.777;G|0.222	0.222	strong	.	SLFNL1	37	.	NM_001168247	exon3	c.G431C	p.R144T	ACCTCTCTGTGGC	.	PASS	Atlas-SNP
FAM171A2	284069	hgsc.bcm.edu	37	17	42437000	42437000	+	Missense_Mutation	SNP	G	G	A	rs71371993	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	53	28	41	0	0.528302	0	G|0.915;A|0.085	0.085	strong	.	FAM171A2	13	.	NM_198475	exon3	c.C386T	p.P129L	GTGGCCGGCCGCT	.	PASS	Atlas-SNP
TCOF1	6949	hgsc.bcm.edu	37	5	149763305	149763305	+	Missense_Mutation	SNP	A	A	G	rs7715100	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	237	113	233	0	0.476793	0	A|0.847;G|0.153	0.153	strong	.	TCOF1	154	.	NM_001008657	exon18	c.A2864G	p.Q955R	AGGACCAGGAGTC	.	PASS	Atlas-SNP
SERPING1	710	hgsc.bcm.edu	37	11	57381989	57381989	+	Missense_Mutation	SNP	G	G	A	rs4926	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	80	118	0	0.512821	0	G|0.799;A|0.200	0.200	strong	.	SERPING1	57	.	NM_001032295	exon7	c.G1438A	p.V480M	CTCTTCGTGCTCT	.	PASS	Atlas-SNP
RASGRF1	5923	hgsc.bcm.edu	37	15	79277511	79277511	+	Silent	SNP	A	A	G	rs2230518	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	144	155	0	0.993103	0	T|0.132;G|0.239;C|0.053;N|0.000;A|0.576	0.239	strong	.	RASGRF1	168	.	NM_002891	exon24	c.T3300C	p.N1100N	GTCCTCATTGCGG	.	PASS	Atlas-SNP
WDFY4	57705	hgsc.bcm.edu	37	10	50013402	50013402	+	Missense_Mutation	SNP	T	T	C	rs2170132	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	30	29	0	1	0	T|0.443;C|0.557	0.557	strong	.	WDFY4	205	.	NM_020945	exon26	c.T4582C	p.S1528P	AAGATCTCCACCA	.	PASS	Atlas-SNP
ZNF772	400720	hgsc.bcm.edu	37	19	57984918	57984918	+	Silent	SNP	A	A	G	rs2074058	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	22	43	0	0.392857	0	A|0.659;G|0.341	0.341	strong	.	ZNF772	42	.	NM_001024596	exon5	c.T1194C	p.S398S	ATGAACACTCCAA	.	PASS	Atlas-SNP
CRLF1	9244	hgsc.bcm.edu	37	19	18710535	18710535	+	Silent	SNP	G	G	A	rs2238647	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	196	93	173	0	0.47449	0	G|0.781;A|0.219	0.219	strong	.	CRLF1	32	.	NM_004750	exon2	c.C237T	p.N79N	GCGCCCGTTGAGG	.	PASS	Atlas-SNP
PLXNB3	5365	hgsc.bcm.edu	37	X	153041544	153041544	+	Missense_Mutation	SNP	T	T	C	rs5987155	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	36	25	0	1	0	T|0.184;C|0.816	0.816	strong	.	PLXNB3	208	.	NM_001163257	exon28	c.T4673C	p.M1558T	GCGAGATGCAGCG	.	PASS	Atlas-SNP
RHPN2	85415	hgsc.bcm.edu	37	19	33517507	33517507	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	5	15	1	0.128205	0.0666667	.	.	none	RHPN2,face,carcinoma,0,2	RHPN2	107	2	NM_033103	exon3	c.G217A	p.V73M	GCCGCACTTGCTC	.	scavenged	Atlas-SNP
TRIM4	89122	hgsc.bcm.edu	37	7	99500899	99500899	+	Silent	SNP	T	T	C	rs2247762	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	82	109	0	0.987952	0	T|0.658;C|0.342	0.342	strong	.	TRIM4	33	.	NM_033017	exon6	c.A861G	p.V287V	CACCTTTACAGCT	.	PASS	Atlas-SNP
KCNG4	93107	hgsc.bcm.edu	37	16	84256103	84256103	+	Missense_Mutation	SNP	C	C	T	rs35649980	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	65	117	0	0.471014	0	C|0.935;T|0.065	0.065	strong	.	KCNG4	71	.	NM_172347	exon3	c.G1280A	p.R427H	ACACTGCGGGGCA	.	PASS	Atlas-SNP
LAMA2	3908	hgsc.bcm.edu	37	6	129371106	129371106	+	Silent	SNP	C	C	T	rs1140366	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	259	130	173	0	0.50193	0	C|0.907;T|0.093	0.093	strong	.	LAMA2	481	.	NM_000426	exon2	c.C156T	p.I52I	TCTTATCACGACC	.	PASS	Atlas-SNP
DTX2	113878	hgsc.bcm.edu	37	7	76131650	76131650	+	Silent	SNP	G	G	A	rs6958774	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	53	153	0	0.33758	0	G|0.701;A|0.299	0.299	strong	.	DTX2	64	.	NM_001102594	exon8	c.G1266A	p.A422A	CACAGCGTCTGGA	.	PASS	Atlas-SNP
TMEM232	642987	hgsc.bcm.edu	37	5	109960989	109960989	+	Silent	SNP	A	A	G	rs61730920	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	292	126	323	0	0.431507	0	A|0.859;G|0.141	0.141	strong	.	TMEM232	57	.	NM_001039763	exon7	c.T747C	p.Y249Y	GTTCTCATATCTT	.	PASS	Atlas-SNP
NFAT5	10725	hgsc.bcm.edu	37	16	69727273	69727273	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	3	133	0	0.0182927	0	.	.	none	NFAT5_ENST00000432919,NS,carcinoma,-1,2	NFAT5	184	2	NM_138713	exon13	c.C3545T	p.P1182L	CAGCACCGAACTC	.	scavenged	Atlas-SNP
CSPG4	1464	hgsc.bcm.edu	37	15	75970070	75970070	+	Missense_Mutation	SNP	C	C	T	rs8023621	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	80	130	0	0.610687	0	C|0.707;T|0.293	0.293	strong	.	CSPG4	175	.	NM_001897	exon9	c.G5108A	p.R1703H	CTGGGGCGCTGGG	.	PASS	Atlas-SNP
TPRN	286262	hgsc.bcm.edu	37	9	140094306	140094306	+	Silent	SNP	G	G	A	rs375619082		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	49	138	0	0.4375	0	.	.	weak	.	TPRN	28	.	NM_001128228	exon1	c.C858T	p.C286C	GGAGACGCACTGG	.	PASS	Atlas-SNP
OR51S1	119692	hgsc.bcm.edu	37	11	4869649	4869649	+	Missense_Mutation	SNP	G	G	A	rs12361955	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	157	127	2	0.993671	0.015748	G|0.658;A|0.342	0.342	strong	OR51S1,NS,carcinoma,+2,1	OR51S1	83	1	NM_001004758	exon1	c.C790T	p.L264F	CCAGGAGGATCAT	.	scavenged	Atlas-SNP
TAPBPL	55080	hgsc.bcm.edu	37	12	6562293	6562293	+	Missense_Mutation	SNP	C	C	T	rs2041385	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	39	107	0	0.433333	0	C|0.784;T|0.216	0.216	strong	.	TAPBPL	21	.	NM_018009	exon2	c.C125T	p.A42V	TCCTGGCGAAGGA	.	PASS	Atlas-SNP
ADAMTS2	9509	hgsc.bcm.edu	37	5	178634547	178634547	+	Silent	SNP	G	G	A	rs66565583	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	193	95	150	0	0.492228	0	G|0.834;A|0.166	0.166	strong	.	ADAMTS2	190	.	NM_021599	exon4	c.C858T	p.H286H	CTGTACGTGCTCC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179421694	179421694	+	Missense_Mutation	SNP	A	A	G	rs9808377	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	109	191	0	0.536946	0	A|0.549;G|0.451	0.451	strong	.	TTN	18412	.	NM_001267550	exon330	c.T88187C	p.I29396T	GAGATGATGAATT	.	PASS	Atlas-SNP
SRPK1	6732	hgsc.bcm.edu	37	6	35803192	35803192	+	Silent	SNP	C	C	A	rs1049649	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	63	147	0	0.470149	0	C|0.707;A|0.293	0.293	strong	.	SRPK1	61	.	NM_003137	exon16	c.G1857T	p.S619S	TTCCTGCGACCAC	.	PASS	Atlas-SNP
BEST1	7439	hgsc.bcm.edu	37	11	61730553	61730553	+	Missense_Mutation	SNP	T	T	C	rs17185413	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	66	145	0	0.481752	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
WNK2	65268	hgsc.bcm.edu	37	9	96055063	96055063	+	Silent	SNP	C	C	T	rs41278286	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	98	133	0	0.510417	0	C|0.672;T|0.328	0.328	strong	WNK2_ENST00000297954,colon,carcinoma,+2,4	WNK2	277	4	NM_006648	exon22	c.C5316T	p.D1772D	ACCCGACGTCTAC	.	PASS	Atlas-SNP
CNGA2	1260	hgsc.bcm.edu	37	X	150909307	150909307	+	Missense_Mutation	SNP	G	G	T	rs35350051	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	173	94	0	0.982955	0	G|0.898;T|0.102	0.102	strong	.	CNGA2	136	.	NM_005140	exon5	c.G416T	p.W139L	GGGATTGGTACTA	.	PASS	Atlas-SNP
NOP9	161424	hgsc.bcm.edu	37	14	24773387	24773387	+	Silent	SNP	T	T	C	rs2144494	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	37	63	0	0.435294	0	T|0.835;C|0.165	0.165	strong	.	.	.	.	NM_174913	exon8	c.T1551C	p.L517L	GTCCCTTGCCCAA	.	PASS	Atlas-SNP
VCAN	1462	hgsc.bcm.edu	37	5	82834299	82834299	+	Missense_Mutation	SNP	G	G	A	rs188703	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	110	103	0	1	0	G|0.623;A|0.377	0.377	strong	VCAN,NS,carcinoma,-1,1	VCAN	498	1	NM_004385	exon8	c.G5477A	p.R1826H	TCCCACGTAGTCC	.	PASS	Atlas-SNP
ZPBP	11055	hgsc.bcm.edu	37	7	50097697	50097697	+	Silent	SNP	A	A	G	rs76027725	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	170	98	165	0	0.576471	0	A|0.965;G|0.035	0.035	strong	.	ZPBP	65	.	NM_007009	exon4	c.T375C	p.L125L	GAATACAAGGCTT	.	PASS	Atlas-SNP
TP53BP2	7159	hgsc.bcm.edu	37	1	223989966	223989966	+	Silent	SNP	C	C	T	rs1153933	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	60	84	0	0.545455	0	C|0.815;N|0.000	.	strong	.	TP53BP2	144	.	NM_001031685	exon9	c.G1077A	p.S359S	AGTAGACGACTGG	.	PASS	Atlas-SNP
RFXANK	8625	hgsc.bcm.edu	37	19	19304899	19304899	+	Missense_Mutation	SNP	G	G	C	rs34282046	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	69	153	0	0.492857	0	G|0.957;C|0.043	0.043	strong	.	RFXANK	31	.	NM_003721	exon3	c.G144C	p.E48D	CCCTGAGCCTGTG	.	PASS	Atlas-SNP
ANAPC1	64682	hgsc.bcm.edu	37	2	112551673	112551673	+	Silent	SNP	G	G	A	rs2249027	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	24	24	248	0	1	0	G|0.500;A|0.500	0.500	strong	ANAPC1,NS,carcinoma,0,2	ANAPC1	116	2	NM_022662	exon37	c.C4500T	p.S1500S	AGGTGCGGACAAA	.	scavenged	Atlas-SNP
MEP1A	4224	hgsc.bcm.edu	37	6	46806809	46806809	+	Missense_Mutation	SNP	C	C	T	rs1804211	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	205	110	187	0	0.536585	0	C|0.738;T|0.262	0.262	strong	.	MEP1A	93	.	NM_005588	exon14	c.C2177T	p.T726M	GAGGCACGGCTGG	.	PASS	Atlas-SNP
OTOF	9381	hgsc.bcm.edu	37	2	26700700	26700700	+	Missense_Mutation	SNP	G	G	A	rs4665855	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	266	124	182	1	0.466165	0.00549451	G|0.410;A|0.590	0.590	strong	OTOF_ENST00000402415,NS,carcinoma,0,2	OTOF	524	2	NM_194322	exon1	c.C62T	p.P21L	ATCAGGGGAGTGA	.	scavenged	Atlas-SNP
NWD1	284434	hgsc.bcm.edu	37	19	16872794	16872794	+	Silent	SNP	C	C	T	rs61995711	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	44	75	0	0.44898	0	C|0.986;T|0.014	0.014	strong	.	NWD1	303	.	NM_001007525	exon8	c.C1978T	p.L660L	AGACAGCTGGTCG	.	PASS	Atlas-SNP
HTN3	3347	hgsc.bcm.edu	37	4	70898907	70898907	+	Silent	SNP	C	C	T	rs1849937	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	62	157	0	0.385093	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
WDR52	55779	hgsc.bcm.edu	37	3	113128051	113128051	+	Silent	SNP	G	G	T	rs13059888	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	46	129	0	0.446602	0	G|0.919;T|0.081	0.081	strong	.	WDR52	151	.	NM_001164496	exon7	c.C792A	p.P264P	TAGTATGGGTTGT	.	PASS	Atlas-SNP
FTSJ3	117246	hgsc.bcm.edu	37	17	61901197	61901197	+	Missense_Mutation	SNP	T	T	A	rs2727288	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	84	181	0	0.439791	0	T|0.319;A|0.681	0.681	strong	.	FTSJ3	63	.	NM_017647	exon13	c.A1270T	p.S424C	TGGTGCTCAAGGA	.	PASS	Atlas-SNP
OR1S1	219959	hgsc.bcm.edu	37	11	57982763	57982763	+	Missense_Mutation	SNP	A	A	G	rs61763008	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	209	44	271	1	0.210526	0.00369004	A|0.671;G|0.329	0.329	strong	OR1S1,NS,carcinoma,0,2	OR1S1	139	2	NM_001004458	exon1	c.A547G	p.N183D	TTCTGTAACCACA	.	scavenged	Atlas-SNP
LZTS3	0	hgsc.bcm.edu	37	20	3147744	3147744	+	Silent	SNP	G	G	A	rs151258888	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	27	17	35	0	0.62963	0	G|0.988;A|0.012	0.012	strong	ProSAPiP1,NS,carcinoma,0,2	.	.	2	NM_014731	exon1	c.C66T	p.A22A	CCGTGGGGCAAAG	.	PASS	Atlas-SNP
RABGGTA	5875	hgsc.bcm.edu	37	14	24736027	24736027	+	Silent	SNP	G	G	A	rs14193	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	85	162	0	0.438144	0	T|0.000;G|0.465;A|0.534	0.534	strong	.	RABGGTA	43	.	NM_004581	exon14	c.C1422T	p.R474R	TCGGAGGCGATTG	.	PASS	Atlas-SNP
BTNL2	56244	hgsc.bcm.edu	37	6	32370908	32370908	+	Silent	SNP	T	T	A	rs59129682	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	54	106	0	0.486486	0	T|0.894;A|0.106	0.106	strong	BTNL2,NS,adenoma,0,1	BTNL2	50	1	NM_019602	exon3	c.A513T	p.P171P	GGGCTCTGGGAAC	.	PASS	Atlas-SNP
KIF13A	63971	hgsc.bcm.edu	37	6	17781450	17781450	+	Silent	SNP	G	G	A	rs942376	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	47	42	0	1	0	G|0.825;A|0.175	0.175	strong	.	KIF13A	276	.	NM_001105566	exon30	c.C3627T	p.S1209S	AAACTGGCTGCCA	.	PASS	Atlas-SNP
HOMER3	9454	hgsc.bcm.edu	37	19	19049198	19049198	+	Silent	SNP	G	G	A	rs1064351	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	174	132	0	0.983051	0	G|0.682;A|0.318	0.318	strong	.	HOMER3	19	.	NM_001145722	exon4	c.C267T	p.Y89Y	CAGGCCGTAGACT	.	PASS	Atlas-SNP
TRPV2	51393	hgsc.bcm.edu	37	17	16325968	16325968	+	Silent	SNP	A	A	G	rs8121	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	66	120	1	0.545455	0.00833333	A|0.561;G|0.439	0.439	strong	TRPV2,right_upper_lobe,carcinoma,+1,2	TRPV2	74	2	NM_016113	exon4	c.A390G	p.G130G	GGACGGAGTCAAT	.	scavenged	Atlas-SNP
ADTRP	84830	hgsc.bcm.edu	37	6	11714728	11714728	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	306	3	290	0	0.00980392	0	.	.	none	C6orf105,bladder,carcinoma,+1,1	ADTRP	3	1	NM_001143948	exon7	c.C730T	p.R244W	TCTTCCGTGGCTG	.	scavenged	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144992552	144992552	+	Missense_Mutation	SNP	G	G	A	rs201666443	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	28	11	27	0	0.392857	0	.	.	weak	.	PLEC	1144	.	NM_201380	exon32	c.C11848T	p.R3950C	CCAGGCGGGGGTC	.	PASS	Atlas-SNP
OR2A25	392138	hgsc.bcm.edu	37	7	143771536	143771536	+	Missense_Mutation	SNP	G	G	A	rs6951485	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	65	134	0	0.424837	0	G|0.399;A|0.601	0.601	strong	.	OR2A25	66	.	NM_001004488	exon1	c.G224A	p.S75N	CTTGCAGCACGGT	.	PASS	Atlas-SNP
EMR1	2015	hgsc.bcm.edu	37	19	6921868	6921868	+	Missense_Mutation	SNP	G	G	A	rs7256147	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	63	148	0	0.42	0	G|0.783;A|0.217	0.217	strong	.	EMR1	153	.	NM_001256253	exon14	c.G1765A	p.V589I	CTTGCCGTTATCA	.	PASS	Atlas-SNP
PRDM2	7799	hgsc.bcm.edu	37	1	14105946	14105946	+	Silent	SNP	T	T	C	rs61747661	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	61	125	0	0.465649	0	T|0.983;C|0.017	0.017	strong	PRDM2,NS,carcinoma,+1,1	PRDM2	147	1	NM_015866	exon8	c.T1656C	p.D552D	AGATGATGTGTAC	.	PASS	Atlas-SNP
HINT3	135114	hgsc.bcm.edu	37	6	126278230	126278230	+	Missense_Mutation	SNP	G	G	C	rs2295005	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	45	83	0	0.416667	0	G|0.358;C|0.642	0.642	strong	HINT3,NS,carcinoma,0,1	HINT3	14	1	NM_138571	exon1	c.G107C	p.G36A	CCGCTGGCAAGTC	.	PASS	Atlas-SNP
PGAP1	80055	hgsc.bcm.edu	37	2	197781288	197781288	+	Missense_Mutation	SNP	T	T	C	rs142320636	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	58	119	0	0.453125	0	T|0.999;C|0.001	0.001	strong	.	PGAP1	84	.	NM_024989	exon3	c.A331G	p.K111E	CTGCTTTTCTAAG	.	PASS	Atlas-SNP
PCDHGA1	56114	hgsc.bcm.edu	37	5	140712299	140712299	+	Missense_Mutation	SNP	A	A	T	rs62378404	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	81	218	0	0.468208	0	A|0.958;T|0.042	0.042	strong	.	PCDHGA1	397	.	NM_018912	exon1	c.A2048T	p.K683I	CCGCCAAACCCAA	.	PASS	Atlas-SNP
ROBO4	54538	hgsc.bcm.edu	37	11	124767125	124767125	+	Silent	SNP	G	G	A	rs73016370	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	43	55	0	0.511905	0	G|0.919;A|0.081	0.081	strong	.	ROBO4	130	.	NM_019055	exon2	c.C103T	p.L35L	GGACTAGGATCTG	.	PASS	Atlas-SNP
FAM208A	23272	hgsc.bcm.edu	37	3	56667682	56667682	+	Missense_Mutation	SNP	G	G	C	rs9835332	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	75	58	0	1	0	G|0.365;C|0.635	0.635	strong	.	FAM208A	113	.	NM_001112736	exon18	c.C3137G	p.T1046R	GAAACTGTACTGA	.	PASS	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	37	8	110447512	110447512	+	Missense_Mutation	SNP	G	G	C	rs142972518	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	222	102	167	0	0.459459	0	G|0.986;C|0.014	0.014	strong	.	PKHD1L1	522	.	NM_177531	exon29	c.G3434C	p.G1145A	ATGTAGGGGGTGA	.	PASS	Atlas-SNP
CASP7	840	hgsc.bcm.edu	37	10	115489152	115489152	+	Missense_Mutation	SNP	C	C	G	rs2227310	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	41	98	0	0.465909	0	C|0.761;G|0.239	0.239	strong	.	CASP7	21	.	NM_001267057	exon7	c.C1020G	p.D340E	AAAAGACCTGGAA	.	PASS	Atlas-SNP
KIAA1683	80726	hgsc.bcm.edu	37	19	18368810	18368810	+	Missense_Mutation	SNP	G	G	T	rs999813	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	54	105	1	0.473684	0.00952381	G|0.473;T|0.527	0.527	strong	KIAA1683_ENST00000392413,NS,carcinoma,0,2	KIAA1683	190	2	NM_001145304	exon4	c.C3284A	p.P1095H	CTGGGAGGCACCA	.	scavenged	Atlas-SNP
TRIM67	440730	hgsc.bcm.edu	37	1	231344908	231344908	+	Missense_Mutation	SNP	A	A	G	rs114415891	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	263	127	230	1	0.48289	0.00434783	A|0.990;G|0.010	0.010	strong	TRIM67_ENST00000366653,colon,carcinoma,-1,7	TRIM67	160	7	NM_001004342	exon8	c.A2035G	p.M679V	AAGGACATGATGC	.	PASS	Atlas-SNP
C19orf44	84167	hgsc.bcm.edu	37	19	16612011	16612011	+	Silent	SNP	T	T	C	rs728117	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	36	74	0	0.473684	0	T|0.663;C|0.337	0.337	strong	.	C19orf44	47	.	NM_032207	exon2	c.T408C	p.S136S	CCTCTCTGGGGGT	.	PASS	Atlas-SNP
ATP8B3	148229	hgsc.bcm.edu	37	19	1783185	1783185	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	67	136	0	0.462069	0	.	.	none	ATP8B3,caecum,carcinoma,0,1	ATP8B3	108	1	NM_138813	exon29	c.C3745T	p.R1249C	TGGAACGGCGGGC	.	PASS	Atlas-SNP
UBASH3B	84959	hgsc.bcm.edu	37	11	122659918	122659918	+	Silent	SNP	T	T	G	rs955051	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	55	128	1	0.398551	0.0078125	A|0.005;C|0.000	.	strong	UBASH3B,NS,carcinoma,0,1	UBASH3B	73	1	NM_032873	exon6	c.T882G	p.G294G	CGAGGGTTGGATC	.	scavenged	Atlas-SNP
EML5	161436	hgsc.bcm.edu	37	14	89206861	89206861	+	Missense_Mutation	SNP	G	G	A	rs139652502	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	234	114	243	0	0.487179	0	G|0.994;A|0.006	0.006	strong	EML5,colon,NS,+1,1	EML5	141	1	NM_183387	exon5	c.C581T	p.T194M	TCACCCGTCTTAC	.	PASS	Atlas-SNP
ITGA2	3673	hgsc.bcm.edu	37	5	52379277	52379277	+	Silent	SNP	C	C	T	rs2303122	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	60	89	1	0.521739	0.011236	T|0.351;G|0.004	0.351	strong	ITGA2,colon,carcinoma,0,1	ITGA2	211	1	NM_002203	exon27	c.C3252T	p.F1084F	GACTTTCGCATCA	.	scavenged	Atlas-SNP
FARP2	9855	hgsc.bcm.edu	37	2	242371101	242371101	+	Missense_Mutation	SNP	C	C	T	rs757978	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	38	82	0	0.426966	0	C|0.901;T|0.099	0.099	strong	.	FARP2	92	.	NM_014808	exon9	c.C779T	p.T260I	GCACCACCAAAAT	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239827	31239827	+	Missense_Mutation	SNP	C	C	T	rs2308525	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	78	140	0	0.962963	0	C|0.297;T|0.703	0.703	strong	.	HLA-C	92	.	NM_002117	exon1	c.G22A	p.A8T	GGAGGGCTCGGGG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	110	102	0	0.887097	0	C|0.328;T|0.672	0.672	strong	.	HOXA7	34	.	NM_006896	exon1	c.G52A	p.A18T	GAGAAGCCCCCGC	.	PASS	Atlas-SNP
CFH	3075	hgsc.bcm.edu	37	1	196659237	196659237	+	Missense_Mutation	SNP	C	C	T	rs1061170	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	394	203	390	1	0.515228	0.0025641	C|0.341;T|0.659	0.659	strong	CFH,NS,carcinoma,0,1	CFH	251	1	NM_001014975	exon9	c.C1204T	p.H402Y	CAAAATCATGGAA	.	PASS	Atlas-SNP
KIAA1804	0	hgsc.bcm.edu	37	1	233489617	233489617	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	218	3	170	1	0.0137615	0.00588235	.	.	none	KIAA1804,NS,carcinoma,-1,1	KIAA1804	129	1	NM_032435	exon3	c.G1051A	p.A351T	GGCCTCGCCGTGG	.	scavenged	Atlas-SNP
DAAM1	23002	hgsc.bcm.edu	37	14	59789892	59789892	+	Silent	SNP	G	G	T	rs17096074	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	46	126	0	0.46	0	G|0.945;T|0.055	0.055	strong	DAAM1,NS,carcinoma,+2,1	DAAM1	95	1	NM_001270520	exon6	c.G723T	p.L241L	GGTTCTGCAGGCC	.	PASS	Atlas-SNP
CRHR1	1394	hgsc.bcm.edu	37	17	43907896	43907896	+	Silent	SNP	T	T	C	rs16940665	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	37	67	0	0.373737	0	T|0.862;C|0.138	0.138	strong	.	CRHR1	48	.	NM_001145146	exon8	c.T756C	p.T252T	CTCCACTGACCGG	.	PASS	Atlas-SNP
ZNF438	220929	hgsc.bcm.edu	37	10	31134214	31134214	+	Silent	SNP	A	A	G	rs3740236	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	206	101	192	0	0.490291	0	A|0.883;G|0.117	0.117	strong	.	ZNF438	90	.	NM_182755	exon8	c.T2163C	p.H721H	ACATGCATGTGAT	.	PASS	Atlas-SNP
GPATCH2	55105	hgsc.bcm.edu	37	1	217604654	217604654	+	Missense_Mutation	SNP	T	T	C	rs35737297	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	82	183	0	0.473988	0	T|0.969;C|0.031	0.031	strong	GPATCH2,NS,carcinoma,0,1	GPATCH2	53	1	NM_018040	exon10	c.A1420G	p.M474V	GAAGCATTCGGTT	.	PASS	Atlas-SNP
B3GALT5	10317	hgsc.bcm.edu	37	21	41033062	41033062	+	Silent	SNP	G	G	A	rs734412	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	58	87	0	0.491525	0	G|0.950;A|0.050	0.050	strong	.	B3GALT5	40	.	NM_033170	exon3	c.G576A	p.R192R	CATCAGGCAGCCA	.	PASS	Atlas-SNP
SLC4A11	83959	hgsc.bcm.edu	37	20	3214581	3214581	+	Silent	SNP	C	C	T	rs3803956	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	30	56	0	0.447761	0	C|0.820;T|0.180	0.180	strong	.	SLC4A11	188	.	NM_001174090	exon6	c.G720A	p.S240S	GAGCCACGACTGC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	56	117	0	0.459016	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
HLA-DPA1	3113	hgsc.bcm.edu	37	6	33037424	33037424	+	Missense_Mutation	SNP	T	T	C	rs1126542	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	47	188	0	0.295597	0	T|0.680;G|0.000;C|0.319;A|0.000	0.319	strong	.	HLA-DPA1	20	.	NM_033554	exon2	c.A340G	p.T114A	CGTTGGTGGCCTG	.	PASS	Atlas-SNP
OTOGL	283310	hgsc.bcm.edu	37	12	80761411	80761411	+	Missense_Mutation	SNP	G	G	T	rs11114416	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	53	69	0	0.452991	0	G|0.827;T|0.173	0.173	strong	C12orf64,NS,carcinoma,-1,1	OTOGL	235	1	NM_173591	exon53	c.G6375T	p.L2125F	GTATTTGGAAGAA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	115	126	1	0.958333	0.00793651	T|0.496;0|0.015	.	strong	.	FAAH2	66	.	NM_174912	exon10	c.T1404C	p.P468P	ACGGCCTTTCAAC	.	PASS	Atlas-SNP
IRF2	3660	hgsc.bcm.edu	37	4	185310218	185310218	+	Silent	SNP	C	C	T	rs1131553	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	64	112	0	0.470588	0	C|0.617;T|0.383	0.383	strong	IRF2,NS,carcinoma,0,1	IRF2	53	1	NM_002199	exon9	c.G744A	p.G248G	TGGCCGCCCCTTT	.	PASS	Atlas-SNP
RB1	5925	hgsc.bcm.edu	37	13	48947553	48947553	+	Silent	SNP	C	C	T	rs117865557	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	118	334	0	0.874074	0	C|1.000;T|0.000	0.000	strong	.	RB1	1068	.	NM_000321	exon12	c.C1140T	p.N380N	TATGAACACTATC	.	PASS	Atlas-SNP
HDAC4	9759	hgsc.bcm.edu	37	2	240003813	240003813	+	Silent	SNP	G	G	A	rs61754649	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	178	87	155	0	0.488764	0	G|0.982;A|0.018	0.018	strong	.	HDAC4	127	.	NM_006037	exon21	c.C2622T	p.S874S	AGCCCCGCTGCCT	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151970797	151970797	+	Silent	SNP	A	A	T	rs141993954	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	332	23	381	0	0.0692771	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
LGALS14	56891	hgsc.bcm.edu	37	19	40196611	40196611	+	Missense_Mutation	SNP	C	C	T	rs35541195	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	208	110	173	0	0.528846	0	C|0.907;T|0.093	0.093	strong	.	LGALS14	38	.	NM_203471	exon2	c.C64T	p.R22C	GTGTGCCGCTTCT	.	PASS	Atlas-SNP
PBRM1	55193	hgsc.bcm.edu	37	3	52668776	52668776	+	Silent	SNP	A	A	G	rs34173244	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	55	145	0	0.423077	0	A|0.925;G|0.075	0.075	strong	.	PBRM1	1252	.	NM_018313	exon12	c.T1143C	p.D381D	TGAAACATCCATA	.	PASS	Atlas-SNP
MMP2	4313	hgsc.bcm.edu	37	16	55536763	55536763	+	Silent	SNP	C	C	G	rs11541998	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	20	63	0	0.425532	0	C|0.933;G|0.067	0.067	strong	.	MMP2	119	.	NM_004530	exon12	c.C1842G	p.P614P	CATCCCCGATAAC	.	PASS	Atlas-SNP
TPO	7173	hgsc.bcm.edu	37	2	1418192	1418192	+	Silent	SNP	C	C	G	rs9678281	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	69	136	1	0.415663	0.00735294	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
DNAH6	1768	hgsc.bcm.edu	37	2	84945469	84945469	+	Silent	SNP	G	G	A	rs1192344	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	87	142	0	0.5	0	G|0.933;A|0.067	0.067	strong	.	DNAH6	194	.	NM_001370	exon59	c.G9753A	p.L3251L	TATTCTGGACAAT	.	PASS	Atlas-SNP
PAIP2	51247	hgsc.bcm.edu	37	5	138700404	138700404	+	Missense_Mutation	SNP	G	G	A	rs151194423	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	66	123	0	0.461538	0	G|0.999;A|0.001	0.001	strong	.	PAIP2	10	.	NM_001033112	exon3	c.G290A	p.S97N	TTATCAGTGATGG	.	PASS	Atlas-SNP
TELO2	9894	hgsc.bcm.edu	37	16	1544301	1544301	+	Missense_Mutation	SNP	G	G	C	rs35400877	bycluster;alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	27	48	0	0.490909	0	CG|0.500;GA|0.500	.	alt	TELO2,NS,carcinoma,-2,1	TELO2	44	1	NM_016111	exon2	c.G19C	p.E7Q	CCCTCAGAGGTTC	.	PASS	Atlas-SNP
EIF5B	9669	hgsc.bcm.edu	37	2	99978048	99978048	+	Silent	SNP	G	G	A	rs12233086	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	233	116	228	1	0.497854	0.00438596	G|0.842;A|0.158	0.158	strong	.	EIF5B	95	.	NM_015904	exon4	c.G684A	p.V228V	GACAGTGGCCCAA	.	PASS	Atlas-SNP
EP400	57634	hgsc.bcm.edu	37	12	132445675	132445675	+	Missense_Mutation	SNP	G	G	A	rs61745448	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	478	237	426	0	0.495816	0	G|0.976;A|0.024	0.024	strong	.	EP400	370	.	NM_015409	exon2	c.G511A	p.V171M	GGCTTCGTGGATG	.	PASS	Atlas-SNP
POU5F1	5460	hgsc.bcm.edu	37	6	31138377	31138377	+	Silent	SNP	C	C	T	rs2077010	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	29	35	0	0.604167	0	C|0.592;T|0.408	0.408	strong	.	POU5F1	25	.	NM_002701	exon1	c.G21A	p.S7S	GAAATCCGAAGCC	.	PASS	Atlas-SNP
DNAJC6	9829	hgsc.bcm.edu	37	1	65858145	65858145	+	Silent	SNP	G	G	A	rs4325172	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	193	162	0	0.994845	0	G|0.575;A|0.425	0.425	strong	.	DNAJC6	104	.	NM_001256864	exon12	c.G1500A	p.E500E	TGAGGAGGACCAC	.	PASS	Atlas-SNP
HLA-DPB1	3115	hgsc.bcm.edu	37	6	33048459	33048459	+	Silent	SNP	T	T	G	rs1126506	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	20	43	0	0.338983	0	T|0.677;G|0.323	0.323	strong	.	HLA-DPB1	28	.	NM_002121	exon2	c.T111G	p.L37L	TTACCTTTTCCAG	.	PASS	Atlas-SNP
ZC3H7A	29066	hgsc.bcm.edu	37	16	11876203	11876203	+	Missense_Mutation	SNP	T	T	C	rs1429077	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	72	162	0	0.517986	0	T|0.926;C|0.074	0.074	strong	.	ZC3H7A	72	.	NM_014153	exon2	c.A8G	p.N3S	GACACATTGGACA	.	PASS	Atlas-SNP
MMP2	4313	hgsc.bcm.edu	37	16	55536727	55536727	+	Silent	SNP	C	C	T	rs14070	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	23	67	0	0.469388	0	C|0.641;T|0.359	0.359	strong	.	MMP2	119	.	NM_004530	exon12	c.C1806T	p.F602F	TGGCTTCCCCAAG	.	PASS	Atlas-SNP
MUSK	4593	hgsc.bcm.edu	37	9	113457726	113457726	+	Silent	SNP	G	G	A	rs10980531	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	68	132	0	0.515152	0	G|0.813;A|0.187	0.187	strong	.	MUSK	112	.	NM_001166281	exon4	c.G402A	p.E134E	AATAGAGGGATTA	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	37	16	72993706	72993706	+	Silent	SNP	G	G	A	rs62053191	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	115	98	0	1	0	G|0.958;A|0.042	0.042	strong	.	ZFHX3	404	.	NM_006885	exon2	c.C339T	p.A113A	GTCGCTGGCGCTC	.	PASS	Atlas-SNP
NMS	129521	hgsc.bcm.edu	37	2	101086966	101086966	+	Missense_Mutation	SNP	C	C	T	rs13411940	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	46	82	0	0.469388	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
AQP12B	653437	hgsc.bcm.edu	37	2	241621866	241621866	+	Missense_Mutation	SNP	C	C	T	rs62187796	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	38	25	38	0	0.657895	0	C|0.877;T|0.123	0.123	strong	.	AQP12B	33	.	NM_001102467	exon1	c.G389A	p.R130H	CAGAGGCGCGTCA	.	PASS	Atlas-SNP
ADIPOR2	79602	hgsc.bcm.edu	37	12	1893170	1893170	+	Silent	SNP	C	C	T	rs9805042	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	175	79	181	0	0.451429	0	C|0.770;T|0.230	0.230	strong	ADIPOR2,NS,carcinoma,0,1	ADIPOR2	30	1	NM_024551	exon7	c.C963T	p.Y321Y	CCTCTACATCACA	.	PASS	Atlas-SNP
TMEM39A	55254	hgsc.bcm.edu	37	3	119150836	119150836	+	Missense_Mutation	SNP	C	C	T	rs1132200	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	126	162	1	0.984375	0.00617284	C|0.901;T|0.099	0.099	strong	.	TMEM39A	36	.	NM_018266	exon9	c.G1459A	p.A487T	AGTTTGCCTTGAG	.	PASS	Atlas-SNP
WDR18	57418	hgsc.bcm.edu	37	19	984554	984554	+	Silent	SNP	C	C	G	rs4806884	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	22	6	35	0	0.272727	0	C|0.614;G|0.386	0.386	strong	.	WDR18	20	.	NM_024100	exon1	c.C201G	p.L67L	GGAGCTCCAGCGG	.	PASS	Atlas-SNP
AFMID	125061	hgsc.bcm.edu	37	17	76198587	76198587	+	Silent	SNP	A	A	G	rs72897838	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	28	42	0	0.595745	0	A|0.911;G|0.089	0.089	strong	.	AFMID	38	.	NM_001145526	exon3	c.A162G	p.T54T	CACCACAAGGGCC	.	PASS	Atlas-SNP
PDCD6IP	10015	hgsc.bcm.edu	37	3	33895391	33895391	+	Silent	SNP	A	A	G	rs3183982	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	64	133	0	0.474074	0	A|0.616;G|0.384	0.384	strong	.	PDCD6IP	62	.	NM_001162429	exon14	c.A1926G	p.S642S	ATTTTCAAAAATG	.	PASS	Atlas-SNP
UTP14C	9724	hgsc.bcm.edu	37	13	52603896	52603896	+	Missense_Mutation	SNP	G	G	A	rs17402034	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	9	238	0	0.0608108	0	G|0.934;A|0.066	0.066	strong	.	UTP14C	67	.	NM_021645	exon2	c.G956A	p.R319H	AGGCTCGCCAAGC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	93	101	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
ARHGAP21	57584	hgsc.bcm.edu	37	10	24908686	24908686	+	Missense_Mutation	SNP	T	T	C	rs3748222	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	78	129	1	0.553191	0.00775194	T|0.510;C|0.490	0.490	strong	ARHGAP21,NS,carcinoma,0,1	ARHGAP21	185	1	NM_020824	exon9	c.A2138G	p.N713S	TCTTGATTCCTTT	.	scavenged	Atlas-SNP
FYCO1	79443	hgsc.bcm.edu	37	3	46009491	46009491	+	Silent	SNP	C	C	T	rs3796376	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	154	127	0	1	0	C|0.825;T|0.175	0.175	strong	.	FYCO1	115	.	NM_024513	exon8	c.G1335A	p.L445L	GCGCTCCAGGCTG	.	PASS	Atlas-SNP
GRM6	2916	hgsc.bcm.edu	37	5	178417654	178417654	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	4	148	0	0.0199005	0	.	.	none	GRM6,NS,lymphoid_neoplasm,-2,1	GRM6	149	1	NM_000843	exon4	c.G951A	p.L317L	CAGGCTCAAGATG	.	scavenged	Atlas-SNP
HNRNPH2	3188	hgsc.bcm.edu	37	X	100668296	100668296	+	Silent	SNP	C	C	T	rs3027574	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	154	107	0	0.933333	0	C|0.964;T|0.036	0.036	strong	.	HNRNPH2	50	.	NM_001032393	exon2	c.C1320T	p.N440N	GGAAAACTCCAGT	.	PASS	Atlas-SNP
TOX4	9878	hgsc.bcm.edu	37	14	21960969	21960969	+	Silent	SNP	G	G	A	rs7617	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	79	148	0	0.470238	0	G|0.511;A|0.489	0.489	strong	.	TOX4	50	.	NM_014828	exon7	c.G1194A	p.R398R	CTCCCGGGGGCTC	.	PASS	Atlas-SNP
NUP155	9631	hgsc.bcm.edu	37	5	37333727	37333727	+	Silent	SNP	A	A	G	rs150594	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	38	72	0	0.469136	0	A|0.658;G|0.342	0.342	strong	NUP155,NS,carcinoma,-1,1	NUP155	116	1	NM_153485	exon13	c.T1356C	p.A452A	AACACCAGCTGTC	.	PASS	Atlas-SNP
PCOLCE2	26577	hgsc.bcm.edu	37	3	142542449	142542449	+	Missense_Mutation	SNP	G	G	T	rs17554211	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	82	146	0	0.509317	0	G|0.926;T|0.074	0.074	strong	.	PCOLCE2	63	.	NM_013363	exon7	c.C874A	p.P292T	CGGTGGGTTTTAA	.	PASS	Atlas-SNP
KPNA2	3838	hgsc.bcm.edu	37	17	66039350	66039350	+	Silent	SNP	A	A	G	rs4638	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	73	101	0	0.598361	0	A|0.406;G|0.594	0.594	strong	.	KPNA2	55	.	NM_002266	exon7	c.A801G	p.V267V	AGAAGTATTAGCA	.	PASS	Atlas-SNP
ITGAX	3687	hgsc.bcm.edu	37	16	31371674	31371674	+	Missense_Mutation	SNP	G	G	A	rs2230428	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	242	126	211	0	0.520661	0	G|0.860;A|0.140	0.140	strong	ITGAX,colon,carcinoma,0,1	ITGAX	198	1	NM_000887	exon8	c.G751A	p.A251T	GATGCCGCCAAAA	.	PASS	Atlas-SNP
CASR	846	hgsc.bcm.edu	37	3	122003757	122003757	+	Missense_Mutation	SNP	G	G	T	rs1801725	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	330	155	268	0	0.469697	0	G|0.904;T|0.096	0.096	strong	.	CASR	190	.	NM_001178065	exon7	c.G2986T	p.A996S	AAGAACGCCATGG	.	PASS	Atlas-SNP
VANGL2	57216	hgsc.bcm.edu	37	1	160393905	160393905	+	Silent	SNP	A	A	G	rs12086448	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	306	148	280	0	0.48366	0	A|0.412;G|0.588	0.588	strong	VANGL2,NS,carcinoma,0,1	VANGL2	83	1	NM_020335	exon7	c.A1137G	p.K379K	GCAGAAAAACCCC	.	PASS	Atlas-SNP
GAL3ST1	9514	hgsc.bcm.edu	37	22	30953295	30953295	+	Missense_Mutation	SNP	C	C	T	rs2267161	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	347	159	349	0	0.458213	0	C|0.671;T|0.329	0.329	strong	.	GAL3ST1	44	.	NM_004861	exon3	c.G85A	p.V29M	AGTACACCAGCAG	.	PASS	Atlas-SNP
SLC17A2	10246	hgsc.bcm.edu	37	6	25916979	25916979	+	Silent	SNP	C	C	T	rs1865760	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	55	82	0	0.555556	0	C|0.634;T|0.366	0.366	strong	.	SLC17A2	70	.	NM_005835	exon8	c.G864A	p.L288L	GGTGCACAACCAG	.	PASS	Atlas-SNP
SRRM4	84530	hgsc.bcm.edu	37	12	119540062	119540062	+	Silent	SNP	C	C	T	rs73213729	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	80	223	1	0.479042	0.00448431	C|0.973;T|0.027	0.027	strong	.	SRRM4	131	.	NM_194286	exon2	c.C153T	p.P51P	TAACCCCGTTGTC	.	PASS	Atlas-SNP
AKAP9	10142	hgsc.bcm.edu	37	7	91641928	91641928	+	Silent	SNP	A	A	G	rs13245393	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	37	113	0	0.474359	0	A|0.589;G|0.411	0.411	strong	.	AKAP9	788	.	NM_005751	exon9	c.A3504G	p.E1168E	GTTAGAACTACAG	.	PASS	Atlas-SNP
OR10AG1	282770	hgsc.bcm.edu	37	11	55735518	55735518	+	Missense_Mutation	SNP	G	G	A	rs61896165	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	44	89	0	0.478261	0	G|0.948;A|0.052	0.052	strong	.	OR10AG1	100	.	NM_001005491	exon1	c.C422T	p.T141I	GTGATGGTCCAGG	.	PASS	Atlas-SNP
GRIA4	2893	hgsc.bcm.edu	37	11	105842740	105842740	+	Silent	SNP	G	G	A	rs61736488	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	49	104	0	0.457944	0	G|0.919;A|0.081	0.081	strong	.	GRIA4	380	.	NM_000829	exon15	c.G2394A	p.K798K	ACCCAAGGACTCT	.	PASS	Atlas-SNP
GCDH	2639	hgsc.bcm.edu	37	19	13010520	13010520	+	Missense_Mutation	SNP	A	A	G	rs8012	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	75	178	1	0.449102	0.00561798	A|0.293;G|0.706	0.706	strong	GCDH_ENST00000457854,NS,carcinoma,+1,1	GCDH	76	1	NM_013976	exon12	c.T1250G	p.L417R	TCGTTCAGATGTG	.	scavenged	Atlas-SNP
PCDHA3	56145	hgsc.bcm.edu	37	5	140181648	140181648	+	Missense_Mutation	SNP	T	T	C	rs3733709	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	52	78	0	0.514852	0	T|0.906;C|0.094	0.094	strong	PCDHA3_ENST00000522353,NS,carcinoma,0,2	PCDHA3	396	2	NM_031497	exon1	c.T866C	p.I289T	CAGATATTCTGTC	.	PASS	Atlas-SNP
CHD1L	9557	hgsc.bcm.edu	37	1	146740502	146740502	+	Missense_Mutation	SNP	C	C	G	rs17356233	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	249	117	250	0	0.46988	0	C|0.849;G|0.151	0.151	strong	.	CHD1L	72	.	NM_004284	exon10	c.C1050G	p.H350Q	GCTTCACCTGCTG	.	PASS	Atlas-SNP
IFT122	55764	hgsc.bcm.edu	37	3	129214358	129214358	+	Missense_Mutation	SNP	T	T	C	rs73204230	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	4	112	0	0.0298507	0	T|0.500;C|0.500	0.500	strong	IFT122,colon,carcinoma,0,2	IFT122	117	2	NM_052985	exon19	c.T2269C	p.F757L	GGGAAGTTCCATG	.	scavenged	Atlas-SNP
COL4A1	1282	hgsc.bcm.edu	37	13	110818598	110818598	+	Missense_Mutation	SNP	T	T	G	rs3742207	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	198	198	234	0	1	0	T|0.688;G|0.312	0.312	strong	.	COL4A1	372	.	NM_001845	exon45	c.A4002C	p.Q1334H	GACGCCTTGATCG	.	PASS	Atlas-SNP
NPLOC4	55666	hgsc.bcm.edu	37	17	79589242	79589242	+	Silent	SNP	G	G	A	rs6565604	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	50	96	0	0.588235	0	G|0.403;A|0.597	0.597	strong	.	NPLOC4	27	.	NM_017921	exon3	c.C159T	p.T53T	CTCTCCGGTCTTG	.	PASS	Atlas-SNP
PGBD1	84547	hgsc.bcm.edu	37	6	28269663	28269663	+	Missense_Mutation	SNP	A	A	G	rs1997660	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	99	164	0	0.526596	0	A|0.464;G|0.536	0.536	strong	.	PGBD1	106	.	NM_001184743	exon7	c.A2032G	p.I678V	TTCCGAATAGAAG	.	PASS	Atlas-SNP
CEP135	9662	hgsc.bcm.edu	37	4	56874517	56874517	+	Missense_Mutation	SNP	A	A	C	rs3214045	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	34	82	0	0.459459	0	A|0.815;C|0.185;G|0.000	0.185	strong	.	CEP135	115	.	NM_025009	exon18	c.A2305C	p.I769L	ATGAAGATAATGA	.	PASS	Atlas-SNP
GRPR	2925	hgsc.bcm.edu	37	X	16168467	16168467	+	Silent	SNP	T	T	C	rs4986945	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	128	111	0	0.934307	0	T|0.694;C|0.306	0.306	strong	.	GRPR	51	.	NM_005314	exon2	c.T453C	p.S151S	GGCCTCTCATGCC	.	PASS	Atlas-SNP
PGBD1	84547	hgsc.bcm.edu	37	6	28264692	28264692	+	Missense_Mutation	SNP	C	C	G	rs3800325	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	46	73	0	0.494624	0	C|0.785;G|0.215	0.215	strong	.	PGBD1	106	.	NM_001184743	exon5	c.C742G	p.Q248E	TCAGCTCAGGAGA	.	PASS	Atlas-SNP
MAP3K1	4214	hgsc.bcm.edu	37	5	56177843	56177843	+	Missense_Mutation	SNP	C	C	G	rs45556841	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	75	146	0	0.539568	0	C|0.985;G|0.015	0.015	strong	.	MAP3K1	355	.	NM_005921	exon14	c.C2816G	p.S939C	GACCTTCTAGTTC	.	PASS	Atlas-SNP
THAP10	56906	hgsc.bcm.edu	37	15	71184278	71184278	+	Silent	SNP	G	G	T	rs2959174	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	35	104	0	0.479452	0	G|0.471;T|0.529	0.529	strong	.	THAP10	19	.	NM_020147	exon1	c.C334A	p.R112R	CTCCTCGCGTGTC	.	PASS	Atlas-SNP
IRX4	50805	hgsc.bcm.edu	37	5	1878440	1878440	+	Silent	SNP	C	C	T	rs1689717	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	24	18	31	0	0.75	0	C|0.900;T|0.100	0.100	strong	.	IRX4	45	.	NM_016358	exon5	c.G1203A	p.A401A	AGGGGCCGCGGGA	.	PASS	Atlas-SNP
CCDC149	91050	hgsc.bcm.edu	37	4	24836619	24836619	+	Silent	SNP	C	C	T	rs16876194	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	56	129	0	0.46281	0	C|0.904;T|0.096	0.096	strong	.	CCDC149	41	.	NM_173463	exon9	c.G771A	p.Q257Q	TTTACCCTGGCCC	.	PASS	Atlas-SNP
ASXL2	55252	hgsc.bcm.edu	37	2	25972936	25972936	+	Missense_Mutation	SNP	C	C	T	rs192716734	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	76	129	0	0.481013	0	C|0.997;T|0.003	0.003	strong	.	ASXL2	217	.	NM_018263	exon11	c.G1489A	p.A497T	GTTCAGCAGAGGT	.	PASS	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	37	1	22160043	22160043	+	Missense_Mutation	SNP	C	C	T	rs2229493	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	90	160	0	0.463918	0	T|0.098;G|0.000;C|0.902;A|0.000	0.098	strong	.	HSPG2	311	.	NM_005529	exon79	c.G10895A	p.R3632Q	TGGGGTCGGACTG	.	PASS	Atlas-SNP
SIRPB1	10326	hgsc.bcm.edu	37	20	1600524	1600524	+	Missense_Mutation	SNP	T	T	C	rs1535882	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	37	69	0	0.552239	0	T|0.729;C|0.271	0.271	strong	SIRPB1_ENST00000279477,NS,adenoma,0,2	SIRPB1	83	2	NM_001083910	exon1	c.A67G	p.R23G	TGAGTCTCCCCAG	.	PASS	Atlas-SNP
CLUH	23277	hgsc.bcm.edu	37	17	2595964	2595964	+	Silent	SNP	G	G	A	rs2302199	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	46	28	81	0	0.608696	0	G|0.545;A|0.455	0.455	strong	KIAA0664_ENST00000322335,NS,carcinoma,0,2	.	.	2	NM_015229	exon21	c.C3222T	p.A1074A	GCTGCTGGCGAAG	.	PASS	Atlas-SNP
GGT1	2678	hgsc.bcm.edu	37	22	25016442	25016442	+	Missense_Mutation	SNP	C	C	T	rs3895576	bycluster;by2hit2allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	396	16	380	7	0.040404	0.0184211	.	.	weak	GGT1,NS,carcinoma,0,1	GGT1	68	1	NM_013430	exon8	c.C530T	p.A177V	CGGCAGCCCTGGA	.	scavenged	Atlas-SNP
C5orf60	285679	hgsc.bcm.edu	37	5	179069468	179069468	+	Missense_Mutation	SNP	A	A	G	rs62405726	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	29	72	0	0.453125	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
DNAH3	55567	hgsc.bcm.edu	37	16	20948142	20948142	+	Silent	SNP	A	A	G	rs140126023	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	15	39	0	0.319149	0	A|0.998;G|0.002	0.002	strong	.	DNAH3	1142	.	NM_017539	exon60	c.T11688C	p.N3896N	GCCAAGATTGATG	.	PASS	Atlas-SNP
CEP89	84902	hgsc.bcm.edu	37	19	33370070	33370070	+	Missense_Mutation	SNP	A	A	G	rs745961	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	62	67	0	1	0	A|0.778;G|0.222	0.222	strong	.	CEP89	82	.	NM_032816	exon19	c.T2350C	p.X784Q	GATTCTAGCAGGT	.	PASS	Atlas-SNP
DHX57	90957	hgsc.bcm.edu	37	2	39082344	39082344	+	Missense_Mutation	SNP	T	T	C	rs7598922	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	187	204	0	0.989418	0	T|0.439;C|0.561	0.561	strong	.	DHX57	127	.	NM_198963	exon8	c.A1760G	p.N587S	GGTCCATTCAGAG	.	PASS	Atlas-SNP
C2orf73	129852	hgsc.bcm.edu	37	2	54562012	54562012	+	Missense_Mutation	SNP	C	C	A	rs55714450	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	265	123	216	0	0.464151	0	C|0.747;A|0.253	0.253	strong	.	C2orf73	17	.	NM_001100396	exon2	c.C85A	p.H29N	ATTAAACACGAAG	.	PASS	Atlas-SNP
ASB2	51676	hgsc.bcm.edu	37	14	94417531	94417531	+	Missense_Mutation	SNP	T	T	C	rs11555542	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	42	53	0	0.591549	0	T|0.964;C|0.036	0.036	strong	.	ASB2	71	.	NM_001202429	exon6	c.A694G	p.N232D	GGTGGTTGGTGTC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	52	99	0	0.481481	0	G|0.772;A|0.228	0.228	strong	.	PLEC	1144	.	NM_201380	exon14	c.C1922T	p.A641V	ACCTGGGCCACCT	.	PASS	Atlas-SNP
OR2T6	254879	hgsc.bcm.edu	37	1	248551560	248551560	+	Silent	SNP	C	C	T	rs954474	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	315	158	248	1	0.501587	0.00403226	C|0.780;T|0.220	0.220	strong	OR2T6,rectum,carcinoma,+1,2	OR2T6	101	2	NM_001005471	exon1	c.C651T	p.S217S	TGCATCCTACACC	.	PASS	Atlas-SNP
ADAMTSL4	54507	hgsc.bcm.edu	37	1	150526270	150526270	+	Missense_Mutation	SNP	C	C	T	rs41317517	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	73	103	0	0.51049	0	C|0.991;T|0.009	0.009	strong	.	ADAMTSL4	101	.	NM_019032	exon6	c.C803T	p.S268F	CGCACTCCTTAGG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179598228	179598228	+	Silent	SNP	A	A	G	rs12993099	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	33	54	0	0.532258	0	A|0.957;G|0.043	0.043	strong	.	TTN	18412	.	NM_001267550	exon54	c.T15792C	p.I5264I	TCGCTCAATGATT	.	PASS	Atlas-SNP
SLCO1B7	338821	hgsc.bcm.edu	37	12	21196424	21196424	+	Missense_Mutation	SNP	T	T	A	rs11045676	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	34	117	0	0.382022	0	T|0.895;A|0.105	0.105	strong	.	SLCO1B7	85	.	NM_001009562	exon6	c.T743A	p.F248Y	CACTATTTTTGCA	.	PASS	Atlas-SNP
PADI1	29943	hgsc.bcm.edu	37	1	17531763	17531763	+	Silent	SNP	C	C	T	rs2293911	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	94	130	0	0.51087	0	C|0.944;T|0.056	0.056	strong	.	PADI1	77	.	NM_013358	exon1	c.C51T	p.A17A	CCATGCCGTGTGT	.	PASS	Atlas-SNP
CLSTN2	64084	hgsc.bcm.edu	37	3	140178381	140178381	+	Missense_Mutation	SNP	T	T	C	rs17348572	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	64	99	0	0.5	0	T|0.968;C|0.032	0.032	strong	CLSTN2,NS,carcinoma,0,1	CLSTN2	190	1	NM_022131	exon7	c.T992C	p.I331T	GCATCATTGACCT	.	PASS	Atlas-SNP
BOD1L1	259282	hgsc.bcm.edu	37	4	13615174	13615174	+	Missense_Mutation	SNP	G	G	A	rs2035820	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	362	138	390	0	0.381215	0	G|0.852;A|0.148	0.148	strong	BOD1L,NS,carcinoma,+1,1	.	.	1	NM_148894	exon5	c.C1286T	p.T429M	TCAGACGTTACAA	.	PASS	Atlas-SNP
ZNF268	10795	hgsc.bcm.edu	37	12	133780587	133780587	+	Missense_Mutation	SNP	G	G	A	rs373286359	alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	5	4	7	0	0.8	0	.	.	alt	ZNF268,NS,carcinoma,0,1	ZNF268	71	1	NM_001165881	exon6	c.G2315A	p.R772Q	ATCAGCGAACTCA	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62196033	62196033	+	Missense_Mutation	SNP	C	C	T	rs3810487	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	19	40	0	0.422222	0	C|0.809;T|0.191	0.191	strong	.	.	.	.	NM_001037335	exon9	c.G4142A	p.R1381K	CCGTCCCTGGGCA	.	PASS	Atlas-SNP
CCDC33	80125	hgsc.bcm.edu	37	15	74622678	74622678	+	Missense_Mutation	SNP	G	G	A	rs1564782	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	114	118	1	0.991304	0.00847458	G|0.560;A|0.440	0.440	strong	CCDC33_ENST00000321288,NS,carcinoma,0,3	CCDC33	160	3	NM_025055	exon12	c.G1439A	p.S480N	AAGCCAGTGAGGC	.	PASS	Atlas-SNP
ZNF41	7592	hgsc.bcm.edu	37	X	47308795	47308795	+	Missense_Mutation	SNP	A	A	C	rs17147624	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	7	135	0	0.0426829	0	A|0.944;0|0.015	.	strong	.	ZNF41	71	.	NM_007130	exon5	c.T374G	p.I125R	TCTCCTATGGGTT	.	PASS	Atlas-SNP
CPM	1368	hgsc.bcm.edu	37	12	69260779	69260779	+	Silent	SNP	C	C	T	rs33925480	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	257	134	254	0	0.521401	0	C|0.903;T|0.097	0.097	strong	.	CPM	30	.	NM_001005502	exon7	c.G837A	p.T279T	CTCCAACGTAATT	.	PASS	Atlas-SNP
RAD1	5810	hgsc.bcm.edu	37	5	34908877	34908877	+	Missense_Mutation	SNP	T	T	C	rs1805327	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	591	309	501	0	0.522843	0	T|0.946;G|0.000	.	strong	.	RAD1	17	.	NM_002853	exon6	c.A842G	p.E281G	CAAGACTCAGATT	.	PASS	Atlas-SNP
PCDHB12	56124	hgsc.bcm.edu	37	5	140589738	140589738	+	Missense_Mutation	SNP	C	C	T	rs2910327	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	59	139	0	0.430657	0	C|0.860;T|0.140	0.140	strong	.	PCDHB12	179	.	NM_018932	exon1	c.C1259T	p.T420I	ACATCACCATCAC	.	PASS	Atlas-SNP
ND6	0	hgsc.bcm.edu	37	MT	14167	14167	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	28	28	19	0	1	0	.	.	none	.	.	.	.	ENST00000361681	exon1	c.G507A	p.E169E	AGCAATCTCAATT	.	PASS	Atlas-SNP
SLC22A1	6580	hgsc.bcm.edu	37	6	160543148	160543148	+	Missense_Mutation	SNP	C	C	T	rs12208357	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	64	100	0	0.520325	0	C|0.961;T|0.039	0.039	strong	.	SLC22A1	69	.	NM_153187	exon1	c.C181T	p.R61C	AGCCAGCGCTGTG	.	PASS	Atlas-SNP
ISL2	64843	hgsc.bcm.edu	37	15	76630717	76630717	+	Silent	SNP	C	C	T	rs62028361	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	18	10	11	0	0.555556	0	C|0.925;T|0.075	0.075	strong	.	ISL2	20	.	NM_145805	exon3	c.C373T	p.L125L	CAGCTGCTGCCTG	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150945931	150945931	+	Silent	SNP	C	C	T	rs3734058	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	130	86	0	1	0	C|0.525;T|0.475	0.475	strong	.	FAT2	465	.	NM_001447	exon1	c.G2562A	p.R854R	GCGAACCCTGCCA	.	PASS	Atlas-SNP
CSF2RB	1439	hgsc.bcm.edu	37	22	37333804	37333804	+	Missense_Mutation	SNP	G	G	A	rs1801114	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	35	57	0	0.479452	0	G|0.949;A|0.051	0.051	strong	.	CSF2RB	104	.	NM_000395	exon14	c.G1954A	p.V652M	CAGGCCGTGGAAG	.	PASS	Atlas-SNP
PRDM5	11107	hgsc.bcm.edu	37	4	121706201	121706201	+	Silent	SNP	A	A	G	rs12499000	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	24	24	48	0	1	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
HECTD3	79654	hgsc.bcm.edu	37	1	45475881	45475881	+	Silent	SNP	T	T	C	rs146960255	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	46	107	0	0.446602	0	T|0.994;C|0.006	0.006	strong	.	HECTD3	158	.	NM_024602	exon3	c.A615G	p.Q205Q	TAGCCTTTGTACA	.	PASS	Atlas-SNP
POMGNT1	55624	hgsc.bcm.edu	37	1	46655645	46655645	+	Missense_Mutation	SNP	C	C	T	rs74374973	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	45	67	0	0.584416	0	C|0.992;T|0.008	0.008	strong	.	POMGNT1	96	.	NM_017739	exon20	c.G1666A	p.D556N	TGTGGTCCAGAAC	.	PASS	Atlas-SNP
TTC31	64427	hgsc.bcm.edu	37	2	74710491	74710491	+	Missense_Mutation	SNP	C	C	T	rs6707475	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	101	83	0	0.726619	0	C|0.514;T|0.486	0.486	strong	.	TTC31	23	.	NM_022492	exon2	c.C83T	p.A28V	CTGCTGCACCCAA	.	PASS	Atlas-SNP
DNMBP	23268	hgsc.bcm.edu	37	10	101639877	101639877	+	Missense_Mutation	SNP	A	A	C	rs11190305	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	162	273	2	0.915254	0.00732601	A|0.708;C|0.292	0.292	strong	.	DNMBP	173	.	NM_015221	exon16	c.T4239G	p.C1413W	TTGGTCACATTCT	.	PASS	Atlas-SNP
PCDHA8	56140	hgsc.bcm.edu	37	5	140221139	140221139	+	Missense_Mutation	SNP	G	G	A	rs3756331	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	40	34	0	0.57971	0	G|0.466;A|0.534	0.534	strong	PCDHA8_ENST00000531613,NS,carcinoma,0,2	PCDHA8	366	2	NM_031856	exon1	c.G233A	p.S78N	AGGTAAGTCTGCA	.	PASS	Atlas-SNP
PCDHB16	57717	hgsc.bcm.edu	37	5	140563574	140563574	+	Silent	SNP	A	A	G	rs61741789	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	12	82	0	0.129032	0	A|0.320;G|0.680	0.680	strong	PCDHB16,NS,carcinoma,+2,1	PCDHB16	159	1	NM_020957	exon1	c.A1440G	p.S480S	AGACTCAGGCACC	.	scavenged	Atlas-SNP
ITIH4	3700	hgsc.bcm.edu	37	3	52852538	52852538	+	Missense_Mutation	SNP	G	G	T	rs4687657	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	75	151	0	0.431034	0	G|0.736;N|0.000	.	strong	.	ITIH4	74	.	NM_002218	exon18	c.C2092A	p.P698T	CTGGTGGTGCTGA	.	PASS	Atlas-SNP
TFRC	7037	hgsc.bcm.edu	37	3	195778972	195778972	+	Silent	SNP	C	C	T	rs1805051	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	216	103	144	0	0.476852	0	C|0.929;T|0.071	0.071	strong	.	TFRC	54	.	NM_001128148	exon19	c.G2124A	p.T708T	TGGCAGCGTGTGA	.	PASS	Atlas-SNP
KAT6A	7994	hgsc.bcm.edu	37	8	41794934	41794934	+	Silent	SNP	C	C	T	rs13748	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	351	177	341	0	0.504274	0	C|0.720;T|0.280	0.280	strong	.	.	.	.	NM_001099412	exon17	c.G3192A	p.T1064T	CTCAAACGTGGGT	.	PASS	Atlas-SNP
MURC	347273	hgsc.bcm.edu	37	9	103348208	103348208	+	Silent	SNP	A	A	T	rs28623148	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	50	92	0	0.510204	0	A|0.955;T|0.045	0.045	strong	.	MURC	43	.	NM_001018116	exon2	c.A570T	p.S190S	GAAGTCAGGCAAG	.	PASS	Atlas-SNP
SETD4	54093	hgsc.bcm.edu	37	21	37410477	37410477	+	Missense_Mutation	SNP	T	T	C	rs2835239	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	245	126	207	0	0.514286	0	T|0.963;C|0.037	0.037	strong	.	SETD4	37	.	NM_017438	exon10	c.A1159G	p.I387V	CTTCTATGAAATA	.	PASS	Atlas-SNP
R3HCC1	203069	hgsc.bcm.edu	37	8	23148930	23148930	+	Silent	SNP	A	A	G	rs2272762	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	45	81	0	0.405405	0	A|0.395;G|0.605	0.605	strong	R3HCC1,colon,carcinoma,0,1	R3HCC1	11	1	NM_001136108	exon5	c.A348G	p.T116T	GGACACATCCTCC	.	PASS	Atlas-SNP
GNPAT	8443	hgsc.bcm.edu	37	1	231401902	231401902	+	Silent	SNP	G	G	A	rs574553	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	97	93	0	1	0	G|0.396;A|0.604	0.604	strong	.	GNPAT	73	.	NM_014236	exon7	c.G915A	p.E305E	AAAAGAGTCTACA	.	PASS	Atlas-SNP
LINS	55180	hgsc.bcm.edu	37	15	101110265	101110265	+	Silent	SNP	T	T	A	rs2411836	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	11	7	4	0	0.636364	0	T|0.624;A|0.376	0.376	strong	LINS,NS,carcinoma,0,1	LINS	62	1	NM_001040616	exon7	c.A1452T	p.T484T	TTCATGTGTGTGA	.	scavenged	Atlas-SNP
HECTD4	283450	hgsc.bcm.edu	37	12	112601517	112601517	+	Silent	SNP	C	C	T	rs61748839	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	27	39	0	0.529412	0	C|0.996;T|0.004	0.004	strong	.	.	.	.	NM_001109662	exon74	c.G12324A	p.A4108A	GGCTGCCGCGTAG	.	PASS	Atlas-SNP
FOXN1	8456	hgsc.bcm.edu	37	17	26864302	26864302	+	Missense_Mutation	SNP	G	G	C	rs532648	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	106	168	0	0.53	0	G|0.618;C|0.382	0.382	strong	.	FOXN1	51	.	NM_003593	exon8	c.G1795C	p.A599P	TTGGCAGCCCCGG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	242	118	248	0	0.487603	0	G|0.638;A|0.362	0.362	strong	.	MYPN	189	.	NM_032578	exon11	c.G2120A	p.S707N	CATCCAGTAAGCA	.	PASS	Atlas-SNP
FRMD1	79981	hgsc.bcm.edu	37	6	168457966	168457966	+	Silent	SNP	G	G	A	rs3734899	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	68	99	0	0.515152	0	G|0.633;A|0.367	0.367	strong	.	FRMD1	52	.	NM_024919	exon11	c.C1461T	p.D487D	CATGTCGTCCAGG	.	PASS	Atlas-SNP
AKAP13	11214	hgsc.bcm.edu	37	15	86124483	86124483	+	Missense_Mutation	SNP	C	C	G	rs4843074	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	217	216	181	1	0.995392	0.00552486	C|0.377;G|0.623	0.623	strong	.	AKAP13	394	.	NM_007200	exon7	c.C3184G	p.P1062A	AGTCAGCCTTCTC	.	PASS	Atlas-SNP
FAM179A	165186	hgsc.bcm.edu	37	2	29221040	29221040	+	Silent	SNP	C	C	T	rs72786173	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	261	130	153	0	0.498084	0	C|0.978;T|0.022	0.022	strong	.	FAM179A	106	.	NM_199280	exon3	c.C60T	p.C20C	GTACTGCGGGAGC	.	PASS	Atlas-SNP
LRIT3	345193	hgsc.bcm.edu	37	4	110791543	110791543	+	Silent	SNP	C	C	T	rs2347133	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	78	133	0	0.46988	0	C|0.804;T|0.196	0.196	strong	.	LRIT3	107	.	NM_198506	exon4	c.C1638T	p.P546P	GGAACCCGGTGGG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	14	6	21	0	0.428571	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	.	scavenged	Atlas-SNP
LRRN2	10446	hgsc.bcm.edu	37	1	204587047	204587047	+	Missense_Mutation	SNP	G	G	A	rs11588857	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	61	139	0	0.462121	0	G|0.827;A|0.173	0.173	strong	.	LRRN2	81	.	NM_006338	exon3	c.C2074T	p.P692S	TCCCTGGATTCCA	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954485	30954485	+	Missense_Mutation	SNP	G	G	A	rs140951082		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	7	63	0	0.0514706	0	.	.	weak	MUC21,NS,malignant_melanoma,0,1	MUC21	98	1	NM_001010909	exon2	c.G533A	p.S178N	GGGCCAGCACAGC	.	scavenged	Atlas-SNP
AATK	9625	hgsc.bcm.edu	37	17	79095629	79095629	+	Missense_Mutation	SNP	C	C	A	rs7503604	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	15	14	19	0	0.933333	0	C|0.463;A|0.537	0.537	strong	AATK_ENST00000326724,NS,carcinoma,0,2	AATK	102	2	NM_001080395	exon11	c.G2107T	p.G703C	CGTGGCCGCCCGC	.	PASS	Atlas-SNP
MORC1	27136	hgsc.bcm.edu	37	3	108677910	108677910	+	Missense_Mutation	SNP	C	C	T	rs78212601	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	44	87	0	0.419048	0	C|0.984;T|0.016	0.016	strong	.	MORC1	211	.	NM_014429	exon28	c.G2857A	p.E953K	TATCTTCTTTAAG	.	PASS	Atlas-SNP
HR	55806	hgsc.bcm.edu	37	8	21978578	21978578	+	Silent	SNP	A	A	G	rs58080661	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	61	91	0	0.42069	0	A|0.881;G|0.119	0.119	strong	.	HR	71	.	NM_018411	exon10	c.T2367C	p.S789S	ACTCACACTGGGC	.	PASS	Atlas-SNP
CD226	10666	hgsc.bcm.edu	37	18	67534632	67534632	+	Silent	SNP	C	C	T	rs72481819	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	55	88	0	0.495495	0	C|0.957;T|0.043	0.043	strong	.	CD226	51	.	NM_006566	exon6	c.G846A	p.E282E	TCTTCTCTCTCTC	.	PASS	Atlas-SNP
MCPH1	79648	hgsc.bcm.edu	37	8	6302106	6302106	+	Missense_Mutation	SNP	C	C	A	rs35590577	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	83	152	0	0.494048	0	C|0.953;A|0.047	0.047	strong	.	MCPH1	65	.	NM_001172574	exon8	c.C863A	p.P288H	CAAGTCCTCAGAA	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152283605	152283605	+	Nonsense_Mutation	SNP	C	C	A	rs199895224		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	223	101	226	0	0.452915	0	.	.	weak	.	FLG	900	.	NM_002016	exon3	c.G3757T	p.G1253X	CCTGTCCCACCTG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	73	155	1	0.464968	0.00645161	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	.	scavenged	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	37	10	17152994	17152994	+	Silent	SNP	G	G	A	rs1801223	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	42	115	0	0.47191	0	G|0.680;T|0.036	.	strong	.	CUBN	515	.	NM_001081	exon9	c.C939T	p.N313N	GCCGCCGTTATTT	.	PASS	Atlas-SNP
PCDHA6	56142	hgsc.bcm.edu	37	5	140209467	140209467	+	Silent	SNP	T	T	G	rs7710794	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	181	99	187	1	0.546961	0.00534759	T|0.407;G|0.593	0.593	strong	.	PCDHA6	442	.	NM_018909	exon1	c.T1791G	p.V597V	CGCAGTTGACGCC	.	PASS	Atlas-SNP
WRN	7486	hgsc.bcm.edu	37	8	30999075	30999075	+	Missense_Mutation	SNP	C	C	T	rs143954702	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	77	108	0	0.531034	0	C|1.000;T|0.000	0.000	weak	.	WRN	116	.	NM_000553	exon25	c.C3097T	p.R1033W	GTTTCTCGGTATA	.	PASS	Atlas-SNP
SLC4A11	83959	hgsc.bcm.edu	37	20	3218634	3218634	+	Missense_Mutation	SNP	G	G	C	rs3810562	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	49	117	0	0.418803	0	G|0.367;C|0.633	0.633	strong	SLC4A11_ENST00000380059,NS,lymphoid_neoplasm,0,1	SLC4A11	188	1	NM_001174090	exon1	c.C77G	p.P26R	CTCCTCGGATGCC	.	PASS	Atlas-SNP
KRT83	3889	hgsc.bcm.edu	37	12	52711747	52711747	+	Nonsense_Mutation	SNP	C	C	A	rs146753414	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	35	89	0	0.364583	0	C|0.984;A|0.016	0.016	strong	.	KRT83	64	.	NM_002282	exon3	c.G601T	p.E201X	CTTCTTCTTCATA	.	PASS	Atlas-SNP
PARP10	84875	hgsc.bcm.edu	37	8	145058986	145058986	+	Missense_Mutation	SNP	A	A	G	rs11136343	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	58	97	0	0.563107	0	A|0.597;G|0.403	0.403	strong	.	PARP10	57	.	NM_032789	exon5	c.T1184C	p.L395P	TGCCCCAGCAACC	.	PASS	Atlas-SNP
NANS	54187	hgsc.bcm.edu	37	9	100823135	100823135	+	Missense_Mutation	SNP	G	G	C	rs1058446	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	149	157	1	0.986755	0.00636943	G|0.775;C|0.225	0.225	strong	.	NANS	24	.	NM_018946	exon2	c.G204C	p.E68D	CTTGGAGAGGCCA	.	PASS	Atlas-SNP
IGF1R	3480	hgsc.bcm.edu	37	15	99491842	99491842	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	2	58	0	0.025974	0	.	.	none	IGF1R,NS,carcinoma,+2,1	IGF1R	147	1	NM_000875	exon20	c.C3627T	p.A1209A	ACTGGCCGAGCAG	.	scavenged	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31237862	31237862	+	Missense_Mutation	SNP	T	T	C	rs9264621	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	53	293	1	0.546392	0.00341297	T|0.893;C|0.107	0.107	strong	HLA-C_ENST00000383329,caecum,carcinoma,0,4	HLA-C	92	4	NM_002117	exon5	c.A896G	p.E299G	GATGGCTCTGGGA	.	PASS	Atlas-SNP
MS4A12	54860	hgsc.bcm.edu	37	11	60264947	60264947	+	Silent	SNP	C	C	T	rs2298552	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	79	183	0	0.448864	0	C|0.427;T|0.573	0.573	strong	.	MS4A12	44	.	NM_017716	exon2	c.C156T	p.Y52Y	GCCCTACGGCATC	.	PASS	Atlas-SNP
SAA1	6288	hgsc.bcm.edu	37	11	18290866	18290866	+	Silent	SNP	T	T	C	rs71469385	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	33	96	7	0.235714	0.0729167	C|1.000;|0.000	1.000	weak	SAA1,NS,carcinoma,0,1	SAA1	14	1	NM_199161	exon3	c.T216C	p.A72A	CTGGGCTGCAGAA	.	scavenged	Atlas-SNP
CDH23	64072	hgsc.bcm.edu	37	10	73455273	73455273	+	Silent	SNP	T	T	C	rs3752751	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	112	80	0	1	0	T|0.408;C|0.591	0.591	strong	.	CDH23	365	.	NM_022124	exon21	c.T2388C	p.D796D	CTCTGATGTGACC	.	PASS	Atlas-SNP
FLI1	2313	hgsc.bcm.edu	37	11	128651893	128651893	+	Silent	SNP	A	A	G	rs35195224	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	232	122	172	0	0.525862	0	A|0.823;G|0.177	0.177	strong	.	FLI1	72	.	NM_002017	exon5	c.A630G	p.Q210Q	CGACCAATCCTCA	.	PASS	Atlas-SNP
FHAD1	114827	hgsc.bcm.edu	37	1	15702130	15702130	+	Silent	SNP	A	A	G	rs17368978	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	37	93	0	0.493333	0	A|0.944;G|0.056	0.056	strong	.	FHAD1	78	.	NM_052929	exon27	c.A3543G	p.L1181L	ATTTCTAGATTTA	.	PASS	Atlas-SNP
RHOT2	89941	hgsc.bcm.edu	37	16	720986	720986	+	Missense_Mutation	SNP	G	G	A	rs1139897	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	40	23	32	0	0.575	0	G|0.755;A|0.245	0.245	strong	.	RHOT2	35	.	NM_138769	exon10	c.G734A	p.R245Q	AGGACCGGCTGAC	.	PASS	Atlas-SNP
DCLRE1C	64421	hgsc.bcm.edu	37	10	14974905	14974905	+	Missense_Mutation	SNP	T	T	C	rs12768894	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	51	119	0	0.515152	0	T|0.855;C|0.145	0.145	strong	.	DCLRE1C	136	.	NM_001033855	exon9	c.A728G	p.H243R	AGATGATGAAGGA	.	PASS	Atlas-SNP
KRI1	65095	hgsc.bcm.edu	37	19	10670184	10670184	+	Missense_Mutation	SNP	C	C	G	rs3826709	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	51	93	0	0.408	0	C|0.425;G|0.575	0.575	strong	.	KRI1	65	.	NM_023008	exon12	c.G1063C	p.E355Q	TGAGCTCTTCCTG	.	PASS	Atlas-SNP
RADIL	55698	hgsc.bcm.edu	37	7	4841452	4841452	+	Missense_Mutation	SNP	C	C	G	rs142212641	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	19	81	0	0.487179	0	C|0.991;G|0.009	0.009	strong	RADIL,brain,glioma,0,1	RADIL	110	1	NM_018059	exon12	c.G2674C	p.A892P	GGCCAGCCTGGGA	.	PASS	Atlas-SNP
NLRC3	197358	hgsc.bcm.edu	37	16	3613126	3613126	+	Silent	SNP	C	C	T	rs12445430	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	46	32	40	0	0.695652	0	C|0.748;T|0.252	0.252	strong	.	NLRC3	103	.	NM_178844	exon5	c.G1812A	p.L604L	GTAGGCCAGGGCA	.	PASS	Atlas-SNP
TEX15	56154	hgsc.bcm.edu	37	8	30700598	30700598	+	Missense_Mutation	SNP	T	T	C	rs61740968	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	86	208	0	0.5	0	T|0.925;C|0.075	0.075	strong	TEX15,colon,carcinoma,+1,1	TEX15	350	1	NM_031271	exon1	c.A5936G	p.N1979S	AGCAAATTACTGT	.	PASS	Atlas-SNP
LIFR	3977	hgsc.bcm.edu	37	5	38486065	38486065	+	Missense_Mutation	SNP	C	C	T	rs3110234	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	59	178	0	0.393333	0	C|0.838;T|0.162	0.162	strong	.	LIFR	348	.	NM_002310	exon17	c.G2353A	p.V785I	TCTTAACTTTTAT	.	PASS	Atlas-SNP
MTMR4	9110	hgsc.bcm.edu	37	17	56585872	56585872	+	Missense_Mutation	SNP	G	G	C	rs3744108	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	134	122	0	0.992593	0	G|0.635;C|0.365	0.365	strong	.	MTMR4	91	.	NM_004687	exon7	c.C508G	p.L170V	TCTGCAGGTCAAA	.	PASS	Atlas-SNP
SPINK5	11005	hgsc.bcm.edu	37	5	147499891	147499891	+	Missense_Mutation	SNP	G	G	T	rs2303070	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	398	186	368	1	0.467337	0.00271739	G|0.858;T|0.142	0.142	strong	.	SPINK5	245	.	NM_001127699	exon26	c.G2475T	p.E825D	GAAAGAGGATGAA	.	PASS	Atlas-SNP
NRAP	4892	hgsc.bcm.edu	37	10	115392919	115392919	+	Missense_Mutation	SNP	T	T	A	rs2270182	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	255	106	219	0	0.415686	0	T|0.718;A|0.282	0.282	strong	.	NRAP	208	.	NM_001261463	exon16	c.A1556T	p.N519I	AACTTATTTTTCT	.	PASS	Atlas-SNP
DIS3	22894	hgsc.bcm.edu	37	13	73343039	73343039	+	Silent	SNP	C	C	T	rs2196979	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	156	178	0	0.968944	0	C|0.244;T|0.756	0.756	strong	.	DIS3	103	.	NM_014953	exon14	c.G1767A	p.T589T	AGCATACGTCAGA	.	PASS	Atlas-SNP
H1FNT	341567	hgsc.bcm.edu	37	12	48723595	48723595	+	Missense_Mutation	SNP	G	G	A	rs1471997	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	29	55	0	0.517857	0	G|0.832;A|0.168	0.168	strong	.	H1FNT	30	.	NM_181788	exon1	c.G521A	p.R174Q	GGAGACGGAACGC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	33	49	0	0.540984	0	G|0.431;A|0.569	0.569	strong	.	CUX1	253	.	NM_001913	exon16	c.G1390A	p.A464T	GGTGCCGCTGAGC	.	PASS	Atlas-SNP
CLDND2	125875	hgsc.bcm.edu	37	19	51871195	51871195	+	Silent	SNP	G	G	A	rs3745403	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	40	93	0	0.625	0	G|0.733;A|0.267	0.267	strong	.	CLDND2	11	.	NM_152353	exon2	c.C255T	p.C85C	CTCGTCGCACCGA	.	PASS	Atlas-SNP
BPIFA2	140683	hgsc.bcm.edu	37	20	31761919	31761919	+	Missense_Mutation	SNP	A	A	G	rs17304572	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	62	118	0	0.558559	0	A|0.994;G|0.006	0.006	strong	.	.	.	.	NM_080574	exon4	c.A337G	p.K113E	GATGTCAAAGCTG	.	PASS	Atlas-SNP
EFS	10278	hgsc.bcm.edu	37	14	23830042	23830042	+	Missense_Mutation	SNP	T	T	C	rs2231798	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	37	80	0	0.480519	0	T|0.564;C|0.436	0.436	strong	.	EFS	37	.	NM_005864	exon2	c.A19G	p.T7A	GCTGGGTCTGGTT	.	PASS	Atlas-SNP
SMARCA4	6597	hgsc.bcm.edu	37	19	11145691	11145691	+	Silent	SNP	C	C	T	rs28997582	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	74	123	1	0.616667	0.00813008	C|0.956;T|0.044	0.044	strong	SMARCA4_ENST00000358026,colon,carcinoma,+2,4	SMARCA4	502	4	NM_003072	exon29	c.C4053T	p.D1351D	GGACGACGCGGAG	.	scavenged	Atlas-SNP
OR2T4	127074	hgsc.bcm.edu	37	1	248525330	248525330	+	Missense_Mutation	SNP	A	A	G	rs56721857	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	652	199	732	2	0.305215	0.00273224	A|0.878;G|0.122	0.122	strong	.	OR2T4	126	.	NM_001004696	exon1	c.A448G	p.M150V	GCCACCATGGCCT	.	PASS	Atlas-SNP
FRG2B	441581	hgsc.bcm.edu	37	10	135440203	135440203	+	Missense_Mutation	SNP	A	A	T	rs200661929	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	761	164	533	0	0.215506	0	A|0.986;T|0.014	0.014	strong	FRG2B,NS,haematopoietic_neoplasm,0,1	FRG2B	47	1	NM_001080998	exon1	c.T44A	p.I15N	CACTGGATGGAGG	.	scavenged	Atlas-SNP
CPZ	8532	hgsc.bcm.edu	37	4	8594577	8594577	+	Missense_Mutation	SNP	C	C	T	rs34964084	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	7	5	8	0	0.714286	0	C|0.835;T|0.165	0.165	strong	.	CPZ	95	.	NM_003652	exon1	c.C17T	p.P6L	CGCTGCCGCTGCT	.	PASS	Atlas-SNP
NAV2	89797	hgsc.bcm.edu	37	11	20129311	20129311	+	Missense_Mutation	SNP	G	G	A	rs35891966	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	37	70	0	0.397849	0	G|0.958;A|0.042	0.042	strong	NAV2,right_upper_lobe,carcinoma,-2,1	NAV2	255	1	NM_001244963	exon38	c.G7120A	p.V2374I	GAAGCCGTCAGAG	.	PASS	Atlas-SNP
REG1B	5968	hgsc.bcm.edu	37	2	79313990	79313990	+	Missense_Mutation	SNP	C	C	T	rs62640882	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	83	154	0	0.522013	0	C|0.975;T|0.025	0.025	strong	.	REG1B	83	.	NM_006507	exon3	c.G131A	p.R44H	TAGGAGCGATAGG	.	PASS	Atlas-SNP
KIAA1683	80726	hgsc.bcm.edu	37	19	18377496	18377496	+	Missense_Mutation	SNP	C	C	G	rs8104533	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	183	72	177	0	0.393443	0	C|0.486;G|0.514	0.514	strong	.	KIAA1683	190	.	NM_001145304	exon3	c.G854C	p.S285T	CGGGCACTTACAC	.	PASS	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	37	1	22168801	22168801	+	Missense_Mutation	SNP	T	T	C	rs2229491	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	45	104	0	0.542169	0	T|0.899;G|0.000;C|0.101;A|0.000	0.101	strong	.	HSPG2	311	.	NM_005529	exon68	c.A8983G	p.S2995G	GGCCGCTGGCTGC	.	PASS	Atlas-SNP
OR5W2	390148	hgsc.bcm.edu	37	11	55681375	55681375	+	Silent	SNP	T	T	G	rs17511601	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	66	114	0	0.488889	0	T|0.952;G|0.048	0.048	strong	.	OR5W2	112	.	NM_001001960	exon1	c.A684C	p.I228I	AGAGTGTATCTCC	.	PASS	Atlas-SNP
PAK7	57144	hgsc.bcm.edu	37	20	9520142	9520142	+	Silent	SNP	G	G	A	rs12329540	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	70	147	0	0.451613	0	G|0.907;A|0.093	0.093	strong	.	PAK7	194	.	NM_177990	exon10	c.C2127T	p.I709I	GGGGACGATGCAA	.	PASS	Atlas-SNP
PRKCDBP	112464	hgsc.bcm.edu	37	11	6340706	6340706	+	Missense_Mutation	SNP	A	A	G	rs1051992	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	27	70	1	0.364865	0.0142857	A|0.509;G|0.491	0.491	strong	PRKCDBP,caecum,carcinoma,0,2	PRKCDBP	19	2	NM_145040	exon2	c.T473C	p.L158P	GCCTCCAGCTGCT	.	scavenged	Atlas-SNP
DNAJC10	54431	hgsc.bcm.edu	37	2	183584755	183584755	+	Missense_Mutation	SNP	G	G	A	rs6729801	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	50	42	0	0.980392	0	G|0.597;A|0.403	0.403	strong	.	DNAJC10	76	.	NM_001271581	exon4	c.G226A	p.D76N	CATGGCGATTTTT	.	PASS	Atlas-SNP
FUS	2521	hgsc.bcm.edu	37	16	31202291	31202291	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	2	98	0	0.0183486	0	.	.	none	FUS,NS,carcinoma,0,1	FUS	52	1	NM_004960	exon14	c.C1401T	p.N467N	GGGTAACTACGGG	.	scavenged	Atlas-SNP
IRGQ	126298	hgsc.bcm.edu	37	19	44098963	44098963	+	Silent	SNP	C	C	G	rs304725	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	32	12	52	0	0.375	0	C|0.497;G|0.503	0.503	strong	.	IRGQ	40	.	NM_001007561	exon2	c.G528C	p.R176R	TCACCTCCGCAGC	.	PASS	Atlas-SNP
TPSAB1	7177	hgsc.bcm.edu	37	16	1291188	1291188	+	Silent	SNP	C	C	T	rs62012906		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	52	132	4	0.481481	0.030303	.	.	weak	TPSAB1,NS,carcinoma,0,1	TPSAB1	24	1	NM_003294	exon3	c.C96T	p.V32V	CATCGTCGGGGGT	.	scavenged	Atlas-SNP
SALL4	57167	hgsc.bcm.edu	37	20	50407162	50407162	+	Silent	SNP	T	T	C	rs6021437	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	248	102	184	0	0.41129	0	T|0.668;C|0.332	0.332	strong	.	SALL4	168	.	NM_020436	exon2	c.A1860G	p.T620T	AATGGATGTGTTG	.	PASS	Atlas-SNP
TBXA2R	6915	hgsc.bcm.edu	37	19	3595923	3595923	+	Silent	SNP	G	G	A	rs1131882	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	36	70	0	0.486486	0	G|0.733;A|0.267	0.267	strong	TBXA2R,NS,carcinoma,0,1	TBXA2R	31	1	NM_201636	exon3	c.C795T	p.I265I	CTGGGCGATGAAG	.	PASS	Atlas-SNP
EPRS	2058	hgsc.bcm.edu	37	1	220154768	220154768	+	Silent	SNP	C	C	T	rs1061160	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	57	90	0	0.57	0	C|0.645;T|0.355	0.355	strong	.	EPRS	140	.	NM_004446	exon24	c.G3405A	p.Q1135Q	GTGTGACTGTACC	.	PASS	Atlas-SNP
C20orf194	25943	hgsc.bcm.edu	37	20	3362033	3362033	+	Silent	SNP	T	T	C	rs6051818	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	56	113	0	0.554455	0	T|0.757;C|0.243	0.243	strong	.	C20orf194	83	.	NM_001009984	exon3	c.A276G	p.V92V	ATCTAGTACTTCT	.	PASS	Atlas-SNP
ABLIM3	22885	hgsc.bcm.edu	37	5	148596546	148596546	+	Missense_Mutation	SNP	A	A	G	rs148615457	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	68	82	0	0.535433	0	A|0.999;G|0.001	0.001	strong	.	ABLIM3	91	.	NM_014945	exon8	c.A694G	p.T232A	CACCCAACCTGTG	.	PASS	Atlas-SNP
RBMS3	27303	hgsc.bcm.edu	37	3	30032626	30032626	+	Silent	SNP	C	C	G	rs114278295	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	258	140	214	0	0.542636	0	C|0.982;G|0.018	0.018	strong	.	RBMS3	62	.	NM_001003793	exon14	c.C1233G	p.T411T	GGACACCAGTGGT	.	PASS	Atlas-SNP
YTHDC2	64848	hgsc.bcm.edu	37	5	112889374	112889374	+	Missense_Mutation	SNP	G	G	A	rs10071816	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	107	114	0	1	0	G|0.681;A|0.319	0.319	strong	.	YTHDC2	118	.	NM_022828	exon14	c.G1955A	p.S652N	CTGACAGTACACA	.	PASS	Atlas-SNP
KCNE3	10008	hgsc.bcm.edu	37	11	74168411	74168411	+	Silent	SNP	A	A	G	rs2270676	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	73	121	0	0.401099	0	A|0.881;G|0.119	0.119	strong	.	KCNE3	7	.	NM_005472	exon3	c.T198C	p.F66F	AAATAGAAACATG	.	PASS	Atlas-SNP
ZNF571	51276	hgsc.bcm.edu	37	19	38055612	38055612	+	Missense_Mutation	SNP	A	A	T	rs4802029	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	41	69	0	0.650794	0	A|0.722;T|0.278	0.278	strong	.	ZNF571	54	.	NM_016536	exon4	c.T1718A	p.L573H	AGAGTAAGTTCTG	.	PASS	Atlas-SNP
TCERG1	10915	hgsc.bcm.edu	37	5	145838647	145838647	+	Silent	SNP	C	C	T	rs187468589	by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	17	10	17	0	0.588235	0	C|0.974;T|0.026	0.026	strong	TCERG1,NS,neuroblastoma,0,1	TCERG1	148	1	NM_006706	exon4	c.C639T	p.A213A	CCAGGCCCAGGCC	.	scavenged	Atlas-SNP
KIAA1377	57562	hgsc.bcm.edu	37	11	101832708	101832708	+	Silent	SNP	A	A	T	rs3740930	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	121	147	0	0.960317	0	A|0.962;N|0.002	.	strong	.	KIAA1377	111	.	NM_020802	exon6	c.A942T	p.T314T	GCTTACAAATTTA	.	PASS	Atlas-SNP
PLXNC1	10154	hgsc.bcm.edu	37	12	94645255	94645255	+	Silent	SNP	A	A	G	rs2230757	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	353	352	307	1	0.997167	0.00325733	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
NOP9	161424	hgsc.bcm.edu	37	14	24771285	24771285	+	Missense_Mutation	SNP	G	G	A	rs4280164	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	75	133	0	0.471698	0	G|0.835;A|0.165	0.165	strong	.	.	.	.	NM_174913	exon4	c.G923A	p.S308N	ACCTGAGTACTCG	.	PASS	Atlas-SNP
GTF2IRD1	9569	hgsc.bcm.edu	37	7	73932560	73932560	+	Silent	SNP	A	A	G	rs17851629	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	59	131	0	0.453846	0	A|0.744;G|0.256	0.256	strong	.	GTF2IRD1	91	.	NM_001199207	exon5	c.A609G	p.E203E	GCCCGAAGGCCTG	.	PASS	Atlas-SNP
PCDH15	65217	hgsc.bcm.edu	37	10	55955444	55955444	+	Missense_Mutation	SNP	T	T	G	rs4935502	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	61	83	0	0.544643	0	G|0.226;N|0.000	0.226	strong	PCDH15_ENST00000417177,colon,carcinoma,-1,12	PCDH15	1715	12	NM_001142763	exon12	c.A1319C	p.D440A	CTTACATCTTCTA	.	PASS	Atlas-SNP
TG	7038	hgsc.bcm.edu	37	8	134108453	134108453	+	Silent	SNP	C	C	T	rs2069568	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	116	160	0	0.549763	0	C|0.629;T|0.371	0.371	strong	.	TG	416	.	NM_003235	exon43	c.C7408T	p.L2470L	CAGCTCCTGGCCG	.	PASS	Atlas-SNP
ZNF440	126070	hgsc.bcm.edu	37	19	11942615	11942615	+	Silent	SNP	A	A	C	rs394416	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	37	100	0	0.393617	0	A|0.516;C|0.484	0.484	strong	ZNF440,NS,carcinoma,0,1	ZNF440	56	1	NM_152357	exon4	c.A624C	p.A208A	GAAAGCATTCCAT	.	PASS	Atlas-SNP
EIF5B	9669	hgsc.bcm.edu	37	2	99992822	99992822	+	Missense_Mutation	SNP	A	A	C	rs7558074	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	23	23	18	0	1	0	A|0.436;C|0.564;G|0.000;T|0.000	0.564	strong	.	EIF5B	95	.	NM_015904	exon10	c.A1565C	p.K522T	GAAACAAAGTTCA	.	PASS	Atlas-SNP
SMCHD1	23347	hgsc.bcm.edu	37	18	2740714	2740714	+	Silent	SNP	A	A	G	rs12327477	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	81	111	0	1	0	A|0.701;G|0.299	0.299	strong	.	SMCHD1	88	.	NM_015295	exon28	c.A3528G	p.T1176T	AATTACAGATCAG	.	PASS	Atlas-SNP
LRRC4C	57689	hgsc.bcm.edu	37	11	40137543	40137543	+	Silent	SNP	T	T	C	rs2953310	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	94	169	0	0.445498	0	T|0.478;C|0.522	0.522	strong	LRRC4C,NS,carcinoma,0,1	LRRC4C	190	1	NM_001258419	exon7	c.A300G	p.R100R	CAAGTGTCTCAAG	.	PASS	Atlas-SNP
SART1	9092	hgsc.bcm.edu	37	11	65733393	65733393	+	Silent	SNP	C	C	T	rs688862	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	108	102	0	1	0	C|0.595;T|0.405	0.405	strong	SART1,NS,carcinoma,0,1	SART1	41	1	NM_005146	exon7	c.C774T	p.T258T	CCTCACCGTGGAG	.	PASS	Atlas-SNP
PLEKHG2	64857	hgsc.bcm.edu	37	19	39908574	39908574	+	Silent	SNP	C	C	T	rs35466645	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	26	11	35	0	0.423077	0	C|0.847;T|0.153	0.153	strong	.	PLEKHG2	329	.	NM_022835	exon9	c.C912T	p.T304T	CTGGACCGGACCA	.	PASS	Atlas-SNP
RARS	5917	hgsc.bcm.edu	37	5	167924260	167924260	+	Silent	SNP	C	C	A	rs11557637	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	111	95	0	1	0	C|0.883;A|0.117	0.117	strong	.	RARS	58	.	NM_002887	exon7	c.C729A	p.T243T	GGGGACCCAGTTT	.	PASS	Atlas-SNP
ANO2	57101	hgsc.bcm.edu	37	12	5841701	5841701	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	89	155	0	0.481081	0	.	.	none	ANO2_ENST00000327087,NS,carcinoma,0,2	ANO2	309	2	NM_020373	exon15	c.G1530A	p.T510T	ACACTCCGTCGTG	.	PASS	Atlas-SNP
PRR5-ARHGAP8	553158	hgsc.bcm.edu	37	22	45258284	45258284	+	Missense_Mutation	SNP	G	G	C	rs41278887	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	67	131	0	0.553719	0	C|0.002;G|0.998	0.002	strong	.	PRR5-ARHGAP8	53	.	NM_181334	exon15	c.G1477C	p.E493Q	TTCACTGAACTGC	.	PASS	Atlas-SNP
HGFAC	3083	hgsc.bcm.edu	37	4	3446091	3446091	+	Missense_Mutation	SNP	G	G	T	rs3748034	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	29	14	30	0	0.482759	0	G|0.878;T|0.122	0.122	strong	.	HGFAC	69	.	NM_001528	exon6	c.G652T	p.A218S	CGCTGGGCCCGCG	.	PASS	Atlas-SNP
MLXIP	22877	hgsc.bcm.edu	37	12	122617989	122617989	+	Missense_Mutation	SNP	A	A	G	rs7978353	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	29	83	2	0.349398	0.0240964	A|0.566;G|0.434	0.434	strong	MLXIP,colon,carcinoma,0,2	MLXIP	46	2	NM_014938	exon9	c.A1187G	p.E396G	TGGATGAGCAGGG	.	scavenged	Atlas-SNP
MAGEA11	4110	hgsc.bcm.edu	37	X	148798223	148798223	+	Silent	SNP	T	T	C	rs2233050	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	115	65	0	0.934959	0	T|0.400;C|0.600	0.600	strong	.	MAGEA11	86	.	NM_005366	exon5	c.T1077C	p.L359L	GCTCCTTACCCAA	.	PASS	Atlas-SNP
FKBP15	23307	hgsc.bcm.edu	37	9	115941046	115941046	+	Silent	SNP	T	T	C	rs3810912	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	46	75	0	0.638889	0	T|0.885;C|0.115	0.115	strong	.	FKBP15	128	.	NM_015258	exon20	c.A1950G	p.A650A	GACCTGTGCAGTG	.	PASS	Atlas-SNP
ZNF486	90649	hgsc.bcm.edu	37	19	20308149	20308149	+	Nonsense_Mutation	SNP	C	C	G	rs184976796	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	32	15	20	0	0.46875	0	C|0.995;G|0.005	0.005	strong	.	ZNF486	74	.	NM_052852	exon4	c.C630G	p.Y210X	ACCATACAAATGT	.	PASS	Atlas-SNP
DDX20	11218	hgsc.bcm.edu	37	1	112308953	112308953	+	Missense_Mutation	SNP	T	T	C	rs197412	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	41	113	0	0.427083	0	C|0.483;N|0.000	0.483	strong	DDX20,NS,carcinoma,+1,1	DDX20	50	1	NM_007204	exon11	c.T1907C	p.I636T	AAGTTATTGAACA	.	PASS	Atlas-SNP
CALCR	799	hgsc.bcm.edu	37	7	93055753	93055753	+	Missense_Mutation	SNP	A	A	G	rs1801197	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	76	156	0	0.45509	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
OSBPL5	114879	hgsc.bcm.edu	37	11	3111866	3111866	+	Missense_Mutation	SNP	C	C	T	rs2277301	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	84	147	0	0.506024	0	C|0.835;T|0.165	0.165	strong	.	OSBPL5	78	.	NM_020896	exon20	c.G2320A	p.A774T	CCGTGGCCTGGCT	.	PASS	Atlas-SNP
OR2T4	127074	hgsc.bcm.edu	37	1	248524992	248524992	+	Missense_Mutation	SNP	A	A	G	rs45552134	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	515	77	745	3	0.149515	0.00402685	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
ZNF880	400713	hgsc.bcm.edu	37	19	52887603	52887603	+	Missense_Mutation	SNP	G	G	A	rs78052167	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	53	25	47	0	0.471698	0	G|0.978;A|0.022	0.022	strong	ZNF880,colon,carcinoma,+1,1	ZNF880	45	1	NM_001145434	exon4	c.G770A	p.R257Q	TTGCACGACATCA	.	PASS	Atlas-SNP
B2M	567	hgsc.bcm.edu	37	15	45003770	45003770	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	52	98	0	0.912281	0	.	.	none	.	B2M	99	.	NM_004048	exon1	c.T26A	p.V9E	TAGCTGTGCTCGC	.	PASS	Atlas-SNP
XRRA1	143570	hgsc.bcm.edu	37	11	74559481	74559481	+	Silent	SNP	C	C	T	rs4944961	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	56	118	0	0.470588	0	C|0.687;T|0.313	0.313	strong	.	XRRA1	46	.	NM_182969	exon15	c.G1383A	p.P461P	CTGCTTCGGCACC	.	PASS	Atlas-SNP
CCHCR1	54535	hgsc.bcm.edu	37	6	31112737	31112737	+	Missense_Mutation	SNP	C	C	A	rs130079	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	25	38	0	0.480769	0	C|0.801;A|0.199	0.199	strong	.	CCHCR1	68	.	NM_001105564	exon14	c.G1990T	p.G664C	GCTGGCCCTGGCG	.	PASS	Atlas-SNP
NAV3	89795	hgsc.bcm.edu	37	12	78400884	78400884	+	Silent	SNP	G	G	A	rs34276383	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	21	40	0	0.428571	0	G|0.867;A|0.133	0.133	strong	NAV3,NS,carcinoma,0,1	NAV3	506	1	NM_014903	exon8	c.G1566A	p.P522P	AATTCCGTCTTCC	.	PASS	Atlas-SNP
PER2	8864	hgsc.bcm.edu	37	2	239165663	239165663	+	Silent	SNP	T	T	C	rs2304669	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	42	70	0	0.424242	0	T|0.893;C|0.107	0.107	strong	.	PER2	85	.	NM_022817	exon17	c.A1965G	p.A655A	CGGCAGTGCCAGC	.	PASS	Atlas-SNP
TCOF1	6949	hgsc.bcm.edu	37	5	149759096	149759096	+	Missense_Mutation	SNP	T	T	C	rs7713638	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	33	44	0	0.478261	0	T|0.836;C|0.164	0.164	strong	.	TCOF1	154	.	NM_001135243	exon17	c.T2660C	p.V887A	TCCAGGTGAAGCC	.	PASS	Atlas-SNP
RHOQ	23433	hgsc.bcm.edu	37	2	46803354	46803354	+	Silent	SNP	C	C	T	rs41281473	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	92	204	0	0.436019	0	C|0.985;T|0.015	0.015	strong	.	RHOQ	22	.	NM_012249	exon3	c.C330T	p.Y110Y	GGAATACGCACCA	.	PASS	Atlas-SNP
PGR	5241	hgsc.bcm.edu	37	11	100933412	100933412	+	Missense_Mutation	SNP	C	C	A	rs1042838	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	52	104	0	0.509804	0	C|0.893;A|0.107	0.107	strong	.	PGR	115	.	NM_000926	exon4	c.G1978T	p.V660L	CGCCCACTGGCTG	.	PASS	Atlas-SNP
MYH14	79784	hgsc.bcm.edu	37	19	50795617	50795617	+	Silent	SNP	C	C	T	rs147447646	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	54	72	0	0.556701	0	C|0.998;T|0.002	0.002	strong	.	MYH14	261	.	NM_001145809	exon37	c.C5227T	p.L1743L	AAGGGCCTGGAGG	.	PASS	Atlas-SNP
ZDHHC8	29801	hgsc.bcm.edu	37	22	20131121	20131121	+	Silent	SNP	G	G	C	rs145100111	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	21	11	33	0	0.52381	0	G|0.993;C|0.007	0.007	strong	.	ZDHHC8	77	.	NM_001185024	exon10	c.G1968C	p.P656P	CGCCCCGGGGCCC	.	PASS	Atlas-SNP
OR5W2	390148	hgsc.bcm.edu	37	11	55681416	55681416	+	Missense_Mutation	SNP	A	A	G	rs17596422	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	49	99	0	0.5	0	A|0.952;G|0.048	0.048	strong	OR5W2,NS,carcinoma,+2,1	OR5W2	112	1	NM_001001960	exon1	c.T643C	p.F215L	AAATGAAAACTCC	.	PASS	Atlas-SNP
FER1L5	90342	hgsc.bcm.edu	37	2	97313565	97313565	+	Missense_Mutation	SNP	G	G	A	rs200413243	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	51	125	0	0.392308	0	.	.	weak	.	FER1L5	113	.	NM_001113382	exon4	c.G281A	p.S94N	AACCAAGTGAGGT	.	PASS	Atlas-SNP
C9orf78	51759	hgsc.bcm.edu	37	9	132591509	132591509	+	Silent	SNP	A	A	G	rs3818553	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	52	115	0	0.460177	0	A|0.766;G|0.234	0.234	strong	C9orf78,NS,carcinoma,0,1	C9orf78	26	1	NM_016520	exon8	c.T753C	p.G251G	CGTGTCACCTACT	.	PASS	Atlas-SNP
PLXNB1	5364	hgsc.bcm.edu	37	3	48456404	48456404	+	Missense_Mutation	SNP	C	C	T	rs149435305	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	3	151	0	0.0197368	0	C|0.999;T|0.001	0.001	strong	PLXNB1,colon,carcinoma,0,1	PLXNB1	150	1	NM_001130082	exon21	c.G4013A	p.R1338H	GGTGTGCGGCACG	.	scavenged	Atlas-SNP
OR2F1	26211	hgsc.bcm.edu	37	7	143657801	143657801	+	Silent	SNP	A	A	G	rs2072166	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	94	167	0	0.534091	0	A|0.568;G|0.432	0.432	strong	.	OR2F1	71	.	NM_012369	exon1	c.A738G	p.T246T	CCTCACAGTGGTT	.	PASS	Atlas-SNP
PLA2R1	22925	hgsc.bcm.edu	37	2	160879259	160879259	+	Missense_Mutation	SNP	C	C	T	rs33985939	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	198	100	165	0	0.50505	0	C|0.949;T|0.051	0.051	strong	.	PLA2R1	153	.	NM_001195641	exon7	c.G1211A	p.R404H	CAAGAACGCAGAG	.	PASS	Atlas-SNP
MAP10	54627	hgsc.bcm.edu	37	1	232943775	232943775	+	Silent	SNP	C	C	T	rs147903928	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	294	138	249	1	0.469388	0.00401606	C|0.999;T|0.001	0.001	strong	.	.	.	.	NM_019090	exon1	c.C3006T	p.S1002S	TGTGTCCGAACTT	.	PASS	Atlas-SNP
UGGT1	56886	hgsc.bcm.edu	37	2	128939799	128939799	+	Silent	SNP	C	C	T	rs17178720	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	183	91	172	0	0.497268	0	C|0.882;T|0.118	0.118	strong	.	UGGT1	126	.	NM_020120	exon37	c.C4179T	p.D1393D	AATGGACGGCTAC	.	PASS	Atlas-SNP
TACSTD2	4070	hgsc.bcm.edu	37	1	59042388	59042388	+	Missense_Mutation	SNP	C	C	G	rs1062964	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	14	7	42	0	0.5	0	C|0.953;G|0.047	0.047	strong	.	TACSTD2	6	.	NM_002353	exon1	c.G441C	p.E147D	CACCAGCTCATCG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	230	107	202	0	0.465217	0	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
OR1S1	219959	hgsc.bcm.edu	37	11	57982584	57982584	+	Missense_Mutation	SNP	T	T	C	rs1966835	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	386	174	308	1	0.450777	0.00324675	T|0.569;C|0.431	0.431	strong	.	OR1S1	139	.	NM_001004458	exon1	c.T368C	p.I123T	TCGTCATTGACAA	.	PASS	Atlas-SNP
ALG1L	200810	hgsc.bcm.edu	37	3	125649403	125649403	+	Silent	SNP	C	C	A	rs76888118		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	7	7	1	0	1	0	.	.	weak	.	ALG1L	12	.	NM_001195223	exon6	c.G405T	p.L135L	TACCTGCAGAGCT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	49	118	0	0.379845	0	C|0.782;T|0.218	0.218	strong	.	MOV10L1	238	.	NM_018995	exon4	c.C544T	p.R182C	TACAAGCGCGTGG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	142	152	0	1	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
CELSR3	1951	hgsc.bcm.edu	37	3	48677895	48677895	+	Silent	SNP	A	A	T	rs1264195	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	248	138	183	0	0.556452	0	A|0.976;T|0.024	0.024	strong	.	CELSR3	237	.	NM_001407	exon34	c.T9123A	p.A3041A	TGGCACAGCACGG	.	PASS	Atlas-SNP
IRS4	8471	hgsc.bcm.edu	37	X	107978343	107978343	+	Missense_Mutation	SNP	C	C	T	rs41307415	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	80	69	0	0.963855	0	C|0.950;T|0.050	0.050	strong	.	IRS4	253	.	NM_003604	exon1	c.G1232A	p.R411Q	CTTCCTCGCCTGG	.	PASS	Atlas-SNP
DLEC1	9940	hgsc.bcm.edu	37	3	38125705	38125705	+	Silent	SNP	G	G	A	rs7652276	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	52	125	0	0.403101	0	G|0.644;A|0.356	0.356	strong	.	DLEC1	278	.	NM_007337	exon7	c.G1230A	p.P410P	CCTCCCGCCTTCC	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1080954	1080954	+	Silent	SNP	G	G	A	rs11245929	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	101	128	0	0.505	0	G|0.919;A|0.081	0.081	strong	MUC2_ENST00000441003,NS,carcinoma,0,2	MUC2	614	2	NM_002457	exon10	c.G1338A	p.T446T	GAAGACGGTGGTG	.	PASS	Atlas-SNP
CDC16	8881	hgsc.bcm.edu	37	13	115004914	115004914	+	Silent	SNP	C	C	T	rs2296971	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	42	92	0	0.47191	0	C|0.562;T|0.438	0.438	strong	.	CDC16	50	.	NM_003903	exon5	c.C330T	p.D110D	GAAGGACGAAAGT	.	PASS	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	37	18	6999963	6999963	+	Silent	SNP	G	G	A	rs12970643	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	90	187	1	0.588235	0.00534759	G|0.899;A|0.101	0.101	strong	.	LAMA1	458	.	NM_005559	exon31	c.C4416T	p.H1472H	GAAATCGTGGTCC	.	PASS	Atlas-SNP
OR4N2	390429	hgsc.bcm.edu	37	14	20296010	20296010	+	Missense_Mutation	SNP	G	G	C	rs17114261	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	218	217	220	0	0.995413	0	G|0.824;C|0.176	0.176	strong	.	OR4N2	125	.	NM_001004723	exon1	c.G403C	p.V135L	CCTACTGTCATGA	.	PASS	Atlas-SNP
ST20	400410	hgsc.bcm.edu	37	15	80191343	80191343	+	Missense_Mutation	SNP	G	G	A	rs7257	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	379	376	389	0	0.992084	0	G|0.590;A|0.410	0.410	strong	.	ST20	9	.	NM_001199757	exon3	c.C170T	p.P57L	CAATATGGAGTGT	.	PASS	Atlas-SNP
DND1	373863	hgsc.bcm.edu	37	5	140050894	140050894	+	Missense_Mutation	SNP	G	G	C	rs201638404	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	625	57	436	1	0.0912	0.00229358	G|0.979;C|0.021	0.021	strong	DND1,NS,carcinoma,-1,1	DND1	15	1	NM_194249	exon4	c.C1046G	p.T349S	ACCATGGTACCTG	.	scavenged	Atlas-SNP
VWF	7450	hgsc.bcm.edu	37	12	6167118	6167118	+	Silent	SNP	C	C	T	rs35365059	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	38	81	0	0.447059	0	T|0.074;G|0.000;C|0.925	0.074	strong	VWF,colon,carcinoma,0,1	VWF	338	1	NM_000552	exon14	c.G1626A	p.A542A	GGGCTCCGCCAGC	.	PASS	Atlas-SNP
RAB11B	9230	hgsc.bcm.edu	37	19	8468322	8468322	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	65	114	0	0.515873	0	.	.	none	.	RAB11B	15	.	NM_004218	exon5	c.A537G	p.K179K	ACAGAAACAGATC	.	PASS	Atlas-SNP
ZNF485	220992	hgsc.bcm.edu	37	10	44104101	44104101	+	Missense_Mutation	SNP	C	C	T	rs45545532	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	288	131	269	0	0.454861	0	C|0.915;T|0.085	0.085	strong	.	ZNF485	102	.	NM_145312	exon3	c.C64T	p.R22W	TTTACCCGGATTG	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239417	31239417	+	Missense_Mutation	SNP	C	C	T	rs2308557	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	196	102	179	0	0.520408	0	T|0.404;G|0.000;C|0.595;A|0.000	0.404	strong	.	HLA-C	92	.	NM_002117	exon2	c.G302A	p.S101N	CGCAGGCTCACTC	.	PASS	Atlas-SNP
BNIPL	149428	hgsc.bcm.edu	37	1	151009208	151009208	+	Missense_Mutation	SNP	A	A	G	rs41266605	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	57	117	0	0.527778	0	A|0.975;G|0.025	0.025	strong	.	BNIPL	45	.	NM_138278	exon1	c.A7G	p.T3A	ATGGGAACTATAC	.	PASS	Atlas-SNP
HIST1H2AA	221613	hgsc.bcm.edu	37	6	25726675	25726675	+	Silent	SNP	G	G	A	rs9358871	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	116	102	0	1	0	G|0.717;A|0.283	0.283	strong	.	HIST1H2AA	34	.	NM_170745	exon1	c.C81T	p.P27P	GCCTACGGGAAAC	.	PASS	Atlas-SNP
KLHL25	64410	hgsc.bcm.edu	37	15	86312681	86312681	+	Silent	SNP	G	G	A	rs11073537	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	71	62	0	0.986111	0	G|0.803;A|0.197	0.197	strong	.	KLHL25	58	.	NM_022480	exon2	c.C361T	p.L121L	CCTCCAGCAGTGA	.	PASS	Atlas-SNP
FAM135A	57579	hgsc.bcm.edu	37	6	71236216	71236216	+	Silent	SNP	C	C	T	rs7740873	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	190	183	0	0.994764	0	C|0.734;T|0.266	0.266	strong	.	FAM135A	181	.	NM_001162529	exon13	c.C3429T	p.N1143N	TATAAACATGCCT	.	PASS	Atlas-SNP
SON	6651	hgsc.bcm.edu	37	21	34925689	34925689	+	Silent	SNP	G	G	A	rs61739710	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	204	106	198	0	0.519608	0	G|0.792;A|0.208	0.208	strong	.	SON	343	.	NM_032195	exon3	c.G4152A	p.L1384L	TGTCCTGGAGCCT	.	PASS	Atlas-SNP
SLC4A2	6522	hgsc.bcm.edu	37	7	150768786	150768786	+	Silent	SNP	G	G	A	rs2303937	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	61	123	0	0.512605	0	G|0.581;A|0.419	0.419	strong	.	SLC4A2	98	.	NM_003040	exon15	c.G2202A	p.T734T	GAAGACGCAGGAC	.	PASS	Atlas-SNP
SPPL2C	162540	hgsc.bcm.edu	37	17	43923266	43923266	+	Missense_Mutation	SNP	G	G	A	rs62054815	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	33	41	0	0.471429	0	A|0.120;C|0.240	0.120	strong	.	.	.	.	NM_175882	exon1	c.G994A	p.A332T	CTGTGCGCAACCG	.	PASS	Atlas-SNP
RBAK	57786	hgsc.bcm.edu	37	7	5105133	5105133	+	Silent	SNP	C	C	T	rs12334144	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	44	81	0	0.5	0	C|0.426;G|0.000;T|0.574	0.574	strong	RBAK_ENST00000396912,colon,carcinoma,0,1	RBAK	82	1	NM_001204456	exon6	c.C2046T	p.N682N	ATGTAACGAGTGT	.	PASS	Atlas-SNP
PTPRO	5800	hgsc.bcm.edu	37	12	15699555	15699555	+	Silent	SNP	G	G	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	73	183	0	0.45625	0	.	.	none	.	PTPRO	148	.	NM_002848	exon13	c.G2217C	p.V739V	TTCAGTGACTTTG	.	PASS	Atlas-SNP
MYT1L	23040	hgsc.bcm.edu	37	2	1805489	1805489	+	Silent	SNP	A	A	G	rs2288179	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	87	125	0	0.54375	0	A|0.933;C|0.002	.	strong	MYT1L,NS,carcinoma,-2,1	MYT1L	241	1	NM_015025	exon23	c.T3249C	p.D1083D	AATCATATCGGCT	.	PASS	Atlas-SNP
SPATA6	54558	hgsc.bcm.edu	37	1	48764419	48764419	+	Missense_Mutation	SNP	C	C	T	rs1056042	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	269	134	282	0	0.498141	0	T|0.304;C|0.696	0.304	strong	SPATA6,NS,carcinoma,0,1	SPATA6	45	1	NM_019073	exon13	c.G1433A	p.C478Y	GAACTACAGGCCT	.	PASS	Atlas-SNP
BMP2	650	hgsc.bcm.edu	37	20	6751034	6751034	+	Silent	SNP	A	A	G	rs1049007	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	76	135	3	0.47205	0.0222222	A|0.276;G|0.724	0.724	strong	BMP2,NS,carcinoma,0,4	BMP2	45	4	NM_001200	exon2	c.A261G	p.S87S	GCACTCAGGTCAG	.	scavenged	Atlas-SNP
MLXIP	22877	hgsc.bcm.edu	37	12	122618131	122618131	+	Silent	SNP	A	A	G	rs36045144	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	45	94	0	0.5	0	A|0.784;G|0.216;T|0.000	0.216	strong	.	MLXIP	46	.	NM_014938	exon9	c.A1329G	p.P443P	CGCCCCACCGCCC	.	PASS	Atlas-SNP
PHACTR4	65979	hgsc.bcm.edu	37	1	28800380	28800380	+	Missense_Mutation	SNP	C	C	A	rs61785974	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	29	35	0	0.47541	0	C|0.726;A|0.274	0.274	strong	.	PHACTR4	64	.	NM_023923	exon6	c.C1168A	p.L390I	TTAGATCTACACC	.	PASS	Atlas-SNP
PDILT	204474	hgsc.bcm.edu	37	16	20410488	20410488	+	Silent	SNP	G	G	A	rs7185940	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	41	104	0	0.347458	0	G|0.676;A|0.324	0.324	strong	.	PDILT	120	.	NM_174924	exon2	c.C135T	p.L45L	CACTAGGAGACTG	.	PASS	Atlas-SNP
CCDC50	152137	hgsc.bcm.edu	37	3	191075902	191075902	+	Silent	SNP	C	C	T	rs11542549	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	168	142	0	0.994083	0	C|0.584;A|0.042	.	strong	.	CCDC50	39	.	NM_174908	exon3	c.C228T	p.R76R	GAAGCGCTACAAA	.	PASS	Atlas-SNP
TSACC	128229	hgsc.bcm.edu	37	1	156314497	156314497	+	Missense_Mutation	SNP	C	C	T	rs41265043	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	19	25	0	0.633333	0	C|0.984;T|0.016	0.016	strong	.	.	.	.	NM_144627	exon3	c.C161T	p.S54L	TGCCCTCGGGTAA	.	PASS	Atlas-SNP
SCRN3	79634	hgsc.bcm.edu	37	2	175263063	175263063	+	Missense_Mutation	SNP	G	G	A	rs10497410	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	31	73	0	0.516667	0	G|0.866;A|0.134	0.134	strong	.	SCRN3	76	.	NM_024583	exon2	c.G52A	p.D18N	ACAGTCGATAACA	.	PASS	Atlas-SNP
PRB1	5542	hgsc.bcm.edu	37	12	11506288	11506288	+	Missense_Mutation	SNP	T	T	C	rs140825288	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	515	8	176	1	0.015534	0.00568182	.	.	weak	PRB1,NS,carcinoma,0,2	PRB1	33	2	NM_199353	exon4	c.A350G	p.K117R	TGAGGTTTGTTGC	.	scavenged	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50727706	50727706	+	Missense_Mutation	SNP	G	G	C	rs6580741	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	269	119	296	0	0.442379	0	G|0.688;C|0.312	0.312	strong	.	FAM186A	181	.	NM_001145475	exon5	c.C6684G	p.H2228Q	GAATACGTGTATC	.	PASS	Atlas-SNP
ATN1	1822	hgsc.bcm.edu	37	12	7047143	7047143	+	Silent	SNP	C	C	A	rs7969685	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	27	27	0	0.692308	0	C|0.802;A|0.198	0.198	strong	.	ATN1	95	.	NM_001007026	exon6	c.C2430A	p.R810R	GCAGCGCGCGCGC	.	PASS	Atlas-SNP
POLQ	10721	hgsc.bcm.edu	37	3	121208833	121208833	+	Missense_Mutation	SNP	G	G	C	rs3218649	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	46	77	0	0.511111	0	G|0.377;C|0.623	0.623	strong	.	POLQ	273	.	NM_199420	exon16	c.C2945G	p.T982R	GAACATGTCTGAT	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1263648	1263648	+	Silent	SNP	G	G	A	rs151293115	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	52	118	0	0.403101	0	G|0.999;A|0.001	0.001	strong	.	MUC5B	473	.	NM_002458	exon31	c.G5538A	p.V1846V	GCAGGTGCTGACC	.	PASS	Atlas-SNP
ARMC9	80210	hgsc.bcm.edu	37	2	232156084	232156084	+	Missense_Mutation	SNP	C	C	T	rs148296188	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	52	67	0	0.514852	0	C|0.988;T|0.012	0.012	strong	.	ARMC9	129	.	NM_025139	exon18	c.C1645T	p.R549C	ATCCTACGCTGCT	.	PASS	Atlas-SNP
BDP1	55814	hgsc.bcm.edu	37	5	70849021	70849021	+	Silent	SNP	G	G	T	rs469039	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	27	84	0	0.346154	0	G|0.560;T|0.440	0.440	strong	.	BDP1	204	.	NM_018429	exon35	c.G7074T	p.P2358P	AAAGCCGCCTGAT	.	PASS	Atlas-SNP
LDLRAD3	143458	hgsc.bcm.edu	37	11	36103228	36103228	+	Silent	SNP	A	A	G	rs1138807	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	146	131	0	1	0	G|0.359;N|0.000	0.359	strong	.	LDLRAD3	52	.	NM_174902	exon3	c.A219G	p.P73P	TGGCCCAACCTTC	.	PASS	Atlas-SNP
NAV3	89795	hgsc.bcm.edu	37	12	78530991	78530991	+	Silent	SNP	C	C	T	rs61754236	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	82	133	1	0.5	0.0075188	C|0.994;T|0.006	0.006	strong	NAV3,NS,carcinoma,0,1	NAV3	506	1	NM_014903	exon19	c.C4476T	p.P1492P	CCTTCCCGGGCCC	.	scavenged	Atlas-SNP
MS4A14	84689	hgsc.bcm.edu	37	11	60184277	60184277	+	Missense_Mutation	SNP	A	A	C	rs73481226	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	50	114	0	0.526316	0	A|0.960;C|0.040	0.040	strong	.	MS4A14	120	.	NM_001261828	exon6	c.A1935C	p.Q645H	GGCCCAAGAGAAG	.	PASS	Atlas-SNP
ARHGEF40	55701	hgsc.bcm.edu	37	14	21542753	21542753	+	Silent	SNP	G	G	A	rs1243472	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	29	20	0	0.966667	0	G|0.741;A|0.259	0.259	strong	.	ARHGEF40	84	.	NM_018071	exon3	c.G864A	p.A288A	CCGGGCGTGGATG	.	PASS	Atlas-SNP
BTBD11	121551	hgsc.bcm.edu	37	12	107937768	107937768	+	Missense_Mutation	SNP	G	G	A	rs1558781	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	143	106	0	0.993056	0	G|0.845;A|0.155	0.155	strong	BTBD11,NS,carcinoma,-1,2	BTBD11	122	2	NM_001018072	exon3	c.G1342A	p.G448S	CACCACGGCAATG	.	PASS	Atlas-SNP
KRTAP5-3	387266	hgsc.bcm.edu	37	11	1628992	1628992	+	Silent	SNP	G	G	A	rs60210378	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	97	72	0	0.97	0	G|0.561;A|0.439	0.439	strong	KRTAP5-3,NS,carcinoma,0,1	KRTAP5-3	33	1	NM_001012708	exon1	c.C624T	p.G208G	CCCACAGCCTGAG	.	PASS	Atlas-SNP
OR5P2	120065	hgsc.bcm.edu	37	11	7818165	7818165	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	3	64	0	0.05	0	.	.	none	OR5P2,brain,glioma,0,2	OR5P2	68	2	NM_153444	exon1	c.G325A	p.V109I	GAAGGACGCATTC	.	scavenged	Atlas-SNP
CCDC116	164592	hgsc.bcm.edu	37	22	21988599	21988599	+	Missense_Mutation	SNP	G	G	A	rs371513	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	41	26	46	0	0.634146	0	G|0.847;A|0.153	0.153	strong	.	CCDC116	56	.	NM_152612	exon3	c.G361A	p.G121R	AGTGGTGGACGGC	.	PASS	Atlas-SNP
HOXD12	3238	hgsc.bcm.edu	37	2	176965086	176965086	+	Missense_Mutation	SNP	G	G	A	rs35817516	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	222	110	216	0	0.495495	0	G|0.928;A|0.072	0.072	strong	.	HOXD12	25	.	NM_021193	exon1	c.G557A	p.R186Q	GCCTGCGACCTTC	.	PASS	Atlas-SNP
THUMPD1	55623	hgsc.bcm.edu	37	16	20748331	20748331	+	Missense_Mutation	SNP	C	C	A	rs11074471	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	260	127	249	1	0.488462	0.00401606	C|0.868;A|0.132	0.132	strong	.	THUMPD1	33	.	NM_017736	exon4	c.G933T	p.E311D	AGTATTCTCTGGT	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1081141	1081141	+	Silent	SNP	C	C	T	rs41375149	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	49	100	0	0.433628	0	C|0.939;T|0.061	0.061	strong	.	MUC2	614	.	NM_002457	exon11	c.C1437T	p.T479T	CGTGACCGGTGAG	.	PASS	Atlas-SNP
VIPR2	7434	hgsc.bcm.edu	37	7	158827326	158827326	+	Silent	SNP	G	G	A	rs2071624	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	63	98	0	0.543103	0	G|0.742;N|0.000	.	strong	.	VIPR2	53	.	NM_003382	exon9	c.C825T	p.N275N	GTGGTCGTTTGTA	.	PASS	Atlas-SNP
ZNF831	128611	hgsc.bcm.edu	37	20	57829301	57829301	+	Missense_Mutation	SNP	T	T	C	rs259956	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	64	108	0	0.474074	0	T|0.411;C|0.589	0.589	strong	ZNF831,caecum,carcinoma,0,1	ZNF831	287	1	NM_178457	exon5	c.T4537C	p.S1513P	GCTGAATCACGAG	.	PASS	Atlas-SNP
RASGEF1B	153020	hgsc.bcm.edu	37	4	82355804	82355804	+	Missense_Mutation	SNP	C	C	T	rs34211143	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	70	127	0	0.518519	0	C|0.989;T|0.011	0.011	strong	RASGEF1B,NS,carcinoma,+2,1	RASGEF1B	44	1	NM_152545	exon11	c.G1189A	p.V397I	AATTGACATGGCC	.	PASS	Atlas-SNP
MATN1	4146	hgsc.bcm.edu	37	1	31188089	31188089	+	Silent	SNP	C	C	T	rs1065755	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	294	153	234	0	0.520408	0	C|0.696;T|0.304	0.304	strong	.	MATN1	28	.	NM_002379	exon6	c.G1275A	p.E425E	CACAGGCTCTGAG	.	PASS	Atlas-SNP
LIPC	3990	hgsc.bcm.edu	37	15	58860963	58860963	+	Silent	SNP	C	C	A	rs6074	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	29	46	0	0.432836	0	C|0.856;A|0.144	0.144	strong	.	LIPC	56	.	NM_000236	exon9	c.C1437A	p.T479T	CCCAACCCAGGAA	.	PASS	Atlas-SNP
HFE	3077	hgsc.bcm.edu	37	6	26093141	26093141	+	Missense_Mutation	SNP	G	G	A	rs1800562	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	87	228	0	0.453125	0	G|0.966;A|0.034	0.034	strong	.	HFE	37	.	NM_000410	exon4	c.G845A	p.C282Y	ATACGTGCCAGGT	.	PASS	Atlas-SNP
N4BP3	23138	hgsc.bcm.edu	37	5	177547519	177547519	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	2	94	0	0.0190476	0	.	.	none	N4BP3,colon,carcinoma,0,1	N4BP3	25	1	NM_015111	exon3	c.G671A	p.R224Q	TGGACCGGGCCTC	.	scavenged	Atlas-SNP
PIWIL4	143689	hgsc.bcm.edu	37	11	94337220	94337220	+	Silent	SNP	C	C	T	rs593690	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	85	114	0	0.988372	0	C|0.455;T|0.545	0.545	strong	.	PIWIL4	70	.	NM_152431	exon13	c.C1636T	p.L546L	GTTCAGCTGGTAA	.	PASS	Atlas-SNP
H2AFY	9555	hgsc.bcm.edu	37	5	134670765	134670765	+	Silent	SNP	A	A	G	rs3210047	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	302	138	247	0	0.456954	0	A|0.875;G|0.125	0.125	strong	.	H2AFY	61	.	NM_138610	exon9	c.T1020C	p.S340S	CATTGTAGACACG	.	PASS	Atlas-SNP
CLC	1178	hgsc.bcm.edu	37	19	40224986	40224986	+	Silent	SNP	A	A	G	rs384138	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	62	122	0	0.407895	0	A|0.335;G|0.665	0.665	strong	CLC,NS,carcinoma,0,1	CLC	20	1	NM_001828	exon3	c.T240C	p.N80N	GGGCATATTCTTG	.	PASS	Atlas-SNP
PRDM7	11105	hgsc.bcm.edu	37	16	90124871	90124871	+	Missense_Mutation	SNP	G	G	T	rs7206111	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	393	192	325	2	0.48855	0.00615385	G|0.923;T|0.077	0.077	strong	PRDM7,NS,carcinoma,0,1	PRDM7	53	1	NM_001098173	exon10	c.C1305A	p.N435K	CCACATGTTGACT	.	scavenged	Atlas-SNP
FBXL4	26235	hgsc.bcm.edu	37	6	99323424	99323424	+	Silent	SNP	C	C	T	rs11537982	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	217	105	180	0	0.483871	0	T|0.060;G|0.000;C|0.940	0.060	strong	.	FBXL4	54	.	NM_012160	exon8	c.G1569A	p.G523G	GAAGCACCCGGTG	.	PASS	Atlas-SNP
NIPAL3	57185	hgsc.bcm.edu	37	1	24785393	24785393	+	Silent	SNP	C	C	T	rs2272935	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	198	97	170	0	0.489899	0	C|0.732;T|0.268	0.268	strong	NIPAL3,NS,carcinoma,+1,1	NIPAL3	36	1	NM_020448	exon9	c.C789T	p.A263A	TCAAGCCTCACAG	.	PASS	Atlas-SNP
OR4C15	81309	hgsc.bcm.edu	37	11	55322539	55322539	+	Missense_Mutation	SNP	G	G	A	rs12790125	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	372	371	318	0	0.997312	0	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
AZI1	22994	hgsc.bcm.edu	37	17	79169670	79169670	+	Missense_Mutation	SNP	C	C	T	rs61741549	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	34	76	0	0.409639	0	C|0.982;T|0.018	0.018	strong	.	AZI1	145	.	NM_014984	exon16	c.G1981A	p.E661K	CACGCTCGGTGCA	.	PASS	Atlas-SNP
OR5W2	390148	hgsc.bcm.edu	37	11	55681336	55681336	+	Silent	SNP	G	G	A	rs11231529	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	77	159	0	0.52027	0	G|0.677;A|0.323	0.323	strong	.	OR5W2	112	.	NM_001001960	exon1	c.C723T	p.C241C	GGAAGTGCATGTA	.	PASS	Atlas-SNP
HIP1	3092	hgsc.bcm.edu	37	7	75187009	75187009	+	Silent	SNP	T	T	C	rs144294774	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	70	127	0	0.492958	0	T|0.996;C|0.004	0.004	strong	.	HIP1	91	.	NM_005338	exon16	c.A1530G	p.K510K	CTCTTTTTTCTCT	.	PASS	Atlas-SNP
ST3GAL4	6484	hgsc.bcm.edu	37	11	126278203	126278203	+	Silent	SNP	T	T	C	rs2298475	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	98	132	0	0.569767	0	T|0.925;C|0.075	0.075	strong	ST3GAL4,NS,carcinoma,0,1	ST3GAL4	25	1	NM_001254757	exon8	c.T439C	p.L147L	CCCAGATTGAACA	.	PASS	Atlas-SNP
CNTNAP3B	728577	hgsc.bcm.edu	37	9	43685357	43685357	+	Missense_Mutation	SNP	C	C	A	rs4879079	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	41	109	0	0.292857	0	C|0.500;A|0.500	0.500	strong	CNTNAP3B,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1	CNTNAP3B	37	1	NM_001201380	exon1	c.C63A	p.S21R	TTGGAGCCCCGTA	.	scavenged	Atlas-SNP
PARP1	142	hgsc.bcm.edu	37	1	226555302	226555302	+	Missense_Mutation	SNP	A	A	G	rs1136410	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	51	76	0	0.614458	0	A|0.827;G|0.173	0.173	strong	.	PARP1	100	.	NM_001618	exon17	c.T2285C	p.V762A	ATTTCCACCTTGG	.	PASS	Atlas-SNP
DNM2	1785	hgsc.bcm.edu	37	19	10939792	10939792	+	Silent	SNP	T	T	C	rs2229920	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	66	147	0	0.420382	0	T|0.682;C|0.318	0.318	strong	.	DNM2	175	.	NM_001005361	exon19	c.T2139C	p.A713A	GTCGGCTGACCAG	.	PASS	Atlas-SNP
HLA-DPA1	3113	hgsc.bcm.edu	37	6	33037560	33037560	+	Silent	SNP	G	G	A	rs1042176	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	170	65	197	0	0.382353	0	G|0.802;A|0.198	0.198	strong	.	HLA-DPA1	20	.	NM_033554	exon2	c.C204T	p.D68D	CTTCTTGTCCAGA	.	PASS	Atlas-SNP
DNMT1	1786	hgsc.bcm.edu	37	19	10287992	10287992	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	3	180	0	0.0172414	0	.	.	none	DNMT1,NS,carcinoma,0,2	DNMT1	148	2	NM_001130823	exon6	c.C545T	p.T182I	GTGATGGTGGTTT	.	scavenged	Atlas-SNP
LRCH3	84859	hgsc.bcm.edu	37	3	197579466	197579466	+	Missense_Mutation	SNP	C	C	T	rs36078463	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	93	148	0	0.550296	0	C|0.913;T|0.087	0.087	strong	.	LRCH3	96	.	NM_032773	exon13	c.C1565T	p.P522L	AGCACCCGCTCCT	.	PASS	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240796	39240796	+	Missense_Mutation	SNP	G	G	C	rs199957151		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	41	19	28	1	0.463415	0.0357143	.	.	weak	KRTAP4-7,NS,carcinoma,+1,1	KRTAP4-7	49	1	NM_033061	exon1	c.G338C	p.S113T	GCCCCAGCTGCTG	.	scavenged	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39137387	39137387	+	Missense_Mutation	SNP	C	C	T	rs2010027	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	55	84	0	0.486726	0	C|0.658;T|0.342	0.342	strong	.	KRT40	27	.	NM_182497	exon6	c.G704A	p.R235H	TGTTCACGAAGCA	.	PASS	Atlas-SNP
USPL1	10208	hgsc.bcm.edu	37	13	31233063	31233063	+	Missense_Mutation	SNP	G	G	A	rs3742302	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	147	113	0	0.993243	0	G|0.506;N|0.000	.	strong	.	USPL1	82	.	NM_005800	exon9	c.G2849A	p.S950N	TTGCCAGTGAGTC	.	PASS	Atlas-SNP
ANKRD26	22852	hgsc.bcm.edu	37	10	27317840	27317840	+	Missense_Mutation	SNP	C	C	T	rs10829163	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	97	268	0	0.482587	0	C|0.724;T|0.276	0.276	strong	.	ANKRD26	179	.	NM_014915	exon27	c.G3913A	p.V1305I	TTTTGACTGTAAC	.	PASS	Atlas-SNP
RARS	5917	hgsc.bcm.edu	37	5	167933156	167933156	+	Silent	SNP	A	A	G	rs61744940	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	41	96	0	0.42268	0	A|0.922;G|0.078	0.078	strong	.	RARS	58	.	NM_002887	exon10	c.A1188G	p.L396L	AAGACTATTTGAG	.	PASS	Atlas-SNP
UROC1	131669	hgsc.bcm.edu	37	3	126219627	126219627	+	Silent	SNP	G	G	A	rs34025926	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	60	117	0	0.504202	0	G|0.729;A|0.271	0.271	strong	.	UROC1	150	.	NM_001165974	exon12	c.C1236T	p.G412G	GTAGCCGCCATTG	.	PASS	Atlas-SNP
USP32	84669	hgsc.bcm.edu	37	17	58288421	58288421	+	Missense_Mutation	SNP	C	C	T	rs146577219	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	554	107	503	0	0.193141	0	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
TKT	7086	hgsc.bcm.edu	37	3	53259850	53259850	+	Silent	SNP	C	C	T	rs3163	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	65	116	0	0.503876	0	C|0.860;T|0.140	0.140	strong	.	TKT	38	.	NM_001258028	exon15	c.G1818A	p.P606P	CTCAGCCGGCTTC	.	PASS	Atlas-SNP
RHBG	57127	hgsc.bcm.edu	37	1	156354367	156354367	+	Missense_Mutation	SNP	A	A	G	rs6668857	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	119	99	0	1	0	A|0.291;G|0.709	0.709	strong	.	RHBG	133	.	NM_020407	exon10	c.A1283G	p.H428R	CCCAGCACTACGA	.	PASS	Atlas-SNP
WBP1L	54838	hgsc.bcm.edu	37	10	104573017	104573017	+	Missense_Mutation	SNP	G	G	T	rs284859	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	59	71	0	0.951613	0	G|0.855;T|0.137	0.137	strong	.	.	.	.	NM_001083913	exon4	c.G1021T	p.A341S	CCGCCCGCATGCC	.	PASS	Atlas-SNP
BRDT	676	hgsc.bcm.edu	37	1	92445257	92445257	+	Missense_Mutation	SNP	C	C	G	rs3088232	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	216	121	214	0	0.560185	0	C|0.838;G|0.162	0.162	strong	.	BRDT	133	.	NM_001242806	exon8	c.C1242G	p.N414K	AGGGAACTCTTCT	.	PASS	Atlas-SNP
NEIL3	55247	hgsc.bcm.edu	37	4	178231152	178231152	+	Silent	SNP	C	C	A	rs10013040	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	43	135	0	0.417476	0	C|0.815;A|0.184	0.184	strong	.	NEIL3	89	.	NM_018248	exon1	c.C45A	p.R15R	GATTCGCGCGCGG	.	PASS	Atlas-SNP
ACTL8	81569	hgsc.bcm.edu	37	1	18149510	18149510	+	Missense_Mutation	SNP	G	G	T	rs694214	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	62	38	0	1	0	G|0.662;T|0.338	0.338	strong	.	ACTL8	58	.	NM_030812	exon2	c.G7T	p.A3S	ATGGCTGCAAGAA	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954335	30954335	+	Missense_Mutation	SNP	C	C	T	rs146461318	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	20	96	0	0.130719	0	C|0.983;T|0.016	0.016	strong	MUC21,NS,carcinoma,+1,1	MUC21	98	1	NM_001010909	exon2	c.C383T	p.P128L	GCACACCCTCCAG	.	PASS	Atlas-SNP
LAMA2	3908	hgsc.bcm.edu	37	6	129762112	129762112	+	Silent	SNP	G	G	A	rs2297738	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	85	139	0	0.578231	0	G|0.845;A|0.155	0.155	strong	.	LAMA2	481	.	NM_000426	exon43	c.G6237A	p.T2079T	CAAAACGAATGCT	.	PASS	Atlas-SNP
PICALM	8301	hgsc.bcm.edu	37	11	85725937	85725937	+	Silent	SNP	C	C	T	rs592297	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	111	119	0	0.982301	0	C|0.183;T|0.817	0.817	strong	.	PICALM	82	.	NM_007166	exon5	c.G522A	p.Q174Q	ATCCATCTGATTC	.	PASS	Atlas-SNP
PLXND1	23129	hgsc.bcm.edu	37	3	129308209	129308209	+	Silent	SNP	G	G	A	rs2285373	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	77	184	0	0.484277	0	G|0.900;A|0.100	0.100	strong	PLXND1,NS,carcinoma,0,1	PLXND1	149	1	NM_015103	exon2	c.C1473T	p.N491N	CCTCCCGTTGACC	.	PASS	Atlas-SNP
TPSD1	23430	hgsc.bcm.edu	37	16	1306921	1306921	+	Silent	SNP	G	G	A	rs78324915	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	616	113	421	0	0.183442	0	G|0.643;A|0.357	0.357	strong	TPSD1,NS,carcinoma,0,2	TPSD1	47	2	NM_012217	exon3	c.G378A	p.G126G	GACCGGGGCGGAC	.	PASS	Atlas-SNP
PTPRD	5789	hgsc.bcm.edu	37	9	8486184	8486184	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	4	155	0	0.021978	0	.	.	none	PTPRD_ENST00000381196,NS,carcinoma,0,2	PTPRD	1348	2	NM_002839	exon28	c.A2633G	p.D878G	AAGTGATCTTCTT	.	scavenged	Atlas-SNP
ARMC4	55130	hgsc.bcm.edu	37	10	28257852	28257852	+	Missense_Mutation	SNP	C	C	T	rs7920186	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	964	500	921	1	0.518672	0.00108578	C|0.500;T|0.500	0.500	weak	ARMC4,rectum,NS,-1,1	ARMC4	177	1	NM_018076	exon9	c.G1238A	p.R413Q	ACATACCGAAGTA	.	scavenged	Atlas-SNP
TEX15	56154	hgsc.bcm.edu	37	8	30701995	30701995	+	Missense_Mutation	SNP	A	A	C	rs61732457	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	195	109	172	0	0.558974	0	A|0.939;C|0.061	0.061	strong	.	TEX15	350	.	NM_031271	exon1	c.T4539G	p.D1513E	ATGGGAATCAATC	.	PASS	Atlas-SNP
TMEM217	221468	hgsc.bcm.edu	37	6	37186440	37186440	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	2	121	1	0.0140845	0.00826446	.	.	none	TMEM217,NS,carcinoma,+1,1	TMEM217	24	1	NM_145316	exon2	c.G367A	p.E123K	TGACCTCTTTAAT	.	scavenged	Atlas-SNP
PTPRH	5794	hgsc.bcm.edu	37	19	55715342	55715342	+	Missense_Mutation	SNP	C	C	T	rs55870162	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	62	156	0	0.43662	0	C|0.980;T|0.020	0.020	strong	.	PTPRH	139	.	NM_002842	exon5	c.G694A	p.D232N	TGCCATCGGGGAC	.	PASS	Atlas-SNP
DISC1	27185	hgsc.bcm.edu	37	1	231830295	231830295	+	Missense_Mutation	SNP	G	G	A	rs3738401	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	42	55	0	0.512195	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
HLA-DPB1	3115	hgsc.bcm.edu	37	6	33052986	33052986	+	Silent	SNP	T	T	C	rs1071597	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	195	77	178	0	0.394872	0	T|0.608;C|0.392	0.392	strong	.	HLA-DPB1	28	.	NM_002121	exon3	c.T624C	p.D208D	CCTGGATAGTCCT	.	PASS	Atlas-SNP
NUGGC	389643	hgsc.bcm.edu	37	8	27903069	27903069	+	Missense_Mutation	SNP	C	C	T	rs13279787	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	83	149	0	0.509202	0	C|0.625;N|0.000	.	strong	.	.	.	.	NM_001010906	exon12	c.G1421A	p.S474N	TTGAAACTATCTG	.	PASS	Atlas-SNP
MYH11	4629	hgsc.bcm.edu	37	16	15818834	15818834	+	Missense_Mutation	SNP	C	C	T	rs151058774	byfrequency;alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	48	80	0	0.48	0	C|0.999;G|0.001	.	alt	.	MYH11	520	.	NM_001040114	exon30	c.G3895A	p.V1299I	CTGTGACGCTCTC	.	PASS	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25033227	25033227	+	Silent	SNP	A	A	G	rs1050107	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	262	261	246	0	0.996183	0	A|0.887;G|0.113	0.113	strong	.	PARP4	142	.	NM_006437	exon20	c.T2379C	p.Y793Y	AATCACATACGGC	.	PASS	Atlas-SNP
ASB2	51676	hgsc.bcm.edu	37	14	94417421	94417421	+	Silent	SNP	G	G	A	rs7147919	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	176	145	1	0.99435	0.00689655	G|0.432;A|0.568	0.568	strong	.	ASB2	71	.	NM_001202429	exon6	c.C804T	p.N268N	GTAGGCGTTCTTG	.	PASS	Atlas-SNP
NELL1	4745	hgsc.bcm.edu	37	11	20805335	20805335	+	Silent	SNP	C	C	T	rs2280363	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	108	93	0	0.981818	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
BCLAF1	9774	hgsc.bcm.edu	37	6	136599885	136599885	+	Missense_Mutation	SNP	C	C	A	rs150873394	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	10	52	0	0.208333	0	C|0.979;A|0.021	0.021	strong	.	BCLAF1	203	.	NM_014739	exon4	c.G134T	p.R45M	CGAGACCTTGAAT	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954439	30954439	+	Missense_Mutation	SNP	A	A	G	rs147266731	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	8	62	2	0.0747664	0.0322581	A|0.996;G|0.004	0.004	strong	MUC21,NS,carcinoma,0,3	MUC21	98	3	NM_001010909	exon2	c.A487G	p.S163G	GAGGCCAGCACAG	.	scavenged	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954594	30954594	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	6	95	0	0.05	0	.	.	none	.	MUC21	98	.	NM_001010909	exon2	c.G642C	p.E214D	CTCTGAGTCCAGA	.	PASS	Atlas-SNP
FAS	355	hgsc.bcm.edu	37	10	90768672	90768672	+	Missense_Mutation	SNP	C	C	T	rs121913078		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	60	115	0	0.84507	0	.	.	weak	FAS,caecum,carcinoma,-1,1	FAS	47	1	NM_152872	exon4	c.C361T	p.R121W	TGCACCCGGACCC	.	PASS	Atlas-SNP
ZFAND2A	90637	hgsc.bcm.edu	37	7	1195215	1195215	+	Silent	SNP	A	A	C	rs1133116	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	54	119	0	0.453782	0	A|0.857;C|0.143	0.143	strong	.	ZFAND2A	9	.	NM_182491	exon4	c.T156G	p.V52V	GACGTGAACATCC	.	PASS	Atlas-SNP
BMP1	649	hgsc.bcm.edu	37	8	22049596	22049596	+	Missense_Mutation	SNP	G	G	A	rs145284541	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	18	53	0	0.333333	0	G|0.995;A|0.005	0.005	strong	BMP1_ENST00000306349,NS,carcinoma,+1,2	BMP1	131	2	NM_001199	exon9	c.G1112A	p.R371H	TGTACCGCAGCCG	.	PASS	Atlas-SNP
KIAA1109	84162	hgsc.bcm.edu	37	4	123145751	123145751	+	Silent	SNP	T	T	A	rs7658836	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	253	128	227	0	0.505929	0	T|0.727;A|0.273	0.273	strong	KIAA1109,NS,carcinoma,0,1	KIAA1109	424	1	NM_015312	exon21	c.T2712A	p.P904P	TCTTCCTTTGGGA	.	PASS	Atlas-SNP
ERAP2	64167	hgsc.bcm.edu	37	5	96237326	96237326	+	Silent	SNP	G	G	A	rs2287988	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	37	70	0	0.5	0	G|0.454;A|0.546	0.546	strong	.	ERAP2	77	.	NM_001130140	exon11	c.G1689A	p.Q563Q	GCAACAGGAGCGC	.	PASS	Atlas-SNP
COX6A2	1339	hgsc.bcm.edu	37	16	31439170	31439170	+	Silent	SNP	G	G	A	rs12240	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	30	61	0	0.526316	0	G|0.928;A|0.072	0.072	strong	.	COX6A2	7	.	NM_005205	exon3	c.C219T	p.P73P	CCCCCAGGGGTAG	.	PASS	Atlas-SNP
AIFM1	9131	hgsc.bcm.edu	37	X	129283520	129283520	+	Silent	SNP	A	A	G	rs1139851	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	97	77	0	0.932692	0	0|0.004;G|0.504	0.504	strong	.	AIFM1	75	.	NM_001130847	exon3	c.T273C	p.D91D	TTTTTCATCCTCT	.	PASS	Atlas-SNP
EDNRA	1909	hgsc.bcm.edu	37	4	148461037	148461037	+	Silent	SNP	T	T	C	rs5333	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	296	133	225	0	0.449324	0	T|0.642;C|0.358	0.358	strong	.	EDNRA	48	.	NM_001957	exon6	c.T969C	p.H323H	TCTTCATTTAAGC	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13902245	13902245	+	Missense_Mutation	SNP	G	G	C	rs139160176	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	25	56	0	0.446429	0	G|0.989;C|0.011	0.011	strong	.	DNAH5	868	.	NM_001369	exon13	c.C1647G	p.N549K	CAACTCGTTCTAA	.	PASS	Atlas-SNP
LILRB3	11025	hgsc.bcm.edu	37	19	54726816	54726816	+	Silent	SNP	A	A	T	rs80332440	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	84	57	1	0.575342	0.0175439	.	.	weak	LILRB3,NS,neuroblastoma,0,1	LILRB3	67	1	NM_006864	exon1	c.T33A	p.L11L	CTCACCAAGGCAG	.	scavenged	Atlas-SNP
FAM47E-STBD1	0	hgsc.bcm.edu	37	4	77177415	77177415	+	Silent	SNP	C	C	T	rs61740422	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	25	52	0	0.480769	0	C|0.979;T|0.021	0.021	strong	.	.	.	.	NM_001242939	exon2	c.C159T	p.D53D	GCTGGACGACTTC	.	PASS	Atlas-SNP
OR5F1	338674	hgsc.bcm.edu	37	11	55762060	55762060	+	Silent	SNP	T	T	C	rs71490418	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	47	96	1	0.419643	0.0104167	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	.	scavenged	Atlas-SNP
PTPN5	84867	hgsc.bcm.edu	37	11	18764026	18764026	+	Missense_Mutation	SNP	G	G	C	rs4757707	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	41	56	0	0.640625	0	G|0.702;C|0.298	0.298	strong	PTPN5_ENST00000358540,caecum,carcinoma,0,3	PTPN5	163	3	NM_032781	exon7	c.C508G	p.P170A	GCTCTGGGGGTGT	.	PASS	Atlas-SNP
ANKRD61	100310846	hgsc.bcm.edu	37	7	6071060	6071060	+	Silent	SNP	G	G	A	rs4724769	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	154	131	0	0.993548	0	G|0.600;A|0.400	0.400	strong	.	.	.	.	NM_001271700	exon1	c.G54A	p.K18K	TGCCAAGTCCCTG	.	PASS	Atlas-SNP
RGAG4	340526	hgsc.bcm.edu	37	X	71350133	71350133	+	Missense_Mutation	SNP	T	T	G	rs6624595	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	134	92	0	0.930556	0	T|0.784;G|0.216	0.216	strong	.	RGAG4	63	.	NM_001024455	exon1	c.A1258C	p.S420R	CCTTACTCTCTCC	.	PASS	Atlas-SNP
SLC39A4	55630	hgsc.bcm.edu	37	8	145640235	145640235	+	Missense_Mutation	SNP	C	C	T	rs7823979	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	2	113	0	0.0145985	0	C|0.966;T|0.034	0.034	strong	SLC39A4_ENST00000276833,NS,carcinoma,0,2	SLC39A4	54	2	NM_130849	exon5	c.G850A	p.E284K	CCTGTTCCGACAG	.	scavenged	Atlas-SNP
GSN	2934	hgsc.bcm.edu	37	9	124089692	124089692	+	Missense_Mutation	SNP	C	C	T	rs76463933	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	50	109	0	0.454545	0	C|0.940;T|0.060	0.060	strong	.	GSN	81	.	NM_000177	exon13	c.C1847T	p.T616M	AGAAGACGGGGGC	.	PASS	Atlas-SNP
LILRB3	11025	hgsc.bcm.edu	37	19	54725930	54725930	+	Missense_Mutation	SNP	C	C	T	rs61480095	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	264	111	153	0	0.420455	0	.	.	weak	LILRB3,NS,carcinoma,0,11	LILRB3	67	11	NM_006864	exon4	c.G428A	p.R143Q	CCACATCGGAGGG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179583496	179583496	+	Missense_Mutation	SNP	T	T	G	rs16866465	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	46	81	0	0.464646	0	T|0.778;G|0.222	0.222	strong	.	TTN	18412	.	NM_001267550	exon84	c.A24431C	p.E8144A	CCACTTTCTAATG	.	PASS	Atlas-SNP
ARHGEF10L	55160	hgsc.bcm.edu	37	1	17914057	17914057	+	Missense_Mutation	SNP	G	G	A	rs34417109	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	45	81	0	0.46875	0	G|0.956;A|0.044	0.044	strong	.	ARHGEF10L	219	.	NM_018125	exon3	c.G140A	p.S47N	ACACCAGCGCAGC	.	PASS	Atlas-SNP
ASB2	51676	hgsc.bcm.edu	37	14	94417586	94417586	+	Silent	SNP	G	G	A	rs4483793	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	36	21	0	1	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
RTP4	64108	hgsc.bcm.edu	37	3	187088923	187088923	+	Missense_Mutation	SNP	G	G	A	rs35224605	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	62	93	0	0.579439	0	G|0.980;A|0.020	0.020	strong	.	RTP4	20	.	NM_022147	exon2	c.G503A	p.S168N	TAAAAAGCTGCAT	.	PASS	Atlas-SNP
CTBP2	1488	hgsc.bcm.edu	37	10	126715629	126715629	+	Missense_Mutation	SNP	C	C	T	rs3781409	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	226	115	169	0	0.50885	0	C|0.782;T|0.218	0.218	strong	.	CTBP2	100	.	NM_022802	exon1	c.G700A	p.V234M	GGTCCACAACCAG	.	PASS	Atlas-SNP
WDR65	149465	hgsc.bcm.edu	37	1	43649336	43649336	+	Silent	SNP	T	T	C	rs75528102	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	122	155	0	1	0	T|0.937;C|0.063	0.063	strong	.	WDR65	76	.	NM_152498	exon4	c.T549C	p.A183A	TTTTGCTGAGGGA	.	PASS	Atlas-SNP
CSPG4	1464	hgsc.bcm.edu	37	15	75981976	75981976	+	Missense_Mutation	SNP	C	C	T	rs200493777		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	223	11	158	3	0.0493274	0.0189873	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
EME2	197342	hgsc.bcm.edu	37	16	1825982	1825982	+	Nonsense_Mutation	SNP	C	C	T	rs61753375	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	31	59	0	0.5	0	C|0.992;T|0.008	0.008	strong	.	EME2	40	.	NM_001257370	exon7	c.C964T	p.Q322X	CTTCTGCAGCAGG	.	PASS	Atlas-SNP
KCNK4	50801	hgsc.bcm.edu	37	11	64066999	64066999	+	Missense_Mutation	SNP	C	C	T	rs953778	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	15	12	24	0	0.8	0	C|0.772;T|0.228	0.228	strong	.	KCNK4	22	.	NM_033310	exon7	c.C983T	p.P328L	CTCAGCCGCCTTC	.	PASS	Atlas-SNP
DIS3	22894	hgsc.bcm.edu	37	13	73350079	73350079	+	Missense_Mutation	SNP	T	T	C	rs4883918	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	40	80	0	0.519481	0	T|0.726;C|0.274	0.274	strong	.	DIS3	103	.	NM_014953	exon5	c.A806G	p.N269S	TCTTCATTGTCGC	.	PASS	Atlas-SNP
IL1RN	3557	hgsc.bcm.edu	37	2	113887207	113887207	+	Silent	SNP	T	T	C	rs419598	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	76	137	0	0.47205	0	T|0.816;C|0.184	0.184	strong	.	IL1RN	30	.	NM_173841	exon4	c.T180C	p.A60A	AGTTGCTGGATAC	.	PASS	Atlas-SNP
PEX11G	92960	hgsc.bcm.edu	37	19	7542168	7542168	+	Missense_Mutation	SNP	G	G	A	rs11668511	bycluster;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	32	16	33	0	0.5	0	G|0.985;A|0.015	0.015	strong	.	PEX11G	16	.	NM_080662	exon5	c.C646T	p.L216F	CCATGAGGCCCAC	.	PASS	Atlas-SNP
TOP3A	7156	hgsc.bcm.edu	37	17	18193941	18193941	+	Silent	SNP	G	G	A	rs2230154	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	68	85	0	0.552846	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
PFAS	5198	hgsc.bcm.edu	37	17	8161149	8161149	+	Missense_Mutation	SNP	C	C	T	rs4791641	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	61	142	0	0.442029	0	C|0.624;T|0.376	0.376	strong	.	PFAS	91	.	NM_012393	exon10	c.C1100T	p.P367L	AGGATCCAAGCTT	.	PASS	Atlas-SNP
RASGRP2	10235	hgsc.bcm.edu	37	11	64496357	64496357	+	Silent	SNP	G	G	T	rs2230414	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	33	14	38	0	0.424242	0	G|0.850;T|0.150	0.150	strong	.	RASGRP2	48	.	NM_001098671	exon15	c.C1749A	p.G583G	TCGCCTGCCAGGG	.	PASS	Atlas-SNP
C9orf84	158401	hgsc.bcm.edu	37	9	114484837	114484837	+	Silent	SNP	G	G	T	rs62569959	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	26	63	0	0.42623	0	G|0.931;T|0.069	0.069	strong	.	C9orf84	207	.	NM_173521	exon13	c.C1791A	p.L597L	TGCTTCGAGGAGG	.	PASS	Atlas-SNP
IL32	9235	hgsc.bcm.edu	37	16	3119304	3119304	+	Missense_Mutation	SNP	A	A	G	rs2981599	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	238	106	113	0	0.445378	0	.	.	weak	IL32,NS,carcinoma,+1,2	IL32	32	2	NM_004221	exon7	c.A515G	p.D172G	GGGGGGACAAGGA	.	PASS	Atlas-SNP
NRP2	8828	hgsc.bcm.edu	37	2	206610502	206610502	+	Silent	SNP	T	T	G	rs849563	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	40	85	0	0.43956	0	T|0.802;G|0.198	0.198	strong	.	NRP2	179	.	NM_201279	exon10	c.T1674G	p.P558P	CACCCCTGACATC	.	PASS	Atlas-SNP
MEF2BNB-MEF2B	4207	hgsc.bcm.edu	37	19	19260045	19260045	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	53	120	0	0.434426	0	.	.	none	MEF2BNB-MEF2B,NS,lymphoid_neoplasm,0,15	MEF2BNB-MEF2B	29	15	NM_005919	exon5	c.A248T	p.D83V	AGGATGTCAGTGT	.	PASS	Atlas-SNP
CDC34	997	hgsc.bcm.edu	37	19	532066	532066	+	Silent	SNP	C	C	T	rs6507	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	81	105	0	1	0	C|0.920;T|0.080	0.080	strong	.	CDC34	5	.	NM_004359	exon1	c.C135T	p.I45I	GGCCATCTTCGGG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	58	122	0	0.5	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
MTRR	4552	hgsc.bcm.edu	37	5	7893005	7893005	+	Silent	SNP	C	C	T	rs34172797	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	58	89	0	0.491525	0	C|0.981;T|0.019	0.019	strong	.	MTRR	74	.	NM_024010	exon11	c.C1617T	p.S539S	AGACAGCGGGAAA	.	PASS	Atlas-SNP
SOAT2	8435	hgsc.bcm.edu	37	12	53509933	53509933	+	Missense_Mutation	SNP	C	C	T	rs2272296	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	64	144	0	0.4	0	C|0.751;T|0.249	0.249	strong	.	SOAT2	44	.	NM_003578	exon7	c.C761T	p.T254I	CTGGGACCCTTCG	.	PASS	Atlas-SNP
ALDH1B1	219	hgsc.bcm.edu	37	9	38395928	38395928	+	Silent	SNP	C	C	T	rs2073477	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	35	44	1	0.625	0.0227273	C|0.796;T|0.204	0.204	strong	ALDH1B1,NS,carcinoma,0,1	ALDH1B1	50	1	NM_000692	exon2	c.C183T	p.T61T	TACCACCGGGGAG	.	scavenged	Atlas-SNP
ACAA2	10449	hgsc.bcm.edu	37	18	47318626	47318626	+	Missense_Mutation	SNP	T	T	C	rs11549285	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	102	182	0	0.483412	0	T|0.970;C|0.030	0.030	strong	.	ACAA2	29	.	NM_006111	exon6	c.A649G	p.M217V	CCTGCATTGTCTG	.	PASS	Atlas-SNP
KLHL26	55295	hgsc.bcm.edu	37	19	18775077	18775077	+	Silent	SNP	C	C	T	rs1076235	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	29	11	25	0	0.37931	0	C|0.625;T|0.375	0.375	strong	KLHL26,NS,carcinoma,0,1	KLHL26	43	1	NM_018316	exon2	c.C90T	p.A30A	CACGGCCGACAAG	.	PASS	Atlas-SNP
H6PD	9563	hgsc.bcm.edu	37	1	9307138	9307138	+	Silent	SNP	T	T	C	rs11121350	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	171	81	129	0	0.473684	0	T|0.725;C|0.275	0.275	strong	.	H6PD	71	.	NM_004285	exon3	c.T741C	p.A247A	GGATGCTGAAGGT	.	PASS	Atlas-SNP
TELO2	9894	hgsc.bcm.edu	37	16	1544302	1544302	+	Missense_Mutation	SNP	A	A	G	rs2667661	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	27	48	0	0.490909	0	A|0.738;G|0.262	0.262	strong	TELO2,NS,carcinoma,-1,1	TELO2	44	1	NM_016111	exon2	c.A20G	p.E7G	CCTCAGAGGTTCG	.	PASS	Atlas-SNP
SMO	6608	hgsc.bcm.edu	37	7	128843263	128843263	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	53	105	0	0.469027	0	.	.	none	.	SMO	145	.	NM_005631	exon2	c.C370A	p.P124T	ATCCAGCCCCTGC	.	PASS	Atlas-SNP
NMT2	9397	hgsc.bcm.edu	37	10	15175336	15175336	+	Missense_Mutation	SNP	T	T	C	rs145950604	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	71	164	0	0.446541	0	T|0.997;C|0.003	0.003	strong	.	NMT2	44	.	NM_004808	exon4	c.A418G	p.I140V	GTTCAATTGCACC	.	PASS	Atlas-SNP
TAPBPL	55080	hgsc.bcm.edu	37	12	6562823	6562823	+	Missense_Mutation	SNP	C	C	T	rs2041387	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	50	113	0	0.420168	0	C|0.744;N|0.000	.	strong	.	TAPBPL	21	.	NM_018009	exon3	c.C506T	p.A169V	ATGAGGCGCTCTG	.	PASS	Atlas-SNP
TTYH2	94015	hgsc.bcm.edu	37	17	72249229	72249229	+	Missense_Mutation	SNP	C	C	A	rs9899862	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	49	78	0	0.526882	0	C|0.793;A|0.207	0.207	strong	.	TTYH2	63	.	NM_032646	exon12	c.C1269A	p.D423E	CAGAGACTACGAT	.	PASS	Atlas-SNP
PBLD	64081	hgsc.bcm.edu	37	10	70044031	70044031	+	Missense_Mutation	SNP	T	T	C	rs4142048	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	51	102	0	0.435897	0	T|0.753;C|0.247	0.247	strong	.	PBLD	53	.	NM_022129	exon10	c.A770G	p.H257R	CCTCGGTGGGAAC	.	PASS	Atlas-SNP
C4BPA	722	hgsc.bcm.edu	37	1	207304900	207304900	+	Missense_Mutation	SNP	T	T	C	rs4844573	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	94	79	0	0.989474	0	T|0.519;C|0.481	0.481	strong	.	C4BPA	70	.	NM_000715	exon8	c.T899C	p.I300T	GTTGTATTAATTT	.	PASS	Atlas-SNP
EXOSC3	51010	hgsc.bcm.edu	37	9	37780831	37780831	+	Missense_Mutation	SNP	A	A	G	rs3208406	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	52	152	0	0.409449	0	A|0.941;G|0.059	0.059	strong	.	EXOSC3	8	.	NM_016042	exon4	c.T673C	p.Y225H	GTGGATAGAGTTT	.	PASS	Atlas-SNP
WEE1	7465	hgsc.bcm.edu	37	11	9607032	9607032	+	Silent	SNP	A	A	G	rs10770042	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	50	98	0	0.446429	0	A|0.852;G|0.148	0.148	strong	.	WEE1	54	.	NM_003390	exon8	c.A1428G	p.E476E	AGTTGAAGAGGGC	.	PASS	Atlas-SNP
SMPD2	6610	hgsc.bcm.edu	37	6	109764535	109764535	+	Missense_Mutation	SNP	G	G	T	rs1476387	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	216	102	148	1	0.472222	0.00675676	A|0.000;G|0.469;T|0.531	0.531	strong	SMPD2,NS,carcinoma,0,1	SMPD2	25	1	NM_003080	exon9	c.G795T	p.R265S	TCACAGGGGCACC	.	scavenged	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31237991	31237991	+	Missense_Mutation	SNP	G	G	T	rs2308628	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	34	132	0	0.944444	0	G|0.408;T|0.592	0.592	strong	.	HLA-C	92	.	NM_002117	exon4	c.C891A	p.S297R	ACCCCAGCTCAGG	.	PASS	Atlas-SNP
IGSF3	3321	hgsc.bcm.edu	37	1	117122288	117122288	+	Missense_Mutation	SNP	G	G	C	rs647711	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	41	82	3	0.42268	0.0365854	G|0.692;C|0.308	0.308	strong	IGSF3_ENST00000369483,caecum,carcinoma,0,2	IGSF3	294	2	NM_001542	exon11	c.C3120G	p.D1040E	GTCGTCGTCCTCC	.	scavenged	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	711905	711905	+	Silent	SNP	A	A	G	rs2301426	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	91	88	1	1	0.0113636	A|0.387;G|0.613	0.613	strong	WDR90,NS,carcinoma,0,1	WDR90	107	1	NM_145294	exon32	c.A3879G	p.P1293P	AGAGCCAGTCCCA	.	scavenged	Atlas-SNP
CFTR	1080	hgsc.bcm.edu	37	7	117199533	117199533	+	Missense_Mutation	SNP	G	G	A	rs213950	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	26	53	0	0.448276	0	G|0.436;A|0.564	0.564	strong	.	CFTR	171	.	NM_000492	exon11	c.G1408A	p.V470M	CTAATGGTGATTA	.	PASS	Atlas-SNP
ZFYVE26	23503	hgsc.bcm.edu	37	14	68249499	68249499	+	Missense_Mutation	SNP	C	C	T	rs2235967	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	67	49	0	0.985294	0	C|0.785;N|0.000	.	strong	.	ZFYVE26	223	.	NM_015346	exon21	c.G4370A	p.C1457Y	TCACCACATGCCA	.	PASS	Atlas-SNP
C2orf54	79919	hgsc.bcm.edu	37	2	241835379	241835379	+	Silent	SNP	G	G	A	rs12105122	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	26	25	31	0	0.961538	0	G|0.494;A|0.506	0.506	strong	C2orf54,rectum,carcinoma,0,1	C2orf54	14	1	NM_001085437	exon1	c.C36T	p.A12A	CTGCACGGCCATG	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324666	31324666	+	Missense_Mutation	SNP	A	A	T	rs713031	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	61	76	0	0.458647	0	T|0.021;C|0.549;A|0.429	0.021	strong	.	HLA-B	54	.	NM_005514	exon2	c.T142A	p.S48T	CCACTGAGATGAA	.	PASS	Atlas-SNP
GPNMB	10457	hgsc.bcm.edu	37	7	23313171	23313171	+	Silent	SNP	T	T	C	rs2268748	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	99	222	0	0.532258	0	T|0.909;G|0.000	.	strong	.	GPNMB	88	.	NM_001005340	exon10	c.T1497C	p.S499S	AAACAGTGCCCTG	.	PASS	Atlas-SNP
ZNF557	79230	hgsc.bcm.edu	37	19	7083629	7083629	+	Silent	SNP	A	A	G	rs966591	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	44	108	0	0.52381	0	G|0.431;N|0.000	0.431	strong	.	ZNF557	40	.	NM_001044387	exon8	c.A1167G	p.S389S	TCTCTCATCCGTT	.	PASS	Atlas-SNP
SSTR3	6753	hgsc.bcm.edu	37	22	37603021	37603021	+	Silent	SNP	G	G	A	rs2071710	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	49	74	0	0.569767	0	G|0.742;A|0.258	0.258	strong	.	SSTR3	42	.	NM_001051	exon2	c.C822T	p.Y274Y	GAGCACGTAGAAG	.	PASS	Atlas-SNP
FNDC1	84624	hgsc.bcm.edu	37	6	159672542	159672542	+	Silent	SNP	C	C	T	rs550443	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	47	57	0	0.489583	0	C|0.789;T|0.211	0.211	strong	.	FNDC1	250	.	NM_032532	exon17	c.C5043T	p.A1681A	CAAAGCCACCCCA	.	PASS	Atlas-SNP
MYO3B	140469	hgsc.bcm.edu	37	2	171242761	171242761	+	Silent	SNP	G	G	A	rs17497636	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	238	107	209	0	0.44958	0	G|0.891;A|0.109	0.109	strong	.	MYO3B	320	.	NM_001083615	exon13	c.G1353A	p.Q451Q	TGTTCAGCATTTG	.	PASS	Atlas-SNP
PEBP4	157310	hgsc.bcm.edu	37	8	22785159	22785159	+	Silent	SNP	G	G	A	rs2175192	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	59	89	0	0.479675	0	G|0.830;A|0.170	0.170	strong	.	PEBP4	23	.	NM_144962	exon2	c.C69T	p.D23D	ATCCTCGTCTCCA	.	PASS	Atlas-SNP
SMYD1	150572	hgsc.bcm.edu	37	2	88396174	88396174	+	Silent	SNP	T	T	C	rs2919881	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	95	202	0	0.505319	0	T|0.654;C|0.346	0.346	strong	.	SMYD1	95	.	NM_198274	exon6	c.T759C	p.I253I	CTATATTGACTTC	.	PASS	Atlas-SNP
NPSR1	387129	hgsc.bcm.edu	37	7	34889222	34889222	+	Silent	SNP	T	T	C	rs10275028	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	216	103	203	0	0.476852	0	T|0.710;C|0.290	0.290	strong	.	NPSR1	134	.	NM_207172	exon9	c.T1071C	p.T357T	GAGAACTGAGAGG	.	PASS	Atlas-SNP
IRF2BP2	359948	hgsc.bcm.edu	37	1	234744250	234744250	+	Silent	SNP	G	G	A	rs8722	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	45	87	0	0.454545	0	G|0.834;A|0.166	0.166	strong	.	IRF2BP2	37	.	NM_182972	exon1	c.C991T	p.L331L	CAGTCAGGGCCGG	.	PASS	Atlas-SNP
KIAA1549L	25758	hgsc.bcm.edu	37	11	33604885	33604885	+	Silent	SNP	C	C	T	rs2273117	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	17	30	0	0.472222	0	C|0.789;T|0.211	0.211	strong	.	.	.	.	NM_012194	exon10	c.C3513T	p.P1171P	CACAGCCGTGGTG	.	PASS	Atlas-SNP
MAGEB6	158809	hgsc.bcm.edu	37	X	26212334	26212334	+	Missense_Mutation	SNP	A	A	C	rs143802048	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	22	11	89	0	0.5	0	A|0.980;C|0.020	0.020	strong	.	MAGEB6	91	.	NM_173523	exon2	c.A371C	p.Y124S	CAAAATATGATGT	.	PASS	Atlas-SNP
GLYR1	84656	hgsc.bcm.edu	37	16	4855279	4855279	+	Silent	SNP	A	A	G	rs8064024	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	58	64	0	1	0	A|0.434;G|0.566	0.566	strong	.	GLYR1	49	.	NM_032569	exon16	c.T1620C	p.S540S	GTTGTCAGACTGG	.	PASS	Atlas-SNP
MEF2D	4209	hgsc.bcm.edu	37	1	156446903	156446903	+	Silent	SNP	T	T	C	rs2274317	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	113	137	2	0.974138	0.0145985	A|0.000;C|0.551;T|0.449	0.551	strong	MEF2D,colon,adenoma,-1,1	MEF2D	43	1	NM_005920	exon7	c.A756G	p.P252P	TGGGGGTGGAGAC	.	scavenged	Atlas-SNP
ULK1	8408	hgsc.bcm.edu	37	12	132401566	132401566	+	Missense_Mutation	SNP	C	C	T	rs11546871	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	227	110	185	0	0.484582	0	C|0.780;T|0.220	0.220	strong	ULK1,NS,carcinoma,0,2	ULK1	92	2	NM_003565	exon21	c.C2141T	p.P714L	CGGACCCGGGCAG	.	PASS	Atlas-SNP
GFER	2671	hgsc.bcm.edu	37	16	2035999	2035999	+	Silent	SNP	C	C	T	rs1802834	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	26	39	0	0.530612	0	C|0.939;T|0.061	0.061	strong	.	GFER	8	.	NM_005262	exon3	c.C588T	p.R196R	CTGGCGCGACGGC	.	PASS	Atlas-SNP
TUBA3C	7278	hgsc.bcm.edu	37	13	19751465	19751465	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	300	5	276	0	0.0166667	0	.	.	none	TUBA3C,NS,carcinoma,0,1	TUBA3C	166	1	NM_006001	exon4	c.G658A	p.E220K	GACGCTCGATGTC	.	scavenged	Atlas-SNP
CEP19	84984	hgsc.bcm.edu	37	3	196435534	196435534	+	Missense_Mutation	SNP	T	T	C	rs6776064	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	35	68	0	0.4375	0	T|0.571;C|0.429	0.429	strong	.	CEP19	22	.	NM_032898	exon2	c.A7G	p.M3V	TTCCCATGTACAT	.	PASS	Atlas-SNP
SLC28A1	9154	hgsc.bcm.edu	37	15	85448875	85448875	+	Missense_Mutation	SNP	C	C	A	rs8187758	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	59	130	0	0.522124	0	C|0.768;A|0.232	0.232	strong	.	SLC28A1	118	.	NM_004213	exon8	c.C709A	p.Q237K	GGCGAGCAGATCC	.	PASS	Atlas-SNP
PDE6C	5146	hgsc.bcm.edu	37	10	95389041	95389041	+	Silent	SNP	G	G	A	rs714550	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	6	216	0	0.0487805	0	G|0.622;A|0.378	0.378	strong	.	PDE6C	97	.	NM_006204	exon8	c.G1098A	p.A366A	CCCTGCGGATGAA	.	PASS	Atlas-SNP
DMKN	93099	hgsc.bcm.edu	37	19	35998362	35998362	+	Silent	SNP	T	T	G	rs4254439	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	57	98	0	0.491379	0	G|0.367;N|0.002	0.367	strong	.	DMKN	116	.	NM_001190348	exon9	c.A1126C	p.R376R	TCACCCTATAATT	.	PASS	Atlas-SNP
YTHDC2	64848	hgsc.bcm.edu	37	5	112917278	112917278	+	Silent	SNP	T	T	G	rs11748794	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	171	170	135	0	0.994152	0	G|0.200;N|0.000	0.200	strong	.	YTHDC2	118	.	NM_022828	exon25	c.T3519G	p.S1173S	ACCATCTGGGATT	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40376811	40376811	+	Missense_Mutation	SNP	C	C	T	rs4802062	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	785	145	618	1	0.184713	0.00161812	C|0.962;T|0.038	0.038	strong	FCGBP,NS,carcinoma,+2,1	FCGBP	416	1	NM_003890	exon24	c.G11611A	p.G3871R	GTGGCCCTGTGGG	.	scavenged	Atlas-SNP
KIF19	124602	hgsc.bcm.edu	37	17	72349067	72349067	+	Silent	SNP	C	C	T	rs2280108	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	66	65	0	0.985075	0	C|0.641;T|0.359	0.359	strong	.	KIF19	102	.	NM_153209	exon15	c.C2088T	p.S696S	GAACAGCGCCCTC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179447848	179447848	+	Silent	SNP	T	T	C	rs4894029	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	236	107	219	0	0.45339	0	T|0.555;C|0.445	0.445	strong	.	TTN	18412	.	NM_001267550	exon313	c.A65682G	p.T21894T	AGAAACTGTTGGC	.	PASS	Atlas-SNP
POLR1A	25885	hgsc.bcm.edu	37	2	86297186	86297186	+	Silent	SNP	C	C	T	rs76924572	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	35	65	0	0.479452	0	C|0.999;T|0.001	0.001	strong	.	POLR1A	137	.	NM_015425	exon13	c.G1821A	p.E607E	GTAGGCCTCGGCC	.	PASS	Atlas-SNP
EXD3	54932	hgsc.bcm.edu	37	9	140262424	140262424	+	Silent	SNP	C	C	T	rs11507683	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	28	48	0	0.538462	0	C|0.899;T|0.101	0.101	strong	EXD3_ENST00000340951,colon,carcinoma,-2,2	EXD3	86	2	NM_017820	exon6	c.G480A	p.A160A	CAACGTCGCGCCC	.	PASS	Atlas-SNP
DNAH6	1768	hgsc.bcm.edu	37	2	84921433	84921433	+	Silent	SNP	A	A	G	rs1192295	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	215	116	220	0	0.539535	0	A|0.904;G|0.096	0.096	strong	.	DNAH6	194	.	NM_001370	exon46	c.A7353G	p.T2451T	AGGCACAGGAAAG	.	PASS	Atlas-SNP
OR8G2	26492	hgsc.bcm.edu	37	11	124096275	124096275	+	Missense_Mutation	SNP	T	T	C	rs2512268	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	86	210	0	0.472527	0	T|0.891;C|0.109	0.109	strong	.	.	.	.	NM_001007249	exon1	c.T878C	p.I293T	ATACTATTGTTGT	.	PASS	Atlas-SNP
MAPT	4137	hgsc.bcm.edu	37	17	44061023	44061023	+	Missense_Mutation	SNP	G	G	A	rs62063786	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	57	103	0	0.495652	0	A|0.118;C|0.246	0.118	strong	.	MAPT	135	.	NM_001123066	exon6	c.G853A	p.D285N	GAGCCCGACGGGC	.	PASS	Atlas-SNP
KLK10	5655	hgsc.bcm.edu	37	19	51519346	51519346	+	Silent	SNP	G	G	C	rs1061368	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	53	82	0	0.546392	0	G|0.655;C|0.345	0.345	strong	.	KLK10	32	.	NM_145888	exon4	c.C336G	p.T112T	GCGAGTGGTCCGG	.	PASS	Atlas-SNP
TUBGCP6	85378	hgsc.bcm.edu	37	22	50659025	50659025	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	35	61	0	0.432099	0	.	.	none	.	TUBGCP6	132	.	NM_020461	exon16	c.C3763A	p.P1255T	ACACAGGCTCCCC	.	PASS	Atlas-SNP
CD44	960	hgsc.bcm.edu	37	11	35229673	35229673	+	Missense_Mutation	SNP	T	T	C	rs1467558	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	64	89	0	0.528926	0	T|0.086;C|0.914	0.914	strong	.	CD44	48	.	NM_000610	exon12	c.T1436C	p.I479T	ATAGTATAACGCT	.	PASS	Atlas-SNP
SLC9A7	84679	hgsc.bcm.edu	37	X	46618321	46618321	+	Silent	SNP	C	C	G	rs1056846	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	19	19	27	0	1	0	C|0.279;G|0.721	0.721	strong	.	SLC9A7	73	.	NM_001257291	exon1	c.G144C	p.A48A	GTCCTCCGCCGCC	.	PASS	Atlas-SNP
AKR1C3	8644	hgsc.bcm.edu	37	10	5141619	5141619	+	Missense_Mutation	SNP	A	A	G	rs61730879	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	65	135	0	0.528455	0	A|0.997;G|0.001;T|0.002	0.001	strong	.	AKR1C3	21	.	NM_001253908	exon5	c.A548G	p.K183R	GACTCAAGTACAA	.	PASS	Atlas-SNP
C1QTNF6	114904	hgsc.bcm.edu	37	22	37581383	37581383	+	Missense_Mutation	SNP	C	C	T	rs7290488	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	48	80	0	0.521739	0	C|0.884;T|0.116	0.116	strong	.	C1QTNF6	32	.	NM_182486	exon2	c.G164A	p.G55D	TGGCAGCCGCTGG	.	PASS	Atlas-SNP
RTDR1	27156	hgsc.bcm.edu	37	22	23482483	23482483	+	Missense_Mutation	SNP	G	G	A	rs35211242	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	55	102	0	0.466102	0	G|0.894;A|0.106	0.106	strong	.	RTDR1	39	.	NM_014433	exon2	c.C125T	p.T42M	TGCCTCGTCTGGA	.	PASS	Atlas-SNP
LACC1	144811	hgsc.bcm.edu	37	13	44457925	44457925	+	Missense_Mutation	SNP	A	A	G	rs3764147	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	83	162	0	0.943182	0	A|0.722;G|0.278	0.278	strong	.	.	.	.	NM_001128303	exon4	c.A760G	p.I254V	AATGACATCTGGA	.	PASS	Atlas-SNP
C2CD3	26005	hgsc.bcm.edu	37	11	73785326	73785326	+	Silent	SNP	T	T	C	rs4453265	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	185	149	0	1	0	T|0.543;C|0.457	0.457	strong	.	C2CD3	288	.	NM_015531	exon24	c.A4923G	p.V1641V	TCTTTCTACTAGG	.	PASS	Atlas-SNP
POLR2A	5430	hgsc.bcm.edu	37	17	7399866	7399866	+	Silent	SNP	G	G	A	rs2301609	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	57	134	0	0.471074	0	G|0.810;A|0.190	0.190	strong	.	POLR2A	157	.	NM_000937	exon4	c.G471A	p.G157G	GGGTGGGGAGGAG	.	PASS	Atlas-SNP
OR1L1	26737	hgsc.bcm.edu	37	9	125424507	125424507	+	Silent	SNP	A	A	C	rs70156	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	198	100	180	0	0.50505	0	A|0.606;C|0.394	0.394	strong	.	OR1L1	54	.	NM_001005236	exon1	c.A513C	p.S171S	TGCCTCAAATGTC	.	PASS	Atlas-SNP
ETV3L	440695	hgsc.bcm.edu	37	1	157062739	157062739	+	Missense_Mutation	SNP	C	C	G	rs12136960	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	32	65	0	0.415584	0	C|0.828;G|0.172	0.172	strong	.	ETV3L	73	.	NM_001004341	exon5	c.G788C	p.G263A	AAAGCCCCTGGGA	.	PASS	Atlas-SNP
ZNF248	57209	hgsc.bcm.edu	37	10	38120642	38120642	+	Silent	SNP	C	C	T	rs1208731	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	42	83	0	0.482759	0	C|0.936;T|0.064	0.064	strong	.	ZNF248	61	.	NM_001267597	exon6	c.G1641A	p.P547P	CTCATACGGCTTC	.	PASS	Atlas-SNP
NAA15	80155	hgsc.bcm.edu	37	4	140278638	140278638	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	55	118	0	0.413534	0	.	.	none	NAA15,NS,carcinoma,0,1	NAA15	88	1	NM_057175	exon11	c.T1186G	p.Y396D	TTGGAGTACATAA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	77	126	0	0.578947	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
ATF7	11016	hgsc.bcm.edu	37	12	53925573	53925573	+	Silent	SNP	C	C	T	rs139241958	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	34	52	0	0.539683	0	C|0.991;T|0.009	0.009	strong	.	ATF7	51	.	NM_006856	exon9	c.G882A	p.Q294Q	GAGAATCTGGCTC	.	PASS	Atlas-SNP
USP17L1P	401447	hgsc.bcm.edu	37	8	7190935	7190935	+	Missense_Mutation	SNP	G	G	A	rs117479685	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	88	151	0	0.52071	0	G|0.996;A|0.004	0.004	strong	.	.	.	.	NM_001256873	exon1	c.G1027A	p.E343K	GCTCAAGAAGTCC	.	PASS	Atlas-SNP
PLCG2	5336	hgsc.bcm.edu	37	16	81942028	81942028	+	Missense_Mutation	SNP	C	C	G	rs72824905	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	21	59	0	0.344262	0	C|0.993;G|0.007	0.007	strong	.	PLCG2	276	.	NM_002661	exon17	c.C1565G	p.P522R	ATATACCCCCTAC	.	PASS	Atlas-SNP
FRY	10129	hgsc.bcm.edu	37	13	32785086	32785086	+	Silent	SNP	G	G	A	rs798981	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	48	100	0	0.923077	0	G|0.632;A|0.368	0.368	strong	FRY,NS,carcinoma,0,1	FRY	312	1	NM_023037	exon34	c.G4506A	p.E1502E	GACAGAGCCCGTG	.	PASS	Atlas-SNP
IRAK4	51135	hgsc.bcm.edu	37	12	44180295	44180295	+	Missense_Mutation	SNP	G	G	A	rs4251545	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	85	148	0	0.52795	0	G|0.843;A|0.157	0.157	strong	.	IRAK4	77	.	NM_016123	exon11	c.G1282A	p.A428T	GTTGAAGCTATGT	.	PASS	Atlas-SNP
PPIC	5480	hgsc.bcm.edu	37	5	122364538	122364538	+	Missense_Mutation	SNP	T	T	C	rs34341374	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	61	149	0	0.42069	0	T|0.971;C|0.029	0.029	strong	.	PPIC	18	.	NM_000943	exon3	c.A257G	p.K86R	TGAAACTTGCTTC	.	PASS	Atlas-SNP
ATRNL1	26033	hgsc.bcm.edu	37	10	117486763	117486763	+	Silent	SNP	G	G	T	rs2254619	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	37	37	40	0	1	0	G|0.735;T|0.265	0.265	strong	.	ATRNL1	219	.	NM_207303	exon27	c.G3801T	p.L1267L	GCAACTGCTTCGA	.	PASS	Atlas-SNP
LONRF2	164832	hgsc.bcm.edu	37	2	100916315	100916315	+	Silent	SNP	A	A	G	rs11123823	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	50	126	0	0.393701	0	A|0.664;G|0.336	0.336	strong	LONRF2,NS,carcinoma,0,1	LONRF2	62	1	NM_198461	exon5	c.T1131C	p.G377G	GTGTAGACCCAGT	.	PASS	Atlas-SNP
ERAP1	51752	hgsc.bcm.edu	37	5	96117555	96117555	+	Silent	SNP	C	C	T	rs61745685	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	22	10	24	0	0.454545	0	C|0.923;T|0.077	0.077	strong	.	ERAP1	59	.	NM_001198541	exon16	c.G2289A	p.L763L	GACAGGCAGGCTA	.	PASS	Atlas-SNP
HDGF	3068	hgsc.bcm.edu	37	1	156713558	156713558	+	Missense_Mutation	SNP	G	G	A	rs4399146	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	110	84	0	0.990991	0	G|0.790;A|0.210	0.210	strong	.	HDGF	60	.	NM_001126050	exon5	c.C650T	p.P217L	TCAGAGGGGGTGC	.	PASS	Atlas-SNP
RGS17	26575	hgsc.bcm.edu	37	6	153365100	153365100	+	Silent	SNP	A	A	C	rs2295230	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	129	102	0	0.977273	0	A|0.590;C|0.409;T|0.000	0.409	strong	.	RGS17	32	.	NM_012419	exon2	c.T54G	p.A18A	TCCAGGAGCTTGA	.	PASS	Atlas-SNP
CMBL	134147	hgsc.bcm.edu	37	5	10282396	10282396	+	Silent	SNP	A	A	G	rs10067744	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	82	170	0	0.471264	0	A|0.476;G|0.524	0.524	strong	CMBL,NS,carcinoma,0,1	CMBL	24	1	NM_138809	exon5	c.T471C	p.I157I	CTTGACAATGCCT	.	PASS	Atlas-SNP
OR51Q1	390061	hgsc.bcm.edu	37	11	5444353	5444353	+	Missense_Mutation	SNP	T	T	C	rs2647573	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	54	96	0	0.534653	0	T|0.608;C|0.392	0.392	strong	.	OR51Q1	79	.	NM_001004757	exon1	c.T923C	p.F308S	TAAATTTCCTTTC	.	PASS	Atlas-SNP
MICAL3	57553	hgsc.bcm.edu	37	22	18301693	18301693	+	Missense_Mutation	SNP	T	T	C	rs8135914	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	26	73	0	0.448276	0	T|0.774;C|0.226	0.226	strong	.	MICAL3	53	.	NM_015241	exon26	c.A3734G	p.Q1245R	GGTGGCTGGGGCT	.	PASS	Atlas-SNP
OR14I1	401994	hgsc.bcm.edu	37	1	248845356	248845356	+	Missense_Mutation	SNP	G	G	T	rs41311583	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	193	95	182	1	0.492228	0.00549451	G|0.876;T|0.124	0.124	strong	OR14I1,NS,carcinoma,0,1	OR14I1	64	1	NM_001004734	exon1	c.C250A	p.L84M	GAGTCAGGGAGTT	.	scavenged	Atlas-SNP
DSCC1	79075	hgsc.bcm.edu	37	8	120850521	120850521	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	16	133	0	0.125984	0	.	.	none	.	DSCC1	40	.	NM_024094	exon8	c.G1051A	p.E351K	TATCTTCTTCTGT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	12	12	13	0	1	0	C|0.388;T|0.612	0.612	strong	.	HOXC9	25	.	NM_006897	exon1	c.C525T	p.A175A	GAAGGCCGACCTG	.	PASS	Atlas-SNP
APBA3	9546	hgsc.bcm.edu	37	19	3752515	3752515	+	Silent	SNP	G	G	A	rs61735536	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	22	11	39	0	0.5	0	G|0.844;A|0.156	0.156	strong	APBA3,NS,carcinoma,0,1	APBA3	28	1	NM_004886	exon8	c.C1386T	p.A462A	GACAGCGGCCTGG	.	PASS	Atlas-SNP
PLEKHM1	9842	hgsc.bcm.edu	37	17	43552717	43552717	+	Silent	SNP	G	G	C	rs147243132	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	274	109	248	0	0.39781	0	G|0.873;C|0.127	0.127	strong	PLEKHM1,caecum,carcinoma,-1,1	PLEKHM1	69	1	NM_014798	exon4	c.C672G	p.S224S	AGAATGGGAAATG	.	PASS	Atlas-SNP
EMR3	84658	hgsc.bcm.edu	37	19	14758168	14758168	+	Missense_Mutation	SNP	G	G	A	rs34226397	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	68	125	0	0.552846	0	G|0.679;A|0.321	0.321	strong	.	EMR3	99	.	NM_032571	exon8	c.C707T	p.A236V	GCAATGGCACTGG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	69	138	0	0.6	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
C6orf170	221322	hgsc.bcm.edu	37	6	121625945	121625945	+	Missense_Mutation	SNP	A	A	G	rs79040695	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	300	149	294	0	0.496667	0	A|0.954;G|0.046	0.046	strong	.	C6orf170	146	.	NM_152730	exon6	c.T725C	p.L242S	GAAAGCAAAAATG	.	PASS	Atlas-SNP
UBP1	7342	hgsc.bcm.edu	37	3	33458266	33458266	+	Missense_Mutation	SNP	T	T	C	rs3736563	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	454	238	487	0	0.524229	0	T|0.585;C|0.415	0.415	strong	.	UBP1	42	.	NM_001128160	exon3	c.A326G	p.N109S	TTTCCATTGATCT	.	PASS	Atlas-SNP
EXOSC8	11340	hgsc.bcm.edu	37	13	37580139	37580139	+	Silent	SNP	G	G	A	rs1127446	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	82	169	0	0.942529	0	G|0.659;A|0.341	0.341	strong	.	EXOSC8	16	.	NM_181503	exon6	c.G321A	p.Q107Q	TAGCCAGTTCATT	.	PASS	Atlas-SNP
ERC2	26059	hgsc.bcm.edu	37	3	56114861	56114861	+	Missense_Mutation	SNP	T	T	C	rs12488237	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	44	96	0	0.54321	0	T|0.944;C|0.056	0.056	strong	.	ERC2	221	.	NM_015576	exon7	c.A1625G	p.N542S	AGAACATTGATTT	.	PASS	Atlas-SNP
ZNF23	7571	hgsc.bcm.edu	37	16	71487952	71487952	+	Silent	SNP	G	G	T	rs11641967	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	50	79	0	0.581395	0	G|0.883;T|0.117	0.117	strong	.	ZNF23	65	.	NM_145911	exon4	c.C27A	p.A9A	CAGGGAGGCCACA	.	PASS	Atlas-SNP
LY75	4065	hgsc.bcm.edu	37	2	160673526	160673526	+	Missense_Mutation	SNP	A	A	G	rs2059696	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	39	100	0	0.453488	0	A|0.775;G|0.225	0.225	strong	LY75,NS,carcinoma,0,1	LY75	151	1	NM_002349	exon30	c.T4171C	p.Y1391H	TATTATATTCTTC	.	PASS	Atlas-SNP
DDX11	1663	hgsc.bcm.edu	37	12	31256905	31256905	+	Missense_Mutation	SNP	T	T	C	rs1046458	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	51	81	0	0.443478	0	T|0.458;C|0.542	0.542	strong	.	DDX11	188	.	NM_001257144	exon27	c.T2851C	p.C951R	CCAGAGTGCTGCC	.	PASS	Atlas-SNP
KTI12	112970	hgsc.bcm.edu	37	1	52498370	52498370	+	Silent	SNP	C	C	T	rs2809917	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	49	116	0	0.466667	0	C|0.799;T|0.201	0.201	strong	KTI12,NS,carcinoma,0,1	KTI12	30	1	NM_138417	exon1	c.G1064A	p.X355X	TCTGGTCAGTGCA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	146	199	0	0.848837	0	T|0.882;G|0.118	0.118	strong	.	CAGE1	165	.	NM_001170693	exon5	c.A845C	p.E282A	CAGTTCTCCCGAC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	318	148	325	0	0.465409	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
LRRD1	401387	hgsc.bcm.edu	37	7	91779971	91779971	+	Missense_Mutation	SNP	T	T	G	rs6465353	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	61	94	0	0.544643	0	T|0.575;G|0.425	0.425	strong	.	LRRD1	35	.	NM_001161528	exon3	c.A2155C	p.I719L	AAAAAATATTGTA	.	PASS	Atlas-SNP
CAPN14	440854	hgsc.bcm.edu	37	2	31410653	31410653	+	Missense_Mutation	SNP	C	C	T	rs7422120	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	49	111	0	0.4375	0	C|0.732;T|0.268	0.268	strong	.	CAPN14	36	.	NM_001145122	exon15	c.G1558A	p.D520N	ATTCATCCTGCCT	.	PASS	Atlas-SNP
PHKG1	5260	hgsc.bcm.edu	37	7	56149362	56149362	+	Silent	SNP	C	C	T	rs11238393	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	27	52	0	0.375	0	C|0.839;T|0.161	0.161	strong	.	PHKG1	38	.	NM_001258459	exon10	c.G975A	p.V325V	TTCCTCCACCAAG	.	PASS	Atlas-SNP
SAMM50	25813	hgsc.bcm.edu	37	22	44368122	44368122	+	Missense_Mutation	SNP	A	A	G	rs3761472	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	31	64	0	0.430556	0	A|0.790;G|0.210	0.210	strong	SAMM50,NS,carcinoma,0,1	SAMM50	30	1	NM_015380	exon5	c.A329G	p.D110G	GTGATGACGCACT	.	PASS	Atlas-SNP
ASPRV1	151516	hgsc.bcm.edu	37	2	70188676	70188676	+	Missense_Mutation	SNP	T	T	C	rs3796097	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	160	79	0	0.97561	0	T|0.345;C|0.655	0.655	strong	.	ASPRV1	41	.	NM_152792	exon1	c.A145G	p.T49A	GCAGAGTGGGGAT	.	PASS	Atlas-SNP
SAGE1	55511	hgsc.bcm.edu	37	X	134978425	134978425	+	Silent	SNP	G	G	A	rs5930805	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	311	17	222	0	0.0546624	0	G|0.792;A|0.208	0.208	strong	.	SAGE1	160	.	NM_018666	exon2	c.G24A	p.T8T	TCAAACGAGTCAA	.	PASS	Atlas-SNP
TUBB8	347688	hgsc.bcm.edu	37	10	94026	94026	+	Silent	SNP	G	G	A	rs10904032	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	86	239	0	0.383929	0	G|0.731;A|0.269	0.269	strong	.	TUBB8	62	.	NM_177987	exon4	c.C306T	p.A102A	TCCCTTGGCCCAG	.	PASS	Atlas-SNP
RPAP3	79657	hgsc.bcm.edu	37	12	48090118	48090118	+	Silent	SNP	G	G	A	rs12368459	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	54	91	0	0.524272	0	G|0.977;A|0.023	0.023	strong	.	RPAP3	45	.	NM_024604	exon5	c.C486T	p.A162A	TGGATCGGCATCC	.	PASS	Atlas-SNP
SYK	6850	hgsc.bcm.edu	37	9	93641175	93641175	+	Silent	SNP	C	C	T	rs2306041	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	88	139	0	0.478261	0	C|0.822;T|0.178	0.178	strong	.	SYK	132	.	NM_003177	exon11	c.C1521T	p.Y507Y	ACATTACGCCAAG	.	PASS	Atlas-SNP
TTC7A	57217	hgsc.bcm.edu	37	2	47278901	47278901	+	Silent	SNP	G	G	A	rs3739100	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	63	95	0	0.473684	0	G|0.870;A|0.130	0.130	strong	.	TTC7A	80	.	NM_020458	exon18	c.G2034A	p.S678S	GGCTTCGTCCATC	.	PASS	Atlas-SNP
LCP2	3937	hgsc.bcm.edu	37	5	169695446	169695446	+	Silent	SNP	C	C	T	rs2292254	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	9	5	5	1	0.555556	0.2	C|0.530;T|0.470	0.470	strong	LCP2_ENST00000046794,NS,carcinoma,0,2	LCP2	133	2	NM_005565	exon8	c.G564A	p.V188V	GGGGGGCACAGGA	.	scavenged	Atlas-SNP
FRG2B	441581	hgsc.bcm.edu	37	10	135438955	135438955	+	Missense_Mutation	SNP	C	C	T	rs201563622	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	355	132	367	1	0.371831	0.0027248	.	.	weak	.	FRG2B	47	.	NM_001080998	exon4	c.G485A	p.R162Q	AGGGCCCGAGACC	.	PASS	Atlas-SNP
C9orf57	138240	hgsc.bcm.edu	37	9	74671719	74671719	+	Silent	SNP	T	T	C	rs200607840	bycluster;alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	33	20	25	0	0.606061	0	.	.	alt	.	C9orf57	16	.	NM_001128618	exon3	c.A204G	p.K68K	CTCTTCTTTCCAG	.	PASS	Atlas-SNP
LHCGR	3973	hgsc.bcm.edu	37	2	48921375	48921375	+	Missense_Mutation	SNP	T	T	C	rs2293275	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	247	125	237	0	0.506073	0	T|0.446;C|0.554	0.554	strong	.	LHCGR	154	.	NM_000233	exon10	c.A935G	p.N312S	TTGTTATTCACTT	.	PASS	Atlas-SNP
GLTSCR1	29998	hgsc.bcm.edu	37	19	48182787	48182787	+	Silent	SNP	C	C	T	rs4802382	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	45	79	0	0.46875	0	C|0.688;T|0.312	0.312	strong	.	GLTSCR1	79	.	NM_015711	exon6	c.C360T	p.A120A	GGAGGCCGAGGCT	.	PASS	Atlas-SNP
ISX	91464	hgsc.bcm.edu	37	22	35481493	35481493	+	Missense_Mutation	SNP	C	C	T	rs61735502	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	87	136	0	0.460317	0	C|0.926;T|0.074	0.074	strong	ISX,NS,carcinoma,-1,1	ISX	62	1	NM_001008494	exon4	c.C545T	p.T182M	CTCCCACGAGCTG	.	PASS	Atlas-SNP
TM9SF1	10548	hgsc.bcm.edu	37	14	24662296	24662296	+	Missense_Mutation	SNP	T	T	C	rs62621251	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	180	82	131	0	0.455556	0	T|0.994;C|0.006	0.006	strong	.	TM9SF1	58	.	NM_001014842	exon3	c.A525G	p.I175M	GGCAAATATAATT	.	PASS	Atlas-SNP
DYSF	8291	hgsc.bcm.edu	37	2	71838597	71838597	+	Silent	SNP	C	C	A	rs2303606	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	58	46	0	0.716049	0	C|0.529;A|0.471	0.471	strong	.	DYSF	536	.	NM_001130982	exon39	c.C4104A	p.I1368I	TTAGATCCTGGCA	.	PASS	Atlas-SNP
OR5D16	390144	hgsc.bcm.edu	37	11	55607057	55607057	+	Missense_Mutation	SNP	C	C	T	rs61896326	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	68	127	0	0.49635	0	C|0.951;T|0.049	0.049	strong	OR5D16,NS,carcinoma,0,1	OR5D16	94	1	NM_001005496	exon1	c.C830T	p.S277F	TGGCCTCTGTGTT	.	PASS	Atlas-SNP
ADSSL1	122622	hgsc.bcm.edu	37	14	105196235	105196235	+	Silent	SNP	G	G	A	rs34672588	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	26	17	31	0	0.653846	0	G|0.490;A|0.510	0.510	strong	.	ADSSL1	37	.	NM_199165	exon1	c.G6A	p.V2V	CATGGTGGGGAGG	.	PASS	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	37	10	129921195	129921195	+	Silent	SNP	A	A	T	rs1063536	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	220	101	215	0	0.459091	0	A|0.894;T|0.106	0.106	strong	MKI67,NS,carcinoma,0,1	MKI67	363	1	NM_001145966	exon4	c.T237A	p.P79P	CCGTACAGGCTCA	.	PASS	Atlas-SNP
STAB2	55576	hgsc.bcm.edu	37	12	104048454	104048454	+	Missense_Mutation	SNP	C	C	A	rs1609860	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	46	75	0	0.560976	0	A|0.068;C|0.932;G|0.000	0.068	strong	.	STAB2	370	.	NM_017564	exon13	c.C1529A	p.P510H	TAGAACCCACATT	.	PASS	Atlas-SNP
ZNF335	63925	hgsc.bcm.edu	37	20	44582435	44582435	+	Missense_Mutation	SNP	G	G	T	rs41280276	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	63	103	0	0.508065	0	G|0.959;T|0.041	0.041	strong	.	ZNF335	115	.	NM_022095	exon18	c.C2595A	p.D865E	CGGTAGGTCAGGA	.	PASS	Atlas-SNP
OR7A10	390892	hgsc.bcm.edu	37	19	14952017	14952017	+	Missense_Mutation	SNP	T	T	A	rs11880955	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	37	56	0	0.649123	0	T|0.831;A|0.169	0.169	strong	.	OR7A10	33	.	NM_001005190	exon1	c.A673T	p.I225L	CACGTATGGAGGA	.	PASS	Atlas-SNP
PHLDB2	90102	hgsc.bcm.edu	37	3	111672825	111672825	+	Missense_Mutation	SNP	C	C	T	rs3749298	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	64	68	1	0.984615	0.0147059	C|0.912;T|0.088	0.088	strong	PHLDB2,NS,carcinoma,0,1	PHLDB2	449	1	NM_001134439	exon12	c.C2821T	p.P941S	CTCCCTCCCTCAC	.	scavenged	Atlas-SNP
ND4	0	hgsc.bcm.edu	37	MT	11869	11869	+	Silent	SNP	C	C	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	26	26	7	0	1	0	.	.	none	.	.	.	.	ENST00000361381	exon1	c.C1110A	p.P370P	CTTACCCCCCACT	.	PASS	Atlas-SNP
ELMSAN1	91748	hgsc.bcm.edu	37	14	74206481	74206481	+	Silent	SNP	T	T	C	rs758774	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	183	181	192	0	0.989071	0	T|0.148;C|0.852	0.852	strong	.	.	.	.	NM_194278	exon2	c.A231G	p.V77V	CCCATATACCACA	.	PASS	Atlas-SNP
OSBPL11	114885	hgsc.bcm.edu	37	3	125266387	125266387	+	Silent	SNP	G	G	A	rs35535572	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	38	125	0	0.327586	0	G|0.930;A|0.070	0.070	strong	OSBPL11,NS,malignant_melanoma,-2,1	OSBPL11	64	1	NM_022776	exon10	c.C1704T	p.P568P	TGCACAGGGTAGA	.	PASS	Atlas-SNP
GPR111	222611	hgsc.bcm.edu	37	6	47649573	47649573	+	Silent	SNP	C	C	T	rs71538333	alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	52	101	0	0.468468	0	CA|0.500;TG|0.500	.	alt	.	GPR111	123	.	NM_153839	exon7	c.C1074T	p.S358S	GCCAAGCAAATTG	.	PASS	Atlas-SNP
COPA	1314	hgsc.bcm.edu	37	1	160303416	160303416	+	Silent	SNP	G	G	A	rs1802778	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	42	89	0	0.518519	0	G|0.356;A|0.644	0.644	strong	COPA,NS,carcinoma,0,1	COPA	181	1	NM_001098398	exon5	c.C363T	p.N121N	TTGCCAGTTCCAC	.	PASS	Atlas-SNP
MPDU1	9526	hgsc.bcm.edu	37	17	7490810	7490810	+	Missense_Mutation	SNP	G	G	A	rs10852891	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	59	97	0	0.430657	0	G|0.828;A|0.172	0.172	strong	.	MPDU1	14	.	NM_004870	exon7	c.G685A	p.A229T	ATCGCCGCCCAGC	.	PASS	Atlas-SNP
TCF20	6942	hgsc.bcm.edu	37	22	42609148	42609148	+	Missense_Mutation	SNP	T	T	C	rs5758651	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	53	103	0	0.486239	0	T|0.812;C|0.188	0.188	strong	.	TCF20	164	.	NM_181492	exon1	c.A2164G	p.S722G	AGCCACTGACATT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179455207	179455207	+	Silent	SNP	T	T	C	rs2163009	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	356	177	280	1	0.497191	0.00357143	T|0.557;C|0.443	0.443	strong	.	TTN	18412	.	NM_001267550	exon304	c.A61245G	p.T20415T	TTGTGCTGTGCCA	.	PASS	Atlas-SNP
STEAP1B	256227	hgsc.bcm.edu	37	7	22533397	22533397	+	Missense_Mutation	SNP	T	T	C	rs16881810	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	268	105	292	0	0.391791	0	T|0.946;C|0.054	0.054	strong	.	STEAP1B	22	.	NM_001164460	exon3	c.A143G	p.Q48R	GCTGTTTGCTGCA	.	PASS	Atlas-SNP
PROKR1	10887	hgsc.bcm.edu	37	2	68882468	68882468	+	Silent	SNP	T	T	C	rs6722313	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	277	86	143	0	0.310469	0	T|0.606;C|0.394	0.394	strong	.	PROKR1	69	.	NM_138964	exon2	c.T942C	p.F314F	CGTGTTTGTGAAG	.	PASS	Atlas-SNP
TENM4	26011	hgsc.bcm.edu	37	11	78399121	78399121	+	Silent	SNP	G	G	A	rs1792148	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	63	122	0	0.484615	0	G|0.864;A|0.136	0.136	strong	ODZ4_ENST00000278550,colon,carcinoma,-2,1	.	.	1	NM_001098816	exon29	c.C5238T	p.G1746G	GAAGGCGCCTGAG	.	PASS	Atlas-SNP
MACROD1	28992	hgsc.bcm.edu	37	11	63767186	63767186	+	Silent	SNP	A	A	G	rs709594	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	16	16	35	0	1	0	A|0.619;G|0.381	0.381	strong	.	MACROD1	17	.	NM_014067	exon6	c.T714C	p.S238S	AGCCTGACTGGCG	.	PASS	Atlas-SNP
CYP27C1	339761	hgsc.bcm.edu	37	2	127953054	127953054	+	Silent	SNP	A	A	C	rs7568070	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	76	161	1	0.439306	0.00621118	A|0.696;C|0.304	0.304	strong	CYP27C1,NS,carcinoma,0,1	CYP27C1	52	1	NM_001001665	exon5	c.T576G	p.T192T	GTACACAGTCCAA	.	scavenged	Atlas-SNP
RHOT2	89941	hgsc.bcm.edu	37	16	720960	720960	+	Silent	SNP	C	C	T	rs3743912	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	12	25	0	0.333333	0	C|0.824;T|0.176	0.176	strong	.	RHOT2	35	.	NM_138769	exon10	c.C708T	p.N236N	CAGGAACGTGGCG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	485	238	446	1	0.490722	0.00224215	G|0.472;A|0.528	0.528	strong	.	NLRP14	187	.	NM_176822	exon7	c.G2422A	p.E808K	TTGTGTGAGGCCT	.	PASS	Atlas-SNP
NALCN	259232	hgsc.bcm.edu	37	13	101881777	101881777	+	Silent	SNP	G	G	A	rs3916906	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	33	89	0	0.354839	0	G|0.766;N|0.000	.	strong	NALCN,NS,carcinoma,0,1	NALCN	431	1	NM_052867	exon13	c.C1593T	p.V531V	TTCTTCGACAAAG	.	PASS	Atlas-SNP
TRPM3	80036	hgsc.bcm.edu	37	9	73461337	73461337	+	Silent	SNP	T	T	A	rs7862440	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	509	256	408	0	0.502947	0	T|0.455;A|0.545	0.545	strong	.	TRPM3	700	.	NM_001007471	exon4	c.A633T	p.A211A	TGTCATTGCTGCT	.	PASS	Atlas-SNP
TULP3	7289	hgsc.bcm.edu	37	12	3046802	3046802	+	Silent	SNP	A	A	G	rs33973716	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	230	227	184	0	0.986957	0	A|0.796;G|0.204	0.204	strong	.	TULP3	45	.	NM_003324	exon9	c.A930G	p.T310T	GGAAACAAACGTA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	52	94	0	0.541667	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
NRAP	4892	hgsc.bcm.edu	37	10	115412793	115412793	+	Silent	SNP	A	A	G	rs3737322	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	65	107	0	0.503876	0	A|0.676;G|0.324	0.324	strong	.	NRAP	208	.	NM_001261463	exon6	c.T471C	p.Y157Y	TTCTGTATATTCC	.	PASS	Atlas-SNP
AIF1L	83543	hgsc.bcm.edu	37	9	133995669	133995669	+	Missense_Mutation	SNP	T	T	C	rs112778089	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	181	99	199	0	0.546961	0	T|0.998;C|0.002	0.002	strong	.	AIF1L	15	.	NM_001185095	exon7	c.T491C	p.V164A	AGCCAGTTGGCCC	.	PASS	Atlas-SNP
OR2T3	343173	hgsc.bcm.edu	37	1	248637391	248637391	+	Missense_Mutation	SNP	C	C	T	rs150934113	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	584	77	581	1	0.131849	0.00172117	C|0.956;T|0.044	0.044	strong	OR2T3,colon,carcinoma,0,1	OR2T3	79	1	NM_001005495	exon1	c.C740T	p.S247F	CCTGCTCCTCCCA	.	scavenged	Atlas-SNP
OR51Q1	390061	hgsc.bcm.edu	37	11	5443442	5443442	+	Silent	SNP	G	G	C	rs2736590	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	90	202	0	0.494505	0	G|0.587;C|0.413	0.413	strong	.	OR51Q1	79	.	NM_001004757	exon1	c.G12C	p.V4V	CCAGGTGACTAAC	.	PASS	Atlas-SNP
RANGAP1	5905	hgsc.bcm.edu	37	22	41652250	41652250	+	Silent	SNP	C	C	T	rs2066780	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	78	147	0	0.481481	0	C|0.992;T|0.008	0.008	strong	.	RANGAP1	47	.	NM_002883	exon9	c.G933A	p.L311L	AACAGCCAGGGCA	.	PASS	Atlas-SNP
TMCO4	255104	hgsc.bcm.edu	37	1	20097941	20097941	+	Missense_Mutation	SNP	G	G	T	rs10917536	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	17	50	0	0.354167	0	G|0.637;T|0.363	0.363	strong	.	TMCO4	46	.	NM_181719	exon5	c.C214A	p.Q72K	GCCACTGCACCAG	.	PASS	Atlas-SNP
PLXNB3	5365	hgsc.bcm.edu	37	X	153039502	153039502	+	Missense_Mutation	SNP	G	G	C	rs6643791	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	30	25	0	1	0	G|0.218;C|0.782	0.782	strong	.	PLXNB3	208	.	NM_001163257	exon21	c.G3537C	p.E1179D	CCGCGAGGGGCCT	.	PASS	Atlas-SNP
MATN2	4147	hgsc.bcm.edu	37	8	99006736	99006736	+	Silent	SNP	C	C	T	rs11559202	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	58	124	0	0.508772	0	C|0.872;T|0.128	0.128	strong	.	MATN2	165	.	NM_002380	exon7	c.C1110T	p.H370H	TAATCACGGATGT	.	PASS	Atlas-SNP
FLVCR2	55640	hgsc.bcm.edu	37	14	76045858	76045858	+	Silent	SNP	G	G	A	rs2287016	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	45	77	0	0.5	0	G|0.599;A|0.401	0.401	strong	.	FLVCR2	39	.	NM_017791	exon1	c.G543A	p.V181V	CACCGTGGTGGGC	.	PASS	Atlas-SNP
SLC6A15	55117	hgsc.bcm.edu	37	12	85277608	85277608	+	Silent	SNP	C	C	T	rs17183612	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	165	155	0	0.988024	0	C|0.801;T|0.199	0.199	strong	.	SLC6A15	159	.	NM_018057	exon5	c.G786A	p.L262L	GATTAGCAGAATG	.	PASS	Atlas-SNP
UPK3BL	100134938	hgsc.bcm.edu	37	7	102279621	102279621	+	Missense_Mutation	SNP	C	C	T	rs56365279		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	793	109	514	0	0.137453	0	.	.	weak	UPK3BL,NS,carcinoma,0,4	UPK3BL	6	4	NM_001114403	exon4	c.G511A	p.E171K	GTCCTTCGTCATT	.	PASS	Atlas-SNP
ACSBG1	23205	hgsc.bcm.edu	37	15	78471954	78471954	+	Silent	SNP	G	G	A	rs17479031	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	43	107	0	0.401869	0	G|0.936;A|0.064	0.064	strong	.	ACSBG1	79	.	NM_015162	exon10	c.C1422T	p.Y474Y	GAGGCCGTAGCCC	.	PASS	Atlas-SNP
PKP3	11187	hgsc.bcm.edu	37	11	403980	403980	+	Silent	SNP	G	G	A	rs11748	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	57	74	0	0.606383	0	G|0.467;A|0.533	0.533	strong	.	PKP3	36	.	NM_007183	exon11	c.G2115A	p.P705P	GCTGCCGGGCAGC	.	PASS	Atlas-SNP
OR6S1	341799	hgsc.bcm.edu	37	14	21109141	21109141	+	Missense_Mutation	SNP	C	C	T	rs17277522	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	67	56	0	1	0	C|0.523;N|0.000	.	strong	.	OR6S1	49	.	NM_001001968	exon1	c.G710A	p.R237H	TTCTGACGGCCTG	.	PASS	Atlas-SNP
ATHL1	80162	hgsc.bcm.edu	37	11	290888	290888	+	Silent	SNP	G	G	A	rs150075556	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	91	148	0	0.561728	0	G|0.995;A|0.005	0.005	strong	.	ATHL1	88	.	NM_025092	exon4	c.G681A	p.L227L	AGCTCTGTATACG	.	PASS	Atlas-SNP
ABLIM3	22885	hgsc.bcm.edu	37	5	148630930	148630930	+	Silent	SNP	C	C	T	rs150543954		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	199	2	192	0	0.0100503	0	C|1.000;T|0.000	0.000	weak	ABLIM3,NS,carcinoma,0,1	ABLIM3	91	1	NM_014945	exon21	c.C1797T	p.S599S	ACCCAGCGCAGAC	.	scavenged	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	37	11	62287828	62287828	+	Silent	SNP	T	T	C	rs12292433	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	57	105	0	0.467213	0	T|0.949;C|0.051	0.051	strong	AHNAK,caecum,carcinoma,0,1	AHNAK	532	1	NM_001620	exon5	c.A14061G	p.K4687K	GTCCACTTTGGGT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	453	218	425	0	0.481236	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
HECW1	23072	hgsc.bcm.edu	37	7	43484310	43484310	+	Silent	SNP	T	T	C	rs73098706	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	46	88	0	0.479167	0	T|0.710;C|0.290	0.290	strong	.	HECW1	540	.	NM_015052	exon11	c.T1539C	p.S513S	TGTGTCTACCCTG	.	PASS	Atlas-SNP
PLXND1	23129	hgsc.bcm.edu	37	3	129286413	129286413	+	Silent	SNP	G	G	C	rs2245285	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	71	85	0	0.577236	0	G|0.549;C|0.451	0.451	strong	.	PLXND1	149	.	NM_015103	exon22	c.C4008G	p.L1336L	CTTGGTGAGATCT	.	PASS	Atlas-SNP
ZNF407	55628	hgsc.bcm.edu	37	18	72344553	72344553	+	Silent	SNP	G	G	A	rs7227391	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	67	128	0	0.437909	0	G|0.907;A|0.093	0.093	strong	.	ZNF407	231	.	NM_001146190	exon1	c.G1578A	p.T526T	TCAGACGTTGTGT	.	PASS	Atlas-SNP
SMPD4	55627	hgsc.bcm.edu	37	2	130912720	130912720	+	Nonsense_Mutation	SNP	G	G	A	rs80067546	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	20	87	0	0.147059	0	G|0.984;A|0.016	0.016	strong	.	SMPD4	67	.	NM_017951	exon15	c.C1519T	p.R507X	CCACTCGGAACAC	.	PASS	Atlas-SNP
MYH6	4624	hgsc.bcm.edu	37	14	23861811	23861811	+	Missense_Mutation	SNP	A	A	G	rs365990	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	236	108	184	0	0.457627	0	A|0.576;G|0.424	0.424	strong	.	MYH6	274	.	NM_002471	exon25	c.T3302C	p.V1101A	GCCAGCACCTGCT	.	PASS	Atlas-SNP
PCDHAC2	56134	hgsc.bcm.edu	37	5	140347902	140347902	+	Silent	SNP	A	A	T	rs144335538	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	86	130	0	0.51497	0	A|0.993;T|0.007	0.007	strong	.	PCDHAC2	142	.	NM_031883	exon1	c.A1551T	p.P517P	GCTGCCAGTCACC	.	PASS	Atlas-SNP
RFPL4A	342931	hgsc.bcm.edu	37	19	56273285	56273285	+	Missense_Mutation	SNP	A	A	G	rs2019945	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	671	116	590	1	0.172876	0.00169492	.	.	weak	ENSG00000188683,NS,carcinoma,0,1	RFPL4A	8	1	NM_001145014	exon2	c.A119G	p.K40R	TCCAGAAGGAGCC	.	scavenged	Atlas-SNP
CSF2RA	1438	hgsc.bcm.edu	37	X	1413300	1413300	+	Silent	SNP	C	C	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	263	13	464	0	0.0494297	0	.	.	none	.	CSF2RA	153	.	NM_172247	exon6	c.C726A	p.T242T	CAGGACCTATCAG	.	PASS	Atlas-SNP
ROR2	4920	hgsc.bcm.edu	37	9	94495608	94495608	+	Missense_Mutation	SNP	T	T	C	rs10820900	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	51	152	1	0.980769	0.00657895	T|0.340;C|0.660	0.660	strong	ROR2,rectum,carcinoma,0,1	ROR2	167	1	NM_004560	exon6	c.A733G	p.T245A	TGGGTGTCCGGGA	.	PASS	Atlas-SNP
DNASE1L2	1775	hgsc.bcm.edu	37	16	2287294	2287294	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	17	6	33	0	0.352941	0	.	.	none	.	DNASE1L2	14	.	NM_001374	exon4	c.C309T	p.F103F	CCTGTTCGTGTAC	.	PASS	Atlas-SNP
FAM161B	145483	hgsc.bcm.edu	37	14	74402693	74402693	+	Silent	SNP	C	C	T	rs17182699	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	92	168	0	0.513967	0	C|0.935;T|0.065	0.065	strong	.	FAM161B	67	.	NM_152445	exon8	c.G1953A	p.R651R	AACAGCCCGGGTG	.	PASS	Atlas-SNP
CCP110	9738	hgsc.bcm.edu	37	16	19548740	19548740	+	Silent	SNP	A	A	G	rs17227190	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	114	178	0	0.508929	0	A|0.938;G|0.062;T|0.000	0.062	strong	.	CCP110	57	.	NM_001199022	exon4	c.A1749G	p.K583K	TGAGAAAGTTAAA	.	PASS	Atlas-SNP
COL1A2	1278	hgsc.bcm.edu	37	7	94030899	94030899	+	Silent	SNP	T	T	C	rs1800222	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	75	139	0	0.520833	0	T|0.716;C|0.284	0.284	strong	.	COL1A2	240	.	NM_000089	exon6	c.T246C	p.D82D	GTATGATGGAAAA	.	PASS	Atlas-SNP
NACA	4666	hgsc.bcm.edu	37	12	57108203	57108203	+	Silent	SNP	A	A	G	rs4902	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	199	95	207	0	0.477387	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
IGSF10	285313	hgsc.bcm.edu	37	3	151161330	151161330	+	Missense_Mutation	SNP	T	T	A	rs35736581	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	238	128	222	0	0.537815	0	T|0.996;A|0.004	0.004	strong	.	IGSF10	279	.	NM_178822	exon5	c.A5405T	p.D1802V	GTTCCGTCAACCG	.	PASS	Atlas-SNP
GRID2IP	392862	hgsc.bcm.edu	37	7	6591041	6591041	+	Silent	SNP	C	C	G	rs4724818	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	56	59	0	1	0	C|0.635;G|0.365	0.365	strong	.	GRID2IP	82	.	NM_001145118	exon1	c.G27C	p.T9T	CTGGTTCGTGGCC	.	PASS	Atlas-SNP
PKD1L1	168507	hgsc.bcm.edu	37	7	47852837	47852837	+	Missense_Mutation	SNP	C	C	T	rs2290386	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	77	108	0	0.487342	0	C|0.865;T|0.135	0.135	strong	.	PKD1L1	328	.	NM_138295	exon49	c.G7228A	p.E2410K	CAACTTCGGGACT	.	PASS	Atlas-SNP
TSHZ1	10194	hgsc.bcm.edu	37	18	72997677	72997677	+	Silent	SNP	C	C	T	rs3826609	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	37	64	0	0.506849	0	C|0.779;T|0.221	0.221	strong	.	TSHZ1	104	.	NM_005786	exon2	c.C180T	p.S60S	CGACAGCGTCTCG	.	PASS	Atlas-SNP
TECPR1	25851	hgsc.bcm.edu	37	7	97847040	97847040	+	Silent	SNP	G	G	A	rs2279676	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	48	101	0	0.539326	0	G|0.772;A|0.228	0.228	strong	TECPR1,colon,carcinoma,0,1	TECPR1	77	1	NM_015395	exon25	c.C3348T	p.H1116H	GGGCTCGTGAGGC	.	PASS	Atlas-SNP
FBXO34	55030	hgsc.bcm.edu	37	14	55817708	55817708	+	Silent	SNP	T	T	C	rs10144418	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	225	104	191	0	0.462222	0	T|0.655;C|0.345	0.345	strong	FBXO34,NS,carcinoma,0,1	FBXO34	61	1	NM_017943	exon2	c.T600C	p.Y200Y	AGTCTATGCTGGG	.	PASS	Atlas-SNP
NLRP9	338321	hgsc.bcm.edu	37	19	56249672	56249672	+	Silent	SNP	A	A	G	rs56211941	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	86	144	0	0.49711	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
GPR128	84873	hgsc.bcm.edu	37	3	100354524	100354524	+	Missense_Mutation	SNP	A	A	G	rs1144122	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	198	93	178	0	0.469697	0	A|0.772;G|0.228	0.228	strong	.	GPR128	126	.	NM_032787	exon5	c.A451G	p.K151E	CAGGTAAAGGATG	.	PASS	Atlas-SNP
RFC4	5984	hgsc.bcm.edu	37	3	186509517	186509517	+	Silent	SNP	G	G	A	rs187868	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	82	74	0	1	0	G|0.516;A|0.484	0.484	strong	RFC4,colon,carcinoma,0,1	RFC4	54	1	NM_181573	exon8	c.C798T	p.A266A	TACCCCGGCAATG	.	PASS	Atlas-SNP
ESPNL	339768	hgsc.bcm.edu	37	2	239039779	239039779	+	Silent	SNP	G	G	A	rs73102306	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	6	4	2	0	0.666667	0	G|0.922;A|0.078	0.078	strong	.	ESPNL	63	.	NM_194312	exon9	c.G2424A	p.L808L	CCTGCTGGGCAAC	.	PASS	Atlas-SNP
PIGN	23556	hgsc.bcm.edu	37	18	59768375	59768375	+	Silent	SNP	A	A	G	rs17714063	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	46	19	38	0	0.413043	0	A|0.851;G|0.149	0.149	strong	.	PIGN	62	.	NM_176787	exon22	c.T2010C	p.T670T	ACTCTGAGTGCTA	.	PASS	Atlas-SNP
RAI14	26064	hgsc.bcm.edu	37	5	34824555	34824555	+	Missense_Mutation	SNP	G	G	T	rs1048944	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	41	78	0	0.460674	0	A|0.004;C|0.007	.	strong	.	RAI14	100	.	NM_001145525	exon17	c.G2617T	p.A873S	AGATACGCTGAGA	.	PASS	Atlas-SNP
KLK1	3816	hgsc.bcm.edu	37	19	51323232	51323232	+	Missense_Mutation	SNP	T	T	C	rs5517	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	237	117	195	0	0.493671	0	T|0.707;C|0.293	0.293	strong	.	KLK1	27	.	NM_002257	exon4	c.A556G	p.K186E	CTTTTTTGCACTC	.	PASS	Atlas-SNP
HR	55806	hgsc.bcm.edu	37	8	21976710	21976710	+	Missense_Mutation	SNP	T	T	C	rs7014851	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	65	113	0	0.492424	0	T|0.909;C|0.091	0.091	strong	.	HR	71	.	NM_018411	exon15	c.A3064G	p.T1022A	GTGGTGTGTCGGC	.	PASS	Atlas-SNP
WDR66	144406	hgsc.bcm.edu	37	12	122405912	122405912	+	Missense_Mutation	SNP	G	G	T	rs1169081	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	30	57	0	0.352941	0	G|0.708;T|0.292	0.292	strong	.	WDR66	143	.	NM_001178003	exon17	c.G2608T	p.V870L	TTCTAGGTGGGAC	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225495168	225495168	+	Missense_Mutation	SNP	G	G	A	rs112172758	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	59	142	0	0.44697	0	G|0.972;A|0.028	0.028	strong	.	DNAH14	300	.	NM_001373	exon57	c.G8732A	p.R2911H	GGGATCGCTTCCA	.	PASS	Atlas-SNP
LRRC2	79442	hgsc.bcm.edu	37	3	46580591	46580591	+	Missense_Mutation	SNP	G	G	T	rs17078944	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	173	195	1	0.994253	0.00512821	G|0.726;T|0.274	0.274	strong	.	LRRC2	37	.	NM_024512	exon4	c.C434A	p.A145E	CTCATCGCTTGAA	.	PASS	Atlas-SNP
UBN1	29855	hgsc.bcm.edu	37	16	4930100	4930100	+	Silent	SNP	C	C	T	rs1876359	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	81	122	0	0.465517	0	C|0.650;T|0.350	0.350	strong	.	UBN1	88	.	NM_001079514	exon18	c.C3372T	p.H1124H	GCTTCACGGGAAA	.	PASS	Atlas-SNP
FAM208A	23272	hgsc.bcm.edu	37	3	56703746	56703746	+	Silent	SNP	A	A	C	rs13094666	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	86	139	0	0.593103	0	A|0.623;C|0.377	0.377	strong	FAM208A,NS,carcinoma,0,1	FAM208A	113	1	NM_001112736	exon5	c.T717G	p.V239V	AAAAATAACAACA	.	PASS	Atlas-SNP
BRCA2	675	hgsc.bcm.edu	37	13	32906980	32906980	+	Silent	SNP	A	A	G	rs1801439	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	42	85	0	0.933333	0	A|0.955;G|0.045	0.045	strong	.	BRCA2	812	.	NM_000059	exon10	c.A1365G	p.S455S	AAAATCAGAGAAG	.	PASS	Atlas-SNP
APOBR	55911	hgsc.bcm.edu	37	16	28509509	28509509	+	Silent	SNP	G	G	A	rs61738759	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	18	9	16	0	0.5	0	G|0.972;A|0.028	0.028	strong	.	APOBR	89	.	NM_018690	exon3	c.G3063A	p.P1021P	GACTCCGGCCTGG	.	PASS	Atlas-SNP
CARD14	79092	hgsc.bcm.edu	37	17	78178916	78178916	+	Silent	SNP	C	C	T	rs61757652	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	55	99	0	0.632184	0	C|0.928;T|0.072	0.072	strong	.	CARD14	98	.	NM_024110	exon18	c.C2481T	p.P827P	CCGGCCCCGGCCT	.	PASS	Atlas-SNP
UGDH	7358	hgsc.bcm.edu	37	4	39512347	39512347	+	Silent	SNP	T	T	C	rs11544855	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	278	136	264	0	0.489209	0	T|0.904;C|0.096	0.096	strong	UGDH,caecum,carcinoma,-2,1	UGDH	52	1	NM_003359	exon4	c.A399G	p.P133P	CCGCACTGGAACT	.	PASS	Atlas-SNP
OR8H1	219469	hgsc.bcm.edu	37	11	56057898	56057898	+	Missense_Mutation	SNP	G	G	A	rs61888286	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	208	92	146	0	0.442308	0	G|0.948;A|0.052	0.052	strong	.	OR8H1	89	.	NM_001005199	exon1	c.C641T	p.S214F	GATGCAGATATTG	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29822159	29822159	+	Silent	SNP	T	T	C	rs7076239	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	244	121	242	0	0.495902	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
KCNK10	54207	hgsc.bcm.edu	37	14	88652389	88652389	+	Silent	SNP	C	C	T	rs3742692	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	57	67	0	0.640449	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
MUL1	79594	hgsc.bcm.edu	37	1	20827216	20827216	+	Silent	SNP	C	C	T	rs595980	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	111	107	0	0.991071	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
MOV10L1	54456	hgsc.bcm.edu	37	22	50599466	50599466	+	Missense_Mutation	SNP	C	C	A	rs2272843	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	74	103	0	0.536232	0	C|0.878;A|0.122	0.122	strong	.	MOV10L1	238	.	NM_018995	exon26	c.C3536A	p.A1179E	CTCCTGCACTGCA	.	PASS	Atlas-SNP
WDR5	11091	hgsc.bcm.edu	37	9	137005023	137005023	+	Silent	SNP	C	C	T	rs11556390	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	47	70	0	0.522222	0	C|0.632;T|0.368	0.368	strong	.	WDR5	29	.	NM_052821	exon1	c.C24T	p.P8P	GAAGCCCGAGACC	.	PASS	Atlas-SNP
SYK	6850	hgsc.bcm.edu	37	9	93639973	93639973	+	Silent	SNP	G	G	C	rs2290888	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	181	98	160	0	0.541436	0	G|0.789;C|0.211	0.211	strong	.	SYK	132	.	NM_003177	exon10	c.G1302C	p.R434R	CGTGCGGATGATC	.	PASS	Atlas-SNP
RHPN2	85415	hgsc.bcm.edu	37	19	33490564	33490564	+	Missense_Mutation	SNP	G	G	T	rs147870656	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	640	61	628	0	0.0953125	0	G|0.999;T|0.001	0.001	weak	RHPN2,NS,carcinoma,0,1	RHPN2	107	1	NM_033103	exon10	c.C1153A	p.L385I	CGTAGAGCTGGGA	.	scavenged	Atlas-SNP
GFAP	2670	hgsc.bcm.edu	37	17	42987523	42987523	+	Missense_Mutation	SNP	G	G	A	rs9908084	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	402	200	326	0	0.497512	0	G|0.911;A|0.089	0.089	strong	.	GFAP	88	.	NM_001131019	exon8	c.C1277T	p.T426M	GGCGGCGTTCCAT	.	PASS	Atlas-SNP
EPRS	2058	hgsc.bcm.edu	37	1	220156729	220156729	+	Silent	SNP	C	C	T	rs5030754	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	190	80	169	0	0.421053	0	C|0.883;T|0.117	0.117	strong	.	EPRS	140	.	NM_004446	exon22	c.G3102A	p.K1034K	TTCTGACTTTGTG	.	PASS	Atlas-SNP
SH3GLB1	51100	hgsc.bcm.edu	37	1	87170606	87170606	+	Silent	SNP	G	G	A	rs150324653	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	40	21	29	0	0.525	0	G|0.993;A|0.007	0.007	strong	.	SH3GLB1	57	.	NM_001206652	exon1	c.G24A	p.V8V	CAACGTGAAGAAG	.	PASS	Atlas-SNP
PDZD2	23037	hgsc.bcm.edu	37	5	32074509	32074509	+	Silent	SNP	G	G	A	rs2291113	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	50	84	0	0.549451	0	G|0.922;A|0.078	0.078	strong	.	PDZD2	306	.	NM_178140	exon17	c.G3297A	p.T1099T	TCCGACGAACACT	.	PASS	Atlas-SNP
TUBB8	347688	hgsc.bcm.edu	37	10	95169	95169	+	Missense_Mutation	SNP	T	T	G	rs199817418	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	9	106	1	0.0762712	0.00943396	T|0.980;G|0.020	0.020	strong	TUBB8,colon,carcinoma,0,2	TUBB8	62	2	NM_177987	exon1	c.A10C	p.I4L	GCACGATCTCCCT	.	scavenged	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	37	1	240370941	240370941	+	Silent	SNP	T	T	C	rs4997329	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	42	101	3	0.362069	0.029703	T|0.863;C|0.137	0.137	strong	FMN2,caecum,carcinoma,0,1	FMN2	451	1	NM_020066	exon5	c.T2829C	p.P943P	AATACCTCCTCCG	.	scavenged	Atlas-SNP
DTX2	113878	hgsc.bcm.edu	37	7	76131644	76131644	+	Silent	SNP	C	C	T	rs141587206		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	6	142	0	0.0387097	0	.	.	weak	DTX2,rectum,carcinoma,0,1	DTX2	64	1	NM_001102594	exon8	c.C1260T	p.S420S	GCTGTCCACAGCG	.	scavenged	Atlas-SNP
TRPM3	80036	hgsc.bcm.edu	37	9	73150918	73150918	+	Missense_Mutation	SNP	C	C	T	rs41287373	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	69	145	0	0.410714	0	C|0.770;T|0.230	0.230	strong	.	TRPM3	700	.	NM_001007471	exon25	c.G5075A	p.R1692K	GACAGTCTCCTCA	.	PASS	Atlas-SNP
R3HCC1L	27291	hgsc.bcm.edu	37	10	99969475	99969475	+	Missense_Mutation	SNP	A	A	C	rs34494334	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	43	8	80	0	0.186047	0	A|0.813;C|0.187	0.187	strong	.	R3HCC1L	3	.	NM_001256620	exon4	c.A1604C	p.D535A	AAGATGACTCAGG	.	PASS	Atlas-SNP
CFH	3075	hgsc.bcm.edu	37	1	196654324	196654324	+	Silent	SNP	A	A	C	rs1061147	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	248	111	274	0	0.447581	0	A|0.352;C|0.648	0.648	strong	.	CFH	251	.	NM_001014975	exon7	c.A921C	p.A307A	TACAGCAAAATGC	.	PASS	Atlas-SNP
BAZ1B	9031	hgsc.bcm.edu	37	7	72892705	72892705	+	Silent	SNP	A	A	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	276	3	250	0	0.0108696	0	.	.	none	BAZ1B,arm,malignant_melanoma,-2,1	BAZ1B	147	1	NM_032408	exon7	c.T1086A	p.P362P	TTCTTCAGGAGAT	.	scavenged	Atlas-SNP
ARHGEF10L	55160	hgsc.bcm.edu	37	1	17914122	17914122	+	Missense_Mutation	SNP	G	G	A	rs35497285	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	32	52	0	0.561404	0	G|0.929;A|0.071	0.071	strong	.	ARHGEF10L	219	.	NM_018125	exon3	c.G205A	p.D69N	CACTTGGACTCCA	.	PASS	Atlas-SNP
AKAP13	11214	hgsc.bcm.edu	37	15	86123019	86123019	+	Missense_Mutation	SNP	C	C	T	rs2061824	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	89	94	0	1	0	C|0.388;T|0.612	0.612	strong	.	AKAP13	394	.	NM_007200	exon7	c.C1720T	p.R574C	CGAAGTCGTGAGG	.	PASS	Atlas-SNP
PLEKHO2	80301	hgsc.bcm.edu	37	15	65153690	65153690	+	Silent	SNP	G	G	A	rs12595292	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	35	21	21	0	0.6	0	G|0.776;A|0.224	0.224	strong	.	PLEKHO2	50	.	NM_025201	exon5	c.G399A	p.K133K	GGACAAGAGCTGC	.	PASS	Atlas-SNP
RMI2	116028	hgsc.bcm.edu	37	16	11444572	11444572	+	Silent	SNP	A	A	C	rs7204628	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	117	117	1	0.983193	0.00854701	A|0.786;C|0.214	0.214	strong	.	RMI2	11	.	NM_152308	exon2	c.A369C	p.T123T	GATGACAGACCTT	.	PASS	Atlas-SNP
TMEM169	92691	hgsc.bcm.edu	37	2	216965010	216965010	+	Silent	SNP	C	C	T	rs61732363	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	91	222	0	0.43128	0	C|0.990;T|0.010	0.010	strong	.	TMEM169	46	.	NM_001142310	exon4	c.C639T	p.F213F	TCTCTTCTATCCA	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225328440	225328440	+	Missense_Mutation	SNP	T	T	G	rs75827633	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	19	13	8	0	0.684211	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	.	scavenged	Atlas-SNP
SLC25A47	283600	hgsc.bcm.edu	37	14	100793603	100793603	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	33	46	0	0.540984	0	.	.	none	.	SLC25A47	36	.	NM_207117	exon4	c.C223T	p.R75C	ACCTACCGCCACT	.	PASS	Atlas-SNP
OR5M10	390167	hgsc.bcm.edu	37	11	56344260	56344260	+	Missense_Mutation	SNP	A	A	G	rs10896488	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	261	138	261	0	0.528736	0	A|0.849;G|0.151	0.151	strong	.	OR5M10	56	.	NM_001004741	exon1	c.T938C	p.I313T	ACTGCAATTTTAC	.	PASS	Atlas-SNP
OR8H2	390151	hgsc.bcm.edu	37	11	55873026	55873026	+	Missense_Mutation	SNP	G	G	T	rs61734396	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	293	138	251	1	0.47099	0.00398406	G|0.948;T|0.052	0.052	strong	.	OR8H2	117	.	NM_001005200	exon1	c.G508T	p.D170Y	TTCTACGACTCAA	.	PASS	Atlas-SNP
MFI2	4241	hgsc.bcm.edu	37	3	196746629	196746629	+	Silent	SNP	T	T	C	rs1056664	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	84	161	0	0.506024	0	T|0.742;C|0.258	0.258	strong	.	MFI2	88	.	NM_033316	exon7	c.A756G	p.E252E	GCCTTCTTCCTCC	.	PASS	Atlas-SNP
CCDC147	159686	hgsc.bcm.edu	37	10	106214272	106214272	+	Missense_Mutation	SNP	C	C	A	rs74741614	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	7	150	0	0.0804598	0	C|0.989;A|0.011	0.011	strong	.	CCDC147	137	.	NM_001008723	exon18	c.C2603A	p.T868N	GGTCAACCAAAAT	.	PASS	Atlas-SNP
ZNF773	374928	hgsc.bcm.edu	37	19	58018618	58018618	+	Silent	SNP	A	A	G	rs2074064	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	27	67	0	0.402985	0	A|0.791;G|0.209	0.209	strong	.	ZNF773	62	.	NM_198542	exon4	c.A1155G	p.K385K	AGAAAAACCTTTT	.	PASS	Atlas-SNP
PPIL2	23759	hgsc.bcm.edu	37	22	22049783	22049783	+	Silent	SNP	C	C	T	rs12484060	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	89	151	0	0.473404	0	C|0.616;T|0.384	0.384	strong	.	PPIL2	38	.	NM_148176	exon20	c.C1563T	p.S521S	TAGCAGCAGGTTG	.	PASS	Atlas-SNP
R3HCC1	203069	hgsc.bcm.edu	37	8	23150878	23150878	+	Missense_Mutation	SNP	T	T	G	rs13530	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	37	48	0	0.528571	0	T|0.219;G|0.311	0.311	strong	.	R3HCC1	11	.	NM_001136108	exon6	c.T527G	p.L176R	CCTGCCTGGCCTC	.	PASS	Atlas-SNP
PIGN	23556	hgsc.bcm.edu	37	18	59781800	59781800	+	Silent	SNP	A	A	G	rs13381627	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	22	79	0	0.349206	0	A|0.876;G|0.124	0.124	strong	.	PIGN	62	.	NM_176787	exon15	c.T1245C	p.D415D	CACTTCATCAAAC	.	PASS	Atlas-SNP
CLEC17A	388512	hgsc.bcm.edu	37	19	14705574	14705574	+	Missense_Mutation	SNP	T	T	C	rs78269670	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	37	13	52	0	0.351351	0	T|0.943;C|0.057	0.057	strong	.	CLEC17A	27	.	NM_207390	exon7	c.T365C	p.L122P	TAGGCCTGGACCT	.	PASS	Atlas-SNP
BTNL2	56244	hgsc.bcm.edu	37	6	32370794	32370794	+	Silent	SNP	C	C	T	rs60036207	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	202	99	163	0	0.490099	0	C|0.898;T|0.102	0.102	strong	.	BTNL2	50	.	NM_019602	exon3	c.G627A	p.R209R	GGCGTTCCTGACC	.	PASS	Atlas-SNP
SPTB	6710	hgsc.bcm.edu	37	14	65249066	65249066	+	Missense_Mutation	SNP	C	C	T	rs17180350	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	65	129	0	0.411392	0	C|0.947;N|0.000	.	strong	.	SPTB	378	.	NM_001024858	exon19	c.G4208A	p.R1403Q	TCTGACCGCAGCT	.	PASS	Atlas-SNP
DHRS1	115817	hgsc.bcm.edu	37	14	24760808	24760808	+	Silent	SNP	C	C	T	rs1131941	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	55	85	0	0.544554	0	C|0.827;T|0.173	0.173	strong	.	DHRS1	21	.	NM_138452	exon7	c.G678A	p.A226A	GGTTTCCGCAGAT	.	PASS	Atlas-SNP
OR51Q1	390061	hgsc.bcm.edu	37	11	5443887	5443887	+	Missense_Mutation	SNP	T	T	C	rs10838093	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	249	115	257	2	0.461847	0.0077821	C|0.398;N|0.001	0.398	strong	OR51Q1,colon,carcinoma,-1,1	OR51Q1	79	1	NM_001004757	exon1	c.T457C	p.C153R	ATTTGCTGCTGTG	.	scavenged	Atlas-SNP
TP53BP2	7159	hgsc.bcm.edu	37	1	223980207	223980207	+	Silent	SNP	G	G	C	rs1153936	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	61	96	0	0.455224	0	G|0.824;C|0.176	0.176	strong	.	TP53BP2	144	.	NM_001031685	exon15	c.C2880G	p.L960L	ATTGGGGAGGCTT	.	PASS	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240790	39240790	+	Missense_Mutation	SNP	G	G	A	rs11650261	bycluster;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	33	5	29	1	0.151515	0.0344828	G|0.932;A|0.068	0.068	strong	KRTAP4-9_ENST00000377734,NS,carcinoma,0,3	KRTAP4-7	49	3	NM_033061	exon1	c.G332A	p.R111H	GCTGCCGCCCCAG	.	scavenged	Atlas-SNP
PDIA2	64714	hgsc.bcm.edu	37	16	334543	334543	+	Missense_Mutation	SNP	C	C	G	rs45614840	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	57	107	0	0.548077	0	C|0.922;G|0.078	0.078	strong	.	PDIA2	51	.	NM_006849	exon2	c.C356G	p.T119R	ACCCTACGCTCAA	.	PASS	Atlas-SNP
PDCD6IP	10015	hgsc.bcm.edu	37	3	33887008	33887008	+	Silent	SNP	G	G	A	rs112754416	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	196	99	180	0	0.505102	0	G|0.962;A|0.038	0.038	strong	PDCD6IP,NS,carcinoma,0,1	PDCD6IP	62	1	NM_001162429	exon12	c.G1584A	p.L528L	GCTTTTGTGTAAG	.	PASS	Atlas-SNP
GGCX	2677	hgsc.bcm.edu	37	2	85783341	85783341	+	Silent	SNP	G	G	A	rs76767923	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	22	48	0	0.431373	0	G|0.996;A|0.004	0.004	strong	.	GGCX	44	.	NM_000821	exon5	c.C582T	p.H194H	GGGCACGTGGGCA	.	PASS	Atlas-SNP
SCN10A	6336	hgsc.bcm.edu	37	3	38748833	38748833	+	Silent	SNP	T	T	C	rs6790627	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	301	155	234	0	0.51495	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
FUT8	2530	hgsc.bcm.edu	37	14	66028446	66028446	+	Silent	SNP	A	A	G	rs2229677	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	58	112	0	0.467742	0	A|0.277;G|0.723	0.723	strong	.	FUT8	101	.	NM_178155	exon3	c.A165G	p.Q55Q	AAAACAACAGAAT	.	PASS	Atlas-SNP
MYEOV2	150678	hgsc.bcm.edu	37	2	241066179	241066179	+	Missense_Mutation	SNP	C	C	A	rs140948790	bycluster;alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	280	4	212	0	0.0142857	0	C|1.000;T|0.000	.	alt	MYEOV2,NS,carcinoma,0,1	MYEOV2	20	1	NM_138336	exon5	c.G560T	p.R187L	TTCTTCCGTAAAC	.	scavenged	Atlas-SNP
DAAM1	23002	hgsc.bcm.edu	37	14	59797373	59797373	+	Silent	SNP	G	G	A	rs28927674	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	183	82	159	1	0.448087	0.00628931	G|0.939;A|0.061	0.061	strong	DAAM1,colon,carcinoma,+1,1	DAAM1	95	1	NM_001270520	exon13	c.G1527A	p.A509A	GGTGGCGGACCTC	.	scavenged	Atlas-SNP
OR8S1	341568	hgsc.bcm.edu	37	12	48919659	48919659	+	Missense_Mutation	SNP	T	T	C	rs71439450	alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	90	206	0	0.48913	0	CA|0.500;TG|0.500	.	alt	.	OR8S1	47	.	NM_001005203	exon1	c.T245C	p.L82P	AGATGCTGGAGAA	.	PASS	Atlas-SNP
WDR11	55717	hgsc.bcm.edu	37	10	122668181	122668181	+	Silent	SNP	T	T	C	rs34567350	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	73	141	0	0.477124	0	T|0.990;C|0.010	0.010	strong	.	WDR11	95	.	NM_018117	exon29	c.T3631C	p.L1211L	GACTTATTGAATG	.	PASS	Atlas-SNP
ND1	10625	hgsc.bcm.edu	37	MT	3480	3480	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	23	22	11	0	0.956522	0	.	.	none	.	.	.	.	ENST00000361390	exon1	c.A174G	p.K58K	CACCAAAGAGCCC	.	PASS	Atlas-SNP
ZNF99	7652	hgsc.bcm.edu	37	19	22942325	22942325	+	Missense_Mutation	SNP	G	G	C	rs7255780	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	47	121	0	0.435185	0	G|0.635;C|0.364	0.364	strong	.	ZNF99	273	.	NM_001080409	exon4	c.C386G	p.A129G	TTATAAGCTTCTT	.	PASS	Atlas-SNP
C1orf109	54955	hgsc.bcm.edu	37	1	38149076	38149076	+	Silent	SNP	G	G	A	rs34250208	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	78	131	0	0.52	0	G|0.913;A|0.087	0.087	strong	.	C1orf109	13	.	NM_017850	exon4	c.C489T	p.I163I	CCACTGGATAGAC	.	PASS	Atlas-SNP
NRG3	10718	hgsc.bcm.edu	37	10	84744926	84744926	+	Missense_Mutation	SNP	C	C	A	rs17101193	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	60	101	0	0.491803	0	C|0.910;A|0.090	0.090	strong	.	NRG3	301	.	NM_001010848	exon9	c.C1656A	p.N552K	GACAAACCCCTAT	.	PASS	Atlas-SNP
MAN2B1	4125	hgsc.bcm.edu	37	19	12772090	12772090	+	Missense_Mutation	SNP	C	C	T	rs1133330	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	70	163	0	0.434783	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
DIDO1	11083	hgsc.bcm.edu	37	20	61510849	61510849	+	Silent	SNP	C	C	T	rs373321839		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	13	5	33	0	0.384615	0	.	.	weak	.	DIDO1	321	.	NM_001193369	exon16	c.G6459A	p.R2153R	GGCGCTCCTCTCC	.	PASS	Atlas-SNP
DYNC1H1	1778	hgsc.bcm.edu	37	14	102493761	102493761	+	Silent	SNP	A	A	G	rs8010870	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	68	87	0	0.539683	0	A|0.835;G|0.165;T|0.000	0.165	strong	.	DYNC1H1	395	.	NM_001376	exon46	c.A8928G	p.L2976L	AGATCTACGGACA	.	PASS	Atlas-SNP
HLA-DPA1	3113	hgsc.bcm.edu	37	6	33036999	33036999	+	Missense_Mutation	SNP	T	T	C	rs199711661		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	50	100	0	0.42735	0	.	.	weak	.	HLA-DPA1	20	.	NM_033554	exon3	c.A425G	p.K142R	AAGAACTTGTCAA	.	PASS	Atlas-SNP
FCER2	2208	hgsc.bcm.edu	37	19	7763248	7763248	+	Missense_Mutation	SNP	G	G	A	rs2228137	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	111	241	0	0.495536	0	G|0.809;N|0.000	.	strong	.	FCER2	19	.	NM_002002	exon4	c.C184T	p.R62W	CGTTCCGGGCAGC	.	PASS	Atlas-SNP
SPPL2C	162540	hgsc.bcm.edu	37	17	43923934	43923934	+	Silent	SNP	T	T	C	rs11079725	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	46	64	0	0.567901	0	T|0.854;C|0.146	0.146	strong	.	.	.	.	NM_175882	exon1	c.T1662C	p.D554D	AGCAGATGCCCAC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	278	123	272	1	0.442446	0.00367647	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
SCN7A	6332	hgsc.bcm.edu	37	2	167262169	167262169	+	Missense_Mutation	SNP	T	T	C	rs35344714	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	268	142	245	0	0.529851	0	T|0.949;C|0.051	0.051	strong	.	SCN7A	410	.	NM_002976	exon25	c.A4970G	p.D1657G	TCTCTGTCACCAT	.	PASS	Atlas-SNP
DNAH6	1768	hgsc.bcm.edu	37	2	84880445	84880445	+	Missense_Mutation	SNP	G	G	C	rs28375417	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	39	60	0	0.47561	0	G|0.896;C|0.104	0.104	strong	.	DNAH6	194	.	NM_001370	exon34	c.G5081C	p.G1694A	ACAGTGGAATCAT	.	PASS	Atlas-SNP
CYP2A13	1553	hgsc.bcm.edu	37	19	41596013	41596013	+	Silent	SNP	A	A	G	rs199984436		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	6	104	2	0.0731707	0.0192308	A|0.999;G|0.001	0.001	weak	CYP2A13,colon,carcinoma,0,1	CYP2A13	90	1	NM_000766	exon3	c.A405G	p.L135L	CACCCTAAGGGGT	.	scavenged	Atlas-SNP
SLC1A6	6511	hgsc.bcm.edu	37	19	15083693	15083693	+	Silent	SNP	C	C	A	rs3746295	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	18	68	0	0.409091	0	C|0.450;A|0.550	0.550	strong	SLC1A6,NS,carcinoma,0,2	SLC1A6	111	2	NM_001272087	exon4	c.G30T	p.L10L	CTCCCGCAGGAAC	.	PASS	Atlas-SNP
LAMA3	3909	hgsc.bcm.edu	37	18	21513768	21513768	+	Silent	SNP	C	C	T	rs1131521	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	85	173	0	0.508982	0	C|0.853;T|0.147	0.147	strong	.	LAMA3	397	.	NM_198129	exon67	c.C8731T	p.L2911L	GAAGTCCTAGATT	.	PASS	Atlas-SNP
NEFM	4741	hgsc.bcm.edu	37	8	24775457	24775457	+	Missense_Mutation	SNP	G	G	C	rs59726684	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	25	39	0	0.568182	0	G|0.993;C|0.007	0.007	strong	NEFM,uveal_tract,malignant_melanoma,0,1	NEFM	115	1	NM_005382	exon3	c.G2089C	p.G697R	GAAGTGGGGAAAG	.	PASS	Atlas-SNP
IL27	246778	hgsc.bcm.edu	37	16	28513403	28513403	+	Missense_Mutation	SNP	A	A	G	rs181206	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	24	58	0	0.380952	0	A|0.798;G|0.202	0.202	strong	.	IL27	27	.	NM_145659	exon4	c.T356C	p.L119P	CCCAGCAGGGCAT	.	PASS	Atlas-SNP
ITGA9	3680	hgsc.bcm.edu	37	3	37536056	37536056	+	Silent	SNP	C	C	T	rs2507941	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	362	181	378	0	0.5	0	C|0.959;T|0.041	0.041	strong	.	ITGA9	98	.	NM_002207	exon5	c.C609T	p.T203T	CTTCACCGAGGTG	.	PASS	Atlas-SNP
ZNF341	84905	hgsc.bcm.edu	37	20	32376748	32376748	+	Silent	SNP	C	C	T	rs34260449	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	210	105	180	0	0.5	0	C|0.985;T|0.015	0.015	strong	.	ZNF341	73	.	NM_032819	exon13	c.C1911T	p.H637H	GATCCACGAGCCC	.	PASS	Atlas-SNP
OR5T2	219464	hgsc.bcm.edu	37	11	56000581	56000581	+	Silent	SNP	G	G	A	rs76457874	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	49	105	0	0.526882	0	G|0.949;A|0.051	0.051	strong	.	OR5T2	107	.	NM_001004746	exon1	c.C81T	p.N27N	GTTACAGTTCATA	.	PASS	Atlas-SNP
ULK4	54986	hgsc.bcm.edu	37	3	41952838	41952838	+	Silent	SNP	A	A	G	rs9877875	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	320	153	323	1	0.478125	0.00309598	A|0.948;G|0.052	0.052	strong	.	ULK4	150	.	NM_017886	exon11	c.T1056C	p.G352G	CAATTGACCCTCA	.	PASS	Atlas-SNP
OR2T3	343173	hgsc.bcm.edu	37	1	248637447	248637447	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	957	292	856	0	0.30512	0	.	.	none	.	OR2T3	79	.	NM_001005495	exon1	c.C796T	p.L266F	TACATGCTCCCGA	.	PASS	Atlas-SNP
ALPP	250	hgsc.bcm.edu	37	2	233243793	233243793	+	Silent	SNP	C	C	T	rs1130337	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	36	95	0	0.409091	0	C|0.996;G|0.001;T|0.003	0.003	strong	.	ALPP	53	.	NM_001632	exon2	c.C189T	p.G63G	CCTGGGCGATGGT	.	PASS	Atlas-SNP
PCDHA4	56144	hgsc.bcm.edu	37	5	140187102	140187102	+	Silent	SNP	A	A	G	rs74726650		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	41	115	0	0.362832	0	.	.	weak	.	PCDHA4	419	.	NM_031500	exon1	c.A330G	p.V110V	GATCGTAGACAGG	.	PASS	Atlas-SNP
KIF3C	3797	hgsc.bcm.edu	37	2	26177198	26177198	+	Silent	SNP	A	A	G	rs17047211	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	27	57	0	0.519231	0	A|0.828;G|0.172	0.172	strong	.	KIF3C	79	.	NM_002254	exon4	c.T1827C	p.Y609Y	GCGGATATACTCA	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238931	31238931	+	Silent	SNP	G	G	A	rs697743	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	32	274	0	0.175824	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	.	scavenged	Atlas-SNP
PRDM9	56979	hgsc.bcm.edu	37	5	23527323	23527323	+	Missense_Mutation	SNP	C	C	G	rs200539936	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	14	56	6	0.177215	0.107143	C|0.934;G|0.066	0.066	strong	PRDM9,NS,carcinoma,0,1	PRDM9	344	1	NM_020227	exon11	c.C2126G	p.T709S	TCCTCACTCACCA	.	scavenged	Atlas-SNP
MYO3A	53904	hgsc.bcm.edu	37	10	26462790	26462790	+	Silent	SNP	G	G	A	rs3740232	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	64	137	1	0.470588	0.00729927	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	.	scavenged	Atlas-SNP
OR5H2	79310	hgsc.bcm.edu	37	3	98002527	98002527	+	Missense_Mutation	SNP	C	C	T	rs17787561	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	69	118	0	0.489362	0	C|0.993;T|0.007	0.007	strong	.	OR5H2	63	.	NM_001005482	exon1	c.C796T	p.R266C	TATTTGCGCCCTG	.	PASS	Atlas-SNP
GTDC2	84892	hgsc.bcm.edu	37	3	43122702	43122702	+	Silent	SNP	G	G	A	rs141040291		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	57	85	0	0.522936	0	G|1.000;A|0.000	0.000	weak	.	.	.	.	NM_032806	exon2	c.C222T	p.H74H	GTCTGTGTGCGTG	.	PASS	Atlas-SNP
CSNK2B	1460	hgsc.bcm.edu	37	6	31635710	31635710	+	Silent	SNP	T	T	C	rs14365	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	48	76	0	0.470588	0	T|0.720;C|0.280	0.280	strong	.	CSNK2B	15	.	NM_001320	exon3	c.T138C	p.Y46Y	TCACTATCGACAA	.	PASS	Atlas-SNP
PIGR	5284	hgsc.bcm.edu	37	1	207106444	207106444	+	Silent	SNP	A	A	G	rs172361	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	66	87	1	0.564103	0.0114943	A|0.773;G|0.227	0.227	strong	PIGR,NS,carcinoma,0,1	PIGR	98	1	NM_002644	exon7	c.T1773C	p.F591F	CTCCCGAAAACCA	.	scavenged	Atlas-SNP
NOD2	64127	hgsc.bcm.edu	37	16	50745199	50745199	+	Silent	SNP	C	C	T	rs2066843	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	46	56	0	0.582278	0	C|0.831;T|0.169	0.169	strong	.	NOD2	118	.	NM_022162	exon4	c.C1377T	p.R459R	GAAGCGCCATCAT	.	PASS	Atlas-SNP
R3HDM2	22864	hgsc.bcm.edu	37	12	57648772	57648772	+	Silent	SNP	C	C	A	rs73120051	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	29	56	0	0.483333	0	C|0.989;A|0.011	0.011	strong	.	R3HDM2	125	.	NM_014925	exon22	c.G2715T	p.G905G	AGGCAGCCCCTGA	.	PASS	Atlas-SNP
ZNF418	147686	hgsc.bcm.edu	37	19	58437629	58437629	+	Silent	SNP	T	T	A	rs147202003	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	13	114	0	0.147727	0	T|0.993;A|0.007	0.007	strong	.	ZNF418	76	.	NM_133460	exon4	c.A1920T	p.V640V	AGTGTGTACTCTC	.	PASS	Atlas-SNP
TAS2R31	259290	hgsc.bcm.edu	37	12	11183191	11183191	+	Silent	SNP	T	T	C	rs116737741	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	323	172	297	0	0.532508	0	T|0.912;C|0.088	0.088	strong	.	TAS2R31	24	.	NM_176885	exon1	c.A744G	p.S248S	CCAAACTGATATC	.	PASS	Atlas-SNP
DLGAP5	9787	hgsc.bcm.edu	37	14	55619311	55619311	+	Silent	SNP	A	A	G	rs15870	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	26	113	0	0.371429	0	A|0.621;G|0.379	0.379	strong	.	DLGAP5	84	.	NM_014750	exon16	c.T2118C	p.N706N	TACATGATTTTCT	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134682855	134682855	+	Silent	SNP	C	C	T	rs7908950	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	47	53	0	0.94	0	C|0.713;T|0.287	0.287	strong	.	TTC40	100	.	NM_001200049	exon33	c.G4533A	p.E1511E	CTTCAGCTCGGAG	.	PASS	Atlas-SNP
KCNA7	3743	hgsc.bcm.edu	37	19	49575304	49575304	+	Missense_Mutation	SNP	G	G	A	rs77059600	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	10	10	10	0	1	0	G|0.847;A|0.153	0.153	strong	KCNA7,rectum,carcinoma,0,1	KCNA7	30	1	NM_031886	exon1	c.C539T	p.A180V	GCGGCTGCAGCAG	.	scavenged	Atlas-SNP
PLXND1	23129	hgsc.bcm.edu	37	3	129290087	129290087	+	Silent	SNP	G	G	A	rs2285366	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	171	88	136	0	0.51462	0	G|0.961;A|0.039	0.039	strong	.	PLXND1	149	.	NM_015103	exon18	c.C3396T	p.N1132N	TGATGCGTTGCTC	.	PASS	Atlas-SNP
TXLNB	167838	hgsc.bcm.edu	37	6	139564167	139564167	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	240	3	181	0	0.0125	0	.	.	none	TXLNB,NS,carcinoma,-1,1	TXLNB	96	1	NM_153235	exon10	c.G1551A	p.P517P	CTGGTGCGGGGTT	.	scavenged	Atlas-SNP
TPSD1	23430	hgsc.bcm.edu	37	16	1306355	1306355	+	Missense_Mutation	SNP	T	T	C	rs1800984	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	26	26	64	0	1	0	T|0.347;C|0.653	0.653	strong	TPSD1,rectum,NS,0,1	TPSD1	47	1	NM_012217	exon1	c.T74C	p.V25A	CCTACGTGGCCCC	.	PASS	Atlas-SNP
HHLA2	11148	hgsc.bcm.edu	37	3	108081277	108081277	+	Missense_Mutation	SNP	C	C	A	rs6779094	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	47	88	0	0.439252	0	C|0.868;A|0.132	0.132	strong	.	HHLA2	95	.	NM_007072	exon7	c.C1092A	p.S364R	TTGGAGCGTAAAA	.	PASS	Atlas-SNP
SNX19	399979	hgsc.bcm.edu	37	11	130784707	130784707	+	Silent	SNP	C	C	T	rs61736752	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	57	88	0	0.518182	0	C|0.844;T|0.156	0.156	strong	.	SNX19	84	.	NM_014758	exon1	c.G1128A	p.P376P	AGACAGCGGAGAC	.	PASS	Atlas-SNP
LIAS	11019	hgsc.bcm.edu	37	4	39466779	39466779	+	Silent	SNP	A	A	G	rs35086467	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	273	133	277	1	0.487179	0.00361011	A|0.938;G|0.062	0.062	strong	.	LIAS	26	.	NM_194451	exon5	c.A507G	p.E169E	TGCAGAATGGGGT	.	PASS	Atlas-SNP
C6orf170	221322	hgsc.bcm.edu	37	6	121638666	121638666	+	Missense_Mutation	SNP	G	G	A	rs75747353	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	480	198	458	0	0.4125	0	G|0.954;A|0.046	0.046	strong	C6orf170,colon,carcinoma,-1,6	C6orf170	146	6	NM_152730	exon3	c.C470T	p.S157F	CTATCAGAGCAAT	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238230	31238230	+	Missense_Mutation	SNP	G	G	C	rs1050716	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	119	136	0	0.983471	0	G|0.265;C|0.735	0.735	strong	.	HLA-C	92	.	NM_002117	exon4	c.C652G	p.L218V	CAGAGAGGGGGTG	.	PASS	Atlas-SNP
MTMR7	9108	hgsc.bcm.edu	37	8	17157605	17157605	+	Missense_Mutation	SNP	A	A	C	rs145244130	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	286	141	242	0	0.493007	0	A|0.997;C|0.003	0.003	strong	.	MTMR7	75	.	NM_004686	exon14	c.T1749G	p.S583R	ATTCCCACTGTAA	.	PASS	Atlas-SNP
GALNS	2588	hgsc.bcm.edu	37	16	88893122	88893122	+	Missense_Mutation	SNP	C	C	T	rs150734270	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	70	113	0	0.518519	0	C|0.999;T|0.001	0.001	strong	GALNS,bladder,carcinoma,0,1	GALNS	37	1	NM_000512	exon10	c.G1127A	p.R376Q	ATCAGCCGGCCCT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9083143	9083143	+	Missense_Mutation	SNP	G	G	A	rs7245949	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	198	198	185	1	1	0.00540541	G|0.771;A|0.229	0.229	strong	.	MUC16	4315	.	NM_024690	exon1	c.C8672T	p.T2891I	TCAAATGTCAAGG	.	PASS	Atlas-SNP
EFHD1	80303	hgsc.bcm.edu	37	2	233537125	233537125	+	Missense_Mutation	SNP	A	A	G	rs11550699	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	66	153	0	0.478261	0	A|0.685;G|0.315	0.315	strong	.	EFHD1	28	.	NM_025202	exon3	c.A557G	p.K186R	GTGTCAAAGGTGC	.	PASS	Atlas-SNP
RAD1	5810	hgsc.bcm.edu	37	5	34908988	34908988	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	335	4	264	1	0.0119403	0.00378788	.	.	none	RAD1,NS,carcinoma,-1,2	RAD1	17	2	NM_002853	exon6	c.G731A	p.R244Q	TCTGTCCGAATAG	.	scavenged	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	266	121	197	1	0.454887	0.00507614	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	.	scavenged	Atlas-SNP
PTPRE	5791	hgsc.bcm.edu	37	10	129871690	129871690	+	Silent	SNP	A	A	G	rs2275803	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	63	123	0	0.516393	0	G|0.223;N|0.000	0.223	strong	PTPRE,NS,carcinoma,0,1	PTPRE	132	1	NM_006504	exon17	c.A1554G	p.K518K	ATGGAAATCCCAC	.	PASS	Atlas-SNP
CST9L	128821	hgsc.bcm.edu	37	20	23546639	23546639	+	Missense_Mutation	SNP	T	T	G	rs2295564	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	293	131	234	0	0.447099	0	T|0.629;G|0.371	0.371	strong	CST9L,NS,carcinoma,0,1	CST9L	25	1	NM_080610	exon2	c.A326C	p.H109P	TGGAAATGGCAGT	.	PASS	Atlas-SNP
GALK2	2585	hgsc.bcm.edu	37	15	49620200	49620200	+	Silent	SNP	C	C	T	rs1055254	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	41	96	0	0.471264	0	C|0.783;T|0.217	0.217	strong	.	GALK2	78	.	NM_002044	exon10	c.C1221T	p.C407C	AGGCTGCACAGTA	.	PASS	Atlas-SNP
KIAA1462	57608	hgsc.bcm.edu	37	10	30318345	30318345	+	Silent	SNP	C	C	T	rs11813359	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	175	75	148	1	0.428571	0.00675676	C|0.994;T|0.006	0.006	strong	KIAA1462,NS,carcinoma,-2,1	KIAA1462	162	1	NM_020848	exon3	c.G732A	p.T244T	AATTTCCGTGCAA	.	scavenged	Atlas-SNP
ABCB10	23456	hgsc.bcm.edu	37	1	229654053	229654053	+	Missense_Mutation	SNP	T	T	C	rs115488729	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	415	200	400	0	0.481928	0	T|0.976;C|0.024	0.024	strong	.	ABCB10	71	.	NM_012089	exon13	c.A2090G	p.N697S	TTAGCATTCTTAA	.	PASS	Atlas-SNP
SYTL2	54843	hgsc.bcm.edu	37	11	85436500	85436500	+	Missense_Mutation	SNP	T	T	C	rs580459	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	102	101	1	1	0.00990099	T|0.304;C|0.696	0.696	strong	.	SYTL2	231	.	NM_206927	exon1	c.A1000G	p.M334V	CAGCCATCTGAAT	.	PASS	Atlas-SNP
OR5M9	390162	hgsc.bcm.edu	37	11	56230328	56230328	+	Missense_Mutation	SNP	G	G	T	rs61902869	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	79	133	0	0.478788	0	G|0.922;T|0.078	0.078	strong	.	OR5M9	75	.	NM_001004743	exon1	c.C550A	p.Q184K	CAATCTGGATGAG	.	PASS	Atlas-SNP
CCDC170	80129	hgsc.bcm.edu	37	6	151894340	151894340	+	Missense_Mutation	SNP	C	C	T	rs12205837	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	87	148	0	0.486034	0	C|0.911;T|0.089	0.089	strong	.	.	.	.	NM_025059	exon6	c.C806T	p.A269V	AAGAAGCTCTTGA	.	PASS	Atlas-SNP
AARS2	57505	hgsc.bcm.edu	37	6	44270870	44270870	+	Missense_Mutation	SNP	C	C	T	rs35623954	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	37	59	0	0.493333	0	C|0.975;T|0.025	0.025	strong	.	AARS2	77	.	NM_020745	exon16	c.G2188A	p.V730M	GGGCCACGGGCAC	.	PASS	Atlas-SNP
SLC36A3	285641	hgsc.bcm.edu	37	5	150667016	150667016	+	Missense_Mutation	SNP	T	T	C	rs978012	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	61	122	0	0.42069	0	T|0.484;C|0.515	0.515	strong	.	SLC36A3	54	.	NM_001145017	exon7	c.A622G	p.K208E	GGGCTTTTTCCAC	.	PASS	Atlas-SNP
CASP8AP2	9994	hgsc.bcm.edu	37	6	90572435	90572435	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	38	14	26	0	0.368421	0	.	.	none	.	CASP8AP2	108	.	NM_001137667	exon7	c.A1007C	p.D336A	GAGTAGACTCTCA	.	PASS	Atlas-SNP
ICAM1	3383	hgsc.bcm.edu	37	19	10395683	10395683	+	Missense_Mutation	SNP	A	A	G	rs5498	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	58	84	0	0.460317	0	A|0.656;G|0.344	0.344	strong	.	ICAM1	32	.	NM_000201	exon6	c.A1405G	p.K469E	ACCCGCAAGGTGA	.	PASS	Atlas-SNP
KRTAP5-1	387264	hgsc.bcm.edu	37	11	1605983	1605983	+	Missense_Mutation	SNP	G	G	C	rs59007122	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	23	115	5	0.198276	0.0434783	G|0.500;C|0.500	0.500	weak	KRTAP5-1,caecum,carcinoma,0,3	KRTAP5-1	74	3	NM_001005922	exon1	c.C497G	p.A166G	CCACAGGCCCCCT	.	scavenged	Atlas-SNP
FANCA	2175	hgsc.bcm.edu	37	16	89809319	89809319	+	Silent	SNP	T	T	C	rs1800358	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	46	77	0	0.560976	0	T|0.874;C|0.126	0.126	strong	.	FANCA	99	.	NM_000135	exon37	c.A3654G	p.P1218P	GGGTGCTGGGGAG	.	PASS	Atlas-SNP
CD86	942	hgsc.bcm.edu	37	3	121838319	121838319	+	Missense_Mutation	SNP	G	G	A	rs1129055	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	231	100	237	0	0.4329	0	G|0.642;A|0.358	0.358	strong	.	CD86	43	.	NM_175862	exon7	c.G928A	p.A310T	GATGAAGCCCAGC	.	PASS	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	37	22	29885016	29885016	+	Missense_Mutation	SNP	G	G	A	rs59371099	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	57	87	0	0.483051	0	G|0.941;A|0.059	0.059	strong	.	NEFH	178	.	NM_021076	exon4	c.G1387A	p.E463K	ACAGAGGAGACCC	.	PASS	Atlas-SNP
WASL	8976	hgsc.bcm.edu	37	7	123332793	123332793	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	5	61	0	0.0684932	0	.	.	none	.	WASL	70	.	NM_003941	exon9	c.A955T	p.T319S	CAGCTGTGGGAGC	.	PASS	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	37	11	62299945	62299945	+	Silent	SNP	A	A	C	rs11231130	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	47	104	0	0.460784	0	A|0.906;C|0.094	0.094	strong	.	AHNAK	532	.	NM_001620	exon5	c.T1944G	p.V648V	CATATGAACATCT	.	PASS	Atlas-SNP
BACH1	571	hgsc.bcm.edu	37	21	30699557	30699557	+	Missense_Mutation	SNP	G	G	C	rs35766001	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	190	98	194	0	0.515789	0	G|0.989;C|0.011	0.011	strong	.	BACH1	66	.	NM_206866	exon3	c.G1412C	p.G471A	CTGAAGGCTGTTC	.	PASS	Atlas-SNP
LILRB3	11025	hgsc.bcm.edu	37	19	54726241	54726241	+	Missense_Mutation	SNP	C	C	T	rs77279742	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	424	179	215	0	0.42217	0	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
RANBP2	5903	hgsc.bcm.edu	37	2	109367844	109367844	+	Missense_Mutation	SNP	T	T	G	rs2693126		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	1255	18	1235	11	0.0143426	0.00890688	.	.	weak	RANBP2_ENST00000283195,NS,carcinoma,0,6	RANBP2	488	6	NM_006267	exon10	c.T1398G	p.H466Q	GCCCCATGAAACC	.	scavenged	Atlas-SNP
ABCA12	26154	hgsc.bcm.edu	37	2	215820013	215820013	+	Silent	SNP	G	G	A	rs10498027	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	292	134	269	0	0.458904	0	G|0.660;A|0.340	0.340	strong	.	ABCA12	368	.	NM_173076	exon43	c.C6306T	p.Y2102Y	ACAGACGTAAGTG	.	PASS	Atlas-SNP
FAM78A	286336	hgsc.bcm.edu	37	9	134136248	134136248	+	Silent	SNP	G	G	A	rs9966	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	39	78	0	0.40625	0	G|0.872;A|0.128	0.128	strong	.	FAM78A	28	.	NM_033387	exon2	c.C813T	p.Y271Y	CTGCCCGTACTTG	.	PASS	Atlas-SNP
GATA4	2626	hgsc.bcm.edu	37	8	11606438	11606438	+	Silent	SNP	C	C	T	rs192122549	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	105	132	0	0.46875	0	C|0.999;T|0.001	0.001	strong	.	GATA4	29	.	NM_002052	exon3	c.C627T	p.D209D	GTTTGACGACTTC	.	PASS	Atlas-SNP
OR2A2	442361	hgsc.bcm.edu	37	7	143807518	143807518	+	Silent	SNP	T	T	C	rs2951315	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	56	128	0	0.4375	0	T|0.585;C|0.415	0.415	strong	.	OR2A2	48	.	NM_001005480	exon1	c.T843C	p.N281N	CTTTAATCCAATG	.	PASS	Atlas-SNP
ASMTL	8623	hgsc.bcm.edu	37	X	1531687	1531687	+	Missense_Mutation	SNP	T	T	C	rs79968027	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	285	261	453	0	0.915789	0	T|0.962;C|0.038	0.038	strong	.	ASMTL	56	.	NM_004192	exon12	c.A1583G	p.H528R	CAGTCATGCAGGA	.	PASS	Atlas-SNP
TWSG1	57045	hgsc.bcm.edu	37	18	9359990	9359990	+	Silent	SNP	G	G	A	rs142770364	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	35	80	0	0.421687	0	G|0.995;A|0.005	0.005	strong	TWSG1,NS,carcinoma,0,1	TWSG1	23	1	NM_020648	exon3	c.G144A	p.P48P	CCGGCCGGGAGAA	.	PASS	Atlas-SNP
CHSY1	22856	hgsc.bcm.edu	37	15	101717888	101717888	+	Missense_Mutation	SNP	C	C	T	rs62621399	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	77	114	0	0.48125	0	C|0.907;G|0.000;T|0.093	0.093	strong	CHSY1,colon,carcinoma,-1,1	CHSY1	60	1	NM_014918	exon3	c.G2114A	p.R705Q	CCCACTCGGACAA	.	PASS	Atlas-SNP
FLVCR1	28982	hgsc.bcm.edu	37	1	213061308	213061308	+	Silent	SNP	T	T	C	rs17677416	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	89	152	0	0.511494	0	T|0.974;C|0.026	0.026	strong	.	FLVCR1	31	.	NM_014053	exon6	c.T1272C	p.Y424Y	TAGATATATTATC	.	PASS	Atlas-SNP
CPNE6	9362	hgsc.bcm.edu	37	14	24545375	24545375	+	Silent	SNP	C	C	T	rs2070341	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	141	130	0	0.979167	0	C|0.525;T|0.475	0.475	strong	.	CPNE6	40	.	NM_006032	exon11	c.C942T	p.T314T	CTTCACCGCCTCC	.	PASS	Atlas-SNP
MPP2	4355	hgsc.bcm.edu	37	17	41955315	41955315	+	Missense_Mutation	SNP	G	G	A	rs118165424	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	59	82	0	0.614583	0	G|0.991;A|0.009	0.009	strong	MPP2,NS,carcinoma,+1,1	MPP2	67	1	NM_005374	exon13	c.C1519T	p.R507C	GGATGCGGCTGCT	.	PASS	Atlas-SNP
DBH	1621	hgsc.bcm.edu	37	9	136522274	136522274	+	Missense_Mutation	SNP	C	C	T	rs6271	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	215	111	191	0	0.516279	0	C|0.956;T|0.044	0.044	strong	.	DBH	86	.	NM_000787	exon11	c.C1645T	p.R549C	TTCAACCGCGACG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	57	95	0	0.487179	0	G|0.802;A|0.198	0.198	strong	.	USP35	179	.	NM_020798	exon3	c.G706A	p.V236M	GCCAGCGTGGTCC	.	PASS	Atlas-SNP
NCKAP5	344148	hgsc.bcm.edu	37	2	133538703	133538703	+	Silent	SNP	G	G	A	rs61742426	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	434	219	358	0	0.504608	0	G|0.996;A|0.004	0.004	strong	.	NCKAP5	322	.	NM_207363	exon15	c.C4971T	p.G1657G	AGAGCTGCCGATG	.	PASS	Atlas-SNP
ADAMTS17	170691	hgsc.bcm.edu	37	15	100801698	100801698	+	Silent	SNP	G	G	A	rs4965613	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	53	95	0	0.504762	0	G|0.331;A|0.669	0.669	strong	ADAMTS17,NS,carcinoma,-1,1	ADAMTS17	127	1	NM_139057	exon6	c.C1017T	p.A339A	AAACACGGCAGCA	.	PASS	Atlas-SNP
USP2	9099	hgsc.bcm.edu	37	11	119243670	119243670	+	Missense_Mutation	SNP	C	C	T	rs33929148	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	34	52	0	0.523077	0	C|0.963;T|0.037	0.037	strong	.	USP2	71	.	NM_004205	exon2	c.G521A	p.R174Q	CGCGTCCGGGCCA	.	PASS	Atlas-SNP
LPHN1	22859	hgsc.bcm.edu	37	19	14273641	14273641	+	Silent	SNP	A	A	G	rs3745462	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	58	100	0	0.504348	0	A|0.784;G|0.216	0.216	strong	.	LPHN1	107	.	NM_001008701	exon6	c.T987C	p.R329R	CACGGAACGCAGG	.	PASS	Atlas-SNP
SPATA21	374955	hgsc.bcm.edu	37	1	16748432	16748432	+	Silent	SNP	C	C	T	rs114456729	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	73	96	0	0.565891	0	C|0.954;T|0.046	0.046	strong	SPATA21,NS,carcinoma,-1,2	SPATA21	47	2	NM_198546	exon4	c.G69A	p.T23T	TCCAGGCGTGGAT	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144995494	144995494	+	Missense_Mutation	SNP	C	C	T	rs76803079		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	23	31	0	0.46	0	.	.	weak	.	PLEC	1144	.	NM_201380	exon32	c.G8906A	p.R2969H	TAGCCGCGCCGGT	.	PASS	Atlas-SNP
PSMC5	5705	hgsc.bcm.edu	37	17	61908271	61908271	+	Silent	SNP	C	C	T	rs968719	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	69	113	0	0.514925	0	T|0.696;G|0.002	0.696	strong	.	PSMC5	41	.	NM_002805	exon7	c.C655T	p.L219L	TCTGAACTGGTAC	.	PASS	Atlas-SNP
SLC22A18	5002	hgsc.bcm.edu	37	11	2924610	2924610	+	Missense_Mutation	SNP	G	G	A	rs1048047	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	198	196	172	0	0.989899	0	G|0.425;A|0.575	0.575	strong	.	SLC22A18	20	.	NM_002555	exon2	c.G35A	p.R12Q	AGGGCCGGTCCCC	.	PASS	Atlas-SNP
SLC9A8	23315	hgsc.bcm.edu	37	20	48491258	48491258	+	Silent	SNP	T	T	G	rs542234	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	255	255	244	0	1	0	T|0.200;G|0.800	0.800	strong	.	SLC9A8	63	.	NM_001260491	exon11	c.T1023G	p.L341L	CATCCTTTTCTCA	.	PASS	Atlas-SNP
CEP164	22897	hgsc.bcm.edu	37	11	117222592	117222592	+	Missense_Mutation	SNP	G	G	A	rs490262	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	52	106	0	0.460177	0	G|0.799;A|0.201	0.201	strong	.	CEP164	121	.	NM_001271933	exon4	c.G281A	p.S94N	ATCGGAGCTTGGT	.	PASS	Atlas-SNP
RPS6KA1	6195	hgsc.bcm.edu	37	1	26887592	26887592	+	Silent	SNP	T	T	C	rs1064196	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	55	101	0	0.52381	0	T|0.604;C|0.396	0.396	strong	.	RPS6KA1	65	.	NM_001006665	exon15	c.T1425C	p.Y475Y	GCGGTATGGCCAG	.	PASS	Atlas-SNP
NEU4	129807	hgsc.bcm.edu	37	2	242758326	242758326	+	Silent	SNP	G	G	A	rs2293761	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	29	63	0	0.5	0	G|0.618;A|0.382	0.382	strong	NEU4,rectum,carcinoma,0,1	NEU4	39	1	NM_001167599	exon4	c.G1446A	p.K482K	CCCCAAGCCGCCC	.	PASS	Atlas-SNP
UGT2B11	10720	hgsc.bcm.edu	37	4	70066306	70066306	+	Missense_Mutation	SNP	T	T	C	rs200852364	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	16	116	0	0.103896	0	T|0.967;C|0.032	0.032	strong	.	UGT2B11	92	.	NM_001073	exon6	c.A1442G	p.H481R	AGGTCATGGGCTG	.	PASS	Atlas-SNP
TEK	7010	hgsc.bcm.edu	37	9	27213580	27213580	+	Silent	SNP	T	T	C	rs3737188	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	34	87	0	0.441558	0	T|0.835;C|0.165	0.165	strong	.	TEK	250	.	NM_000459	exon18	c.T2976C	p.Y992Y	GGTGTATGTGAAA	.	PASS	Atlas-SNP
TNFRSF9	3604	hgsc.bcm.edu	37	1	7995152	7995152	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	56	137	0	0.430769	0	.	.	none	.	TNFRSF9	50	.	NM_001561	exon7	c.C465T	p.D155D	GACCACGTCCCTC	.	PASS	Atlas-SNP
LRWD1	222229	hgsc.bcm.edu	37	7	102113226	102113226	+	Missense_Mutation	SNP	C	C	T	rs148981077	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	57	103	0	0.478992	0	C|0.972;T|0.028	0.028	strong	.	LRWD1	41	.	NM_152892	exon14	c.C1778T	p.P593L	TGCTGCCGGCAGC	.	PASS	Atlas-SNP
CYP2D6	1565	hgsc.bcm.edu	37	22	42526694	42526694	+	Missense_Mutation	SNP	G	G	A	rs72552269	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	672	471	337	0	0.700893	0	G|0.753;A|0.247	0.247	strong	.	CYP2D6	104	.	NM_000106	exon1	c.C100T	p.P34S	CTGGTGGGTAGCG	.	PASS	Atlas-SNP
EDN1	1906	hgsc.bcm.edu	37	6	12296255	12296255	+	Missense_Mutation	SNP	G	G	T	rs5370	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	74	100	0	1	0	G|0.787;T|0.213	0.213	strong	EDN1,NS,carcinoma,0,1	EDN1	23	1	NM_001955	exon5	c.G594T	p.K198N	AGGCAAGCCCTCC	.	PASS	Atlas-SNP
KRTAP5-1	387264	hgsc.bcm.edu	37	11	1605996	1605996	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	14	119	9	0.12069	0.0756303	.	.	none	KRTAP5-1,NS,carcinoma,0,2	KRTAP5-1	74	2	NM_001005922	exon1	c.T484G	p.C162G	TGGAGCACCCACA	.	scavenged	Atlas-SNP
CUL7	9820	hgsc.bcm.edu	37	6	43008298	43008298	+	Silent	SNP	C	C	T	rs2273917	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	41	81	0	0.455556	0	C|0.709;T|0.291	0.291	strong	.	CUL7	133	.	NM_001168370	exon21	c.G4245A	p.L1415L	CAGCTTCAGGAGT	.	PASS	Atlas-SNP
MARCH3	115123	hgsc.bcm.edu	37	5	126250812	126250812	+	Missense_Mutation	SNP	C	C	T	rs34821177	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	92	97	0	0.989247	0	C|0.978;T|0.022	0.022	strong	.	MARCH3	14	.	NM_178450	exon3	c.G203A	p.R68Q	ATCGGCCGGTCAT	.	PASS	Atlas-SNP
FANCD2	2177	hgsc.bcm.edu	37	3	10085536	10085536	+	Silent	SNP	A	A	G	rs34046352	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	49	92	0	0.335616	0	A|0.876;G|0.124	0.124	strong	.	FANCD2	253	.	NM_001018115	exon14	c.A1122G	p.V374V	CTCAGTATCTGAA	.	PASS	Atlas-SNP
AMICA1	120425	hgsc.bcm.edu	37	11	118081345	118081345	+	Missense_Mutation	SNP	A	A	T	rs17121881	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	101	182	0	0.478673	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
SAMD15	161394	hgsc.bcm.edu	37	14	77844592	77844592	+	Silent	SNP	T	T	A	rs10133824	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	23	51	0	0.442308	0	T|0.848;A|0.152	0.152	strong	.	SAMD15	60	.	NM_001010860	exon1	c.T831A	p.G277G	GGCAGGTCTAGAG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	445	223	395	0	0.501124	0	A|0.898;G|0.102	0.102	strong	.	ST6GALNAC1	42	.	NM_018414	exon2	c.T239C	p.V80A	TCTGGCACTGGCT	.	PASS	Atlas-SNP
LRIT3	345193	hgsc.bcm.edu	37	4	110791290	110791290	+	Missense_Mutation	SNP	C	C	T	rs201097191	by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	61	106	0	0.504132	0	C|1.000;T|0.000	0.000	strong	.	LRIT3	107	.	NM_198506	exon4	c.C1385T	p.P462L	AGCTTCCTCCAGC	.	PASS	Atlas-SNP
PNPLA3	80339	hgsc.bcm.edu	37	22	44324730	44324730	+	Silent	SNP	C	C	T	rs738408	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	35	142	0	0.388889	0	C|0.802;T|0.198	0.198	strong	PNPLA3,NS,carcinoma,0,1	PNPLA3	53	1	NM_025225	exon3	c.C447T	p.P149P	CATCCCCTTCTAC	.	PASS	Atlas-SNP
SPINK5	11005	hgsc.bcm.edu	37	5	147469113	147469113	+	Silent	SNP	G	G	A	rs35121983	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	226	114	211	0	0.504425	0	G|0.976;A|0.024	0.024	strong	SPINK5,NS,carcinoma,0,1	SPINK5	245	1	NM_001127699	exon7	c.G531A	p.R177R	CACAAGGGAAAAT	.	PASS	Atlas-SNP
SMG7	9887	hgsc.bcm.edu	37	1	183515428	183515428	+	Missense_Mutation	SNP	G	G	A	rs2298083	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	190	100	170	0	0.526316	0	G|0.837;A|0.162	0.162	strong	.	SMG7	165	.	NM_173156	exon17	c.G2698A	p.V900I	CCAGGAGTCTTCC	.	PASS	Atlas-SNP
MGARP	84709	hgsc.bcm.edu	37	4	140188094	140188094	+	Missense_Mutation	SNP	C	C	T	rs3208941	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	87	200	0	0.462766	0	C|0.944;T|0.056	0.056	strong	.	.	.	.	NM_032623	exon4	c.G382A	p.A128T	CTGTAGCACTGGG	.	PASS	Atlas-SNP
FPR1	2357	hgsc.bcm.edu	37	19	52249672	52249672	+	Silent	SNP	A	A	G	rs1042229	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	59	51	0	1	0	G|0.018;C|0.428;A|0.554	0.018	strong	FPR1,NS,carcinoma,0,1	FPR1	64	1	NM_001193306	exon3	c.T576C	p.N192N	GGCCACATTTATC	.	PASS	Atlas-SNP
NLRP4	147945	hgsc.bcm.edu	37	19	56390237	56390237	+	Missense_Mutation	SNP	A	A	T	rs302453	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	271	133	231	0	0.490775	0	A|0.823;T|0.177	0.177	strong	.	NLRP4	331	.	NM_134444	exon9	c.A2774T	p.Q925L	TGCAGCAGCTCAA	.	PASS	Atlas-SNP
TCIRG1	10312	hgsc.bcm.edu	37	11	67809268	67809268	+	Missense_Mutation	SNP	C	C	T	rs36027301	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	59	104	0	0.551402	0	C|0.964;T|0.036	0.036	strong	.	TCIRG1	40	.	NM_006019	exon3	c.C166T	p.R56W	GATGTTCGGCGCT	.	PASS	Atlas-SNP
PREX1	57580	hgsc.bcm.edu	37	20	47307618	47307618	+	Silent	SNP	G	G	A	rs3746820	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	269	137	236	0	0.509294	0	G|0.717;A|0.283	0.283	strong	PREX1,NS,carcinoma,0,1	PREX1	441	1	NM_020820	exon9	c.C1053T	p.N351N	ATAGCCGTTGCTA	.	PASS	Atlas-SNP
COPE	11316	hgsc.bcm.edu	37	19	19017862	19017862	+	Missense_Mutation	SNP	G	G	A	rs10330	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	54	82	0	0.495413	0	G|0.804;A|0.196	0.196	strong	.	COPE	26	.	NM_007263	exon4	c.C350T	p.T117I	AAGGTGGTGTTGG	.	PASS	Atlas-SNP
MUC7	4589	hgsc.bcm.edu	37	4	71347050	71347050	+	Missense_Mutation	SNP	G	G	A	rs144679944	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	359	149	270	0	0.415042	0	G|0.996;A|0.004	0.004	strong	.	MUC7	91	.	NM_001145007	exon4	c.G589A	p.A197T	CCTTCTGCAACTA	.	PASS	Atlas-SNP
COL6A3	1293	hgsc.bcm.edu	37	2	238257013	238257013	+	Silent	SNP	G	G	A	rs2646265	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	28	74	0	0.411765	0	G|0.901;A|0.099	0.099	strong	.	COL6A3	608	.	NM_004369	exon30	c.C6945T	p.F2315F	TCCAGGGAATCCT	.	PASS	Atlas-SNP
LPHN1	22859	hgsc.bcm.edu	37	19	14261853	14261853	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	33	23	48	0	0.69697	0	.	.	none	.	LPHN1	107	.	NM_001008701	exon24	c.C4257T	p.P1419P	TTCGGGGGGGCCG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	336	202	130	0	0.60119	0	G|0.542;A|0.458	0.458	strong	.	PLXNB3	208	.	NM_001163257	exon10	c.G1861A	p.V621I	GACCACGTCACTG	.	PASS	Atlas-SNP
ZBTB38	253461	hgsc.bcm.edu	37	3	141163705	141163705	+	Silent	SNP	G	G	A	rs3732868	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	180	78	139	0	0.433333	0	G|0.980;A|0.020	0.020	strong	.	ZBTB38	92	.	NM_001080412	exon8	c.G2475A	p.P825P	TCTGCCGGGAACC	.	PASS	Atlas-SNP
RIN2	54453	hgsc.bcm.edu	37	20	19915770	19915770	+	Missense_Mutation	SNP	G	G	A	rs78648341	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	34	83	0	0.507463	0	G|0.987;A|0.013	0.013	strong	.	RIN2	126	.	NM_001242581	exon3	c.G232A	p.G78R	GAGATCGGAGAAC	.	PASS	Atlas-SNP
CLIP4	79745	hgsc.bcm.edu	37	2	29356567	29356567	+	Silent	SNP	G	G	C	rs17749904	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	55	133	0	0.392857	0	G|0.838;C|0.162	0.162	strong	.	CLIP4	69	.	NM_024692	exon5	c.G414C	p.L138L	TGACCTGGGAGCA	.	PASS	Atlas-SNP
FGF20	26281	hgsc.bcm.edu	37	8	16859440	16859440	+	Silent	SNP	C	C	T	rs17514894	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	41	20	21	0	0.487805	0	C|0.916;T|0.084	0.084	strong	.	FGF20	16	.	NM_019851	exon1	c.G102A	p.P34P	CAGCGGCGGCCGC	.	PASS	Atlas-SNP
GGTLC2	91227	hgsc.bcm.edu	37	22	22989270	22989270	+	Missense_Mutation	SNP	G	G	A	rs2330126	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	24	8	332	0	0.333333	0	G|0.899;A|0.101	0.101	strong	.	GGTLC2	20	.	NM_199127	exon2	c.G223A	p.D75N	TTCAATGATGAAA	.	PASS	Atlas-SNP
POMC	5443	hgsc.bcm.edu	37	2	25387535	25387535	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	300	5	233	5	0.0166667	0.0214592	.	.	none	POMC,NS,carcinoma,-1,1	POMC	33	1	NM_001035256	exon3	c.A107G	p.D36G	GTGAGGTCCTGAC	.	scavenged	Atlas-SNP
AFMID	125061	hgsc.bcm.edu	37	17	76200965	76200965	+	Missense_Mutation	SNP	C	C	T	rs72897843	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	170	82	127	0	0.482353	0	C|0.933;T|0.067	0.067	strong	.	AFMID	38	.	NM_001145526	exon6	c.C451T	p.R151W	CAGAAGCGGTATC	.	PASS	Atlas-SNP
FBXL16	146330	hgsc.bcm.edu	37	16	746914	746914	+	Silent	SNP	G	G	A	rs4984915	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	55	85	0	0.528846	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
CCDC91	55297	hgsc.bcm.edu	37	12	28412372	28412372	+	Missense_Mutation	SNP	G	G	A	rs11049488	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	130	115	0	0.955882	0	G|0.816;A|0.184	0.184	strong	.	CCDC91	63	.	NM_018318	exon2	c.G106A	p.A36T	TTTCCTGCAGGTA	.	PASS	Atlas-SNP
PTPRG	5793	hgsc.bcm.edu	37	3	62189189	62189189	+	Missense_Mutation	SNP	G	G	A	rs2292245	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	48	90	0	0.470588	0	G|0.820;A|0.180	0.180	strong	.	PTPRG	153	.	NM_002841	exon12	c.G1720A	p.G574S	AAGGACGGCGAGG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	115	115	1	1	0.00869565	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
PIP	5304	hgsc.bcm.edu	37	7	142836203	142836203	+	Missense_Mutation	SNP	A	A	T	rs73170678	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	190	98	153	0	0.515789	0	A|0.904;T|0.096	0.096	strong	.	PIP	34	.	NM_002652	exon3	c.A237T	p.Q79H	TCTACAAGGTGCA	.	PASS	Atlas-SNP
CYP4A22	284541	hgsc.bcm.edu	37	1	47607785	47607785	+	Missense_Mutation	SNP	G	G	A	rs2056900	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	52	83	0	0.5	0	G|0.768;A|0.232	0.232	strong	.	CYP4A22	60	.	NM_001010969	exon4	c.G388A	p.G130S	GGGTACGGCTTGC	.	PASS	Atlas-SNP
CASC5	57082	hgsc.bcm.edu	37	15	40903684	40903684	+	Missense_Mutation	SNP	A	A	G	rs12911738	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	37	37	104	0	1	0	A|0.319;G|0.681	0.681	strong	CASC5_ENST00000346991,NS,carcinoma,0,2	CASC5	269	2	NM_170589	exon8	c.A337G	p.T113A	ACAGAAACAGGAG	.	PASS	Atlas-SNP
MOB3B	79817	hgsc.bcm.edu	37	9	27455135	27455135	+	Silent	SNP	G	G	A	rs34959338	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	80	129	0	0.536913	0	G|0.872;A|0.128	0.128	strong	.	.	.	.	NM_024761	exon2	c.C414T	p.C138C	ACCCACGCATGTT	.	PASS	Atlas-SNP
RBM12B	389677	hgsc.bcm.edu	37	8	94747496	94747496	+	Missense_Mutation	SNP	A	A	C	rs111589624	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	183	85	155	0	0.464481	0	A|0.987;C|0.013	0.013	strong	.	RBM12B	78	.	NM_203390	exon3	c.T1143G	p.D381E	GGGCCTATCTCTC	.	PASS	Atlas-SNP
EML4	27436	hgsc.bcm.edu	37	2	42515437	42515437	+	Missense_Mutation	SNP	A	A	G	rs28651764	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	31	56	0	0.54386	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
KIAA1107	23285	hgsc.bcm.edu	37	1	92647636	92647636	+	Missense_Mutation	SNP	T	T	G	rs17578364	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	73	156	0	0.506944	0	T|0.969;G|0.031	0.031	strong	.	KIAA1107	60	.	NM_015237	exon8	c.T3082G	p.F1028V	GATTCTTTTTCAC	.	PASS	Atlas-SNP
GRHL2	79977	hgsc.bcm.edu	37	8	102585965	102585965	+	Silent	SNP	C	C	T	rs55682875	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	36	62	0	0.529412	0	C|0.999;T|0.001	0.001	strong	.	GRHL2	68	.	NM_024915	exon6	c.C804T	p.T268T	CATGACCTACCTC	.	PASS	Atlas-SNP
NXPE1	120400	hgsc.bcm.edu	37	11	114401283	114401283	+	Silent	SNP	C	C	T	rs7941923	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	91	168	0	0.548193	0	C|0.779;T|0.221	0.221	strong	.	NXPE1	8	.	NM_152315	exon3	c.G21A	p.T7T	ACCTGCCGTCAGT	.	PASS	Atlas-SNP
RAB40A	142684	hgsc.bcm.edu	37	X	102755551	102755551	+	Missense_Mutation	SNP	T	T	A	rs1180895	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	247	15	189	0	0.0607287	0	T|0.816;A|0.184	0.184	strong	.	RAB40A	30	.	NM_080879	exon3	c.A134T	p.H45L	CCGAGATGGCTGT	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	700644	700644	+	Missense_Mutation	SNP	G	G	C	rs13337278	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	46	98	0	0.5	0	G|0.797;C|0.203	0.203	strong	.	WDR90	107	.	NM_145294	exon5	c.G494C	p.S165T	TCAAGAGCATCAG	.	PASS	Atlas-SNP
SARDH	1757	hgsc.bcm.edu	37	9	136536679	136536679	+	Silent	SNP	G	G	A	rs129932	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	259	124	208	0	0.478764	0	G|0.464;A|0.536	0.536	strong	.	SARDH	112	.	NM_007101	exon18	c.C2304T	p.I768I	GGAGTCGATGGCG	.	PASS	Atlas-SNP
STPG2	285555	hgsc.bcm.edu	37	4	99027137	99027137	+	Silent	SNP	T	T	C	rs2865979	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	153	147	0	1	0	T|0.607;C|0.393	0.393	strong	.	.	.	.	NM_174952	exon5	c.A579G	p.L193L	TTCATATAGTCGT	.	PASS	Atlas-SNP
LMOD3	56203	hgsc.bcm.edu	37	3	69167851	69167851	+	Missense_Mutation	SNP	G	G	T	rs145387235	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	252	115	236	0	0.456349	0	G|0.988;T|0.012	0.012	strong	.	LMOD3	92	.	NM_198271	exon2	c.C1655A	p.P552H	CTTACAGGTTTAA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	84	140	0	0.545455	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
SIGLEC5	8778	hgsc.bcm.edu	37	19	52132325	52132325	+	Silent	SNP	A	A	T	rs2305372	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	297	137	276	0	0.461279	0	A|0.938;T|0.062	0.062	strong	.	SIGLEC5	67	.	NM_003830	exon4	c.T705A	p.A235A	CTGTGGAGCATCT	.	PASS	Atlas-SNP
PCDHGB1	56104	hgsc.bcm.edu	37	5	140731022	140731022	+	Missense_Mutation	SNP	A	A	G	rs77250251	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	48	110	0	0.45283	0	A|0.975;G|0.025	0.025	strong	.	PCDHGB1	198	.	NM_018922	exon1	c.A1195G	p.K399E	TATTACAAGCTGG	.	PASS	Atlas-SNP
IRS4	8471	hgsc.bcm.edu	37	X	107979512	107979512	+	Silent	SNP	C	C	T	rs2073114	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	115	73	0	0.950413	0	C|0.562;T|0.438	0.438	strong	.	IRS4	253	.	NM_003604	exon1	c.G63A	p.A21A	CGCTGCCGCCGCT	.	PASS	Atlas-SNP
PKD2L1	9033	hgsc.bcm.edu	37	10	102089663	102089663	+	Missense_Mutation	SNP	C	C	T	rs569511	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	12	195	0	0.0983607	0	C|0.882;T|0.118	0.118	strong	.	PKD2L1	103	.	NM_001253837	exon1	c.G35A	p.C12Y	GCTGGACACCTGG	.	PASS	Atlas-SNP
POTEC	388468	hgsc.bcm.edu	37	18	14543034	14543034	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	242	5	169	1	0.0206612	0.00591716	.	.	none	POTEC,NS,carcinoma,+2,1	POTEC	129	1	NM_001137671	exon1	c.A112G	p.S38G	TGCCGCTCCCCTT	.	scavenged	Atlas-SNP
DSE	29940	hgsc.bcm.edu	37	6	116752290	116752290	+	Missense_Mutation	SNP	A	A	G	rs34994230	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	237	234	191	1	0.987342	0.0052356	A|0.973;G|0.027	0.027	strong	.	DSE	98	.	NM_001080976	exon4	c.A844G	p.I282V	TTCAACATCAACC	.	PASS	Atlas-SNP
USP15	9958	hgsc.bcm.edu	37	12	62798067	62798067	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	76	157	0	0.542857	0	.	.	none	.	USP15	105	.	NM_001252078	exon22	c.C2858G	p.A953G	CTTCAGCTGCCAC	.	PASS	Atlas-SNP
COQ3	51805	hgsc.bcm.edu	37	6	99825348	99825348	+	Missense_Mutation	SNP	T	T	C	rs11548336	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	35	61	0	0.57377	0	T|0.701;C|0.299	0.299	strong	.	COQ3	19	.	NM_017421	exon4	c.A400G	p.K134E	TTGTTTTCAGAAG	.	PASS	Atlas-SNP
APOBR	55911	hgsc.bcm.edu	37	16	28508004	28508004	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	3	154	0	0.0208333	0	.	.	none	APOBR,NS,carcinoma,-2,1	APOBR	89	1	NM_018690	exon2	c.G1642A	p.G548S	CTACTGGGCGTGG	.	scavenged	Atlas-SNP
PSD4	23550	hgsc.bcm.edu	37	2	113956371	113956371	+	Silent	SNP	G	G	C	rs2276561	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	11	11	15	0	1	0	G|0.597;C|0.403	0.403	strong	.	PSD4	74	.	NM_012455	exon15	c.G2679C	p.T893T	GGCCACGCACTCC	.	PASS	Atlas-SNP
PGA5	5222	hgsc.bcm.edu	37	11	61018729	61018729	+	Silent	SNP	G	G	A	rs150783741	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	329	167	278	0	0.507599	0	G|0.995;A|0.005	0.005	strong	.	PGA5	20	.	NM_014224	exon9	c.G1143A	p.Q381Q	CAACCAGGTCGGC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179400869	179400869	+	Silent	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	257	5	248	0	0.0194553	0	.	.	none	TTN_ENST00000359218,NS,carcinoma,-2,4	TTN	18412	4	NM_001267550	exon357	c.A100605G	p.E33535E	AATGATTTCTTTG	.	scavenged	Atlas-SNP
CATSPER4	378807	hgsc.bcm.edu	37	1	26517267	26517267	+	Missense_Mutation	SNP	A	A	G	rs41284333	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	36	52	0	0.5625	0	A|0.826;G|0.174	0.174	strong	CATSPER4,NS,carcinoma,0,1	CATSPER4	59	1	NM_198137	exon1	c.A149G	p.H50R	CCATTCACGAGTC	.	PASS	Atlas-SNP
SERPINB2	5055	hgsc.bcm.edu	37	18	61565062	61565062	+	Silent	SNP	C	C	G	rs6105	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	213	108	204	0	0.507042	0	C|0.956;G|0.044	0.044	strong	.	SERPINB2	63	.	NM_002575	exon5	c.C519G	p.V173V	CTGGGTCAAGACT	.	PASS	Atlas-SNP
BRD2	6046	hgsc.bcm.edu	37	6	32948426	32948426	+	Silent	SNP	C	C	T	rs2071876	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	51	87	0	0.495146	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
OVGP1	5016	hgsc.bcm.edu	37	1	111957583	111957583	+	Missense_Mutation	SNP	A	A	G	rs1126656	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	60	178	0	0.346821	0	A|0.800;G|0.200	0.200	strong	.	OVGP1	177	.	NM_002557	exon11	c.T1540C	p.Y514H	ACTGATAACCCAC	.	PASS	Atlas-SNP
KRT71	112802	hgsc.bcm.edu	37	12	52946498	52946498	+	Missense_Mutation	SNP	C	C	T	rs665470	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	228	108	181	0	0.473684	0	C|0.774;N|0.000	.	strong	.	KRT71	70	.	NM_033448	exon1	c.G364A	p.E122K	GGATCTCGGGGTC	.	PASS	Atlas-SNP
GPR39	2863	hgsc.bcm.edu	37	2	133174999	133174999	+	Silent	SNP	A	A	G	rs2241763	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	264	138	194	0	0.522727	0	A|0.608;G|0.392	0.392	strong	.	GPR39	60	.	NM_001508	exon1	c.A384G	p.T128T	GCTGACACTCAGC	.	PASS	Atlas-SNP
OR4C16	219428	hgsc.bcm.edu	37	11	55339702	55339702	+	Silent	SNP	C	C	T	rs34100491	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	178	125	1	0.994413	0.008	C|0.816;T|0.184	0.184	strong	.	OR4C16	104	.	NM_001004701	exon1	c.C99T	p.Y33Y	TCTCTACTTGGGA	.	PASS	Atlas-SNP
FAM209B	388799	hgsc.bcm.edu	37	20	55108617	55108617	+	Missense_Mutation	SNP	C	C	A	rs3209183	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	236	116	224	0	0.491525	0	C|0.297;A|0.703	0.703	strong	.	.	.	.	NM_001013646	exon1	c.C220A	p.Q74K	ATACTGCAGTGTC	.	PASS	Atlas-SNP
NBEAL2	23218	hgsc.bcm.edu	37	3	47045739	47045739	+	Silent	SNP	C	C	G	rs1079276	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	63	108	0	0.488372	0	C|0.500;G|0.500	0.500	strong	.	NBEAL2	267	.	NM_015175	exon37	c.C6054G	p.P2018P	GACTCCCAGACCC	.	PASS	Atlas-SNP
KIAA1211	57482	hgsc.bcm.edu	37	4	57190356	57190356	+	Silent	SNP	G	G	A	rs7695701	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	321	314	337	3	0.978193	0.00890208	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	.	scavenged	Atlas-SNP
AS3MT	57412	hgsc.bcm.edu	37	10	104638211	104638211	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	40	38	83	0	0.95	0	.	.	none	.	AS3MT	17	.	NM_020682	exon8	c.G686A	p.R229H	CTCCACGTTTGGT	.	PASS	Atlas-SNP
C15orf53	400359	hgsc.bcm.edu	37	15	38988815	38988815	+	Missense_Mutation	SNP	C	C	G	rs7165988	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	48	103	0	0.390244	0	C|0.752;G|0.248	0.248	strong	C15orf53,NS,carcinoma,0,1	C15orf53	12	1	NM_207444	exon1	c.C7G	p.L3V	ATGGAGCTACAAG	.	PASS	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25021154	25021154	+	Silent	SNP	C	C	T	rs61947037	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	114	148	0	0.863636	0	C|0.555;T|0.445	0.445	strong	.	PARP4	142	.	NM_006437	exon26	c.G3285A	p.Q1095Q	TCTTACCTGTGTG	.	PASS	Atlas-SNP
C16orf62	57020	hgsc.bcm.edu	37	16	19680546	19680546	+	Silent	SNP	T	T	C	rs957676	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	44	113	0	0.435644	0	T|0.656;C|0.344	0.344	strong	.	C16orf62	164	.	NM_020314	exon27	c.T2553C	p.D851D	TATTGATGGGAAG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9049396	9049396	+	Silent	SNP	C	C	G	rs10425044	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	265	265	205	1	1	0.00487805	C|0.781;G|0.219	0.219	strong	.	MUC16	4315	.	NM_024690	exon5	c.G32235C	p.G10745G	GTCTGTCCCAGAA	.	PASS	Atlas-SNP
NRG3	10718	hgsc.bcm.edu	37	10	84745040	84745040	+	Silent	SNP	A	A	G	rs17101196	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	74	99	0	0.4625	0	A|0.911;G|0.089	0.089	strong	.	NRG3	301	.	NM_001010848	exon9	c.A1770G	p.P590P	AATGCCAGGGATT	.	PASS	Atlas-SNP
CD4	920	hgsc.bcm.edu	37	12	6928075	6928075	+	Silent	SNP	T	T	C	rs12821756	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	54	127	0	0.372414	0	T|0.352;C|0.648	0.648	strong	.	CD4	47	.	NM_000616	exon9	c.T1341C	p.C447C	CCAGTGTCCTCAG	.	PASS	Atlas-SNP
HIST1H2BA	255626	hgsc.bcm.edu	37	6	25727265	25727265	+	Silent	SNP	C	C	T	rs4712960	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	110	110	1	0.990991	0.00909091	C|0.714;T|0.286	0.286	strong	.	HIST1H2BA	25	.	NM_170610	exon1	c.C129T	p.I43I	TTACATCTACAAA	.	PASS	Atlas-SNP
LAMB3	3914	hgsc.bcm.edu	37	1	209811886	209811886	+	Silent	SNP	T	T	G	rs2076356	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	137	138	4	1	0.0289855	T|0.476;G|0.524	0.524	strong	LAMB3,NS,carcinoma,0,1	LAMB3	136	1	NM_000228	exon4	c.A291C	p.S97S	ATTCTGTGACTGC	.	scavenged	Atlas-SNP
PCMTD1	115294	hgsc.bcm.edu	37	8	52733196	52733196	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	214	6	191	0	0.0280374	0	.	.	none	PCMTD1,NS,carcinoma,0,1	PCMTD1	73	1	NM_052937	exon6	c.G789T	p.M263I	GGCCTGCATCTCA	.	scavenged	Atlas-SNP
MIIP	60672	hgsc.bcm.edu	37	1	12082461	12082461	+	Missense_Mutation	SNP	C	C	T	rs11588712	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	75	117	0	0.520833	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
CDC37L1	55664	hgsc.bcm.edu	37	9	4685008	4685008	+	Silent	SNP	C	C	T	rs2295967	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	181	97	128	0	0.535912	0	C|0.893;T|0.107	0.107	strong	.	CDC37L1	19	.	NM_017913	exon2	c.C264T	p.S88S	TGAGTCCTTGGAT	.	PASS	Atlas-SNP
MAP9	79884	hgsc.bcm.edu	37	4	156273768	156273768	+	Missense_Mutation	SNP	T	T	C	rs2305050	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	195	90	187	0	0.461538	0	T|0.372;C|0.628	0.628	strong	.	MAP9	79	.	NM_001039580	exon13	c.A1801G	p.N601D	ATTCATTAATAGC	.	PASS	Atlas-SNP
PCDHB5	26167	hgsc.bcm.edu	37	5	140517034	140517034	+	Missense_Mutation	SNP	C	C	G	rs139801121	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	18	9	28	0	0.5	0	C|0.986;G|0.014	0.014	strong	.	PCDHB5	184	.	NM_015669	exon1	c.C2018G	p.P673R	CGCTGCCGGAGGC	.	PASS	Atlas-SNP
TAP2	6891	hgsc.bcm.edu	37	6	32797297	32797297	+	Silent	SNP	T	T	C	rs241441	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	88	87	0	1	0	T|0.748;C|0.252	0.252	strong	.	TAP2	98	.	NM_018833	exon11	c.A1812G	p.G604G	CTGGCTTCCCTTC	.	PASS	Atlas-SNP
POLQ	10721	hgsc.bcm.edu	37	3	121154974	121154974	+	Missense_Mutation	SNP	T	T	C	rs1381057	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	239	125	238	0	0.523013	0	T|0.298;C|0.702	0.702	strong	.	POLQ	273	.	NM_199420	exon28	c.A7538G	p.Q2513R	CCTGTTTGGTCAC	.	PASS	Atlas-SNP
SAMD15	161394	hgsc.bcm.edu	37	14	77843971	77843971	+	Silent	SNP	C	C	T	rs45540040	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	42	59	0	0.466667	0	C|0.848;T|0.152	0.152	strong	.	SAMD15	60	.	NM_001010860	exon1	c.C210T	p.D70D	GCCAGACAGTGCT	.	PASS	Atlas-SNP
AKAP13	11214	hgsc.bcm.edu	37	15	86278309	86278309	+	Missense_Mutation	SNP	G	G	A	rs2241268	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	183	154	0	0.989189	0	G|0.820;A|0.180	0.180	strong	.	AKAP13	394	.	NM_006738	exon31	c.G7381A	p.G2461S	GTGGTCGGTCCCG	.	PASS	Atlas-SNP
HDX	139324	hgsc.bcm.edu	37	X	83591866	83591866	+	Silent	SNP	C	C	T	rs5922966	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	49	28	0	0.960784	0	C|0.875;0|0.014	.	strong	.	HDX	124	.	NM_144657	exon7	c.G1683A	p.P561P	ATCATTCGGAACA	.	PASS	Atlas-SNP
PLEKHG4B	153478	hgsc.bcm.edu	37	5	140636	140636	+	Missense_Mutation	SNP	G	G	A	rs12523402	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	277	141	250	0	0.509025	0	G|0.950;A|0.050	0.050	strong	.	PLEKHG4B	167	.	NM_052909	exon1	c.G214A	p.A72T	CCAGGAGCTGCAG	.	PASS	Atlas-SNP
CMTM5	116173	hgsc.bcm.edu	37	14	23848311	23848311	+	Silent	SNP	C	C	T	rs723840	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	136	117	0	0.992701	0	C|0.454;T|0.546	0.546	strong	CMTM5,NS,carcinoma,0,1	CMTM5	38	1	NM_138460	exon3	c.C351T	p.D117D	CCGGGACGGAGCT	.	PASS	Atlas-SNP
TREML2	79865	hgsc.bcm.edu	37	6	41166021	41166021	+	Missense_Mutation	SNP	C	C	T	rs61736679	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	7	89	0	0.0673077	0	C|0.989;T|0.011	0.011	strong	TREML2,caecum,carcinoma,0,1	TREML2	41	1	NM_024807	exon2	c.G202A	p.A68T	CTCGGGCAAAGCC	.	scavenged	Atlas-SNP
PRAM1	84106	hgsc.bcm.edu	37	19	8567475	8567475	+	Missense_Mutation	SNP	T	T	C	rs968502	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	30	47	0	0.535714	0	T|0.672;C|0.328	0.328	strong	.	PRAM1	53	.	NM_032152	exon1	c.A1G	p.M1V	GGGCCATGGGATG	.	PASS	Atlas-SNP
TTC3	7267	hgsc.bcm.edu	37	21	38512956	38512956	+	Silent	SNP	A	A	G	rs1133001	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	38	38	31	0	1	0	A|0.475;G|0.525	0.525	strong	.	TTC3	182	.	NM_001001894	exon20	c.A1755G	p.V585V	AAAAGTATATTTG	.	PASS	Atlas-SNP
MATN3	4148	hgsc.bcm.edu	37	2	20202930	20202930	+	Missense_Mutation	SNP	G	G	A	rs77245812	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	171	65	111	0	0.380117	0	G|0.990;A|0.010	0.010	strong	.	MATN3	28	.	NM_002381	exon3	c.C908T	p.T303M	GAACACGTTTTCT	.	PASS	Atlas-SNP
ETAA1	54465	hgsc.bcm.edu	37	2	67630980	67630980	+	Missense_Mutation	SNP	G	G	A	rs3770657	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	320	94	214	0	0.29375	0	G|0.257;N|0.000	.	strong	ETAA1,NS,carcinoma,+1,2	ETAA1	88	2	NM_019002	exon5	c.G1166A	p.S389N	TAGGTAGTGAACC	.	PASS	Atlas-SNP
CATSPER4	378807	hgsc.bcm.edu	37	1	26527951	26527951	+	Missense_Mutation	SNP	G	G	A	rs6657616	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	392	185	342	0	0.471939	0	G|0.743;A|0.257	0.257	strong	.	CATSPER4	59	.	NM_198137	exon9	c.G1306A	p.D436N	TCCAAGGACATCC	.	PASS	Atlas-SNP
ATP11A	23250	hgsc.bcm.edu	37	13	113530199	113530199	+	Missense_Mutation	SNP	G	G	A	rs11616795	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	37	17	28	0	0.459459	0	G|0.920;A|0.080	0.080	strong	.	ATP11A	225	.	NM_032189	exon28	c.G3271A	p.V1091I	CCCGACGTCCTCA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	36	39	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
PARP4	143	hgsc.bcm.edu	37	13	25060313	25060313	+	Silent	SNP	A	A	G	rs73154350	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	567	563	499	1	0.992945	0.00200401	A|0.924;G|0.076	0.076	strong	.	PARP4	142	.	NM_006437	exon11	c.T1345C	p.L449L	GACACAAGATTCC	.	PASS	Atlas-SNP
OR8I2	120586	hgsc.bcm.edu	37	11	55861153	55861153	+	Missense_Mutation	SNP	A	A	G	rs17603011	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	68	124	0	0.456376	0	A|0.950;G|0.050	0.050	strong	.	OR8I2	119	.	NM_001003750	exon1	c.A370G	p.I124V	CGCTACATAGCAA	.	PASS	Atlas-SNP
PCSK5	5125	hgsc.bcm.edu	37	9	78937974	78937974	+	Missense_Mutation	SNP	C	C	T	rs3001772	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	37	73	0	0.528571	0	C|0.517;T|0.483	0.483	strong	.	PCSK5	329	.	NM_001190482	exon31	c.C4028T	p.T1343M	AGTGCACGCCTGA	.	PASS	Atlas-SNP
FAM220A	84792	hgsc.bcm.edu	37	7	6370317	6370317	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	2	100	0	0.015748	0	.	.	none	C7orf70,colon,carcinoma,+1,1	.	.	1	NM_001037163	exon2	c.C469T	p.R157C	GATGGCGTGGCAG	.	scavenged	Atlas-SNP
SPATA7	55812	hgsc.bcm.edu	37	14	88862529	88862529	+	Missense_Mutation	SNP	G	G	A	rs3179969	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	57	164	0	0.428571	0	G|0.599;A|0.401	0.401	strong	.	SPATA7	58	.	NM_018418	exon4	c.G220A	p.V74M	GTAAGCGTGAGTA	.	PASS	Atlas-SNP
DMPK	1760	hgsc.bcm.edu	37	19	46275976	46275976	+	Missense_Mutation	SNP	G	G	C	rs527221	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	43	60	1	0.581081	0.0166667	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	.	scavenged	Atlas-SNP
KRT81	3887	hgsc.bcm.edu	37	12	52681416	52681416	+	Silent	SNP	T	T	C	rs7300801	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	57	123	0	0.438462	0	T|0.642;C|0.358	0.358	strong	.	KRT81	46	.	NM_002281	exon6	c.A990G	p.Q330Q	CAGCCTTTGGATC	.	PASS	Atlas-SNP
ZNF540	163255	hgsc.bcm.edu	37	19	38091932	38091932	+	Missense_Mutation	SNP	A	A	T	rs1975937	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	29	13	20	0	0.448276	0	A|0.726;N|0.000	.	strong	ZNF540,NS,carcinoma,0,1	ZNF540	75	1	NM_152606	exon4	c.A158T	p.D53V	AGCCAGATGTGAT	.	PASS	Atlas-SNP
STOX1	219736	hgsc.bcm.edu	37	10	70641860	70641860	+	Missense_Mutation	SNP	T	T	C	rs1341667	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	170	161	0	0.988372	0	T|0.384;C|0.616	0.616	strong	.	STOX1	75	.	NM_001130160	exon2	c.T457C	p.Y153H	AAACATTACCCAG	.	PASS	Atlas-SNP
BCAR1	9564	hgsc.bcm.edu	37	16	75269534	75269534	+	Silent	SNP	C	C	T	rs3743613	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	106	88	0	1	0	C|0.603;T|0.397	0.397	strong	.	BCAR1	184	.	NM_001170714	exon6	c.G1401A	p.P467P	CTCTGCCGGGGCT	.	PASS	Atlas-SNP
BAIAP3	8938	hgsc.bcm.edu	37	16	1397815	1397815	+	Silent	SNP	C	C	T	rs1132358	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	20	13	22	0	0.65	0	C|0.656;T|0.344	0.344	strong	BAIAP3,NS,carcinoma,0,1	BAIAP3	88	1	NM_003933	exon31	c.C3123T	p.D1041D	CCTGGACGCCAAC	.	PASS	Atlas-SNP
OR51Q1	390061	hgsc.bcm.edu	37	11	5444136	5444136	+	Nonsense_Mutation	SNP	C	C	T	rs2647574	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	210	91	155	0	0.433333	0	C|0.603;T|0.397	0.397	strong	.	OR51Q1	79	.	NM_001004757	exon1	c.C706T	p.R236X	GCTGAGCGACTCC	.	PASS	Atlas-SNP
HLA-DPB1	3115	hgsc.bcm.edu	37	6	33052950	33052950	+	Silent	SNP	T	T	C	rs1042331	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	266	117	228	0	0.43985	0	T|0.609;C|0.391	0.391	strong	.	HLA-DPB1	28	.	NM_002121	exon3	c.T588C	p.D196D	GGGAGATGTCTAC	.	PASS	Atlas-SNP
HS3ST1	9957	hgsc.bcm.edu	37	4	11401012	11401012	+	Silent	SNP	A	A	G	rs1047385	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	51	90	0	0.463636	0	G|0.240;N|0.000	0.240	strong	.	HS3ST1	41	.	NM_005114	exon2	c.T618C	p.F206F	CGGGAAAAAGCGC	.	PASS	Atlas-SNP
BTNL9	153579	hgsc.bcm.edu	37	5	180472513	180472513	+	Silent	SNP	A	A	G	rs6894087	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	72	79	0	1	0	A|0.458;G|0.542	0.542	strong	.	BTNL9	58	.	NM_152547	exon2	c.A24G	p.P8P	CTCCCCAGACTCC	.	PASS	Atlas-SNP
TEAD1	7003	hgsc.bcm.edu	37	11	12903443	12903443	+	Silent	SNP	C	C	T	rs2304733	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	68	138	0	0.465753	0	C|0.574;T|0.426	0.426	strong	.	TEAD1	40	.	NM_021961	exon8	c.C513T	p.D171D	TCCCAGCGTCAAG	.	PASS	Atlas-SNP
C19orf48	84798	hgsc.bcm.edu	37	19	51301395	51301395	+	Missense_Mutation	SNP	C	C	T	rs4801853	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	42	61	0	0.407767	0	C|0.714;N|0.001	.	strong	.	C19orf48	11	.	NM_199249	exon5	c.G311A	p.G104E	TTCACCCCTGGAG	.	PASS	Atlas-SNP
SMR3A	26952	hgsc.bcm.edu	37	4	71227877	71227877	+	Silent	SNP	G	G	A	rs62322478	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	616	201	610	0	0.326299	0	G|0.881;A|0.119	0.119	strong	SMR3A,NS,carcinoma,0,1	SMR3A	35	1	NM_012390	exon2	c.G45A	p.A15A	TGCAGCGTGTTTC	.	PASS	Atlas-SNP
B3GNTL1	146712	hgsc.bcm.edu	37	17	81006629	81006629	+	Silent	SNP	C	C	T	rs7406119	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	216	112	182	0	0.518519	0	C|0.782;T|0.218	0.218	strong	.	B3GNTL1	40	.	NM_001009905	exon2	c.G93A	p.P31P	CAGCCACGGTTCA	.	PASS	Atlas-SNP
GSN	2934	hgsc.bcm.edu	37	9	124088908	124088908	+	Missense_Mutation	SNP	C	C	G	rs77681311	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	31	72	0	0.516667	0	C|0.969;G|0.031	0.031	strong	.	GSN	81	.	NM_000177	exon12	c.C1688G	p.T563S	CCAGCACCCGCCT	.	PASS	Atlas-SNP
APBA3	9546	hgsc.bcm.edu	37	19	3754020	3754020	+	Silent	SNP	G	G	C	rs61731066	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	33	101	0	0.478261	0	G|0.968;C|0.032	0.032	strong	.	APBA3	28	.	NM_004886	exon5	c.C846G	p.S282S	TACCTGGGAGTCC	.	PASS	Atlas-SNP
NFASC	23114	hgsc.bcm.edu	37	1	204951138	204951138	+	Silent	SNP	C	C	T	rs61741829	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	46	86	0	0.464646	0	C|0.985;T|0.015	0.015	strong	.	NFASC	396	.	NM_001160331	exon19	c.C2493T	p.S831S	TTACTCCGGAGAA	.	PASS	Atlas-SNP
CEBPZ	10153	hgsc.bcm.edu	37	2	37438993	37438993	+	Silent	SNP	G	G	A	rs1137437	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	199	198	217	0	0.994975	0	G|0.635;A|0.365	0.365	strong	.	CEBPZ	68	.	NM_005760	exon12	c.C2793T	p.S931S	TGGAACGCTCTCA	.	PASS	Atlas-SNP
RBMXL1	494115	hgsc.bcm.edu	37	1	89448608	89448608	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	242	19	182	6	0.0785124	0.032967	.	.	none	CCBL2,caecum,carcinoma,+1,1	.	.	1	NM_001162536	exon3	c.C902T	p.P301L	GATGGCGGGGGCC	.	scavenged	Atlas-SNP
C3orf35	339883	hgsc.bcm.edu	37	3	37458758	37458758	+	Missense_Mutation	SNP	A	A	C	rs113724034	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	43	21	45	0	0.488372	0	A|0.976;C|0.024	0.024	strong	C3orf35,NS,carcinoma,0,1	C3orf35	21	1	NM_178342	exon5	c.A1C	p.M1L	ATCCACATGAAAA	.	PASS	Atlas-SNP
SCYL2	55681	hgsc.bcm.edu	37	12	100709420	100709420	+	Silent	SNP	C	C	T	rs10860577	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	87	142	0	0.5	0	C|0.853;T|0.147	0.147	strong	SCYL2,colon,carcinoma,-1,1	SCYL2	99	1	NM_017988	exon9	c.C1180T	p.L394L	AATGTTCTACTTA	.	PASS	Atlas-SNP
GPR111	222611	hgsc.bcm.edu	37	6	47654742	47654742	+	Silent	SNP	A	A	T	rs9296573	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	375	188	381	1	0.501333	0.00262467	A|0.464;T|0.536	0.536	strong	.	GPR111	123	.	NM_153839	exon8	c.A1878T	p.L626L	CATCCTAGTGTTT	.	PASS	Atlas-SNP
ZCCHC14	23174	hgsc.bcm.edu	37	16	87445363	87445363	+	Silent	SNP	G	G	A	rs1050846	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	50	40	0	1	0	G|0.719;A|0.281	0.281	strong	.	ZCCHC14	87	.	NM_015144	exon12	c.C2553T	p.H851H	AGGGGCGTGCACG	.	PASS	Atlas-SNP
CSPG4	1464	hgsc.bcm.edu	37	15	75980112	75980112	+	Silent	SNP	A	A	G	rs4414463	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	193	191	168	0	0.989637	0	A|0.524;G|0.476	0.476	strong	.	CSPG4	175	.	NM_001897	exon3	c.T3294C	p.A1098A	ACGGTCAGCCCCT	.	PASS	Atlas-SNP
LILRB4	11006	hgsc.bcm.edu	37	19	55174498	55174498	+	Missense_Mutation	SNP	T	T	C	rs28366008	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	18	47	0	0.461538	0	T|0.700;C|0.300	0.300	strong	LILRB4,NS,carcinoma,0,1	LILRB4	86	1	NM_006847	exon1	c.T13C	p.F5L	CCCACCTTCACGG	.	PASS	Atlas-SNP
LILRB2	10288	hgsc.bcm.edu	37	19	54780769	54780769	+	Missense_Mutation	SNP	G	G	C	rs45511398	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	17	101	0	0.141667	0	G|0.919;C|0.081	0.081	strong	LILRB2,right_upper_lobe,carcinoma,+2,1	LILRB2	94	1	NM_005874	exon10	c.C1375G	p.L459V	CCCCCAGGTGCCT	.	scavenged	Atlas-SNP
COG1	9382	hgsc.bcm.edu	37	17	71197323	71197323	+	Missense_Mutation	SNP	G	G	C	rs62621249	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	71	91	0	0.601695	0	G|0.935;C|0.065	0.065	strong	.	COG1	46	.	NM_018714	exon7	c.G1357C	p.E453Q	GAACTTGAAAGCA	.	PASS	Atlas-SNP
ABCA4	24	hgsc.bcm.edu	37	1	94564483	94564483	+	Missense_Mutation	SNP	C	C	T	rs6657239	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	52	64	0	0.565217	0	C|0.954;T|0.046	0.046	strong	.	ABCA4	275	.	NM_000350	exon6	c.G635A	p.R212H	ATGAAGCGCTCCA	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150947162	150947162	+	Missense_Mutation	SNP	A	A	G	rs114337863	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	213	90	165	0	0.422535	0	A|0.983;G|0.017	0.017	strong	.	FAT2	465	.	NM_001447	exon1	c.T1331C	p.V444A	ATGACCACCACGG	.	PASS	Atlas-SNP
AKAP9	10142	hgsc.bcm.edu	37	7	91715662	91715662	+	Silent	SNP	C	C	T	rs28927678	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	207	88	176	0	0.425121	0	C|0.656;T|0.344	0.344	strong	.	AKAP9	788	.	NM_005751	exon37	c.C9145T	p.L3049L	ACGGAGCTGACAG	.	PASS	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39137154	39137154	+	Missense_Mutation	SNP	C	C	G	rs721958	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	40	92	0	0.380952	0	C|0.656;G|0.344	0.344	strong	.	KRT40	27	.	NM_182497	exon7	c.G858C	p.E286D	ATTCAGCTCTTCT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	42	70	0	0.488372	0	T|0.536;C|0.464	0.464	strong	.	FLNB	430	.	NM_001457	exon6	c.T927C	p.S309S	TGACAGTGACAAG	.	PASS	Atlas-SNP
PTPRF	5792	hgsc.bcm.edu	37	1	44072066	44072066	+	Silent	SNP	C	C	T	rs10890266	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	49	94	0	0.515789	0	C|0.727;N|0.000	.	strong	.	PTPRF	172	.	NM_002840	exon20	c.C3639T	p.P1213P	CCGGCCCCTGTCT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	36	68	0	0.428571	0	C|0.676;T|0.324	0.324	strong	.	KRT77	58	.	NM_175078	exon5	c.G1006A	p.D336N	CTGCATCGATGAT	.	PASS	Atlas-SNP
KRTAP5-5	439915	hgsc.bcm.edu	37	11	1651161	1651161	+	Missense_Mutation	SNP	T	T	C	rs71454094	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	37	24	66	1	0.648649	0.0151515	T|0.663;C|0.337	0.337	strong	KRTAP5-5,colon,carcinoma,0,1	KRTAP5-5	86	1	NM_001001480	exon1	c.T91C	p.C31R	GGAGGCTGTGGCT	.	scavenged	Atlas-SNP
LINS	55180	hgsc.bcm.edu	37	15	101120963	101120963	+	Missense_Mutation	SNP	T	T	C	rs11247226	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	212	108	219	1	0.509434	0.00456621	T|0.653;C|0.347	0.347	strong	.	LINS	62	.	NM_001040616	exon2	c.A85G	p.I29V	AAAAGATGTAATC	.	PASS	Atlas-SNP
UBR2	23304	hgsc.bcm.edu	37	6	42585064	42585064	+	Silent	SNP	C	C	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	6	171	1	0.031746	0.00584795	.	.	none	UBR2,NS,carcinoma,0,1	UBR2	134	1	NM_015255	exon11	c.C1269A	p.T423T	CTTCACCGCACCT	.	scavenged	Atlas-SNP
ATR	545	hgsc.bcm.edu	37	3	142277536	142277536	+	Silent	SNP	A	A	G	rs2227929	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	262	259	258	0	0.98855	0	A|0.656;G|0.344	0.344	strong	.	ATR	285	.	NM_001184	exon8	c.T1815C	p.D605D	ACAGCCATCATCA	.	PASS	Atlas-SNP
RBMX	27316	hgsc.bcm.edu	37	X	135956467	135956467	+	Missense_Mutation	SNP	C	C	T	rs75385615	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	537	267	348	1	0.497207	0.00287356	.	.	weak	.	RBMX	149	.	NM_002139	exon9	c.G1010A	p.S337N	CGACCACTTGAGT	.	PASS	Atlas-SNP
ZNF268	10795	hgsc.bcm.edu	37	12	133768553	133768553	+	Missense_Mutation	SNP	A	A	T	rs61960670	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	61	131	0	0.512605	0	A|0.835;T|0.165	0.165	strong	.	ZNF268	71	.	NM_152943	exon5	c.A421T	p.M141L	CTGTGTATGGTGC	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324643	31324643	+	Silent	SNP	G	G	C	rs1050517	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	146	82	0	0.993197	0	G|0.584;C|0.416	0.416	strong	.	HLA-B	54	.	NM_005514	exon2	c.C165G	p.T55T	GAACTGGGTGTCG	.	PASS	Atlas-SNP
RBM19	9904	hgsc.bcm.edu	37	12	114383651	114383651	+	Silent	SNP	C	C	T	rs12321179	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	181	100	145	0	0.552486	0	C|0.823;T|0.177	0.177	strong	RBM19,NS,carcinoma,0,1	RBM19	117	1	NM_001146699	exon13	c.G1608A	p.K536K	TTGACTCTTGGTG	.	PASS	Atlas-SNP
SPATA3	130560	hgsc.bcm.edu	37	2	231865090	231865090	+	Missense_Mutation	SNP	T	T	C	rs2271376	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	219	217	250	0	0.990868	0	T|0.565;C|0.435	0.435	strong	.	SPATA3	52	.	NM_139073	exon2	c.T311C	p.I104T	CTCTGATTCGCGC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	110	118	0	1	0	G|0.526;A|0.474	0.474	strong	.	CST9	26	.	NM_001008693	exon1	c.C142T	p.L48F	TGGCGAGGAACAT	.	PASS	Atlas-SNP
ACSM5	54988	hgsc.bcm.edu	37	16	20442613	20442613	+	Silent	SNP	T	T	C	rs77351186	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	44	130	2	0.26506	0.0153846	T|0.997;C|0.003	0.003	strong	ACSM5,NS,carcinoma,0,1	ACSM5	101	1	NM_017888	exon10	c.T1278C	p.T426T	ACCCACTCGGCCC	.	scavenged	Atlas-SNP
FREM1	158326	hgsc.bcm.edu	37	9	14770658	14770658	+	Silent	SNP	G	G	T	rs17219005	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	77	129	0	0.527397	0	G|0.749;T|0.251	0.251	strong	.	FREM1	261	.	NM_144966	exon27	c.C5004A	p.I1668I	AAAGATGATCTGA	.	PASS	Atlas-SNP
PCSK7	9159	hgsc.bcm.edu	37	11	117096652	117096652	+	Silent	SNP	G	G	A	rs2277287	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	42	86	0	0.451613	0	G|0.759;A|0.241	0.241	strong	.	PCSK7	59	.	NM_004716	exon6	c.C855T	p.S285S	CCTGCAGCTGTAG	.	PASS	Atlas-SNP
SMPD4	55627	hgsc.bcm.edu	37	2	130931167	130931167	+	Silent	SNP	G	G	A	rs41269839	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	256	128	217	1	0.5	0.00460829	G|0.994;A|0.006	0.006	strong	.	SMPD4	67	.	NM_017751	exon4	c.C306T	p.L102L	GCCAACGAGGACA	.	PASS	Atlas-SNP
OLFML1	283298	hgsc.bcm.edu	37	11	7507174	7507174	+	Missense_Mutation	SNP	C	C	T	rs80215761	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	243	128	247	0	0.526749	0	C|0.983;T|0.017	0.017	strong	.	OLFML1	54	.	NM_198474	exon1	c.C68T	p.P23L	CCCCGCCGCAGTG	.	PASS	Atlas-SNP
PCDHB13	56123	hgsc.bcm.edu	37	5	140595183	140595183	+	Silent	SNP	G	G	T	rs2910330	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	68	164	0	0.42236	0	A|0.000;G|0.862;T|0.138	0.138	strong	.	PCDHB13	142	.	NM_018933	exon1	c.G1488T	p.P496P	GGACCCGCACCTG	.	PASS	Atlas-SNP
GBP4	115361	hgsc.bcm.edu	37	1	89652102	89652102	+	Missense_Mutation	SNP	A	A	T	rs655260	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	143	357	1	1	0.00280112	A|0.677;T|0.323	0.323	strong	.	GBP4	89	.	NM_052941	exon10	c.T1621A	p.Y541N	CCATGTATTCCTG	.	PASS	Atlas-SNP
FSCN1	6624	hgsc.bcm.edu	37	7	5643145	5643145	+	Silent	SNP	T	T	C	rs1640233	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	61	106	0	0.480315	0	T|0.793;C|0.207	0.207	strong	.	FSCN1	29	.	NM_003088	exon3	c.T1008C	p.F336F	CTACTTTGACATC	.	PASS	Atlas-SNP
NR3C1	2908	hgsc.bcm.edu	37	5	142661490	142661490	+	Silent	SNP	A	A	G	rs6196	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	216	105	170	0	0.486111	0	A|0.852;G|0.148	0.148	strong	.	NR3C1	124	.	NM_001024094	exon9	c.T2301C	p.N767N	ATTTCCATTTGAA	.	PASS	Atlas-SNP
PPYR1	5540	hgsc.bcm.edu	37	10	47086915	47086915	+	Silent	SNP	C	C	T	rs59974223	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	379	179	333	0	0.472296	0	C|0.835;T|0.165	0.165	strong	.	PPYR1	54	.	NM_005972	exon3	c.C132T	p.I44I	CTTCATCGTCACT	.	PASS	Atlas-SNP
LPPR2	0	hgsc.bcm.edu	37	19	11471990	11471990	+	Silent	SNP	C	C	T	rs143046204	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	50	106	0	0.390625	0	C|0.989;T|0.011	0.011	strong	.	LPPR2	21	.	NM_022737	exon6	c.C489T	p.R163R	GTGCCGCCCCAAC	.	PASS	Atlas-SNP
GTF3C6	112495	hgsc.bcm.edu	37	6	111288941	111288941	+	Missense_Mutation	SNP	T	T	C	rs41289884	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	238	105	245	1	0.441176	0.00408163	T|0.976;C|0.024	0.024	strong	.	GTF3C6	14	.	NM_138408	exon6	c.T590C	p.I197T	TTGATATACCTTC	.	PASS	Atlas-SNP
WDR17	116966	hgsc.bcm.edu	37	4	177095773	177095773	+	Missense_Mutation	SNP	G	G	A	rs72706355	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	74	182	0	0.506849	0	G|0.985;A|0.015	0.015	strong	WDR17,NS,carcinoma,+1,1	WDR17	198	1	NM_170710	exon28	c.G3470A	p.R1157Q	GAGCTCGAAATGA	.	PASS	Atlas-SNP
UPF3A	65110	hgsc.bcm.edu	37	13	115067328	115067328	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	2	132	0	0.0162602	0	.	.	none	UPF3A,colon,carcinoma,0,1	UPF3A	47	1	NM_023011	exon9	c.G1130T	p.R377L	CTGAACGGCTTTC	.	scavenged	Atlas-SNP
RIC8A	60626	hgsc.bcm.edu	37	11	210660	210660	+	Missense_Mutation	SNP	C	C	G	rs34925440	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	70	125	0	0.56	0	C|0.988;G|0.012	0.012	strong	.	RIC8A	45	.	NM_021932	exon4	c.C816G	p.H272Q	GTTCCACGGGTGA	.	PASS	Atlas-SNP
THRB	7068	hgsc.bcm.edu	37	3	24164510	24164510	+	Silent	SNP	A	A	G	rs13081063	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	297	156	242	0	0.525253	0	A|0.977;G|0.023	0.023	strong	.	THRB	52	.	NM_000461	exon10	c.T1251C	p.F417F	TGGCCAAAAGTGT	.	PASS	Atlas-SNP
P2RX6	9127	hgsc.bcm.edu	37	22	21377301	21377301	+	Silent	SNP	C	C	A	rs1548411	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	183	84	174	0	0.459016	0	C|0.383;A|0.617	0.617	strong	.	.	.	.	NM_005446	exon5	c.C534A	p.P178P	GTGCCCCGTGGAG	.	PASS	Atlas-SNP
FAM187B	148109	hgsc.bcm.edu	37	19	35718891	35718891	+	Nonsense_Mutation	SNP	C	C	T	rs35001809	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	202	85	152	0	0.420792	0	C|0.978;T|0.022	0.022	strong	.	FAM187B	28	.	NM_152481	exon1	c.G693A	p.W231X	GTCGAGCCACACA	.	PASS	Atlas-SNP
CATSPERG	57828	hgsc.bcm.edu	37	19	38861333	38861333	+	Silent	SNP	G	G	A	rs1052375	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	178	176	189	1	0.988764	0.00529101	G|0.657;A|0.343	0.343	strong	.	CATSPERG	121	.	NM_021185	exon29	c.G3381A	p.P1127P	CATGCCGTCTCTG	.	PASS	Atlas-SNP
TDGF1	6997	hgsc.bcm.edu	37	3	46622629	46622629	+	Silent	SNP	T	T	C	rs112928637	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	60	123	0	0.540541	0	T|0.972;C|0.028	0.028	strong	.	TDGF1	17	.	NM_003212	exon6	c.T456C	p.L152L	TGGCCTTGTGATG	.	PASS	Atlas-SNP
CDH17	1015	hgsc.bcm.edu	37	8	95158259	95158259	+	Silent	SNP	G	G	A	rs2251734	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	255	137	194	0	0.537255	0	G|0.692;A|0.308	0.308	strong	.	CDH17	119	.	NM_004063	exon15	c.C2064T	p.F688F	AGCCTCGAAAATG	.	PASS	Atlas-SNP
IFT88	8100	hgsc.bcm.edu	37	13	21189941	21189941	+	Missense_Mutation	SNP	G	G	A	rs2442455	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	20	87	0	0.357143	0	G|0.837;A|0.163	0.163	strong	.	IFT88	83	.	NM_175605	exon16	c.G1149A	p.M383I	AGCCATGGCAGAA	.	PASS	Atlas-SNP
MRGPRX4	117196	hgsc.bcm.edu	37	11	18194878	18194878	+	Missense_Mutation	SNP	T	T	G	rs2445180	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	92	174	0	0.489362	0	T|0.706;G|0.294	0.294	strong	.	MRGPRX4	68	.	NM_054032	exon1	c.T75G	p.N25K	CTACAATCAGACC	.	PASS	Atlas-SNP
TRABD2A	129293	hgsc.bcm.edu	37	2	85097590	85097590	+	Missense_Mutation	SNP	C	C	T	rs1863772	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	36	89	1	0.553846	0.011236	C|0.979;T|0.021	0.021	strong	C2orf89_ENST00000335459,bladder,carcinoma,+1,2	.	.	2	NM_001080824	exon2	c.C428A	p.S143Y	TTGCCGCGCTGGT	.	scavenged	Atlas-SNP
ATP8B3	148229	hgsc.bcm.edu	37	19	1796166	1796166	+	Missense_Mutation	SNP	C	C	T	rs8100856	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	91	139	0	0.575949	0	C|0.735;N|0.000	.	strong	.	ATP8B3	108	.	NM_138813	exon17	c.G1852A	p.V618I	TCGTGACGGTGTC	.	PASS	Atlas-SNP
EMID1	129080	hgsc.bcm.edu	37	22	29629605	29629605	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	195	3	165	0	0.0153846	0	.	.	none	EMID1,NS,malignant_melanoma,0,1	EMID1	33	1	NM_133455	exon10	c.C916T	p.P306S	CCAGGTCCCCCTG	.	scavenged	Atlas-SNP
OR10AG1	282770	hgsc.bcm.edu	37	11	55735106	55735106	+	Silent	SNP	A	A	G	rs61896163	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	91	149	0	0.486631	0	A|0.948;G|0.052	0.052	strong	OR10AG1,NS,carcinoma,-2,1	OR10AG1	100	1	NM_001005491	exon1	c.T834C	p.P278P	TATAATAGGATTC	.	PASS	Atlas-SNP
GPR173	54328	hgsc.bcm.edu	37	X	53106865	53106865	+	Silent	SNP	C	C	T	rs11091720	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	58	56	0	0.659091	0	C|0.687;T|0.313	0.313	strong	.	GPR173	66	.	NM_018969	exon2	c.C1062T	p.H354H	GACTCACGCCCCC	.	PASS	Atlas-SNP
RTL1	388015	hgsc.bcm.edu	37	14	101348584	101348584	+	Missense_Mutation	SNP	C	C	G	rs11623267	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	26	53	0	0.433333	0	C|0.751;G|0.249	0.249	strong	RTL1,NS,carcinoma,0,1	RTL1	120	1	NM_001134888	exon1	c.G2542C	p.E848Q	GCTCCTCGACTCC	.	PASS	Atlas-SNP
STAB2	55576	hgsc.bcm.edu	37	12	104100617	104100617	+	Silent	SNP	C	C	T	rs697212	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	232	230	180	0	0.991379	0	T|0.403;G|0.003	0.403	strong	.	STAB2	370	.	NM_017564	exon38	c.C4044T	p.C1348C	GCCCTGCCCAGGG	.	PASS	Atlas-SNP
PKD1L1	168507	hgsc.bcm.edu	37	7	47920345	47920345	+	Silent	SNP	G	G	A	rs62447081	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	58	115	0	0.467742	0	G|0.645;A|0.355	0.355	strong	.	PKD1L1	328	.	NM_138295	exon21	c.C3501T	p.Y1167Y	CAGGACGTACGTC	.	PASS	Atlas-SNP
SLC38A1	81539	hgsc.bcm.edu	37	12	46622959	46622959	+	Silent	SNP	T	T	C	rs61928115	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	20	47	0	0.454545	0	T|0.985;C|0.015	0.015	strong	.	SLC38A1	58	.	NM_030674	exon5	c.A291G	p.A97A	AGTGTTTGCCAGG	.	PASS	Atlas-SNP
PRUNE2	158471	hgsc.bcm.edu	37	9	79318367	79318367	+	Missense_Mutation	SNP	T	T	C	rs4745571	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	37	88	0	0.513889	0	T|0.854;C|0.146	0.146	strong	.	PRUNE2	331	.	NM_015225	exon9	c.A8162G	p.N2721S	CATTCATTGTCAT	.	PASS	Atlas-SNP
C2orf54	79919	hgsc.bcm.edu	37	2	241834944	241834944	+	Silent	SNP	T	T	C	rs4468809	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	157	152	0	1	0	T|0.497;C|0.503	0.503	strong	.	C2orf54	14	.	NM_001085437	exon1	c.A471G	p.V157V	GGCTGCTACCAGC	.	PASS	Atlas-SNP
PTPRO	5800	hgsc.bcm.edu	37	12	15679120	15679120	+	Silent	SNP	C	C	A	rs6488782	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	32	74	0	0.444444	0	C|0.579;A|0.421	0.421	strong	.	PTPRO	148	.	NM_002848	exon12	c.C2088A	p.G696G	TCCAGGCGACATC	.	PASS	Atlas-SNP
GCC2	9648	hgsc.bcm.edu	37	2	109106381	109106381	+	Silent	SNP	A	A	G	rs12104502	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	232	112	216	0	0.482759	0	A|0.618;G|0.382	0.382	strong	.	GCC2	129	.	NM_181453	exon18	c.A4140G	p.Q1380Q	ACTTCAAACATTG	.	PASS	Atlas-SNP
MARCH7	64844	hgsc.bcm.edu	37	2	160599717	160599717	+	Missense_Mutation	SNP	C	C	G	rs17813964	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	324	150	284	0	0.462963	0	C|0.945;G|0.055	0.055	strong	.	MARCH7	48	.	NM_022826	exon3	c.C299G	p.T100S	ACTGTACTACCTC	.	PASS	Atlas-SNP
NAGLU	4669	hgsc.bcm.edu	37	17	40695462	40695462	+	Missense_Mutation	SNP	G	G	A	rs147293270	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	31	45	0	0.54386	0	G|0.999;A|0.001	0.001	strong	.	NAGLU	36	.	NM_000263	exon6	c.G1438A	p.A480T	TTTGCCGCCCGGC	.	PASS	Atlas-SNP
MACC1	346389	hgsc.bcm.edu	37	7	20201395	20201395	+	Missense_Mutation	SNP	G	G	C	rs4721888	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	213	99	200	0	0.464789	0	G|0.907;C|0.093	0.093	strong	.	MACC1	99	.	NM_182762	exon4	c.C91G	p.L31V	TTGAGAGTTTTCC	.	PASS	Atlas-SNP
TMEM63A	9725	hgsc.bcm.edu	37	1	226040404	226040404	+	Missense_Mutation	SNP	C	C	T	rs1009668	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	76	118	0	0.550725	0	C|0.918;T|0.082	0.082	strong	.	TMEM63A	75	.	NM_014698	exon20	c.G1864A	p.V622M	AGGCCACGATGAC	.	PASS	Atlas-SNP
NFATC4	4776	hgsc.bcm.edu	37	14	24839165	24839165	+	Silent	SNP	C	C	T	rs2228233	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	57	114	0	0.491379	0	C|0.667;T|0.333	0.333	strong	.	NFATC4	115	.	NM_001198967	exon3	c.C750T	p.D250D	CTCTGACGAGGCA	.	PASS	Atlas-SNP
ABLIM1	3983	hgsc.bcm.edu	37	10	116335246	116335246	+	Silent	SNP	G	G	A	rs985273	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	73	117	1	0.51773	0.00854701	G|0.719;A|0.281	0.281	strong	ABLIM1,NS,carcinoma,0,1	ABLIM1	131	1	NM_002313	exon3	c.C492T	p.F164F	CTCCACGAACTCC	.	scavenged	Atlas-SNP
ITPR3	3710	hgsc.bcm.edu	37	6	33643558	33643558	+	Silent	SNP	G	G	A	rs2229637	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	91	137	0	0.473958	0	G|0.786;A|0.214	0.214	strong	ITPR3_ENST00000374316,NS,carcinoma,0,2	ITPR3	409	2	NM_002224	exon25	c.G3207A	p.P1069P	TGCGCCGCTGGTC	.	PASS	Atlas-SNP
LRP5	4041	hgsc.bcm.edu	37	11	68115631	68115631	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	22	50	0	0.423077	0	.	.	none	.	LRP5	136	.	NM_002335	exon2	c.C408A	p.N136K	GGCCAACCTCAAT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179427186	179427186	+	Silent	SNP	A	A	G	rs2366751	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	213	113	163	0	0.530516	0	A|0.562;G|0.438	0.438	strong	.	TTN	18412	.	NM_001267550	exon326	c.T83673C	p.G27891G	GCTGCCACCATCA	.	PASS	Atlas-SNP
ITGA9	3680	hgsc.bcm.edu	37	3	37523079	37523079	+	Silent	SNP	G	G	A	rs17227748	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	65	120	0	0.515873	0	G|0.892;A|0.108	0.108	strong	ITGA9,NS,carcinoma,0,1	ITGA9	98	1	NM_002207	exon4	c.G525A	p.T175T	CAGGACGCTGATC	.	PASS	Atlas-SNP
CEP170	9859	hgsc.bcm.edu	37	1	243333027	243333027	+	Silent	SNP	A	A	G	rs34466343	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	628	12	538	5	0.0191083	0.00929368	.	.	weak	CEP170_ENST00000366543,NS,carcinoma,0,6	CEP170	153	6	NM_014812	exon12	c.T1746C	p.R582R	AACCCAACGTTTG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	43	43	96	0	1	0	G|0.328;A|0.672	0.672	strong	.	PLA2G4E	60	.	NM_001206670	exon12	c.C1227T	p.T409T	TAGACCGGTGATG	.	PASS	Atlas-SNP
AGRN	375790	hgsc.bcm.edu	37	1	989207	989207	+	Missense_Mutation	SNP	G	G	C	rs74685771	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	237	123	205	0	0.518987	0	G|0.997;C|0.003	0.003	strong	.	AGRN	110	.	NM_198576	exon34	c.G5726C	p.S1909T	TCTGGAGTGGCAA	.	PASS	Atlas-SNP
RNF17	56163	hgsc.bcm.edu	37	13	25367301	25367301	+	Silent	SNP	C	C	T	rs1158061	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	39	96	0	0.4875	0	C|0.771;T|0.229	0.229	strong	.	RNF17	259	.	NM_001184993	exon10	c.C1057T	p.L353L	TCTGTCCTAACCA	.	PASS	Atlas-SNP
SHANK3	85358	hgsc.bcm.edu	37	22	51117580	51117580	+	Missense_Mutation	SNP	T	T	C	rs9616915	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	71	47	0	1	0	T|0.638;C|0.362	0.362	strong	SHANK3_ENST00000262795,NS,carcinoma,0,1	SHANK3	96	1	NM_033517	exon6	c.T734C	p.I245T	TGGGGATCACCGA	.	PASS	Atlas-SNP
KLK4	9622	hgsc.bcm.edu	37	19	51412668	51412668	+	Missense_Mutation	SNP	A	A	C	rs1654551	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	56	133	1	0.41791	0.0075188	A|0.875;C|0.125	0.125	strong	KLK4,colon,carcinoma,+2,2	KLK4	46	2	NM_004917	exon2	c.T64G	p.S22A	CGAGCGATCCTGA	.	scavenged	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	28	27	67	0	0.964286	0	G|0.755;A|0.245	0.245	strong	.	FRY	312	.	NM_023037	exon44	c.G5902A	p.G1968S	ACCAGCGGCAACA	.	PASS	Atlas-SNP
LGI4	163175	hgsc.bcm.edu	37	19	35617270	35617270	+	Silent	SNP	T	T	C	rs1319969	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	37	63	0	0.5	0	T|0.660;C|0.340	0.340	strong	LGI4,NS,carcinoma,0,1	LGI4	32	1	NM_139284	exon8	c.A1203G	p.T401T	GATGTCTGTGCGT	.	PASS	Atlas-SNP
KARS	3735	hgsc.bcm.edu	37	16	75675609	75675609	+	Silent	SNP	T	T	C	rs5030748	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	54	85	0	0.509434	0	T|0.933;C|0.067	0.067	strong	.	KARS	77	.	NM_001130089	exon3	c.A159G	p.R53R	CAGGCGTCTCTTC	.	PASS	Atlas-SNP
FBN2	2201	hgsc.bcm.edu	37	5	127645675	127645675	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	207	3	185	0	0.0144928	0	.	.	none	FBN2_ENST00000508053,colon,carcinoma,0,2	FBN2	858	2	NM_001999	exon40	c.G5200A	p.D1734N	ACCTACCCATGCA	.	scavenged	Atlas-SNP
PPYR1	5540	hgsc.bcm.edu	37	10	47086978	47086978	+	Silent	SNP	G	G	A	rs3740294	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	301	153	298	0	0.508306	0	G|0.852;A|0.148	0.148	strong	.	PPYR1	54	.	NM_005972	exon3	c.G195A	p.V65V	GTGTGTGACTGTG	.	PASS	Atlas-SNP
CTDP1	9150	hgsc.bcm.edu	37	18	77475455	77475455	+	Silent	SNP	G	G	A	rs11549119	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	41	22	35	0	0.536585	0	G|0.969;A|0.031	0.031	strong	.	CTDP1	67	.	NM_004715	exon8	c.G1995A	p.A665A	GGGAGCGAAGATC	.	PASS	Atlas-SNP
INTS2	57508	hgsc.bcm.edu	37	17	59969000	59969000	+	Silent	SNP	T	T	C	rs753765	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	51	99	0	0.428571	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
LATS2	26524	hgsc.bcm.edu	37	13	21562948	21562948	+	Missense_Mutation	SNP	G	G	A	rs558614	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	5	5	10	0	1	0	G|0.298;A|0.702	0.702	strong	LATS2_ENST00000382592,NS,carcinoma,0,2	LATS2	176	2	NM_014572	exon4	c.C971T	p.A324V	TGGGCCGCGGGAC	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40368520	40368520	+	Silent	SNP	G	G	C	rs36079378	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	288	102	146	2	0.354167	0.0136986	G|0.500;C|0.500	0.500	strong	FCGBP,NS,carcinoma,0,1	FCGBP	416	1	NM_003890	exon28	c.C12828G	p.G4276G	GCCAGGGCCCTCG	.	scavenged	Atlas-SNP
ST8SIA2	8128	hgsc.bcm.edu	37	15	92987938	92987938	+	Silent	SNP	C	C	G	rs2305561	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	57	119	0	0.435115	0	C|0.758;G|0.242	0.242	strong	.	ST8SIA2	41	.	NM_006011	exon5	c.C621G	p.P207P	GAACCCCTCGGTC	.	PASS	Atlas-SNP
OR10Z1	128368	hgsc.bcm.edu	37	1	158577109	158577109	+	Missense_Mutation	SNP	A	A	C	rs857685	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	72	143	0	0.496552	0	A|0.766;C|0.234	0.234	strong	.	OR10Z1	99	.	NM_001004478	exon1	c.A881C	p.N294T	TAAGGAATAGGGC	.	PASS	Atlas-SNP
APOL5	80831	hgsc.bcm.edu	37	22	36122517	36122517	+	Silent	SNP	T	T	C	rs17723764	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	76	106	0	0.539007	0	C|0.262;N|0.000	0.262	strong	.	APOL5	45	.	NM_030642	exon3	c.T402C	p.L134L	GTTGCTTACCAAG	.	PASS	Atlas-SNP
OR56A4	120793	hgsc.bcm.edu	37	11	6023581	6023581	+	Silent	SNP	A	A	G	rs11040248	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	57	94	0	0.483051	0	A|0.799;G|0.201	0.201	strong	.	OR56A4	66	.	NM_001005179	exon1	c.T798C	p.L266L	AAGGATAAGATCA	.	PASS	Atlas-SNP
AMTN	401138	hgsc.bcm.edu	37	4	71384537	71384537	+	Missense_Mutation	SNP	C	C	T	rs35286445	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	60	143	0	0.41958	0	C|0.887;T|0.113	0.113	strong	.	AMTN	28	.	NM_212557	exon2	c.C43T	p.R15W	TCAACTCGGTCAT	.	PASS	Atlas-SNP
ARFGAP3	26286	hgsc.bcm.edu	37	22	43206950	43206950	+	Missense_Mutation	SNP	A	A	C	rs1018448	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	132	96	0	0.992481	0	A|0.326;C|0.674	0.674	strong	.	ARFGAP3	48	.	NM_014570	exon12	c.T1065G	p.S355R	AAAGTAACTGTAG	.	PASS	Atlas-SNP
FSTL5	56884	hgsc.bcm.edu	37	4	162307060	162307060	+	Silent	SNP	G	G	T	rs17040984	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	274	135	219	0	0.492701	0	G|0.805;T|0.195	0.195	strong	FSTL5,NS,carcinoma,+2,1	FSTL5	207	1	NM_020116	exon16	c.C2383A	p.R795R	TTTTCCGGTTCCA	.	PASS	Atlas-SNP
USP47	55031	hgsc.bcm.edu	37	11	11941793	11941793	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	3	205	0	0.0159574	0	.	.	none	USP47,rectum,carcinoma,-2,5	USP47	91	5	NM_017944	exon8	c.C856T	p.R286W	GATGCACGGAAGG	.	scavenged	Atlas-SNP
FCGR2A	2212	hgsc.bcm.edu	37	1	161487914	161487914	+	Silent	SNP	C	C	T	rs12124551	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	330	16	265	0	0.0484848	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
KIF3C	3797	hgsc.bcm.edu	37	2	26174744	26174744	+	Silent	SNP	C	C	T	rs71441005	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	35	72	0	0.472973	0	C|0.971;T|0.029	0.029	strong	.	KIF3C	79	.	NM_002254	exon5	c.G1920A	p.P640P	CTCCTCCGGCGGG	.	PASS	Atlas-SNP
DEGS2	123099	hgsc.bcm.edu	37	14	100613197	100613197	+	Silent	SNP	G	G	A	rs140696950	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	57	123	0	0.548077	0	G|0.998;A|0.002	0.002	strong	.	DEGS2	25	.	NM_206918	exon3	c.C873T	p.H291H	CCAGGAGTGGTGC	.	PASS	Atlas-SNP
SLC6A6	6533	hgsc.bcm.edu	37	3	14518802	14518802	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	3	135	0	0.0172414	0	.	.	none	SLC6A6,NS,carcinoma,+2,2	SLC6A6	58	2	NM_003043	exon11	c.C1299T	p.A433A	CATCGCCTTCGTG	.	scavenged	Atlas-SNP
SYTL2	54843	hgsc.bcm.edu	37	11	85436868	85436868	+	Missense_Mutation	SNP	G	G	C	rs597480	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	242	242	241	0	1	0	G|0.491;C|0.509	0.509	strong	.	SYTL2	231	.	NM_206927	exon1	c.C632G	p.A211G	GTATCAGCAAAAT	.	PASS	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240805	39240805	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	9	30	0	0.152542	0	.	.	none	KRTAP4-7,caecum,carcinoma,+1,1	KRTAP4-7	49	1	NM_033061	exon1	c.G347T	p.R116L	GCTGCCGCCCCTG	.	scavenged	Atlas-SNP
KDM3B	51780	hgsc.bcm.edu	37	5	137766066	137766066	+	Silent	SNP	G	G	A	rs61749634	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	95	169	0	0.516304	0	A|0.040;C|0.000;G|0.960;T|0.000	0.040	strong	.	KDM3B	177	.	NM_016604	exon22	c.G5022A	p.V1674V	TATTGTGCAGTTC	.	PASS	Atlas-SNP
USP10	9100	hgsc.bcm.edu	37	16	84808824	84808824	+	Silent	SNP	C	C	G	rs774298	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	31	76	0	0.3875	0	A|0.004;C|0.853;G|0.143	0.143	strong	USP10,NS,carcinoma,0,1	USP10	51	1	NM_001272075	exon14	c.C2214G	p.L738L	TCGGCTCTTTGCA	.	PASS	Atlas-SNP
TPSD1	23430	hgsc.bcm.edu	37	16	1306817	1306817	+	Missense_Mutation	SNP	G	G	A	rs3993983	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	424	56	295	0	0.132075	0	G|0.999;A|0.001	0.001	weak	TPSD1,trunk,malignant_melanoma,0,1	TPSD1	47	1	NM_012217	exon3	c.G274A	p.A92T	CTGGCCGCCCTCA	.	PASS	Atlas-SNP
CCDC164	92749	hgsc.bcm.edu	37	2	26679362	26679362	+	Missense_Mutation	SNP	G	G	A	rs35313480	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	223	105	181	0	0.470852	0	G|0.960;A|0.040	0.040	strong	.	CCDC164	84	.	NM_145038	exon17	c.G2200A	p.V734M	ACTCAGGTGTTGC	.	PASS	Atlas-SNP
HSPA12B	116835	hgsc.bcm.edu	37	20	3732633	3732633	+	Silent	SNP	C	C	T	rs541760	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	11	11	11	0	1	0	C|0.439;T|0.561	0.561	strong	.	HSPA12B	43	.	NM_052970	exon13	c.C1881T	p.C627C	CAAATGCGGCGCG	.	PASS	Atlas-SNP
DCST1	149095	hgsc.bcm.edu	37	1	155006999	155006999	+	Silent	SNP	C	C	T	rs6680600	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	27	50	0	0.473684	0	C|0.550;T|0.450	0.450	strong	.	DCST1	69	.	NM_152494	exon3	c.C150T	p.L50L	TGCTCTCCTGCTG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	63	120	0	0.492188	0	G|0.702;A|0.298	0.298	strong	.	CR2	164	.	NM_001006658	exon10	c.G1916A	p.S639N	AGGGCAGTAGTCA	.	PASS	Atlas-SNP
NHSL2	340527	hgsc.bcm.edu	37	X	71359555	71359555	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	6	60	0	0.0714286	0	.	.	none	.	NHSL2	148	.	NM_001013627	exon6	c.G2157A	p.S719S	CCAGTCGGAAACA	.	PASS	Atlas-SNP
IQGAP3	128239	hgsc.bcm.edu	37	1	156518379	156518379	+	Missense_Mutation	SNP	G	G	A	rs744224	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	77	109	1	0.546099	0.00917431	G|0.683;A|0.317	0.317	strong	IQGAP3,brain,primitive_neuroectodermal_tumour-medulloblastoma,+1,1	IQGAP3	146	1	NM_178229	exon17	c.C1987T	p.R663C	CTGGACGCTGTTT	.	scavenged	Atlas-SNP
FMO3	2328	hgsc.bcm.edu	37	1	171076935	171076935	+	Silent	SNP	C	C	T	rs1800822	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	98	210	1	0.521277	0.0047619	C|0.898;T|0.102	0.102	strong	FMO3,NS,carcinoma,0,1	FMO3	73	1	NM_006894	exon4	c.C441T	p.S147S	TTGTTCCGGACAT	.	PASS	Atlas-SNP
LILRB1	10859	hgsc.bcm.edu	37	19	55146139	55146139	+	Missense_Mutation	SNP	A	A	G	rs1061683	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	33	98	0	0.402439	0	A|0.898;G|0.102	0.102	strong	.	LILRB1	140	.	NM_001081637	exon10	c.A1411G	p.I471V	GCCGTCATCCTAC	.	PASS	Atlas-SNP
DMRTA1	63951	hgsc.bcm.edu	37	9	22447655	22447655	+	Silent	SNP	T	T	A	rs558612	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	25	53	0	0.416667	0	T|0.705;A|0.295	0.295	strong	.	DMRTA1	29	.	NM_022160	exon1	c.T591A	p.G197G	ACTGGGTGCCTTG	.	PASS	Atlas-SNP
HEPHL1	341208	hgsc.bcm.edu	37	11	93839219	93839219	+	Missense_Mutation	SNP	A	A	C	rs200078708	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	122	189	0	0.600985	0	.	.	weak	.	HEPHL1	144	.	NM_001098672	exon17	c.A2968C	p.N990H	ATGACAAACTGGT	.	PASS	Atlas-SNP
ECI2	10455	hgsc.bcm.edu	37	6	4116262	4116262	+	Missense_Mutation	SNP	G	G	A	rs7166	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	144	124	1	1	0.00806452	G|0.699;A|0.301	0.301	strong	.	ECI2	59	.	NM_206836	exon10	c.C1031T	p.A344V	CTCAAGGCCTGGA	.	PASS	Atlas-SNP
CRISP3	10321	hgsc.bcm.edu	37	6	49701523	49701523	+	Missense_Mutation	SNP	A	A	G	rs495335	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	150	130	1	0.993378	0.00769231	A|0.322;G|0.678	0.678	strong	.	CRISP3	67	.	NM_001190986	exon5	c.T385C	p.S129P	AGCTGGAGGCACT	.	PASS	Atlas-SNP
SCYL2	55681	hgsc.bcm.edu	37	12	100732822	100732822	+	Missense_Mutation	SNP	G	G	A	rs117356610	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	79	153	0	0.429348	0	G|0.997;A|0.003	0.003	strong	SCYL2,NS,carcinoma,-2,1	SCYL2	99	1	NM_017988	exon18	c.G2662A	p.V888M	ATGAACGTGATAG	.	PASS	Atlas-SNP
HYOU1	10525	hgsc.bcm.edu	37	11	118925341	118925341	+	Silent	SNP	G	G	A	rs538478	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	49	95	0	0.521277	0	G|0.585;A|0.415	0.415	strong	HYOU1,NS,carcinoma,-1,1	HYOU1	88	1	NM_006389	exon7	c.C543T	p.N181N	GGCCTGGTTGAAG	.	PASS	Atlas-SNP
CEACAM20	125931	hgsc.bcm.edu	37	19	45021210	45021210	+	Missense_Mutation	SNP	G	G	A	rs10414398	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	27	50	0	0.465517	0	G|0.836;A|0.164	0.164	strong	.	CEACAM20	31	.	NM_001102600	exon6	c.C1106T	p.S369F	AGGCTGGAGTTGA	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10466482	10466482	+	Missense_Mutation	SNP	G	G	A	rs13267180	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	59	96	0	0.472	0	G|0.614;A|0.386	0.386	strong	RP1L1,colon,carcinoma,-1,1	RP1L1	453	1	NM_178857	exon4	c.C5126T	p.A1709V	CCAGGGGCCACCT	.	PASS	Atlas-SNP
SRRM1	10250	hgsc.bcm.edu	37	1	24993386	24993386	+	Missense_Mutation	SNP	G	G	T	rs78787676	bycluster;byfrequency;alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	4	154	1	0.0296296	0.00649351	G|0.999;A|0.001	.	alt	SRRM1,bladder,carcinoma,0,2	SRRM1	81	2	NM_005839	exon13	c.G1709T	p.R570L	GACGGCGCAGGAC	.	scavenged	Atlas-SNP
UMODL1	89766	hgsc.bcm.edu	37	21	43543193	43543193	+	Missense_Mutation	SNP	G	G	A	rs150611312	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	40	66	0	0.449438	0	G|0.993;A|0.007	0.007	strong	UMODL1_ENST00000408989,NS,haematopoietic_neoplasm,0,2	UMODL1	186	2	NM_173568	exon16	c.G3464A	p.S1155N	ACGTGAGCCACAG	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155264637	155264637	+	Missense_Mutation	SNP	G	G	A	rs62331892	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	20	32	0	0.666667	0	G|0.976;A|0.024	0.024	strong	.	DCHS2	594	.	NM_017639	exon7	c.C962T	p.A321V	ATCTTAGCTAGAT	.	PASS	Atlas-SNP
SPEN	23013	hgsc.bcm.edu	37	1	16255799	16255799	+	Missense_Mutation	SNP	G	G	A	rs115566585	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	75	129	0	0.503356	0	G|0.998;A|0.002	0.002	strong	.	SPEN	374	.	NM_015001	exon11	c.G3064A	p.V1022M	CCTGACGTGTCCT	.	PASS	Atlas-SNP
MYOM1	8736	hgsc.bcm.edu	37	18	3126811	3126811	+	Missense_Mutation	SNP	A	A	G	rs1071600	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	381	375	368	1	0.984252	0.00271739	A|0.744;G|0.256	0.256	strong	MYOM1,NS,carcinoma,0,1	MYOM1	192	1	NM_003803	exon19	c.T2879C	p.I960T	CCTCCAATCTTAT	.	PASS	Atlas-SNP
IQCE	23288	hgsc.bcm.edu	37	7	2613062	2613062	+	Silent	SNP	T	T	C	rs61739566	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	55	124	0	0.413534	0	T|0.884;C|0.116	0.116	strong	.	IQCE	66	.	NM_152558	exon6	c.T405C	p.P135P	TGTCCCTGGGACT	.	PASS	Atlas-SNP
AKR7A3	22977	hgsc.bcm.edu	37	1	19612477	19612477	+	Missense_Mutation	SNP	C	C	T	rs2231198	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	73	123	0	0.442424	0	C|0.603;T|0.397	0.397	strong	.	AKR7A3	30	.	NM_012067	exon3	c.G412A	p.V138M	GCTCCACGAACTT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	55	133	0	0.45082	0	C|0.500;G|0.500	0.500	strong	.	MYPN	189	.	NM_032578	exon11	c.C2409G	p.S803R	CCCCAGCGGAAAC	.	PASS	Atlas-SNP
BAZ1A	11177	hgsc.bcm.edu	37	14	35263983	35263983	+	Silent	SNP	T	T	C	rs17102745	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	47	119	0	0.474747	0	T|0.899;C|0.101	0.101	strong	.	BAZ1A	128	.	NM_182648	exon11	c.A1335G	p.Q445Q	CTCATCTTGAAGA	.	PASS	Atlas-SNP
CWC22	57703	hgsc.bcm.edu	37	2	180835443	180835443	+	Missense_Mutation	SNP	C	C	G	rs143785942	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	76	170	0	0.47205	0	C|1.000;G|0.000	0.000	strong	.	CWC22	62	.	NM_020943	exon10	c.G1081C	p.E361Q	CTTCTTCCACCAA	.	PASS	Atlas-SNP
ZNF471	57573	hgsc.bcm.edu	37	19	57036678	57036678	+	Silent	SNP	G	G	A	rs3752177	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	33	79	0	0.485294	0	A|0.209;G|0.791	0.209	strong	.	ZNF471	99	.	NM_020813	exon5	c.G1242A	p.S414S	CAGCTCGGGTTCA	.	PASS	Atlas-SNP
BAIAP2L1	55971	hgsc.bcm.edu	37	7	97933601	97933601	+	Silent	SNP	C	C	T	rs1045916	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	100	99	0	0.980392	0	C|0.383;T|0.617	0.617	strong	.	BAIAP2L1	61	.	NM_018842	exon12	c.G1329A	p.L443L	CATGGACAAGCAT	.	PASS	Atlas-SNP
AGFG1	3267	hgsc.bcm.edu	37	2	228388545	228388545	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	252	3	232	0	0.0119048	0	.	.	none	AGFG1_ENST00000409979,colon,carcinoma,+1,2	AGFG1	80	2	NM_004504	exon4	c.C444T	p.A148A	CTCTGCCAGTAGC	.	scavenged	Atlas-SNP
C12orf43	64897	hgsc.bcm.edu	37	12	121442199	121442199	+	Silent	SNP	T	T	A	rs3751151	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	80	177	0	0.496894	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
RNF5	6048	hgsc.bcm.edu	37	6	32147696	32147696	+	Silent	SNP	G	G	A	rs3130349	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	232	121	179	0	0.521552	0	G|0.863;A|0.137	0.137	strong	.	RNF5	16	.	NM_006913	exon4	c.G315A	p.P105P	AGCTCCGGAGAGC	.	PASS	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	37	8	3076959	3076959	+	Missense_Mutation	SNP	T	T	C	rs28455997	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	32	18	22	0	0.5625	0	T|0.897;C|0.103	0.103	strong	CSMD1_ENST00000537824,colon,carcinoma,-1,2	CSMD1	1469	2	NM_033225	exon29	c.A4490G	p.N1497S	TCCATGTTGAAAC	.	PASS	Atlas-SNP
OR10A2	341276	hgsc.bcm.edu	37	11	6891385	6891385	+	Missense_Mutation	SNP	G	G	A	rs2741764	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	76	145	0	0.457831	0	G|0.725;A|0.275	0.275	strong	.	OR10A2	55	.	NM_001004460	exon1	c.G400A	p.A134T	GCTGCTGCCTCCT	.	PASS	Atlas-SNP
QSOX2	169714	hgsc.bcm.edu	37	9	139110654	139110654	+	Silent	SNP	C	C	T	rs12684650	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	27	29	0	0.490909	0	C|0.803;N|0.000	.	strong	.	QSOX2	63	.	NM_181701	exon8	c.G957A	p.K319K	CTTCGACCTAGGA	.	PASS	Atlas-SNP
CACNA1F	778	hgsc.bcm.edu	37	X	49081291	49081291	+	Silent	SNP	G	G	A	rs2235127	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	92	93	0	0.978723	0	G|0.623;A|0.377	0.377	strong	.	CACNA1F	218	.	NM_005183	exon14	c.C1842T	p.G614G	CATGGCGCCCACC	.	PASS	Atlas-SNP
OR52E4	390081	hgsc.bcm.edu	37	11	5906143	5906143	+	Silent	SNP	T	T	C	rs11823809	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	417	194	338	0	0.465228	0	T|0.611;C|0.389	0.389	strong	.	OR52E4	65	.	NM_001005165	exon1	c.T621C	p.Y207Y	TTCTTATATTATT	.	PASS	Atlas-SNP
SRGAP2D	100996712	hgsc.bcm.edu	37	1	206566195	206566195	+	Silent	SNP	C	C	T	rs200978831	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	1298	172	960	1	0.132512	0.00104167	C|0.875;T|0.125	0.125	strong	SRGAP2_ENST00000414007,NS,carcinoma,0,1	.	.	1	NM_001271887	exon2	c.C177T	p.N59N	GGCCAACGTTCGC	.	scavenged	Atlas-SNP
ZNF839	55778	hgsc.bcm.edu	37	14	102792386	102792386	+	Missense_Mutation	SNP	T	T	C	rs7158731	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	23	49	0	0.38983	0	T|0.626;C|0.374	0.374	strong	.	ZNF839	41	.	NM_018335	exon2	c.T353C	p.L118P	CAATGCTCCTACC	.	PASS	Atlas-SNP
DLGAP5	9787	hgsc.bcm.edu	37	14	55655692	55655692	+	Missense_Mutation	SNP	C	C	T	rs2274271	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	190	101	194	0	0.531579	0	C|0.668;T|0.332	0.332	strong	.	DLGAP5	84	.	NM_014750	exon2	c.G206A	p.G69E	ACAAGCCCTTGAG	.	PASS	Atlas-SNP
CLEC4G	339390	hgsc.bcm.edu	37	19	7795955	7795955	+	Silent	SNP	C	C	A	rs8112382	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	23	71	0	0.425926	0	C|0.917;A|0.083	0.083	strong	.	CLEC4G	18	.	NM_198492	exon4	c.G240T	p.A80A	ACCCAGCGCCGCC	.	PASS	Atlas-SNP
BTNL9	153579	hgsc.bcm.edu	37	5	180472498	180472498	+	Silent	SNP	C	C	T	rs28677846	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	62	69	0	0.984127	0	C|0.460;G|0.000;T|0.539	0.539	strong	.	BTNL9	58	.	NM_152547	exon2	c.C9T	p.D3D	GGTGGACCTCTCA	.	PASS	Atlas-SNP
PSG2	5670	hgsc.bcm.edu	37	19	43585325	43585325	+	Silent	SNP	G	G	A	rs77964180		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	75	153	0	0.390625	0	.	.	weak	.	PSG2	84	.	NM_031246	exon2	c.C138T	p.S46S	CCCCTCGGAAACT	.	PASS	Atlas-SNP
SLCO1B3	28234	hgsc.bcm.edu	37	12	21036411	21036411	+	Silent	SNP	A	A	G	rs2053098	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	123	137	0	1	0	A|0.284;G|0.716	0.716	strong	.	SLCO1B3	151	.	NM_019844	exon13	c.A1557G	p.A519A	CTCAGCACACTTG	.	PASS	Atlas-SNP
LLGL1	3996	hgsc.bcm.edu	37	17	18137141	18137141	+	Missense_Mutation	SNP	A	A	G	rs2290505	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	58	105	1	0.504348	0.00952381	A|0.229;G|0.771	0.771	strong	LLGL1,rectum,carcinoma,0,1	LLGL1	61	1	NM_004140	exon5	c.A442G	p.S148G	GCTGCCAGCGACA	.	scavenged	Atlas-SNP
TXLNG	55787	hgsc.bcm.edu	37	X	16859628	16859628	+	Silent	SNP	G	G	A	rs5924530	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	8	171	0	0.043956	0	0|0.012;A|0.602	0.602	strong	.	TXLNG	40	.	NM_018360	exon10	c.G1326A	p.Q442Q	TCTTCAGACAGAA	.	PASS	Atlas-SNP
NT5E	4907	hgsc.bcm.edu	37	6	86199243	86199243	+	Missense_Mutation	SNP	T	T	C	rs2229524	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	33	77	0	0.340206	0	A|0.000;C|0.157;G|0.000;T|0.843	0.157	strong	.	NT5E	56	.	NM_001204813	exon6	c.T1136C	p.M379T	ATGAAATGTTCTG	.	PASS	Atlas-SNP
FAHD2B	151313	hgsc.bcm.edu	37	2	97749730	97749730	+	Silent	SNP	G	G	T	rs113222096	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	74	151	0	0.45679	0	G|0.987;T|0.013	0.013	strong	.	FAHD2B	34	.	NM_199336	exon7	c.C837A	p.T279T	TGGGGGGGTCCCA	.	PASS	Atlas-SNP
GPIHBP1	338328	hgsc.bcm.edu	37	8	144295782	144295782	+	Silent	SNP	G	G	T	rs11538388	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	40	89	0	0.412371	0	G|0.641;T|0.359	0.359	strong	.	GPIHBP1	12	.	NM_178172	exon2	c.G138T	p.V46V	TGAGGTGGAAGAG	.	PASS	Atlas-SNP
NOX3	50508	hgsc.bcm.edu	37	6	155774608	155774608	+	Silent	SNP	C	C	T	rs34960420	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	104	157	0	0.536082	0	C|0.888;T|0.112	0.112	strong	.	NOX3	93	.	NM_015718	exon4	c.G270A	p.P90P	CCTCCACGGTCCT	.	PASS	Atlas-SNP
VPS53	55275	hgsc.bcm.edu	37	17	465775	465775	+	Silent	SNP	G	G	A	rs2075443	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	291	289	316	1	0.993127	0.00316456	G|0.681;A|0.319	0.319	strong	.	VPS53	109	.	NM_001128159	exon14	c.C1524T	p.Y508Y	CCAGGCGTATTCT	.	PASS	Atlas-SNP
WDFY4	57705	hgsc.bcm.edu	37	10	50034833	50034833	+	Missense_Mutation	SNP	G	G	A	rs6537579	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	220	116	181	1	0.527273	0.00552486	G|0.801;A|0.199	0.199	strong	WDFY4,NS,carcinoma,0,1	WDFY4	205	1	NM_020945	exon36	c.G6100A	p.G2034S	TGCCTCGGCCTTC	.	scavenged	Atlas-SNP
GPR155	151556	hgsc.bcm.edu	37	2	175300997	175300997	+	Silent	SNP	G	G	A	rs6757461	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	77	156	0	0.472393	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
KIAA1462	57608	hgsc.bcm.edu	37	10	30316872	30316872	+	Silent	SNP	T	T	C	rs3739996	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	99	143	0	0.518325	0	T|0.732;C|0.268	0.268	strong	.	KIAA1462	162	.	NM_020848	exon3	c.A2205G	p.A735A	AGGGAATGCTGTG	.	PASS	Atlas-SNP
SLC2A8	29988	hgsc.bcm.edu	37	9	130165995	130165995	+	Silent	SNP	C	C	T	rs1138740	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	80	102	0	0.677966	0	C|0.860;T|0.140	0.140	strong	.	SLC2A8	27	.	NM_014580	exon6	c.C780T	p.G260G	CATCGGCGTCTCC	.	PASS	Atlas-SNP
SNX29	92017	hgsc.bcm.edu	37	16	12662420	12662420	+	Silent	SNP	C	C	T	rs2288423	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	15	33	0	0.5	0	C|0.684;T|0.316	0.316	strong	.	SNX29	60	.	NM_032167	exon21	c.C2376T	p.F792F	CCGCTTCCCCAAA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	82	79	0	1	0	G|0.506;C|0.494	0.494	strong	.	PKD1L2	361	.	NM_001076780	exon5	c.C901G	p.P301A	TCGGCGGGTTGTA	.	PASS	Atlas-SNP
WDR61	80349	hgsc.bcm.edu	37	15	78585106	78585106	+	Silent	SNP	C	C	T	rs2280364	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	43	81	0	0.472527	0	C|0.910;T|0.090	0.090	strong	.	WDR61	26	.	NM_025234	exon5	c.G171A	p.Q57Q	ACTCCACTGTAGG	.	PASS	Atlas-SNP
OR4N2	390429	hgsc.bcm.edu	37	14	20296004	20296004	+	Missense_Mutation	SNP	C	C	T	rs2318279	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	210	223	0	0.995261	0	C|0.753;T|0.247	0.247	strong	OR4N2,NS,carcinoma,0,1	OR4N2	125	1	NM_001004723	exon1	c.C397T	p.P133S	CACTATCCTACTG	.	PASS	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88537268	88537268	+	Missense_Mutation	SNP	G	G	A	rs202025088	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	58	88	0	0.542056	0	.	.	weak	.	DSPP	174	.	NM_014208	exon5	c.G3454A	p.D1152N	AGCAGCGACAGCA	.	PASS	Atlas-SNP
OR51S1	119692	hgsc.bcm.edu	37	11	4870261	4870261	+	Missense_Mutation	SNP	G	G	C	rs11602499	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	230	228	216	1	0.991304	0.00462963	G|0.673;C|0.327	0.327	strong	.	OR51S1	83	.	NM_001004758	exon1	c.C178G	p.Q60E	CGGGCTGCAGGGC	.	PASS	Atlas-SNP
RTKN	6242	hgsc.bcm.edu	37	2	74657782	74657782	+	Missense_Mutation	SNP	C	C	T	rs145310583	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	62	49	0	0.639175	0	C|0.997;T|0.003	0.003	strong	.	RTKN	80	.	NM_001015055	exon3	c.G334A	p.A112T	GCTCAGCGGGCGG	.	PASS	Atlas-SNP
CCDC169-SOHLH2	100526761	hgsc.bcm.edu	37	13	36744910	36744910	+	Missense_Mutation	SNP	C	C	T	rs2296968	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	87	132	0	0.915789	0	C|0.773;T|0.227	0.227	strong	.	.	.	.	NM_001198910	exon15	c.G1246A	p.A416T	CTGAGGCGGAGCT	.	PASS	Atlas-SNP
CEP164	22897	hgsc.bcm.edu	37	11	117252437	117252437	+	Missense_Mutation	SNP	A	A	G	rs117083334	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	76	150	1	0.466258	0.00666667	A|0.979;G|0.021	0.021	strong	CEP164,NS,carcinoma,+1,1	CEP164	121	1	NM_001271933	exon12	c.A1439G	p.H480R	TTCCACACGAGGA	.	scavenged	Atlas-SNP
AKNA	80709	hgsc.bcm.edu	37	9	117124731	117124731	+	Missense_Mutation	SNP	G	G	A	rs3748176	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	59	49	0	1	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
MUC16	94025	hgsc.bcm.edu	37	19	9047267	9047267	+	Missense_Mutation	SNP	C	C	T	rs10410169	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	117	114	0	1	0	C|0.788;T|0.212	0.212	strong	.	MUC16	4315	.	NM_024690	exon5	c.G34364A	p.G11455D	GATGCACCAGGGG	.	PASS	Atlas-SNP
GRM6	2916	hgsc.bcm.edu	37	5	178416063	178416063	+	Silent	SNP	G	G	A	rs2645339	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	222	119	192	0	0.536036	0	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
HS3ST4	9951	hgsc.bcm.edu	37	16	25704441	25704441	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	40	116	0	0.526316	0	.	.	none	.	HS3ST4	120	.	NM_006040	exon1	c.A703G	p.R235G	TTCGACAGGAACT	.	PASS	Atlas-SNP
CTSH	1512	hgsc.bcm.edu	37	15	79224747	79224747	+	Silent	SNP	C	C	T	rs13345	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	43	78	0	0.551282	0	C|0.720;T|0.280	0.280	strong	CTSH,NS,carcinoma,0,1	CTSH	23	1	NM_004390	exon6	c.G459A	p.A153A	GGCGATCGCAGAC	.	PASS	Atlas-SNP
TPSD1	23430	hgsc.bcm.edu	37	16	1306918	1306918	+	Silent	SNP	C	C	T	rs74470113	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	636	112	428	1	0.176101	0.00233645	C|0.644;T|0.356	0.356	strong	TPSD1,pharynx,carcinoma,0,1	TPSD1	47	1	NM_012217	exon3	c.C375T	p.T125T	CCAGACCGGGGCG	.	scavenged	Atlas-SNP
PI4KA	5297	hgsc.bcm.edu	37	22	21167787	21167787	+	Silent	SNP	G	G	A	rs165854	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	76	91	0	0.987013	0	G|0.526;A|0.474	0.474	strong	PI4KA_ENST00000255882,NS,carcinoma,0,1	PI4KA	313	1	NM_058004	exon8	c.C864T	p.C288C	GGGCAAGCAGGAG	.	PASS	Atlas-SNP
CSN3	1448	hgsc.bcm.edu	37	4	71115152	71115152	+	Silent	SNP	T	T	C	rs3775738	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	51	97	1	0.504951	0.0103093	T|0.682;C|0.318	0.318	strong	CSN3,NS,carcinoma,0,1	CSN3	43	1	NM_005212	exon4	c.T525C	p.V175V	CACAGTTGCAGTT	.	scavenged	Atlas-SNP
THADA	63892	hgsc.bcm.edu	37	2	43625184	43625184	+	Missense_Mutation	SNP	T	T	A	rs33979934	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	140	118	2	1	0.0169492	A|0.209;T|0.791	0.209	strong	THADA,NS,carcinoma,0,1	THADA	131	1	NM_001083953	exon29	c.A4153T	p.T1385S	ACAGAGTTCGAAT	.	scavenged	Atlas-SNP
SNX19	399979	hgsc.bcm.edu	37	11	130777886	130777886	+	Silent	SNP	G	G	A	rs2276098	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	55	125	0	0.52381	0	G|0.842;A|0.158	0.158	strong	.	SNX19	84	.	NM_014758	exon5	c.C2127T	p.T709T	GCTTTCGGTCTCG	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155256177	155256177	+	Silent	SNP	A	A	G	rs6858157	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	72	126	0	0.489796	0	A|0.668;G|0.332	0.332	strong	DCHS2_ENST00000339452,NS,carcinoma,0,3	DCHS2	594	3	NM_001142552	exon4	c.T2556C	p.G852G	GAGCCCACCACCG	.	PASS	Atlas-SNP
CSAG1	158511	hgsc.bcm.edu	37	X	151908844	151908844	+	Missense_Mutation	SNP	A	A	T	rs36103895	alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	851	490	385	1	0.575793	0.0025974	.	.	alt	.	CSAG1	27	.	NM_153478	exon4	c.A83T	p.Y28F	GACTGTACAGAGA	.	PASS	Atlas-SNP
TMEM190	147744	hgsc.bcm.edu	37	19	55889451	55889451	+	Silent	SNP	G	G	A	rs77912983	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	32	58	0	0.484848	0	G|0.937;A|0.063	0.063	strong	.	TMEM190	17	.	NM_139172	exon5	c.G414A	p.T138T	GAAGACGCCGTCC	.	PASS	Atlas-SNP
TMEM132B	114795	hgsc.bcm.edu	37	12	126137060	126137060	+	Missense_Mutation	SNP	C	C	T	rs61021440	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	236	108	213	0	0.457627	0	C|0.759;T|0.241	0.241	strong	TMEM132B,NS,carcinoma,-1,1	TMEM132B	207	1	NM_052907	exon8	c.C1973T	p.A658V	CCATCGCGGAGCT	.	PASS	Atlas-SNP
ROBO4	54538	hgsc.bcm.edu	37	11	124766128	124766128	+	Silent	SNP	A	A	G	rs4078313	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	154	138	0	0.993548	0	A|0.539;G|0.461	0.461	strong	.	ROBO4	130	.	NM_019055	exon4	c.T645C	p.H215H	CTCCCTATGTCCT	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	37	16	72992547	72992547	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	44	76	0	0.488889	0	.	.	none	ZFHX3,NS,carcinoma,+1,1	ZFHX3	404	1	NM_006885	exon2	c.G1498T	p.D500Y	CCTCATCCAACTC	.	PASS	Atlas-SNP
OR4N2	390429	hgsc.bcm.edu	37	14	20295779	20295779	+	Missense_Mutation	SNP	C	C	G	rs11621884	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	205	200	206	0	0.97561	0	C|0.886;G|0.114	0.114	strong	OR4N2,NS,carcinoma,-2,1	OR4N2	125	1	NM_001004723	exon1	c.C172G	p.P58A	ACAGCCCCCCTCT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179605180	179605180	+	Silent	SNP	C	C	T	rs746578	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	235	134	214	1	0.570213	0.0046729	T|0.233;C|0.757;A|0.010	0.233	strong	TTN_ENST00000359218,colon,carcinoma,-1,1	TTN	18412	1	NM_001267550	exon48	c.G12780A	p.A4260A	GATGAGCGCACTT	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324145	31324145	+	Missense_Mutation	SNP	A	A	C	rs9266150	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	34	83	0	0.472222	0	A|0.886;C|0.114	0.114	strong	HLA-B,colon,carcinoma,+1,1	HLA-B	54	1	NM_005514	exon3	c.T418G	p.Y140D	AGGCGTACTGGTC	.	PASS	Atlas-SNP
BRD2	6046	hgsc.bcm.edu	37	6	32948462	32948462	+	Silent	SNP	G	G	A	rs3918140	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	42	80	0	0.488372	0	G|0.953;A|0.047	0.047	strong	.	BRD2	70	.	NM_001199455	exon13	c.G2478A	p.S826S	GTCGTCGTCTTCA	.	PASS	Atlas-SNP
ITGAM	3684	hgsc.bcm.edu	37	16	31289396	31289396	+	Missense_Mutation	SNP	T	T	C	rs1143680	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	98	113	0	0.505155	0	T|0.871;C|0.129	0.129	strong	.	ITGAM	137	.	NM_000632	exon12	c.T1322C	p.M441T	CTGGCATGTGGGA	.	PASS	Atlas-SNP
SLC2A6	11182	hgsc.bcm.edu	37	9	136337168	136337168	+	Missense_Mutation	SNP	G	G	A	rs3094378	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	36	65	0	0.507042	0	G|0.943;A|0.057	0.057	strong	.	SLC2A6	31	.	NM_017585	exon10	c.C1499T	p.T500M	CTCCCCGTGCGGA	.	PASS	Atlas-SNP
SPAG5	10615	hgsc.bcm.edu	37	17	26911204	26911204	+	Silent	SNP	C	C	T	rs117510770	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	53	97	0	0.552083	0	C|0.991;T|0.009	0.009	strong	.	SPAG5	92	.	NM_006461	exon13	c.G2376A	p.L792L	TTTGGCCAGGACA	.	PASS	Atlas-SNP
CC2D2A	57545	hgsc.bcm.edu	37	4	15569018	15569018	+	Silent	SNP	G	G	A	rs73125627	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	411	408	380	1	0.992701	0.00263158	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
ZNF468	90333	hgsc.bcm.edu	37	19	53344118	53344118	+	Missense_Mutation	SNP	C	C	G	rs10419826	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	38	93	0	0.436782	0	C|0.485;G|0.515	0.515	strong	ZNF468,NS,carcinoma,0,1	ZNF468	46	1	NM_001008801	exon4	c.G1429C	p.G477R	TCTGACCGAAGGT	.	scavenged	Atlas-SNP
KCNA7	3743	hgsc.bcm.edu	37	19	49573518	49573518	+	Silent	SNP	G	G	A	rs3810188	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	91	75	0	0.98913	0	G|0.856;A|0.144	0.144	strong	.	KCNA7	30	.	NM_031886	exon2	c.C1173T	p.P391P	AATGACGGGCACT	.	PASS	Atlas-SNP
IL12RB2	3595	hgsc.bcm.edu	37	1	67852335	67852335	+	Silent	SNP	G	G	A	rs2228420	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	241	112	246	0	0.46473	0	G|0.567;A|0.433	0.433	strong	.	IL12RB2	94	.	NM_001559	exon14	c.G1929A	p.T643T	CTCAACGCATTAC	.	PASS	Atlas-SNP
PSMB6	5694	hgsc.bcm.edu	37	17	4699552	4699552	+	Silent	SNP	G	G	A	rs3169950	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	38	15	35	0	0.394737	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
CCDC88B	283234	hgsc.bcm.edu	37	11	64110683	64110683	+	Silent	SNP	G	G	C	rs479552	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	17	8	25	0	0.470588	0	G|0.651;C|0.349	0.349	strong	CCDC88B,NS,carcinoma,0,1	CCDC88B	89	1	NM_032251	exon11	c.G1095C	p.A365A	GGAGGCGTCCAAG	.	PASS	Atlas-SNP
NPAP1	23742	hgsc.bcm.edu	37	15	24921468	24921468	+	Missense_Mutation	SNP	T	T	C	rs35870568	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	33	45	0	0.44	0	T|0.977;C|0.023	0.023	strong	C15orf2,NS,meningioma,0,1	.	.	1	NM_018958	exon1	c.T454C	p.W152R	GAGGTGTGGGCCC	.	PASS	Atlas-SNP
SAMD15	161394	hgsc.bcm.edu	37	14	77844265	77844265	+	Missense_Mutation	SNP	G	G	A	rs45527334	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	27	51	0	0.45	0	G|0.848;A|0.152	0.152	strong	.	SAMD15	60	.	NM_001010860	exon1	c.G504A	p.M168I	AACCATGTCTGAG	.	PASS	Atlas-SNP
HLA-DPB1	3115	hgsc.bcm.edu	37	6	33048461	33048461	+	Missense_Mutation	SNP	T	T	A	rs1126509	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	20	44	0	0.333333	0	T|0.694;A|0.306	0.306	strong	.	HLA-DPB1	28	.	NM_002121	exon2	c.T113A	p.F38Y	ACCTTTTCCAGGG	.	PASS	Atlas-SNP
FAM188B	84182	hgsc.bcm.edu	37	7	30831082	30831082	+	Missense_Mutation	SNP	C	C	T	rs12701034	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	64	85	0	0.507937	0	C|0.515;T|0.485	0.485	strong	.	FAM188B	62	.	NM_032222	exon5	c.C965T	p.T322M	CAGACACGGACAG	.	PASS	Atlas-SNP
BAG6	7917	hgsc.bcm.edu	37	6	31612353	31612353	+	Missense_Mutation	SNP	G	G	C	rs143499629	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	30	48	0	0.517241	0	G|0.999;C|0.001	0.001	strong	.	BAG6	73	.	NM_004639	exon11	c.C1414G	p.P472A	CACTCGGAACACC	.	PASS	Atlas-SNP
DEPTOR	64798	hgsc.bcm.edu	37	8	121061879	121061879	+	Missense_Mutation	SNP	G	G	A	rs4871827	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	242	104	226	0	0.429752	0	G|0.693;A|0.307	0.307	strong	.	DEPTOR	41	.	NM_022783	exon9	c.G1166A	p.S389N	CCGTGAGCAATCT	.	PASS	Atlas-SNP
ANKRD24	170961	hgsc.bcm.edu	37	19	4200156	4200156	+	Missense_Mutation	SNP	G	G	A	rs2052191	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	38	67	0	0.513514	0	G|0.591;A|0.409	0.409	strong	.	ANKRD24	180	.	NM_133475	exon5	c.G331A	p.A111T	ATGAGCGCGGACG	.	PASS	Atlas-SNP
C1orf173	127254	hgsc.bcm.edu	37	1	75037385	75037385	+	Missense_Mutation	SNP	C	C	T	rs200080388	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	72	130	0	0.537313	0	.	.	weak	.	C1orf173	380	.	NM_001002912	exon14	c.G4009A	p.V1337I	CCACAACCCTTCC	.	PASS	Atlas-SNP
KANSL1	284058	hgsc.bcm.edu	37	17	44249096	44249096	+	Silent	SNP	A	A	C	rs17662889	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	29	73	0	0.281553	0	A|0.888;C|0.112	0.112	strong	.	.	.	.	NM_001193466	exon2	c.T414G	p.L138L	GGTTCTAAGATTT	.	PASS	Atlas-SNP
CDHR4	389118	hgsc.bcm.edu	37	3	49830032	49830032	+	Silent	SNP	C	C	T	rs61745903	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	47	87	0	0.465347	0	C|0.964;T|0.036	0.036	strong	.	CDHR4	37	.	NM_001007540	exon15	c.G2007A	p.T669T	TGTCATCGTTGAG	.	PASS	Atlas-SNP
CCDC9	26093	hgsc.bcm.edu	37	19	47774572	47774572	+	Silent	SNP	C	C	T	rs60930438	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	33	60	0	0.452055	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
SLC35G5	83650	hgsc.bcm.edu	37	8	11189485	11189485	+	Silent	SNP	G	G	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	199	4	164	0	0.0201005	0	.	.	none	AMAC1L2,NS,carcinoma,+1,1	.	.	1	NM_054028	exon1	c.G870T	p.V290V	CGAGGTGGTTGTG	.	scavenged	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39134455	39134455	+	Silent	SNP	G	G	A	rs2271277	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	43	71	0	0.477778	0	G|0.549;A|0.451	0.451	strong	.	KRT40	27	.	NM_182497	exon9	c.C1290T	p.C430C	TCACAAGCAGCAG	.	PASS	Atlas-SNP
OR5I1	10798	hgsc.bcm.edu	37	11	55703766	55703766	+	Silent	SNP	A	A	G	rs17597589	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	73	132	0	0.483444	0	A|0.951;G|0.049	0.049	strong	.	OR5I1	110	.	NM_006637	exon1	c.T111C	p.Y37Y	TATAGCATACAAT	.	PASS	Atlas-SNP
OVCH2	341277	hgsc.bcm.edu	37	11	7727886	7727886	+	Missense_Mutation	SNP	C	C	T	rs7927138	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	48	86	0	0.585366	0	C|0.636;T|0.364	0.364	strong	OVCH2,NS,carcinoma,0,2	OVCH2	47	2	NM_198185	exon1	c.G56A	p.R19Q	TTACCTCGTTCAA	.	PASS	Atlas-SNP
NCKIPSD	51517	hgsc.bcm.edu	37	3	48716537	48716537	+	Silent	SNP	C	C	A	rs76815705	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	73	122	0	0.477124	0	C|0.989;A|0.011	0.011	strong	.	NCKIPSD	52	.	NM_016453	exon10	c.G1650T	p.L550L	GTCCGGCAGCTGC	.	PASS	Atlas-SNP
TSPO	706	hgsc.bcm.edu	37	22	43558972	43558972	+	Missense_Mutation	SNP	G	G	A	rs6972	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	48	103	0	0.457143	0	G|0.812;A|0.188	0.188	strong	.	TSPO	6	.	NM_001256531	exon4	c.G485A	p.R162H	GCTGGCGTGGGGG	.	PASS	Atlas-SNP
SENP1	29843	hgsc.bcm.edu	37	12	48477422	48477422	+	Silent	SNP	A	A	G	rs886588	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	92	140	0	0.479167	0	A|0.817;G|0.183	0.183	strong	SENP1,NS,carcinoma,0,1	SENP1	44	1	NM_001267594	exon6	c.T504C	p.L168L	GCTCAAAAGACTT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	55	134	0	0.426357	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
ZNF662	389114	hgsc.bcm.edu	37	3	42956694	42956694	+	Nonsense_Mutation	SNP	C	C	T	rs201163995		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	2	91	1	0.0176991	0.010989	.	.	weak	ZNF662_ENST00000328199,NS,carcinoma,-1,4	ZNF662	112	4	NM_001134656	exon4	c.C1207T	p.R403X	CTTATTCGACATC	.	scavenged	Atlas-SNP
C11orf16	56673	hgsc.bcm.edu	37	11	8947179	8947179	+	Silent	SNP	G	G	A	rs2568077	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	60	142	0	0.526316	0	G|0.717;A|0.283	0.283	strong	C11orf16,NS,carcinoma,0,1	C11orf16	43	1	NM_020643	exon5	c.C1035T	p.D345D	CACACCGTCTTGT	.	PASS	Atlas-SNP
KRTAP10-5	386680	hgsc.bcm.edu	37	21	45999653	45999653	+	Missense_Mutation	SNP	C	C	G	rs464391	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	12	9	17	0	0.75	0	C|0.932;G|0.068	0.068	strong	KRTAP10-5,NS,carcinoma,0,1	KRTAP10-5	43	1	NM_198694	exon1	c.G803C	p.R268P	GCCAGGCGGGAGC	.	PASS	Atlas-SNP
AKD1	221264	hgsc.bcm.edu	37	6	109885475	109885475	+	Missense_Mutation	SNP	G	G	A	rs10499052	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	47	88	0	0.479592	0	G|0.809;A|0.191	0.191	strong	.	AKD1	223	.	NM_001145128	exon23	c.C2443T	p.P815S	ACTCAGGTAGTAC	.	PASS	Atlas-SNP
YTHDC2	64848	hgsc.bcm.edu	37	5	112868693	112868693	+	Silent	SNP	C	C	A	rs6594732	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	116	93	0	0.991453	0	C|0.678;A|0.322	0.322	strong	.	YTHDC2	118	.	NM_022828	exon5	c.C793A	p.R265R	GAGAGACGGGAAA	.	PASS	Atlas-SNP
IL17B	27190	hgsc.bcm.edu	37	5	148754153	148754153	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	36	47	0	0.507042	0	.	.	none	.	IL17B	15	.	NM_014443	exon3	c.G322A	p.D108N	TGGGGTCGTGGTT	.	PASS	Atlas-SNP
ZNF100	163227	hgsc.bcm.edu	37	19	21910451	21910451	+	Silent	SNP	A	A	C	rs75062026		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	34	71	0	0.515152	0	.	.	weak	.	ZNF100	62	.	NM_173531	exon5	c.T663G	p.T221T	ATGTTGAGTTAGG	.	PASS	Atlas-SNP
EVA1A	84141	hgsc.bcm.edu	37	2	75720664	75720664	+	Silent	SNP	G	G	A	rs6741778	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	41	52	0	0.61194	0	G|0.745;A|0.255	0.255	strong	.	.	.	.	NM_032181	exon4	c.C157T	p.L53L	TCACCAGAGCAGC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	66	106	0	0.5	0	C|0.896;G|0.104	0.104	strong	.	RNF175	40	.	NM_173662	exon9	c.G921C	p.L307F	GGCCACCAAATAA	.	PASS	Atlas-SNP
TSC22D2	9819	hgsc.bcm.edu	37	3	150128484	150128484	+	Silent	SNP	C	C	A	rs3749400	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	8	8	15	0	1	0	C|0.879;A|0.121	0.121	strong	.	TSC22D2	42	.	NM_014779	exon1	c.C1347A	p.V449V	GCAGGTCGCGCCT	.	PASS	Atlas-SNP
AKAP13	11214	hgsc.bcm.edu	37	15	86122779	86122779	+	Missense_Mutation	SNP	T	T	C	rs2061822	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	206	205	178	1	0.995146	0.00561798	T|0.368;C|0.632	0.632	strong	AKAP13_ENST00000394518,right_upper_lobe,carcinoma,-1,2	AKAP13	394	2	NM_007200	exon7	c.T1480C	p.W494R	ACTGTTTGGAAGA	.	PASS	Atlas-SNP
KIAA2018	205717	hgsc.bcm.edu	37	3	113376113	113376113	+	Silent	SNP	C	C	T	rs62265537		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	24	45	1	0.230769	0.0222222	.	.	weak	KIAA2018,rectum,carcinoma,0,1	KIAA2018	180	1	NM_001009899	exon7	c.G4416A	p.Q1472Q	CTGTTGCTGCTGC	.	scavenged	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	37	16	72992629	72992629	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	53	5	36	0	0.0943396	0	.	.	none	.	ZFHX3	404	.	NM_006885	exon2	c.G1416A	p.A472A	CTCCTCCGCCTCT	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1088835	1088835	+	Missense_Mutation	SNP	C	C	T	rs41389046	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	48	84	0	0.470588	0	C|0.932;T|0.068	0.068	strong	MUC2_ENST00000441003,colon,carcinoma,0,2	MUC2	614	2	NM_002457	exon26	c.C3620T	p.T1207I	AGGAGACCTGCAA	.	PASS	Atlas-SNP
PDE6A	5145	hgsc.bcm.edu	37	5	149264117	149264117	+	Missense_Mutation	SNP	T	T	C	rs149380104	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	227	161	165	1	0.709251	0.00606061	T|1.000;C|0.000	0.000	strong	.	PDE6A	98	.	NM_000440	exon16	c.A1952G	p.N651S	CGACGATTGAGGT	.	PASS	Atlas-SNP
ARHGAP10	79658	hgsc.bcm.edu	37	4	148834245	148834245	+	Missense_Mutation	SNP	G	G	A	rs115753644	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	333	161	348	0	0.483483	0	G|0.999;A|0.001	0.001	strong	ARHGAP10,NS,carcinoma,-2,1	ARHGAP10	92	1	NM_024605	exon13	c.G1183A	p.G395R	AAGATGGGGTTCA	.	PASS	Atlas-SNP
BLM	641	hgsc.bcm.edu	37	15	91346923	91346923	+	Silent	SNP	C	C	A	rs2227934	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	37	96	0	0.493333	0	C|0.848;A|0.152	0.152	strong	.	BLM	122	.	NM_000057	exon18	c.C3531A	p.A1177A	TAAAGCCCAAACT	.	PASS	Atlas-SNP
DYNC1H1	1778	hgsc.bcm.edu	37	14	102453073	102453073	+	Silent	SNP	A	A	G	rs17512054	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	171	91	163	0	0.532164	0	A|0.993;G|0.007	0.007	strong	.	DYNC1H1	395	.	NM_001376	exon8	c.A2511G	p.A837A	CTTAGCAGAGACT	.	PASS	Atlas-SNP
SPRY2	10253	hgsc.bcm.edu	37	13	80911525	80911525	+	Missense_Mutation	SNP	G	G	A	rs504122	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	53	77	0	0.434426	0	G|0.726;N|0.000	.	strong	.	SPRY2	28	.	NM_005842	exon2	c.C316T	p.P106S	ACAGAGGGGCTCG	.	PASS	Atlas-SNP
KIAA1279	26128	hgsc.bcm.edu	37	10	70775959	70775959	+	Silent	SNP	C	C	T	rs35893997	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	66	139	0	0.458333	0	C|0.954;T|0.046	0.046	strong	.	KIAA1279	35	.	NM_015634	exon7	c.C1653T	p.A551A	AGTTGCCCGTCTC	.	PASS	Atlas-SNP
SPTB	6710	hgsc.bcm.edu	37	14	65270391	65270391	+	Silent	SNP	G	G	A	rs11623956	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	94	144	0	0.467662	0	G|0.945;A|0.055	0.055	strong	.	SPTB	378	.	NM_001024858	exon3	c.C408T	p.H136H	AATGTCGTGGGAG	.	PASS	Atlas-SNP
MUM1	84939	hgsc.bcm.edu	37	19	1370675	1370675	+	Silent	SNP	C	C	G	rs12608765	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	164	138	0	0.993939	0	C|0.666;G|0.334	0.334	strong	MUM1,NS,carcinoma,0,2	MUM1	54	2	NM_032853	exon12	c.C1587G	p.V529V	GGACGTCTTGGGG	.	PASS	Atlas-SNP
FHAD1	114827	hgsc.bcm.edu	37	1	15687059	15687059	+	Missense_Mutation	SNP	A	A	G	rs4661330	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	43	68	0	0.387387	0	A|0.740;G|0.260	0.260	strong	.	FHAD1	78	.	NM_052929	exon21	c.A2756G	p.E919G	GGTTTGAAGAAGA	.	PASS	Atlas-SNP
GEMIN4	50628	hgsc.bcm.edu	37	17	649232	649232	+	Missense_Mutation	SNP	C	C	T	rs3744741	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	28	37	0	0.622222	0	C|0.765;T|0.235	0.235	strong	.	GEMIN4	116	.	NM_015721	exon2	c.G2051A	p.R684Q	TCCTCTCGGCACG	.	PASS	Atlas-SNP
EVC2	132884	hgsc.bcm.edu	37	4	5624670	5624670	+	Missense_Mutation	SNP	T	T	C	rs730469	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	79	103	0	0.5	0	T|0.515;C|0.485	0.485	strong	EVC2,colon,carcinoma,+2,1	EVC2	202	1	NM_147127	exon14	c.A2095G	p.T699A	CAACCGTTCGGAA	.	PASS	Atlas-SNP
PLCH1	23007	hgsc.bcm.edu	37	3	155199598	155199598	+	Missense_Mutation	SNP	C	C	T	rs150381264	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	197	93	173	0	0.472081	0	C|0.997;T|0.003	0.003	strong	PLCH1,NS,carcinoma,0,1	PLCH1	406	1	NM_001130960	exon23	c.G4241A	p.R1414H	GAAGGGCGGAGGG	.	PASS	Atlas-SNP
ZNF99	7652	hgsc.bcm.edu	37	19	22941191	22941191	+	Missense_Mutation	SNP	T	T	A	rs11667397	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	23	12	16	0	0.521739	0	T|0.834;A|0.166	0.166	strong	.	ZNF99	273	.	NM_001080409	exon4	c.A1520T	p.K507I	CAAGGTTTCTCTT	.	PASS	Atlas-SNP
PCDHGB6	56100	hgsc.bcm.edu	37	5	140787850	140787850	+	Silent	SNP	C	C	G	rs62378453	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	95	186	0	0.450237	0	C|0.906;G|0.094	0.094	strong	PCDHGB6,NS,carcinoma,0,1	PCDHGB6	120	1	NM_032100	exon1	c.C81G	p.P27P	CTACCCCACCCTG	.	PASS	Atlas-SNP
WASL	8976	hgsc.bcm.edu	37	7	123349251	123349251	+	Silent	SNP	T	T	C	rs3195229	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	322	143	292	0	0.444099	0	T|0.998;C|0.002	0.002	strong	.	WASL	70	.	NM_003941	exon2	c.A144G	p.L48L	TGCATATAACTGC	.	PASS	Atlas-SNP
SPPL2C	162540	hgsc.bcm.edu	37	17	43924231	43924231	+	Silent	SNP	G	G	A	rs12373140	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	26	42	0	0.42623	0	C|0.852;T|0.148	.	strong	.	.	.	.	NM_175882	exon1	c.G1959A	p.Q653Q	TGCCCAGGCCCAG	.	PASS	Atlas-SNP
KLHDC8A	55220	hgsc.bcm.edu	37	1	205308335	205308335	+	Silent	SNP	G	G	A	rs1105385	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	19	34	0	0.395833	0	A|0.232;C|0.004	0.232	strong	.	KLHDC8A	31	.	NM_018203	exon4	c.C744T	p.F248F	CATGTCGAACACG	.	PASS	Atlas-SNP
CDH15	1013	hgsc.bcm.edu	37	16	89245890	89245890	+	Missense_Mutation	SNP	G	G	T	rs2287359	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	80	131	0	0.559441	0	G|0.915;T|0.085	0.085	strong	.	CDH15	54	.	NM_004933	exon2	c.G109T	p.A37S	CGCCGGGCGCCTG	.	PASS	Atlas-SNP
SIGLEC11	114132	hgsc.bcm.edu	37	19	50462298	50462298	+	Missense_Mutation	SNP	G	G	C	rs62113133	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	49	141	0	0.342657	0	G|0.826;C|0.174	0.174	strong	.	SIGLEC11	70	.	NM_052884	exon6	c.C1094G	p.A365G	CTGTTTGCTTGGG	.	PASS	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	37	22	38120343	38120343	+	Missense_Mutation	SNP	A	A	G	rs71317067	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	450	16	302	7	0.0355556	0.0231788	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
CLCA1	1179	hgsc.bcm.edu	37	1	86961245	86961245	+	Missense_Mutation	SNP	C	C	T	rs150256560	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	3	134	0	0.0192308	0	C|1.000;T|0.000	0.000	strong	CLCA1,NS,carcinoma,0,1	CLCA1	109	1	NM_001285	exon12	c.C2000T	p.T667M	ATGACACGAATGG	.	scavenged	Atlas-SNP
DYNC2H1	79659	hgsc.bcm.edu	37	11	103052558	103052558	+	Silent	SNP	T	T	C	rs11225584	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	114	109	0	0.991304	0	T|0.871;C|0.129	0.129	strong	.	DYNC2H1	246	.	NM_001377	exon40	c.T6420C	p.N2140N	AAATAATCTTGAA	.	PASS	Atlas-SNP
TMPRSS6	164656	hgsc.bcm.edu	37	22	37499386	37499386	+	Silent	SNP	C	C	T	rs11704654	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	51	84	0	0.476636	0	C|0.825;T|0.175	0.175	strong	TMPRSS6,NS,carcinoma,-2,2	TMPRSS6	99	2	NM_153609	exon2	c.G99A	p.P33P	CCCCTCCGGCTCC	.	PASS	Atlas-SNP
ITGAX	3687	hgsc.bcm.edu	37	16	31367318	31367318	+	Missense_Mutation	SNP	T	T	C	rs2230424	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	36	72	0	0.418605	0	T|0.924;C|0.076	0.076	strong	.	ITGAX	198	.	NM_000887	exon2	c.T142C	p.W48R	AACTCCTGGTGAG	.	PASS	Atlas-SNP
APOB	338	hgsc.bcm.edu	37	2	21231524	21231524	+	Missense_Mutation	SNP	G	G	A	rs676210	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	323	149	291	1	0.4613	0.00343643	G|0.731;A|0.269	0.269	strong	.	APOB	761	.	NM_000384	exon26	c.C8216T	p.P2739L	AATTCTGGTATGT	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1017773	1017773	+	Silent	SNP	G	G	A	rs57384288	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	837	146	577	34	0.174433	0.0589255	G|0.500;A|0.500	0.500	strong	MUC6,NS,carcinoma,0,1	MUC6	408	1	NM_005961	exon31	c.C5028T	p.S1676S	GGTCCCGCTGGTG	.	scavenged	Atlas-SNP
CHAT	1103	hgsc.bcm.edu	37	10	50830171	50830171	+	Missense_Mutation	SNP	C	C	T	rs8178990	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	46	92	0	0.575	0	C|0.955;T|0.045	0.045	strong	.	CHAT	162	.	NM_020549	exon5	c.C727T	p.L243F	GGTGTACTCAGCT	.	PASS	Atlas-SNP
ARHGAP42	143872	hgsc.bcm.edu	37	11	100820663	100820663	+	Missense_Mutation	SNP	G	G	A	rs17647207	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	32	99	0	0.405063	0	G|0.949;A|0.051	0.051	strong	.	ARHGAP42	32	.	NM_152432	exon12	c.G1138A	p.A380T	CTGCCTGCCATTA	.	PASS	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	37	7	48559696	48559696	+	Silent	SNP	T	T	C	rs61378229	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	73	137	0	0.467949	0	T|0.945;C|0.055	0.055	strong	.	ABCA13	1192	.	NM_152701	exon53	c.T13857C	p.C4619C	ATTCTGTCTTGGT	.	PASS	Atlas-SNP
FLNB	2317	hgsc.bcm.edu	37	3	58112488	58112488	+	Silent	SNP	C	C	T	rs2362904	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	71	127	0	0.546154	0	C|0.489;T|0.511	0.511	strong	.	FLNB	430	.	NM_001457	exon24	c.C4221T	p.P1407P	CATCCCCGGTGAG	.	PASS	Atlas-SNP
PPFIA4	8497	hgsc.bcm.edu	37	1	203028371	203028371	+	Missense_Mutation	SNP	G	G	T	rs61732315	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	240	237	245	0	0.9875	0	G|0.878;T|0.122	0.122	strong	.	PPFIA4	139	.	NM_015053	exon7	c.G955T	p.A319S	ACCCAGGCAGAGA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	180	92	166	0	0.511111	0	C|0.498;N|0.000	0.498	strong	.	DNAH3	1142	.	NM_017539	exon44	c.A6516G	p.K2172K	GTCTTTTTTGTCA	.	PASS	Atlas-SNP
COL14A1	7373	hgsc.bcm.edu	37	8	121298156	121298156	+	Missense_Mutation	SNP	G	G	C	rs17833992	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	81	258	0	0.421875	0	G|0.870;C|0.130	0.130	strong	.	COL14A1	292	.	NM_021110	exon33	c.G4024C	p.V1342L	CAAACTGTTACTT	.	PASS	Atlas-SNP
SUPT20HL1	100130302	hgsc.bcm.edu	37	X	24382950	24382950	+	Silent	SNP	G	G	A	rs16982979	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	175	160	1	0.94086	0.00625	0|0.011;A|0.158	0.158	strong	.	.	.	.	NM_001136234	exon1	c.G2073A	p.Q691Q	TCCGCAGGGCTCG	.	PASS	Atlas-SNP
SLC38A8	146167	hgsc.bcm.edu	37	16	84070500	84070500	+	Silent	SNP	C	C	G	rs1317524	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	30	55	0	0.461538	0	C|0.617;G|0.383	0.383	strong	.	SLC38A8	60	.	NM_001080442	exon2	c.G195C	p.S65S	GACCAACGAGACC	.	PASS	Atlas-SNP
DAGLB	221955	hgsc.bcm.edu	37	7	6476104	6476104	+	Missense_Mutation	SNP	G	G	A	rs117103601	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	65	150	0	0.454545	0	G|0.976;A|0.024	0.024	strong	DAGLB,NS,haematopoietic_neoplasm,0,1	DAGLB	74	1	NM_139179	exon3	c.C308T	p.A103V	AACAGCGCCAGGC	.	PASS	Atlas-SNP
TGS1	96764	hgsc.bcm.edu	37	8	56698365	56698365	+	Missense_Mutation	SNP	G	G	A	rs61753685	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	226	112	201	0	0.495575	0	G|0.995;A|0.005	0.005	strong	.	TGS1	66	.	NM_024831	exon3	c.G254A	p.S85N	ATGAAAGTGAACT	.	PASS	Atlas-SNP
GSTO1	9446	hgsc.bcm.edu	37	10	106022789	106022789	+	Missense_Mutation	SNP	C	C	A	rs4925	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	4	98	0	0.0701754	0	C|0.778;A|0.222	0.222	strong	GSTO1,NS,carcinoma,0,1	GSTO1	14	1	NM_004832	exon4	c.C419A	p.A140D	ACTATGCTGGCCT	.	PASS	Atlas-SNP
C20orf111	51526	hgsc.bcm.edu	37	20	42826379	42826379	+	Silent	SNP	C	C	T	rs11274	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	46	21	33	0	0.456522	0	C|0.685;N|0.000	.	strong	.	C20orf111	28	.	NM_016470	exon4	c.G192A	p.G64G	TGTAGACCTAAAG	.	PASS	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	37	11	62295361	62295361	+	Missense_Mutation	SNP	C	C	A	rs145871196	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	48	82	0	0.424779	0	C|0.968;A|0.032	0.032	strong	.	AHNAK	532	.	NM_001620	exon5	c.G6528T	p.E2176D	GTGCATCTCAGGC	.	PASS	Atlas-SNP
CALR3	125972	hgsc.bcm.edu	37	19	16593318	16593318	+	Silent	SNP	C	C	T	rs118131979	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	66	161	0	0.492537	0	C|0.990;T|0.010	0.010	strong	.	CALR3	41	.	NM_145046	exon7	c.G861A	p.T287T	ATACTGCGTCAAA	.	PASS	Atlas-SNP
MKL1	57591	hgsc.bcm.edu	37	22	40814500	40814500	+	Missense_Mutation	SNP	T	T	C	rs878756	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	190	90	145	0	0.473684	0	T|0.474;C|0.526	0.526	strong	MKL1,NS,carcinoma,0,1	MKL1	69	1	NM_020831	exon12	c.A1942G	p.S648G	TGAGGCTGGGGCC	.	PASS	Atlas-SNP
CDH15	1013	hgsc.bcm.edu	37	16	89246670	89246670	+	Silent	SNP	T	T	C	rs59865771	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	64	128	0	0.512	0	T|0.694;C|0.306	0.306	strong	.	CDH15	54	.	NM_004933	exon3	c.T264C	p.D88D	CGTGGATGAGGAG	.	PASS	Atlas-SNP
APOBR	55911	hgsc.bcm.edu	37	16	28508069	28508069	+	Silent	SNP	C	C	T	rs151174	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	71	162	0	0.464052	0	C|0.747;T|0.253	0.253	strong	.	APOBR	89	.	NM_018690	exon2	c.C1707T	p.G569G	GGGGGGCGCCCAG	.	PASS	Atlas-SNP
THNSL2	55258	hgsc.bcm.edu	37	2	88474256	88474256	+	Missense_Mutation	SNP	G	G	A	rs35541720	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	190	98	188	0	0.515789	0	G|0.988;A|0.012	0.012	strong	.	THNSL2	66	.	NM_018271	exon2	c.G322A	p.V108I	CATGGCGTCACAT	.	PASS	Atlas-SNP
TMCO4	255104	hgsc.bcm.edu	37	1	20097822	20097822	+	Silent	SNP	G	G	A	rs11551819	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	20	46	0	0.444444	0	G|0.888;A|0.112	0.112	strong	.	TMCO4	46	.	NM_181719	exon5	c.C333T	p.D111D	CGGGTCGTCCTTC	.	PASS	Atlas-SNP
CRTAC1	55118	hgsc.bcm.edu	37	10	99696003	99696003	+	Silent	SNP	G	G	A	rs35027739	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	62	97	0	0.984127	0	G|0.861;A|0.139	0.139	strong	.	CRTAC1	86	.	NM_001206528	exon3	c.C345T	p.I115I	GACCCCGATGGCG	.	PASS	Atlas-SNP
PAXIP1	22976	hgsc.bcm.edu	37	7	154760369	154760369	+	Silent	SNP	A	A	G	rs935037	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	40	62	0	0.506329	0	A|0.380;G|0.620	0.620	strong	.	PAXIP1	150	.	NM_007349	exon7	c.T1542C	p.L514L	CTGGGCAAGCTGC	.	PASS	Atlas-SNP
CSTA	1475	hgsc.bcm.edu	37	3	122060404	122060404	+	Missense_Mutation	SNP	C	C	T	rs34173813	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	42	77	0	0.567568	0	T|0.104;G|0.000;C|0.895	0.104	strong	.	CSTA	11	.	NM_005213	exon3	c.C287T	p.T96M	AGCTGACGGGCTT	.	PASS	Atlas-SNP
C17orf58	284018	hgsc.bcm.edu	37	17	65988049	65988049	+	Missense_Mutation	SNP	T	T	C	rs9891146	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	242	117	230	0	0.483471	0	T|0.487;C|0.513	0.513	strong	C17orf58_ENST00000449250,NS,carcinoma,0,1	C17orf58	15	1	NM_181655	exon3	c.A274G	p.I92V	TATGAATTGCACC	.	PASS	Atlas-SNP
C1orf94	84970	hgsc.bcm.edu	37	1	34663180	34663180	+	Silent	SNP	G	G	A	rs3795412	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	59	91	0	0.531532	0	G|0.833;A|0.167	0.167	strong	.	C1orf94	156	.	NM_001134734	exon2	c.G675A	p.R225R	GGACAGGGGCCGC	.	PASS	Atlas-SNP
SMOX	54498	hgsc.bcm.edu	37	20	4158164	4158164	+	Silent	SNP	C	C	A	rs11552911	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	41	48	0	0.5125	0	C|0.950;A|0.050	0.050	strong	.	SMOX	119	.	NM_175839	exon3	c.C375A	p.T125T	CCTTACCAACCAC	.	PASS	Atlas-SNP
SYCE1	93426	hgsc.bcm.edu	37	10	135370633	135370633	+	Silent	SNP	C	C	T	rs8181356	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	246	73	175	1	0.296748	0.00571429	C|0.889;T|0.111	0.111	strong	SYCE1_ENST00000343131,NS,carcinoma,0,2	SYCE1	81	2	NM_001143763	exon7	c.G402A	p.K134K	TCTCTCCTTGCAC	.	scavenged	Atlas-SNP
CEPT1	10390	hgsc.bcm.edu	37	1	111726869	111726869	+	Silent	SNP	G	G	A	rs3795823	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	95	175	0	0.424107	0	G|0.797;N|0.000	.	strong	CEPT1,colon,carcinoma,+1,1	CEPT1	25	1	NM_006090	exon9	c.G1188A	p.A396A	GATTGCGTCTCAC	.	PASS	Atlas-SNP
KCNS3	3790	hgsc.bcm.edu	37	2	18113623	18113623	+	Missense_Mutation	SNP	A	A	G	rs4832524	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	150	139	1	0.993378	0.00719424	A|0.284;G|0.716	0.716	strong	.	KCNS3	85	.	NM_002252	exon3	c.A1348G	p.T450A	ATGCACACCTTCA	.	PASS	Atlas-SNP
OR51M1	390059	hgsc.bcm.edu	37	11	5411398	5411398	+	Missense_Mutation	SNP	T	T	G	rs2736531	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	61	138	0	0.472868	0	T|0.663;G|0.337	0.337	strong	.	OR51M1	60	.	NM_001004756	exon1	c.T770G	p.L257R	CTCCTCTCTGTGC	.	PASS	Atlas-SNP
TUBA1A	7846	hgsc.bcm.edu	37	12	49580180	49580180	+	Silent	SNP	T	T	C	rs1056875	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	55	139	0	0.458333	0	T|0.550;C|0.450	0.450	strong	.	TUBA1A	32	.	NM_001270399	exon3	c.A288G	p.K96K	ATCTTCTTTGCCT	.	PASS	Atlas-SNP
SIGLEC1	6614	hgsc.bcm.edu	37	20	3679928	3679928	+	Silent	SNP	G	G	A	rs74423567	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	52	85	0	0.619048	0	G|0.966;A|0.034	0.034	strong	.	SIGLEC1	210	.	NM_023068	exon7	c.C1707T	p.D569D	GCCGGCGTCAGTG	.	PASS	Atlas-SNP
STT3A	3703	hgsc.bcm.edu	37	11	125479363	125479363	+	Silent	SNP	G	G	A	rs2241502	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	257	139	244	0	0.540856	0	G|0.582;A|0.418	0.418	strong	STT3A,NS,carcinoma,+1,1	STT3A	52	1	NM_152713	exon10	c.G996A	p.S332S	CTACTCGCTGCTG	.	PASS	Atlas-SNP
NOTCH4	4855	hgsc.bcm.edu	37	6	32188640	32188640	+	Missense_Mutation	SNP	T	T	C	rs71556915	alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	46	114	0	0.433962	0	CCC|0.500;TCT|0.500	.	alt	NOTCH4,NS,carcinoma,-1,1	NOTCH4	201	1	NM_004557	exon5	c.A815G	p.D272G	TCACAGTCTGGGC	.	PASS	Atlas-SNP
DLEC1	9940	hgsc.bcm.edu	37	3	38081031	38081031	+	Silent	SNP	A	A	T	rs7616776	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	32	80	0	0.415584	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
AMZ1	155185	hgsc.bcm.edu	37	7	2748758	2748758	+	Silent	SNP	G	G	C	rs59438885	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	92	150	0	0.474227	0	A|0.000;C|0.164;G|0.836	0.164	strong	.	AMZ1	41	.	NM_133463	exon5	c.G651C	p.S217S	GAAGTCGGGGCCC	.	PASS	Atlas-SNP
MAML3	55534	hgsc.bcm.edu	37	4	140811081	140811081	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	3	99	0	0.0306122	0	.	.	none	MAML3_ENST00000509479,NS,carcinoma,0,2	MAML3	192	2	NM_018717	exon2	c.G1509A	p.Q503Q	CTGCTGCTGCTGC	.	scavenged	Atlas-SNP
TENM2	57451	hgsc.bcm.edu	37	5	167674472	167674472	+	Silent	SNP	G	G	A	rs17070023	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	160	111	0	1	0	G|0.910;A|0.090	0.090	strong	ODZ2_ENST00000519204,NS,carcinoma,+1,6	.	.	6	NM_001122679	exon27	c.G6501A	p.T2167T	GATGACGGTGCAA	.	PASS	Atlas-SNP
CCDC129	223075	hgsc.bcm.edu	37	7	31594508	31594508	+	Silent	SNP	C	C	T	rs2286711	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	78	171	0	0.4875	0	C|0.772;T|0.228	0.228	strong	.	CCDC129	127	.	NM_001257968	exon4	c.C327T	p.D109D	CATTGACCGCACT	.	PASS	Atlas-SNP
FRRS1	391059	hgsc.bcm.edu	37	1	100182997	100182997	+	Missense_Mutation	SNP	G	G	C	rs149801998	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	39	87	0	0.40625	0	G|0.999;C|0.001	0.001	strong	.	FRRS1	50	.	NM_001013660	exon11	c.C1205G	p.A402G	AAGAAAGCTTTTG	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144993377	144993377	+	Silent	SNP	A	A	G	rs6992333	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	46	101	0	0.429907	0	A|0.544;G|0.456	0.456	strong	.	PLEC	1144	.	NM_201380	exon32	c.T11023C	p.L3675L	GGCGCAAGCCCGT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	176	166	0	0.99435	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
TTN	7273	hgsc.bcm.edu	37	2	179395560	179395560	+	Missense_Mutation	SNP	G	G	A	rs16866380	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	366	191	275	0	0.521858	0	G|0.921;A|0.079	0.079	strong	.	TTN	18412	.	NM_001267550	exon358	c.C105782T	p.P35261L	GCTTTCGGGTGAG	.	PASS	Atlas-SNP
PGM3	5238	hgsc.bcm.edu	37	6	83880167	83880167	+	Missense_Mutation	SNP	C	C	T	rs473267	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	198	201	0	0.99	0	C|0.638;N|0.000	.	strong	.	PGM3	39	.	NM_001199917	exon13	c.G1480A	p.D494N	CAGCATCGGTAGT	.	PASS	Atlas-SNP
KCNU1	157855	hgsc.bcm.edu	37	8	36767024	36767024	+	Missense_Mutation	SNP	T	T	C	rs28608091	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	69	129	0	0.492857	0	T|0.627;C|0.373	0.373	strong	.	KCNU1	359	.	NM_001031836	exon21	c.T2302C	p.W768R	TTTCTCTGGAATT	.	PASS	Atlas-SNP
RNF113B	140432	hgsc.bcm.edu	37	13	98829217	98829217	+	Missense_Mutation	SNP	C	C	T	rs16955011	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	41	23	49	0	0.560976	0	C|0.904;T|0.096	0.096	strong	.	RNF113B	41	.	NM_178861	exon1	c.G274A	p.V92M	ACACCACGTCGAG	.	PASS	Atlas-SNP
CAPN10	11132	hgsc.bcm.edu	37	2	241533345	241533345	+	Silent	SNP	C	C	T	rs13007017	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	76	146	0	0.449704	0	C|0.961;T|0.039	0.039	strong	.	CAPN10	105	.	NM_023085	exon5	c.C711T	p.F237F	GGAGTTCCATGCC	.	PASS	Atlas-SNP
ABCA3	21	hgsc.bcm.edu	37	16	2367336	2367336	+	Silent	SNP	G	G	A	rs13332514	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	39	67	0	0.428571	0	G|0.869;A|0.131	0.131	strong	.	ABCA3	176	.	NM_001089	exon10	c.C1059T	p.F353F	GATGGCGAAGCAC	.	PASS	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39139370	39139370	+	Missense_Mutation	SNP	G	G	A	rs9908304	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	34	68	0	0.419753	0	G|0.630;A|0.370	0.370	strong	.	KRT40	27	.	NM_182497	exon4	c.C458T	p.T153M	GCTTTCGTGCATA	.	PASS	Atlas-SNP
TAS2R5	54429	hgsc.bcm.edu	37	7	141490325	141490325	+	Missense_Mutation	SNP	G	G	A	rs147887777	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	236	135	211	1	0.572034	0.00473934	G|0.999;A|0.001	0.001	strong	TAS2R5,colon,carcinoma,0,1	TAS2R5	33	1	NM_018980	exon1	c.G164A	p.R55Q	GCTGCCGATTTCT	.	PASS	Atlas-SNP
GLRA3	8001	hgsc.bcm.edu	37	4	175688141	175688141	+	Silent	SNP	G	G	A	rs12651268	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	60	110	0	0.535714	0	G|0.704;A|0.296	0.296	strong	.	GLRA3	76	.	NM_001042543	exon3	c.C240T	p.S80S	GCCAAAGCTGTTG	.	PASS	Atlas-SNP
MYBPH	4608	hgsc.bcm.edu	37	1	203143725	203143725	+	Missense_Mutation	SNP	G	G	C	rs2642531	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	389	174	316	1	0.447301	0.00316456	G|0.736;C|0.264	0.264	strong	.	MYBPH	41	.	NM_004997	exon3	c.C341G	p.A114G	TCCGAGGCTGAGG	.	PASS	Atlas-SNP
EVA1C	59271	hgsc.bcm.edu	37	21	33830006	33830006	+	Silent	SNP	G	G	A	rs55878843	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	75	149	0	0.460123	0	G|0.948;A|0.052	0.052	strong	.	.	.	.	NM_058187	exon3	c.G459A	p.L153L	CCTCCTGGTCTCC	.	PASS	Atlas-SNP
PROM2	150696	hgsc.bcm.edu	37	2	95947099	95947099	+	Missense_Mutation	SNP	G	G	A	rs72819488	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	70	71	0	0.985915	0	G|0.895;A|0.105	0.105	strong	.	PROM2	78	.	NM_001165977	exon12	c.G1537A	p.G513S	GAGAACGGCGAGC	.	PASS	Atlas-SNP
DSG4	147409	hgsc.bcm.edu	37	18	28968371	28968371	+	Silent	SNP	G	G	A	rs16959856	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	78	99	0	1	0	G|0.274;A|0.726	0.726	strong	DSG4_ENST00000359747,NS,malignant_melanoma,+1,4	DSG4	343	4	NM_001134453	exon4	c.G258A	p.R86R	ATACCGGATTTCT	.	PASS	Atlas-SNP
ABCF2	10061	hgsc.bcm.edu	37	7	150916228	150916228	+	Silent	SNP	G	G	A	rs6949587	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	63	94	0	0.529412	0	G|0.611;A|0.389	0.389	strong	.	ABCF2	54	.	NM_007189	exon8	c.C939T	p.Y313Y	CTTCACGTACTGA	.	PASS	Atlas-SNP
KIAA1671	85379	hgsc.bcm.edu	37	22	25570273	25570273	+	Silent	SNP	G	G	A	rs5760891	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	71	139	0	0.482993	0	G|0.898;A|0.102	0.102	strong	.	KIAA1671	28	.	NM_001145206	exon6	c.G4716A	p.L1572L	CCGTTTGTCTTCT	.	PASS	Atlas-SNP
KANSL1	284058	hgsc.bcm.edu	37	17	44248769	44248769	+	Silent	SNP	T	T	C	rs1881193	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	528	222	431	1	0.420455	0.00232019	T|0.841;C|0.159	0.159	strong	.	.	.	.	NM_001193466	exon2	c.A741G	p.R247R	TGATAATCTACTG	.	PASS	Atlas-SNP
TPSD1	23430	hgsc.bcm.edu	37	16	1306671	1306671	+	Silent	SNP	G	G	A	rs71384641		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	88	149	0	0.508671	0	G|1.000;|0.000	.	weak	.	TPSD1	47	.	NM_012217	exon2	c.G237A	p.A79A	AACCGCGGCGCAC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179582327	179582327	+	Missense_Mutation	SNP	C	C	T	rs13390491	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	349	183	329	0	0.524355	0	C|0.774;T|0.226	0.226	strong	.	TTN	18412	.	NM_001267550	exon87	c.G25274A	p.S8425N	ATGTGGCTCTGGT	.	PASS	Atlas-SNP
DPY19L2	283417	hgsc.bcm.edu	37	12	63954304	63954304	+	Silent	SNP	T	T	C	rs1054891	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	102	179	0	0.507463	0	T|0.532;C|0.468	0.468	strong	DPY19L2,colon,carcinoma,0,1	DPY19L2	97	1	NM_173812	exon22	c.A2265G	p.L755L	AACCTTTAATACT	.	PASS	Atlas-SNP
PKP1	5317	hgsc.bcm.edu	37	1	201282573	201282573	+	Missense_Mutation	SNP	A	A	G	rs35507614	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	296	142	271	0	0.47973	0	A|0.887;G|0.113	0.113	strong	.	PKP1	127	.	NM_001005337	exon3	c.A586G	p.I196V	AAGGCCATAAAGA	.	PASS	Atlas-SNP
LLGL2	3993	hgsc.bcm.edu	37	17	73567846	73567846	+	Missense_Mutation	SNP	C	C	T	rs1661715	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	29	51	0	0.47541	0	C|0.622;T|0.378	0.378	strong	LLGL2_ENST00000167462,rectum,carcinoma,0,6	LLGL2	155	6	NM_004524	exon18	c.C2275T	p.P759S	GATGAGCCTGTGC	.	PASS	Atlas-SNP
KCNK10	54207	hgsc.bcm.edu	37	14	88693725	88693725	+	Silent	SNP	G	G	C	rs2277524	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	55	108	0	0.514019	0	G|0.690;C|0.310	0.310	strong	.	KCNK10	273	.	NM_138318	exon4	c.C675G	p.V225V	TCGAAAGACCTTC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	59	114	0	0.483607	0	C|0.608;T|0.392	0.392	strong	.	ATP8B2	158	.	NM_020452	exon21	c.C2277T	p.S759S	CCGCTCCGTAGGC	.	PASS	Atlas-SNP
ABCF1	23	hgsc.bcm.edu	37	6	30545879	30545879	+	Silent	SNP	A	A	G	rs113473909	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	47	94	0	0.505376	0	A|0.993;G|0.007	0.007	strong	.	ABCF1	61	.	NM_001090	exon4	c.A243G	p.K81K	CCGAAAAGGCAGG	.	PASS	Atlas-SNP
IRS2	8660	hgsc.bcm.edu	37	13	110436232	110436232	+	Silent	SNP	G	G	A	rs3742210	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	25	14	21	0	0.56	0	G|0.422;A|0.578	0.578	strong	.	IRS2	44	.	NM_003749	exon1	c.C2169T	p.S723S	GCCCCCGCTCGCC	.	PASS	Atlas-SNP
C17orf98	388381	hgsc.bcm.edu	37	17	36997503	36997503	+	Missense_Mutation	SNP	T	T	C	rs61752602	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	37	83	0	0.425287	0	T|0.971;C|0.029	0.029	strong	C17orf98,NS,carcinoma,0,1	C17orf98	34	1	NM_001080465	exon1	c.A140G	p.Q47R	TAGTCCTGCTGCG	.	PASS	Atlas-SNP
H2AFV	94239	hgsc.bcm.edu	37	7	44874113	44874113	+	Missense_Mutation	SNP	T	T	C	rs1802437	bycluster;by2hit2allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	11	156	0	0.0658683	0	T|0.999;C|0.001	0.001	weak	.	H2AFV	14	.	NM_012412	exon5	c.A374G	p.Q125R	GTTTTCTGCTGTC	.	PASS	Atlas-SNP
CGNL1	84952	hgsc.bcm.edu	37	15	57835903	57835903	+	Missense_Mutation	SNP	T	T	G	rs1620402	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	70	117	0	0.440252	0	A|0.000;G|0.296;T|0.704	0.296	strong	.	CGNL1	125	.	NM_032866	exon15	c.T3301G	p.L1101V	GAGCAGTTGAGGA	.	PASS	Atlas-SNP
TCEANC	170082	hgsc.bcm.edu	37	X	13681679	13681679	+	Missense_Mutation	SNP	G	G	T	rs5935650	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	7	84	0	0.059322	0	G|0.415;0|0.026	.	strong	.	TCEANC	29	.	NM_152634	exon4	c.G1142T	p.W381L	TGTGCTGGTAACT	.	PASS	Atlas-SNP
PADI1	29943	hgsc.bcm.edu	37	1	17555508	17555508	+	Silent	SNP	G	G	T	rs2977234	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	35	74	0	0.492958	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
KCNG4	93107	hgsc.bcm.edu	37	16	84256422	84256422	+	Missense_Mutation	SNP	C	C	T	rs4782905	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	63	83	0	0.492188	0	C|0.945;T|0.055	0.055	strong	.	KCNG4	71	.	NM_172347	exon3	c.G961A	p.E321K	GCCTCTCGCCGTC	.	PASS	Atlas-SNP
MCCD1	401250	hgsc.bcm.edu	37	6	31496949	31496949	+	Missense_Mutation	SNP	C	C	T	rs78957773	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	36	78	0	0.493151	0	C|0.973;T|0.027	0.027	strong	.	MCCD1	3	.	NM_001011700	exon1	c.C158T	p.T53M	AGATGACGTCCCC	.	PASS	Atlas-SNP
VN1R1	57191	hgsc.bcm.edu	37	19	57967049	57967049	+	Missense_Mutation	SNP	G	G	T	rs61744949	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	307	135	300	0	0.439739	0	G|0.675;T|0.325	0.325	strong	.	VN1R1	48	.	NM_020633	exon1	c.C806A	p.A269D	GCTCTGGCTTCCT	.	PASS	Atlas-SNP
BSN	8927	hgsc.bcm.edu	37	3	49701983	49701983	+	Silent	SNP	G	G	A	rs9858542	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	37	14	41	0	0.378378	0	G|0.749;A|0.251	0.251	strong	BSN,NS,carcinoma,+1,1	BSN	272	1	NM_003458	exon9	c.G11736A	p.T3912T	ACTGACGGAAGGT	.	PASS	Atlas-SNP
SIGLEC1	6614	hgsc.bcm.edu	37	20	3672240	3672240	+	Silent	SNP	G	G	A	rs111969446	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	32	53	0	0.615385	0	G|0.985;A|0.015	0.015	strong	.	SIGLEC1	210	.	NM_023068	exon17	c.C4338T	p.R1446R	CACCACGCGTGCA	.	PASS	Atlas-SNP
GLB1L2	89944	hgsc.bcm.edu	37	11	134244123	134244123	+	Silent	SNP	C	C	G	rs3741097	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	183	88	167	0	0.480874	0	C|0.793;G|0.207	0.207	strong	.	GLB1L2	79	.	NM_138342	exon17	c.C1680G	p.T560T	CTCCACCCCTTGT	.	PASS	Atlas-SNP
HEATR4	399671	hgsc.bcm.edu	37	14	73961982	73961982	+	Missense_Mutation	SNP	C	C	T	rs76429074	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	66	153	0	0.431373	0	C|0.982;T|0.018	0.018	strong	.	HEATR4	126	.	NM_203309	exon15	c.G2735A	p.G912E	TGTTCTCCTTTGG	.	PASS	Atlas-SNP
PHACTR2	9749	hgsc.bcm.edu	37	6	144081609	144081609	+	Missense_Mutation	SNP	C	C	T	rs2073214	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	88	91	0	1	0	C|0.801;T|0.199	0.199	strong	.	PHACTR2	99	.	NM_001100164	exon5	c.C526T	p.P176S	CCTAGACCCAAAC	.	PASS	Atlas-SNP
MIS18BP1	55320	hgsc.bcm.edu	37	14	45700409	45700409	+	Missense_Mutation	SNP	C	C	T	rs61741592	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	333	152	331	0	0.456456	0	C|0.929;T|0.071	0.071	strong	MIS18BP1,NS,carcinoma,0,1	MIS18BP1	92	1	NM_018353	exon8	c.G1529A	p.R510Q	TTTTCTCGTGCAT	.	PASS	Atlas-SNP
BDP1	55814	hgsc.bcm.edu	37	5	70806649	70806649	+	Missense_Mutation	SNP	T	T	A	rs1961760	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	59	103	0	0.495798	0	T|0.561;A|0.439	0.439	strong	BDP1,NS,carcinoma,0,2	BDP1	204	2	NM_018429	exon17	c.T3730A	p.F1244I	GCAGAGTTCAGTG	.	PASS	Atlas-SNP
C16orf3	750	hgsc.bcm.edu	37	16	90095620	90095620	+	Missense_Mutation	SNP	A	A	G	rs61740023	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	10	69	0	0.142857	0	A|0.970;G|0.030	0.030	strong	.	C16orf3	14	.	NM_001214	exon1	c.T131C	p.V44A	CAGGCTACGGGGC	.	PASS	Atlas-SNP
TMEM207	131920	hgsc.bcm.edu	37	3	190167533	190167533	+	Silent	SNP	C	C	T	rs10513852	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	73	132	0	0.52518	0	C|0.917;T|0.083	0.083	strong	.	TMEM207	19	.	NM_207316	exon1	c.G66A	p.P22P	GAATAGCGGCAAA	.	PASS	Atlas-SNP
DPP6	1804	hgsc.bcm.edu	37	7	154672646	154672646	+	Silent	SNP	T	T	C	rs3817522	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	44	84	0	0.396396	0	T|0.742;C|0.258	0.258	strong	.	DPP6	383	.	NM_130797	exon21	c.T2127C	p.F709F	CGTGTTTGGGAAG	.	PASS	Atlas-SNP
RABEPK	10244	hgsc.bcm.edu	37	9	127975654	127975654	+	Missense_Mutation	SNP	C	C	T	rs1128362	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	46	104	0	0.474227	0	C|0.880;T|0.120	0.120	strong	.	RABEPK	46	.	NM_005833	exon4	c.C217T	p.H73Y	GGAAAACACCAGT	.	PASS	Atlas-SNP
ABL1	25	hgsc.bcm.edu	37	9	133759686	133759686	+	Missense_Mutation	SNP	A	A	G	rs61746126	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	28	19	31	0	0.678571	0	A|0.999;G|0.001	0.001	strong	.	ABL1	1632	.	NM_007313	exon11	c.A2066G	p.N689S	TCCCCAATGGAGC	.	PASS	Atlas-SNP
MMP1	4312	hgsc.bcm.edu	37	11	102668022	102668022	+	Silent	SNP	C	C	T	rs10488	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	74	149	0	0.471338	0	C|0.924;T|0.076	0.076	strong	.	MMP1	74	.	NM_002421	exon2	c.G315A	p.G105G	AGGGTTCCCCTCA	.	PASS	Atlas-SNP
TMEM150A	129303	hgsc.bcm.edu	37	2	85826721	85826721	+	Silent	SNP	G	G	A	rs11891495	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	268	142	218	0	0.529851	0	G|0.810;A|0.190	0.190	strong	.	TMEM150A	15	.	NM_001031738	exon7	c.C501T	p.T167T	CGGGGCGGTGGCC	.	PASS	Atlas-SNP
KY	339855	hgsc.bcm.edu	37	3	134322877	134322877	+	Silent	SNP	G	G	A	rs35316983	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	57	86	0	0.491379	0	G|0.989;A|0.011	0.011	strong	KY_ENST00000423778,NS,carcinoma,-2,2	KY	92	2	NM_178554	exon11	c.C1530T	p.R510R	GATGTAGCGCCGC	.	PASS	Atlas-SNP
CCR6	1235	hgsc.bcm.edu	37	6	167549775	167549775	+	Silent	SNP	T	T	C	rs3093007	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	44	100	0	0.431373	0	T|0.835;C|0.165	0.165	strong	.	CCR6	36	.	NM_004367	exon3	c.T57C	p.F19F	TTATTTTGTGTCA	.	PASS	Atlas-SNP
ACAT1	38	hgsc.bcm.edu	37	11	107992346	107992346	+	Missense_Mutation	SNP	G	G	C	rs3741056	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	41	13	71	0	0.317073	0	G|0.710;C|0.290	0.290	strong	.	ACAT1	35	.	NM_000019	exon1	c.G13C	p.A5P	GTGCTGGCGGCAC	.	PASS	Atlas-SNP
APOL5	80831	hgsc.bcm.edu	37	22	36123083	36123083	+	Missense_Mutation	SNP	C	C	T	rs2076672	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	29	47	0	0.58	0	C|0.812;T|0.188	0.188	strong	.	APOL5	45	.	NM_030642	exon3	c.C968T	p.T323M	CAAGGACGGAGAC	.	PASS	Atlas-SNP
OR7A10	390892	hgsc.bcm.edu	37	19	14952238	14952238	+	Missense_Mutation	SNP	A	A	G	rs12972670	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	90	97	0	0.545455	0	A|0.860;G|0.140	0.140	strong	OR7A10,colon,carcinoma,0,1	OR7A10	33	1	NM_001005190	exon1	c.T452C	p.M151T	ACACTCATGATCC	.	PASS	Atlas-SNP
SLC35G5	83650	hgsc.bcm.edu	37	8	11189184	11189184	+	Missense_Mutation	SNP	C	C	T	rs115295428	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	175	29	112	1	0.165714	0.00892857	C|0.978;T|0.022	0.022	strong	AMAC1L2,NS,carcinoma,0,1	.	.	1	NM_054028	exon1	c.C569T	p.T190I	ACACCACCCTGGG	.	scavenged	Atlas-SNP
KIAA0825	285600	hgsc.bcm.edu	37	5	93753017	93753017	+	Missense_Mutation	SNP	C	C	T	rs29910	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	83	160	1	0.477012	0.00625	C|0.811;T|0.189	0.189	strong	KIAA0825_ENST00000513200,NS,carcinoma,0,2	KIAA0825	172	2	NM_001145678	exon15	c.G2551A	p.A851T	AGATGGCTTCCAT	.	scavenged	Atlas-SNP
METTL21A	151194	hgsc.bcm.edu	37	2	208477852	208477852	+	Missense_Mutation	SNP	G	G	A	rs2551949	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	207	205	180	1	0.990338	0.00555556	G|0.142;A|0.858	0.858	strong	.	METTL21A	24	.	NM_145280	exon4	c.C575T	p.T192I	CTCACAGTAAATT	.	PASS	Atlas-SNP
BRCA1	672	hgsc.bcm.edu	37	17	41244936	41244936	+	Missense_Mutation	SNP	G	G	A	rs799917	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	81	157	0	0.47093	0	G|0.499;A|0.501	0.501	strong	BRCA1,NS,carcinoma,+1,2	BRCA1	304	2	NM_007300	exon10	c.C2612T	p.P871L	GAAAACGGAGCAA	.	PASS	Atlas-SNP
POLG	5428	hgsc.bcm.edu	37	15	89862237	89862237	+	Silent	SNP	C	C	T	rs61752780	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	69	117	0	0.482517	0	C|0.994;T|0.006	0.006	strong	.	POLG	75	.	NM_002693	exon20	c.G3198A	p.T1066T	GTCAGACGTAGCA	.	PASS	Atlas-SNP
C2orf54	79919	hgsc.bcm.edu	37	2	241830969	241830969	+	Silent	SNP	G	G	A	rs10171067	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	112	80	0	1	0	G|0.490;A|0.510	0.510	strong	.	C2orf54	14	.	NM_001085437	exon2	c.C726T	p.S242S	CTGGGCGCTGGCC	.	PASS	Atlas-SNP
ZNF512B	57473	hgsc.bcm.edu	37	20	62595990	62595990	+	Missense_Mutation	SNP	T	T	C	rs817326	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	57	155	0	0.360759	0	T|0.852;C|0.148	0.148	strong	ZNF512B,NS,carcinoma,0,3	ZNF512B	72	3	NM_020713	exon6	c.A1114G	p.M372V	GGCCCATGGAGGA	.	PASS	Atlas-SNP
DPCR1	135656	hgsc.bcm.edu	37	6	30917482	30917482	+	Missense_Mutation	SNP	C	C	T	rs112148530	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	60	88	0	0.508475	0	C|0.944;T|0.056	0.056	strong	.	DPCR1	99	.	NM_080870	exon2	c.C1241T	p.T414I	AAACCACATCATC	.	PASS	Atlas-SNP
CD68	968	hgsc.bcm.edu	37	17	7484101	7484101	+	Missense_Mutation	SNP	C	C	A	rs9901673	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	77	166	0	0.496774	0	C|0.830;A|0.170	0.170	strong	.	CD68	17	.	NM_001251	exon4	c.C760A	p.Q254K	GCAGCACGTAAGT	.	PASS	Atlas-SNP
CNTRL	11064	hgsc.bcm.edu	37	9	123929770	123929770	+	Silent	SNP	C	C	T	rs61745682	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	205	93	206	0	0.453659	0	C|0.881;T|0.119	0.119	strong	.	CNTRL	161	.	NM_007018	exon35	c.C5659T	p.L1887L	AAGGACCTGCTTC	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10470148	10470148	+	Missense_Mutation	SNP	G	G	A	rs74400517	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	35	32	0	0.686275	0	G|0.934;A|0.066	0.066	strong	.	RP1L1	453	.	NM_178857	exon4	c.C1460T	p.A487V	ATCTGGGCAGAGG	.	PASS	Atlas-SNP
PDE4A	5141	hgsc.bcm.edu	37	19	10570141	10570141	+	Silent	SNP	C	C	T	rs141286487	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	67	105	0	0.527559	0	C|0.995;T|0.005	0.005	strong	PDE4A_ENST00000440014,NS,carcinoma,+1,4	PDE4A	236	4	NM_001111307	exon9	c.C1167T	p.R389R	AGGCCGCTCACTC	.	PASS	Atlas-SNP
LRRC14B	389257	hgsc.bcm.edu	37	5	195318	195318	+	Silent	SNP	T	T	C	rs6886707	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	35	64	0	0.492958	0	T|0.847;C|0.153	0.153	strong	.	LRRC14B	30	.	NM_001080478	exon2	c.T1395C	p.A465A	GCGGGCTGACCGA	.	PASS	Atlas-SNP
FCRLB	127943	hgsc.bcm.edu	37	1	161697319	161697319	+	Missense_Mutation	SNP	G	G	A	rs34868416	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	38	20	53	0	0.526316	0	G|0.940;A|0.060	0.060	strong	.	FCRLB	35	.	NM_001002901	exon6	c.G1148A	p.G383D	TCAAAGGCCTTCT	.	PASS	Atlas-SNP
CPA1	1357	hgsc.bcm.edu	37	7	130022041	130022041	+	Silent	SNP	C	C	T	rs968404	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	62	85	0	0.484375	0	C|0.875;T|0.125	0.125	strong	.	CPA1	73	.	NM_001868	exon4	c.C474T	p.Y158Y	CATTTACGTGCTG	.	PASS	Atlas-SNP
NME8	51314	hgsc.bcm.edu	37	7	37936530	37936530	+	Silent	SNP	T	T	C	rs3213975	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	140	106	0	1	0	T|0.770;C|0.230	0.230	strong	.	.	.	.	NM_016616	exon17	c.T1603C	p.L535L	AGACGATTGATGG	.	PASS	Atlas-SNP
ADSSL1	122622	hgsc.bcm.edu	37	14	105196230	105196230	+	Missense_Mutation	SNP	A	A	C	rs80097179	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	25	16	28	0	0.64	0	A|0.640;C|0.360	0.360	strong	.	ADSSL1	37	.	NM_199165	exon1	c.A1C	p.M1L	GTCGGCATGGTGG	.	PASS	Atlas-SNP
SERPINA9	327657	hgsc.bcm.edu	37	14	94936110	94936110	+	Missense_Mutation	SNP	G	G	A	rs45438398	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	85	150	0	0.524691	0	G|0.920;A|0.080	0.080	strong	.	SERPINA9	105	.	NM_175739	exon2	c.C122T	p.P41L	TTGGCCGGGGACA	.	PASS	Atlas-SNP
IFT122	55764	hgsc.bcm.edu	37	3	129214369	129214369	+	Silent	SNP	C	C	T	rs73204231	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	2	123	0	0.0140845	0	.	.	strong	IFT122,colon,carcinoma,0,3	IFT122	117	3	NM_052985	exon19	c.C2280T	p.A760A	TGAGGCCGCCAAA	.	scavenged	Atlas-SNP
PCNT	5116	hgsc.bcm.edu	37	21	47841989	47841989	+	Missense_Mutation	SNP	C	C	T	rs61735814	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	29	53	0	0.39726	0	C|0.960;T|0.040	0.040	strong	PCNT,NS,carcinoma,+1,1	PCNT	283	1	NM_006031	exon32	c.C7130T	p.P2377L	TTCAGCCGCTGCC	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62193019	62193019	+	Silent	SNP	C	C	T	rs11551684	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	67	125	0	0.471831	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
TWF1	5756	hgsc.bcm.edu	37	12	44191625	44191625	+	Silent	SNP	G	G	A	rs12829856	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	40	46	0	0.519481	0	G|0.896;A|0.104	0.104	strong	.	TWF1	37	.	NM_001242397	exon7	c.C516T	p.D172D	ACCCACGTCAGTC	.	PASS	Atlas-SNP
PTCHD3	374308	hgsc.bcm.edu	37	10	27702688	27702688	+	Silent	SNP	C	C	T	rs7087552	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	56	122	0	0.451613	0	C|0.764;T|0.236	0.236	strong	.	PTCHD3	140	.	NM_001034842	exon1	c.G492A	p.E164E	GTCTTCCTCTTCG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179582853	179582853	+	Missense_Mutation	SNP	T	T	C	rs72648982	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	30	45	0	0.6	0	T|0.981;C|0.019	0.019	strong	.	TTN	18412	.	NM_001267550	exon86	c.A24880G	p.R8294G	AAATTCTAATTTC	.	PASS	Atlas-SNP
RNF123	63891	hgsc.bcm.edu	37	3	49737954	49737954	+	Missense_Mutation	SNP	G	G	A	rs35620248	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	84	164	0	0.43299	0	G|0.956;A|0.044	0.044	strong	.	RNF123	100	.	NM_022064	exon14	c.G1160A	p.R387Q	TGCTTCGGCTGTA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	27	27	37	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
IL12RB2	3595	hgsc.bcm.edu	37	1	67861520	67861520	+	Silent	SNP	C	C	A	rs2229546	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	61	115	0	0.508333	0	C|0.418;A|0.582	0.582	strong	.	IL12RB2	94	.	NM_001559	exon16	c.C2337A	p.P779P	AAAGCCCGAAAAC	.	PASS	Atlas-SNP
RHAG	6005	hgsc.bcm.edu	37	6	49580194	49580194	+	Silent	SNP	C	C	T	rs10485291	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	206	85	169	0	0.412621	0	C|0.945;T|0.055	0.055	strong	.	RHAG	85	.	NM_000324	exon6	c.G861A	p.A287A	CATATCCGCACAA	.	PASS	Atlas-SNP
TMEM161B	153396	hgsc.bcm.edu	37	5	87498849	87498849	+	Silent	SNP	G	G	A	rs3097146	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	252	114	247	0	0.452381	0	G|0.530;A|0.470	0.470	strong	.	TMEM161B	46	.	NM_153354	exon9	c.C844T	p.L282L	AGAGCAGAACCAT	.	PASS	Atlas-SNP
ARHGAP21	57584	hgsc.bcm.edu	37	10	24873369	24873369	+	Missense_Mutation	SNP	C	C	G	rs79588196	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	130	125	0	1	0	C|0.500;G|0.500	0.500	strong	.	ARHGAP21	185	.	NM_020824	exon26	c.G5849C	p.S1950T	GCTTTACTGCCTG	.	PASS	Atlas-SNP
FAM184A	79632	hgsc.bcm.edu	37	6	119341211	119341211	+	Missense_Mutation	SNP	C	C	T	rs41292560	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	113	183	0	0.504464	0	C|0.992;T|0.008	0.008	strong	.	FAM184A	109	.	NM_024581	exon4	c.G1264A	p.A422T	AAAAAGCTCTTTC	.	PASS	Atlas-SNP
ATR	545	hgsc.bcm.edu	37	3	142222284	142222284	+	Silent	SNP	A	A	G	rs2227931	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	152	184	0	1	0	T|0.124;G|0.289	0.289	strong	.	ATR	285	.	NM_001184	exon30	c.T5208C	p.Y1736Y	ACCATGATAATGA	.	PASS	Atlas-SNP
OR5M3	219482	hgsc.bcm.edu	37	11	56237564	56237564	+	Missense_Mutation	SNP	A	A	T	rs61902880	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	18	159	0	0.159292	0	A|0.999;T|0.001	0.001	weak	OR5M3,NS,meningioma,0,1	OR5M3	103	1	NM_001004742	exon1	c.T410A	p.V137D	CAGACAACCCTTG	.	PASS	Atlas-SNP
SCLY	51540	hgsc.bcm.edu	37	2	238999883	238999883	+	Silent	SNP	T	T	C	rs1128552	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	313	164	292	0	0.523962	0	T|0.801;C|0.199	0.199	strong	SCLY,NS,carcinoma,0,1	SCLY	51	1	NM_016510	exon8	c.T933C	p.A311A	GATTGCTGGCCTT	.	PASS	Atlas-SNP
ATP13A4	84239	hgsc.bcm.edu	37	3	193183817	193183817	+	Silent	SNP	A	A	G	rs3796181	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	96	82	0	0.979592	0	A|0.474;G|0.526	0.526	strong	.	ATP13A4	154	.	NM_032279	exon11	c.T1269C	p.S423S	TACCCCACTAAGC	.	PASS	Atlas-SNP
PSORS1C1	170679	hgsc.bcm.edu	37	6	31106459	31106459	+	Missense_Mutation	SNP	C	C	A	rs1265097	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	43	95	0	0.483146	0	C|0.883;A|0.117	0.117	strong	.	PSORS1C1	11	.	NM_014068	exon5	c.C70A	p.P24T	CAAGGACCCCAGC	.	PASS	Atlas-SNP
OR8D4	338662	hgsc.bcm.edu	37	11	123777861	123777861	+	Silent	SNP	T	T	C	rs61748875	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	300	141	296	0	0.47	0	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
NAA20	51126	hgsc.bcm.edu	37	20	20006368	20006368	+	Silent	SNP	T	T	C	rs7263	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	43	90	0	0.544304	0	T|0.924;C|0.076	0.076	strong	.	NAA20	15	.	NM_181528	exon3	c.T126C	p.Y42Y	AGAGTATTTCATT	.	PASS	Atlas-SNP
KIAA1614	57710	hgsc.bcm.edu	37	1	180905352	180905352	+	Silent	SNP	C	C	T	rs3795505	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	55	84	0	0.466102	0	C|0.668;T|0.332	0.332	strong	.	KIAA1614	75	.	NM_020950	exon5	c.C2307T	p.S769S	AGAAAGCCACGAG	.	PASS	Atlas-SNP
NOL8	55035	hgsc.bcm.edu	37	9	95077289	95077289	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	66	143	0	0.47482	0	.	.	none	.	NOL8	118	.	NM_017948	exon7	c.C1618T	p.R540C	CAGGACGAATACA	.	PASS	Atlas-SNP
AMBN	258	hgsc.bcm.edu	37	4	71468985	71468985	+	Silent	SNP	A	A	G	rs35266919	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	85	151	0	0.521472	0	A|0.853;G|0.147	0.147	strong	.	AMBN	73	.	NM_016519	exon10	c.A657G	p.Q219Q	TTTCCAAATAGCC	.	PASS	Atlas-SNP
NEU4	129807	hgsc.bcm.edu	37	2	242758179	242758179	+	Silent	SNP	C	C	T	rs2293764	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	38	126	0	0.4	0	C|0.819;T|0.181	0.181	strong	.	NEU4	39	.	NM_001167599	exon4	c.C1299T	p.S433S	CTACTCCGACCTG	.	PASS	Atlas-SNP
CYFIP2	26999	hgsc.bcm.edu	37	5	156753257	156753257	+	Silent	SNP	C	C	T	rs11551374	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	178	84	158	0	0.47191	0	C|0.936;G|0.000;T|0.064	0.064	strong	.	CYFIP2	354	.	NM_001037332	exon18	c.C2061T	p.Y687Y	CCTGTACGATGAG	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	37	7	116435768	116435768	+	Silent	SNP	C	C	T	rs41736	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	79	143	1	0.537415	0.00699301	C|0.624;T|0.376	0.376	strong	MET,NS,carcinoma,0,1	MET	412	1	NM_001127500	exon20	c.C3912T	p.D1304D	TCCTGACGTAAAC	.	scavenged	Atlas-SNP
MRGPRX4	117196	hgsc.bcm.edu	37	11	18195448	18195448	+	Silent	SNP	C	C	T	rs4630269	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	49	97	0	0.385827	0	C|0.710;T|0.290	0.290	strong	MRGPRX4,NS,adenoma,0,1	MRGPRX4	68	1	NM_054032	exon1	c.C645T	p.Y215Y	GCTGTACGTGACC	.	PASS	Atlas-SNP
MST1	4485	hgsc.bcm.edu	37	3	49721798	49721798	+	Silent	SNP	C	C	A	rs13085791	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	311	171	240	1	0.549839	0.00416667	C|0.725;A|0.275	0.275	strong	.	MST1	84	.	NM_020998	exon17	c.G1965T	p.R655R	ACTCTCCCGCACA	.	PASS	Atlas-SNP
KDM4B	23030	hgsc.bcm.edu	37	19	5144411	5144411	+	Silent	SNP	T	T	C	rs10408767	bycluster;by2hit2allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	9	54	0	0.125	0	T|1.000;|0.000	.	weak	KDM4B,rectum,carcinoma,0,6	KDM4B	120	6	NM_015015	exon20	c.T2889C	p.P963P	GTACCCTGAGAGC	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10465097	10465097	+	Missense_Mutation	SNP	C	C	T	rs4354268	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	54	93	0	0.534653	0	C|0.615;T|0.385	0.385	strong	.	RP1L1	453	.	NM_178857	exon4	c.G6511A	p.E2171K	CCTCCTCTTCAGC	.	PASS	Atlas-SNP
TMCC3	57458	hgsc.bcm.edu	37	12	94975799	94975799	+	Silent	SNP	G	G	A	rs3747553	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	172	149	0	0.99422	0	G|0.345;A|0.655	0.655	strong	.	TMCC3	63	.	NM_020698	exon2	c.C594T	p.F198F	GAAAACGAACACA	.	PASS	Atlas-SNP
LMTK2	22853	hgsc.bcm.edu	37	7	97821855	97821855	+	Missense_Mutation	SNP	T	T	C	rs56204700	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	43	73	0	0.518072	0	T|0.944;C|0.056	0.056	strong	.	LMTK2	228	.	NM_014916	exon11	c.T2078C	p.I693T	GTAAGATTTTTGA	.	PASS	Atlas-SNP
TUBGCP2	10844	hgsc.bcm.edu	37	10	135106550	135106550	+	Silent	SNP	G	G	A	rs141042122	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	67	98	0	0.515385	0	G|0.997;A|0.003	0.003	strong	.	TUBGCP2	79	.	NM_001256617	exon8	c.C1101T	p.A367A	GAGGGAGGCCAGG	.	PASS	Atlas-SNP
LRRC16B	90668	hgsc.bcm.edu	37	14	24534916	24534916	+	Missense_Mutation	SNP	G	G	T	rs79328356	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	51	72	0	0.515152	0	G|0.958;T|0.042	0.042	strong	LRRC16B,NS,carcinoma,+1,1	LRRC16B	120	1	NM_138360	exon34	c.G3482T	p.G1161V	TTCCCGGGTTGGA	.	PASS	Atlas-SNP
ARSB	411	hgsc.bcm.edu	37	5	78181423	78181423	+	Missense_Mutation	SNP	C	C	T	rs1071598	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	26	54	0	0.440678	0	C|0.884;T|0.116	0.116	strong	.	ARSB	47	.	NM_198709	exon6	c.G1126A	p.V376M	TCCACACGTCGAA	.	PASS	Atlas-SNP
ZNF485	220992	hgsc.bcm.edu	37	10	44112763	44112763	+	Silent	SNP	C	C	G	rs7069748	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	46	23	22	0	0.5	0	C|0.938;G|0.062	0.062	strong	.	ZNF485	102	.	NM_145312	exon5	c.C1272G	p.A424A	TTCAGCCCTTAAG	.	PASS	Atlas-SNP
BTNL2	56244	hgsc.bcm.edu	37	6	32370986	32370986	+	Silent	SNP	C	C	A	rs57116766	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	23	50	0	0.418182	0	C|0.904;A|0.096	0.096	strong	.	BTNL2	50	.	NM_019602	exon3	c.G435T	p.G145G	GGCAGACCCCAGA	.	PASS	Atlas-SNP
TRIML2	205860	hgsc.bcm.edu	37	4	189018486	189018486	+	Silent	SNP	A	A	G	rs17883789	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	127	101	0	0.992188	0	A|0.866;G|0.134	0.134	strong	.	TRIML2	80	.	NM_173553	exon5	c.T486C	p.S162S	TTCTAAAGAGTAT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	248	130	229	1	0.524194	0.00436681	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	.	PASS	Atlas-SNP
C3orf30	152405	hgsc.bcm.edu	37	3	118866376	118866376	+	Missense_Mutation	SNP	C	C	T	rs56317615	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	85	162	0	0.482955	0	C|0.766;T|0.234	0.234	strong	.	C3orf30	64	.	NM_152539	exon1	c.C1340T	p.S447L	CCATCTCATCCAA	.	PASS	Atlas-SNP
STAG3	10734	hgsc.bcm.edu	37	7	99796146	99796146	+	Silent	SNP	A	A	C	rs3735241	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	325	179	295	1	0.550769	0.00338983	C|0.482;N|0.000	0.482	strong	.	STAG3	121	.	NM_012447	exon13	c.A1293C	p.P431P	CTACCCAGTTGTG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	75	144	0	0.487013	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
F13A1	2162	hgsc.bcm.edu	37	6	6174866	6174866	+	Missense_Mutation	SNP	G	G	A	rs5982	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	396	199	316	0	0.502525	0	G|0.798;A|0.202	0.202	strong	F13A1,NS,malignant_melanoma,-1,2	F13A1	135	2	NM_000129	exon12	c.C1694T	p.P565L	GCCTTCGGGACCC	.	PASS	Atlas-SNP
CASC5	57082	hgsc.bcm.edu	37	15	40914772	40914772	+	Silent	SNP	C	C	T	rs11855334	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	6	185	0	0.0530973	0	C|0.633;T|0.367	0.367	strong	CASC5,NS,carcinoma,0,1	CASC5	269	1	NM_170589	exon11	c.C2388T	p.V796V	CACTGTCGTCATT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179590329	179590329	+	Missense_Mutation	SNP	C	C	T	rs17355460	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	65	133	0	0.433333	0	C|0.991;T|0.009	0.009	strong	.	TTN	18412	.	NM_001267550	exon71	c.G20602A	p.G6868R	GCTCTCCGGCTAC	.	PASS	Atlas-SNP
FNDC1	84624	hgsc.bcm.edu	37	6	159650978	159650978	+	Missense_Mutation	SNP	A	A	G	rs509648	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	44	123	0	0.444444	0	A|0.529;G|0.471	0.471	strong	.	FNDC1	250	.	NM_032532	exon10	c.A1312G	p.T438A	CGGGCCACAAACA	.	PASS	Atlas-SNP
VCX3A	51481	hgsc.bcm.edu	37	X	6451872	6451872	+	Missense_Mutation	SNP	C	C	G	rs77148209	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	474	133	429	1	0.280591	0.002331	C|0.901;G|0.099	0.099	strong	.	VCX3A	17	.	NM_016379	exon3	c.G475C	p.E159Q	CCACCTCGCTCTC	.	PASS	Atlas-SNP
SELRC1	65260	hgsc.bcm.edu	37	1	53153432	53153432	+	Missense_Mutation	SNP	T	T	C	rs443751	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	99	219	1	0.469194	0.00456621	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
TUBGCP6	85378	hgsc.bcm.edu	37	22	50660137	50660137	+	Missense_Mutation	SNP	G	G	A	rs34455105	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	208	100	172	0	0.480769	0	G|0.956;A|0.044	0.044	strong	.	TUBGCP6	132	.	NM_020461	exon16	c.C2651T	p.A884V	CCCTCCGCCTGCT	.	PASS	Atlas-SNP
ANKRD18A	253650	hgsc.bcm.edu	37	9	38615698	38615698	+	Missense_Mutation	SNP	C	C	T	rs1832313	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	98	107	0	0.989899	0	C|0.550;T|0.450	0.450	strong	.	ANKRD18A	49	.	NM_147195	exon3	c.G388A	p.E130K	TATCCTCAATGTT	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60898889	60898889	+	Missense_Mutation	SNP	C	C	T	rs372008452		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	41	75	0	0.569444	0	.	.	weak	.	LAMA5	268	.	NM_005560	exon44	c.G5792A	p.R1931Q	CCGCCTCGCAGGA	.	PASS	Atlas-SNP
SYNE4	163183	hgsc.bcm.edu	37	19	36499173	36499173	+	Silent	SNP	C	C	T	rs2285424	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	59	103	0	0.40411	0	C|0.707;T|0.293	0.293	strong	.	.	.	.	NM_001039876	exon2	c.G225A	p.P75P	CCATCTCGGGGGG	.	PASS	Atlas-SNP
CALU	813	hgsc.bcm.edu	37	7	128388648	128388648	+	Missense_Mutation	SNP	G	G	A	rs2290228	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	48	132	0	0.421053	0	G|0.841;A|0.159	0.159	strong	.	CALU	42	.	NM_001199671	exon3	c.G35A	p.R12Q	ACCTGCGACAGTT	.	PASS	Atlas-SNP
HIPK1	204851	hgsc.bcm.edu	37	1	114515717	114515717	+	Silent	SNP	G	G	A	rs2358996	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	54	89	0	0.473684	0	G|0.519;A|0.481	0.481	strong	.	HIPK1	195	.	NM_198268	exon16	c.G3216A	p.A1072A	GCAGGCGTTTGTG	.	PASS	Atlas-SNP
DND1	373863	hgsc.bcm.edu	37	5	140050940	140050940	+	Missense_Mutation	SNP	C	C	T	rs77880328	bycluster;byfrequency;alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	797	72	440	1	0.0903388	0.00227273	A|0.029;G|0.971	.	alt	DND1,NS,carcinoma,0,1	DND1	15	1	NM_194249	exon4	c.G1000A	p.E334K	CAGACTCACTGAG	.	scavenged	Atlas-SNP
USP40	55230	hgsc.bcm.edu	37	2	234433190	234433190	+	Missense_Mutation	SNP	C	C	G	rs200068889	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	60	123	0	0.458015	0	.	.	weak	.	USP40	174	.	NM_018218	exon14	c.G1862C	p.C621S	GTTTCACACAGTG	.	PASS	Atlas-SNP
TFAP2C	7022	hgsc.bcm.edu	37	20	55209257	55209257	+	Silent	SNP	T	T	C	rs35023929	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	48	124	0	0.461538	0	T|0.892;C|0.108	0.108	strong	.	TFAP2C	51	.	NM_003222	exon5	c.T855C	p.I285I	CAAGATTGGGTTG	.	PASS	Atlas-SNP
FBXW12	285231	hgsc.bcm.edu	37	3	48419897	48419897	+	Missense_Mutation	SNP	C	C	T	rs6442117	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	75	121	0	0.483871	0	C|0.418;T|0.582	0.582	strong	.	FBXW12	44	.	NM_207102	exon6	c.C496T	p.R166W	ATGGATCGGAAAA	.	PASS	Atlas-SNP
ZBTB46	140685	hgsc.bcm.edu	37	20	62378364	62378364	+	Silent	SNP	C	C	T	rs12625387	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	27	12	28	0	0.444444	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
GALNT4	8693	hgsc.bcm.edu	37	12	89916811	89916811	+	Missense_Mutation	SNP	C	C	T	rs2230283	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	52	99	0	0.504854	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
MYH6	4624	hgsc.bcm.edu	37	14	23855569	23855569	+	Silent	SNP	A	A	G	rs79255126		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	172	138	1	1	0.00724638	.	.	weak	.	MYH6	274	.	NM_002471	exon33	c.T4914C	p.A1638A	CTCGGCAGCCATG	.	PASS	Atlas-SNP
SPHKAP	80309	hgsc.bcm.edu	37	2	228855866	228855866	+	Missense_Mutation	SNP	G	G	C	rs16824283	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	65	136	2	0.442177	0.0147059	G|0.803;C|0.197	0.197	strong	SPHKAP_ENST00000392056,colon,carcinoma,0,2	SPHKAP	750	2	NM_001142644	exon11	c.C4809G	p.S1603R	CTGGGGGCTGGCT	.	scavenged	Atlas-SNP
PNPLA5	150379	hgsc.bcm.edu	37	22	44287062	44287062	+	Silent	SNP	A	A	G	rs2071884	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	69	169	1	0.415663	0.00591716	A|0.657;G|0.343	0.343	strong	PNPLA5,NS,carcinoma,0,3	PNPLA5	46	3	NM_138814	exon2	c.T306C	p.D102D	CAGAGCATCCTGC	.	scavenged	Atlas-SNP
NTRK3	4916	hgsc.bcm.edu	37	15	88576185	88576185	+	Silent	SNP	G	G	C	rs2229910	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	53	74	1	0.481818	0.0135135	G|0.647;C|0.353	0.353	strong	NTRK3_ENST00000360948,NS,carcinoma,-1,4	NTRK3	587	4	NM_001012338	exon14	c.C1488G	p.A496A	GGGCCCGGCATCC	.	scavenged	Atlas-SNP
ZNF214	7761	hgsc.bcm.edu	37	11	7022038	7022038	+	Silent	SNP	A	A	G	rs12575236	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	47	80	0	0.534091	0	A|0.816;G|0.184	0.184	strong	.	ZNF214	65	.	NM_013249	exon3	c.T876C	p.F292F	CTGATGAAAGTGA	.	PASS	Atlas-SNP
SLC22A7	10864	hgsc.bcm.edu	37	6	43270151	43270151	+	Silent	SNP	C	C	T	rs2270860	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	39	28	0	1	0	C|0.562;T|0.436	0.436	strong	.	SLC22A7	69	.	NM_153320	exon7	c.C1275T	p.S425S	GTCCTCCGGTGAG	.	PASS	Atlas-SNP
LMNA	4000	hgsc.bcm.edu	37	1	156106185	156106185	+	Silent	SNP	T	T	C	rs505058	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	40	82	0	0.533333	0	T|0.729;G|0.001	.	strong	.	LMNA	31	.	NM_170707	exon7	c.T1338C	p.D446D	GGTGGATGAGGAG	.	PASS	Atlas-SNP
KIF1B	23095	hgsc.bcm.edu	37	1	10421878	10421878	+	Silent	SNP	A	A	G	rs12125492	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	31	58	0	0.449275	0	A|0.914;G|0.086	0.086	strong	.	KIF1B	242	.	NM_015074	exon38	c.A4161G	p.P1387P	GTCACCAGATTCG	.	PASS	Atlas-SNP
TARP	0	hgsc.bcm.edu	37	7	38305142	38305142	+	Silent	SNP	G	G	C	rs113809137	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	239	118	121	0	0.493724	0	G|0.805;C|0.195	0.195	strong	.	.	.	.	NM_001003799	exon2	c.C126G	p.G42G	TTTCTTGCCAATG	.	PASS	Atlas-SNP
SLFN13	146857	hgsc.bcm.edu	37	17	33768381	33768381	+	Missense_Mutation	SNP	T	T	C	rs115402160	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	25	33	0	0.454545	0	T|0.989;C|0.011	0.011	strong	SLFN13,NS,carcinoma,+1,1	SLFN13	79	1	NM_144682	exon6	c.A1927G	p.R643G	TATTTCTATCACT	.	PASS	Atlas-SNP
ABCC3	8714	hgsc.bcm.edu	37	17	48765038	48765038	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	2	99	0	0.0163934	0	.	.	none	ABCC3,colon,carcinoma,0,1	ABCC3	138	1	NM_003786	exon30	c.C4422T	p.T1474T	TGATACCTGCACT	.	scavenged	Atlas-SNP
ATF7IP2	80063	hgsc.bcm.edu	37	16	10525230	10525230	+	Silent	SNP	T	T	C	rs34404959	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	212	112	168	0	0.528302	0	T|0.795;C|0.205	0.205	strong	.	ATF7IP2	40	.	NM_024997	exon3	c.T753C	p.T251T	GAAAACTGATGAG	.	PASS	Atlas-SNP
UIMC1	51720	hgsc.bcm.edu	37	5	176382995	176382995	+	Missense_Mutation	SNP	G	G	A	rs3733876	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	252	248	264	1	0.984127	0.00378788	G|0.879;A|0.121	0.121	strong	.	UIMC1	55	.	NM_016290	exon8	c.C1304T	p.P435L	CTCTCTGGCATAA	.	PASS	Atlas-SNP
BTBD11	121551	hgsc.bcm.edu	37	12	108035903	108035903	+	Silent	SNP	T	T	C	rs9919712	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	91	193	0	0.448276	0	T|0.779;C|0.221	0.221	strong	.	BTBD11	122	.	NM_001018072	exon14	c.T2877C	p.D959D	AAATGATGGCACC	.	PASS	Atlas-SNP
DOK7	285489	hgsc.bcm.edu	37	4	3494898	3494898	+	Silent	SNP	C	C	T	rs6850908	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	31	61	0	0.553571	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
TCOF1	6949	hgsc.bcm.edu	37	5	149754991	149754991	+	Silent	SNP	C	C	T	rs2071238	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	57	103	0	0.452381	0	C|0.836;T|0.164	0.164	strong	.	TCOF1	154	.	NM_001135243	exon11	c.C1578T	p.P526P	GCCACCCGGGAAG	.	PASS	Atlas-SNP
WLS	79971	hgsc.bcm.edu	37	1	68614320	68614320	+	Silent	SNP	G	G	A	rs17130529	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	61	71	0	0.616162	0	G|0.937;A|0.063	0.063	strong	.	WLS	97	.	NM_024911	exon7	c.C996T	p.I332I	CCCTGCGATGTGG	.	PASS	Atlas-SNP
OMA1	115209	hgsc.bcm.edu	37	1	58999651	58999651	+	Missense_Mutation	SNP	T	T	G	rs17117678	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	178	95	187	0	0.533708	0	T|0.883;G|0.117	0.117	strong	.	OMA1	50	.	NM_145243	exon5	c.A985C	p.I329L	GTGCTATTTCATG	.	PASS	Atlas-SNP
DAAM1	23002	hgsc.bcm.edu	37	14	59792755	59792755	+	Silent	SNP	G	G	A	rs61755642	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	101	153	0	0.526042	0	G|0.995;A|0.005	0.005	strong	.	DAAM1	95	.	NM_001270520	exon10	c.G1134A	p.P378P	TTACCCGCATTTC	.	PASS	Atlas-SNP
PSEN2	5664	hgsc.bcm.edu	37	1	227069737	227069737	+	Silent	SNP	C	C	T	rs6759	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	83	92	0	0.965116	0	C|0.520;T|0.480	0.480	strong	.	PSEN2	55	.	NM_012486	exon4	c.C129T	p.N43N	AGAGAACACTGCC	.	PASS	Atlas-SNP
OR5K2	402135	hgsc.bcm.edu	37	3	98217178	98217178	+	Nonsense_Mutation	SNP	T	T	A	rs55639376	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	219	109	221	0	0.497717	0	T|0.847;A|0.153	0.153	strong	.	OR5K2	56	.	NM_001004737	exon1	c.T654A	p.Y218X	ATCTTATCTCTAT	.	PASS	Atlas-SNP
PCK1	5105	hgsc.bcm.edu	37	20	56137184	56137184	+	Silent	SNP	C	C	T	rs6070157	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	45	78	0	0.511364	0	C|0.851;T|0.149	0.149	strong	.	PCK1	95	.	NM_002591	exon3	c.C282T	p.I94I	GGTTATCGTCACC	.	PASS	Atlas-SNP
ZFYVE28	57732	hgsc.bcm.edu	37	4	2341194	2341194	+	Silent	SNP	T	T	C	rs2071680	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	82	206	0	0.458101	0	T|0.375;C|0.625	0.625	strong	.	ZFYVE28	79	.	NM_020972	exon4	c.A507G	p.A169A	AAACTCTGCGAAC	.	PASS	Atlas-SNP
RAP1GAP2	23108	hgsc.bcm.edu	37	17	2929392	2929392	+	Silent	SNP	G	G	A	rs55904912	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	262	119	215	0	0.454198	0	G|0.579;A|0.421	0.421	strong	RAP1GAP2_ENST00000254695,NS,carcinoma,0,2	RAP1GAP2	90	2	NM_015085	exon20	c.G1842A	p.P614P	CTCTCCGGAAATC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	10	203	0	0.075188	0	A|0.789;T|0.211	0.211	strong	.	EPSTI1	47	.	NM_001002264	exon13	c.T1197A	p.N399K	GTAGAGATTAAAT	.	PASS	Atlas-SNP
ALG1	56052	hgsc.bcm.edu	37	16	5128817	5128817	+	Missense_Mutation	SNP	G	G	A	rs17849848	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	366	183	370	0	0.5	0	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
RAI1	10743	hgsc.bcm.edu	37	17	17697102	17697102	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	5	64	0	0.0543478	0	.	.	none	RAI1,colon,carcinoma,0,3	RAI1	121	3	NM_030665	exon3	c.G840A	p.Q280Q	GCAGCAGCAGCAG	.	scavenged	Atlas-SNP
EXPH5	23086	hgsc.bcm.edu	37	11	108409784	108409784	+	Missense_Mutation	SNP	T	T	A	rs2640785	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	65	144	0	0.524194	0	T|0.797;A|0.203	0.203	strong	.	EXPH5	193	.	NM_015065	exon3	c.A410T	p.E137V	GAAGTCTCCTTTC	.	PASS	Atlas-SNP
ABCB5	340273	hgsc.bcm.edu	37	7	20762646	20762646	+	Missense_Mutation	SNP	G	G	T	rs62453384	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	48	126	1	0.424779	0.00793651	G|0.714;T|0.286	0.286	strong	ABCB5,NS,carcinoma,+1,1	ABCB5	357	1	NM_001163941	exon21	c.G2429T	p.G810V	CAACAGGTTCCAG	.	scavenged	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150942969	150942969	+	Missense_Mutation	SNP	G	G	A	rs2304053	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	170	150	0	0.982659	0	G|0.578;A|0.422	0.422	strong	.	FAT2	465	.	NM_001447	exon2	c.C3491T	p.P1164L	GAGTCTGGGTCCC	.	PASS	Atlas-SNP
IRAK1	3654	hgsc.bcm.edu	37	X	153278829	153278829	+	Missense_Mutation	SNP	G	G	A	rs1059703	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	41	33	0	0.630769	0	G|0.335;0|0.010	.	strong	.	IRAK1	107	.	NM_001569	exon12	c.C1595T	p.S532L	GCCTCCGAATGCC	.	PASS	Atlas-SNP
KIAA0430	9665	hgsc.bcm.edu	37	16	15711335	15711335	+	Silent	SNP	G	G	A	rs62036917	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	30	52	0	0.447761	0	G|0.948;A|0.052	0.052	strong	.	KIAA0430	154	.	NM_001184998	exon14	c.C2778T	p.I926I	TTCACGGATTGCG	.	PASS	Atlas-SNP
TOMM40	10452	hgsc.bcm.edu	37	19	45396144	45396144	+	Silent	SNP	C	C	T	rs11556505	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	220	111	157	0	0.504545	0	C|0.866;T|0.134	0.134	strong	.	TOMM40	13	.	NM_001128917	exon3	c.C393T	p.F131F	CCACTTCGGGGTC	.	PASS	Atlas-SNP
RAD54B	25788	hgsc.bcm.edu	37	8	95470507	95470507	+	Missense_Mutation	SNP	G	G	A	rs148525625	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	73	133	0	0.493243	0	G|1.000;A|0.000	0.000	strong	RAD54B,NS,carcinoma,+1,1	RAD54B	88	1	NM_001205262	exon3	c.C293T	p.P98L	TGAGGTGGATCTA	.	PASS	Atlas-SNP
FANCA	2175	hgsc.bcm.edu	37	16	89836323	89836323	+	Missense_Mutation	SNP	C	C	T	rs7195066	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	40	90	0	0.493827	0	C|0.485;T|0.515	0.515	strong	FANCA,NS,carcinoma,0,1	FANCA	99	1	NM_000135	exon26	c.G2426A	p.G809D	CCAGCACCAGGTG	.	PASS	Atlas-SNP
CLLU1	574028	hgsc.bcm.edu	37	12	92818786	92818786	+	Silent	SNP	A	A	G	rs1515565	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	31	102	0	0.322917	0	A|0.334;G|0.666	0.666	strong	.	CLLU1	12	.	NM_001025233	exon1	c.A330G	p.K110K	GTCCAAAAATTTT	.	PASS	Atlas-SNP
ZC3H3	23144	hgsc.bcm.edu	37	8	144522387	144522387	+	Nonsense_Mutation	SNP	G	G	T	rs2272754	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	49	92	0	0.453704	0	G|0.879;T|0.121	0.121	strong	.	ZC3H3	75	.	NM_015117	exon11	c.C2639A	p.S880X	GGGGATGAGGAGG	.	PASS	Atlas-SNP
RBFA	79863	hgsc.bcm.edu	37	18	77805949	77805949	+	Missense_Mutation	SNP	A	A	C	rs3744873	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	29	68	0	0.3625	0	A|0.722;C|0.278	0.278	strong	.	RBFA	27	.	NM_024805	exon7	c.A826C	p.K276Q	CAGATGAAAAAGG	.	PASS	Atlas-SNP
WRNIP1	56897	hgsc.bcm.edu	37	6	2784571	2784571	+	Silent	SNP	G	G	A	rs160703	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	72	126	0	0.48	0	G|0.824;A|0.176	0.176	strong	.	WRNIP1	39	.	NM_020135	exon6	c.G1656A	p.P552P	AGACCCGTCTGCG	.	PASS	Atlas-SNP
TCFL5	10732	hgsc.bcm.edu	37	20	61488785	61488785	+	Silent	SNP	T	T	C	rs2294996	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	62	143	0	0.525424	0	A|0.005;C|0.255	0.255	strong	.	TCFL5	43	.	NM_006602	exon4	c.A1200G	p.Q400Q	CCTACGTTGAGAC	.	PASS	Atlas-SNP
SNX19	399979	hgsc.bcm.edu	37	11	130784396	130784396	+	Missense_Mutation	SNP	G	G	A	rs62621284	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	70	126	1	0.434783	0.00793651	G|0.842;A|0.158	0.158	strong	SNX19,NS,carcinoma,+1,1	SNX19	84	1	NM_014758	exon1	c.C1439T	p.P480L	CATGACGGCCGTG	.	scavenged	Atlas-SNP
IL17RC	84818	hgsc.bcm.edu	37	3	9960070	9960070	+	Missense_Mutation	SNP	C	C	T	rs708567	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	35	50	0	0.5	0	T|0.437;G|0.004	0.437	strong	.	IL17RC	55	.	NM_153461	exon4	c.C545T	p.S182L	CTGACTCAGGGGT	.	PASS	Atlas-SNP
PMF1	11243	hgsc.bcm.edu	37	1	156202173	156202173	+	Missense_Mutation	SNP	A	A	G	rs1052053	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	85	175	0	0.456989	0	A|0.544;C|0.003	.	strong	.	PMF1	12	.	NM_001199653	exon2	c.A224G	p.Q75R	CACAGCAAATCTA	.	PASS	Atlas-SNP
GPR63	81491	hgsc.bcm.edu	37	6	97247566	97247566	+	Silent	SNP	T	T	A	rs392127	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	51	100	0	0.463636	0	T|0.909;A|0.091	0.091	strong	.	GPR63	60	.	NM_030784	exon2	c.A42T	p.T14T	GTTGGATGTCCCG	.	PASS	Atlas-SNP
RGPD3	653489	hgsc.bcm.edu	37	2	107040564	107040564	+	Missense_Mutation	SNP	C	C	T	rs55993306	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	854	419	135	0	0.490632	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	.	scavenged	Atlas-SNP
PRODH	5625	hgsc.bcm.edu	37	22	18900750	18900750	+	Silent	SNP	G	G	A	rs372055	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	172	101	0	0.99422	0	G|0.253;A|0.747	0.747	strong	.	PRODH	42	.	NM_016335	exon15	c.C1741T	p.L581L	ACAGCAGCTGCCG	.	PASS	Atlas-SNP
RXRG	6258	hgsc.bcm.edu	37	1	165389129	165389129	+	Silent	SNP	G	G	A	rs1128977	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	69	92	0	0.518797	0	G|0.737;A|0.263	0.263	strong	.	RXRG	91	.	NM_006917	exon3	c.C420T	p.A140A	ACAGATGGCACAG	.	PASS	Atlas-SNP
ADIPOR2	79602	hgsc.bcm.edu	37	12	1890199	1890199	+	Silent	SNP	G	G	A	rs16928751	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	225	98	243	0	0.435556	0	G|0.876;A|0.124	0.124	strong	.	ADIPOR2	30	.	NM_024551	exon6	c.G795A	p.Q265Q	CTCCCAGTGGGAC	.	PASS	Atlas-SNP
LMTK2	22853	hgsc.bcm.edu	37	7	97823125	97823125	+	Silent	SNP	G	G	A	rs3801296	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	46	76	0	0.511111	0	G|0.925;A|0.075	0.075	strong	.	LMTK2	228	.	NM_014916	exon11	c.G3348A	p.R1116R	GAAAAGGTCTGAG	.	PASS	Atlas-SNP
KIAA1328	57536	hgsc.bcm.edu	37	18	34647176	34647176	+	Silent	SNP	T	T	C	rs3747895	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	208	103	133	0	0.495192	0	T|0.749;C|0.251	0.251	strong	.	KIAA1328	39	.	NM_020776	exon7	c.T900C	p.P300P	TAAGCCTACTCCT	.	PASS	Atlas-SNP
GNA14	9630	hgsc.bcm.edu	37	9	80049298	80049298	+	Silent	SNP	C	C	T	rs1801258	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	34	98	0	0.43038	0	T|0.356;C|0.644;N|0.000	0.356	strong	.	GNA14	50	.	NM_004297	exon3	c.G450A	p.S150S	AGAGTCCGACAGC	.	PASS	Atlas-SNP
ADAMTS7	11173	hgsc.bcm.edu	37	15	79058986	79058986	+	Silent	SNP	C	C	T	rs150434082	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	63	86	0	0.59434	0	C|0.996;T|0.004	0.004	strong	ADAMTS7,NS,carcinoma,-1,1	ADAMTS7	142	1	NM_014272	exon19	c.G3267A	p.A1089A	TGTCCCCGCCAGG	.	PASS	Atlas-SNP
GNA14	9630	hgsc.bcm.edu	37	9	80040628	80040628	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	4	157	0	0.025974	0	.	.	none	GNA14,NS,carcinoma,0,2	GNA14	50	2	NM_004297	exon6	c.C727T	p.R243C	CCATGCGATTCTA	.	scavenged	Atlas-SNP
PCDHGB2	56103	hgsc.bcm.edu	37	5	140741738	140741738	+	Missense_Mutation	SNP	G	G	C	rs62378417	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	68	143	0	0.492754	0	G|0.882;C|0.118	0.118	strong	PCDHGB2_ENST00000522605,NS,carcinoma,0,3	PCDHGB2	196	3	NM_018923	exon1	c.G2036C	p.R679P	ACCGCCGGGAGCC	.	PASS	Atlas-SNP
STK17B	9262	hgsc.bcm.edu	37	2	197021372	197021372	+	Silent	SNP	T	T	A	rs12478353	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	55	149	0	0.466102	0	T|0.406;A|0.594	0.594	strong	.	STK17B	28	.	NM_004226	exon3	c.A126T	p.G42G	AAATTTTCCTCTG	.	PASS	Atlas-SNP
CCDC38	120935	hgsc.bcm.edu	37	12	96292170	96292170	+	Missense_Mutation	SNP	C	C	G	rs75959092	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	470	218	424	1	0.46383	0.00235849	C|0.917;G|0.083	0.083	strong	.	CCDC38	45	.	NM_182496	exon7	c.G607C	p.V203L	TTTTCACTGCTTG	.	PASS	Atlas-SNP
SLC4A7	9497	hgsc.bcm.edu	37	3	27473066	27473066	+	Silent	SNP	A	A	G	rs13077400	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	113	99	0	1	0	A|0.800;G|0.200	0.200	strong	.	SLC4A7	119	.	NM_003615	exon7	c.T846C	p.L282L	ATGACCAAGAAGA	.	PASS	Atlas-SNP
HTR1D	3352	hgsc.bcm.edu	37	1	23519633	23519633	+	Silent	SNP	A	A	G	rs6300	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	78	125	0	0.52349	0	A|0.854;G|0.146	0.146	strong	.	HTR1D	36	.	NM_000864	exon1	c.T1080C	p.N360N	CTCTTCATTAAAC	.	PASS	Atlas-SNP
TMPRSS3	64699	hgsc.bcm.edu	37	21	43809092	43809092	+	Missense_Mutation	SNP	C	C	T	rs45598239	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	38	54	0	0.487179	0	C|0.969;T|0.031	0.031	strong	.	TMPRSS3	40	.	NM_001256317	exon4	c.G268A	p.A90T	ATCGAGCTATCAG	.	PASS	Atlas-SNP
CCDC125	202243	hgsc.bcm.edu	37	5	68616331	68616331	+	Missense_Mutation	SNP	C	C	T	rs10471774	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	55	117	0	0.45082	0	C|0.689;T|0.311	0.311	strong	.	CCDC125	41	.	NM_176816	exon1	c.G37A	p.V13M	GCTGCACGTCTGA	.	PASS	Atlas-SNP
TENM1	10178	hgsc.bcm.edu	37	X	123554646	123554646	+	Silent	SNP	T	T	C	rs12013090	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	130	85	0	0.616114	0	T|0.812;C|0.188	0.188	strong	.	.	.	.	NM_001163278	exon25	c.A4497G	p.A1499A	CATCTTTGCATCT	.	PASS	Atlas-SNP
KANSL1	284058	hgsc.bcm.edu	37	17	44108906	44108906	+	Missense_Mutation	SNP	A	A	G	rs34579536	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	51	100	0	0.463636	0	A|0.860;G|0.140	0.140	strong	KIAA1267,colon,carcinoma,0,1	.	.	1	NM_001193466	exon15	c.T3254C	p.I1085T	GGGACAATGGGAG	.	PASS	Atlas-SNP
KRTAP10-6	386674	hgsc.bcm.edu	37	21	46012259	46012259	+	Missense_Mutation	SNP	T	T	G	rs201362069	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	23	78	0	0.2875	0	T|0.993;G|0.007	0.007	strong	.	KRTAP10-6	57	.	NM_198688	exon1	c.A107C	p.D36A	GGGCAGTCGTCCA	.	PASS	Atlas-SNP
OR8H3	390152	hgsc.bcm.edu	37	11	55890726	55890726	+	Missense_Mutation	SNP	G	G	T	rs61747871	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	78	162	0	0.369668	0	G|0.948;T|0.052	0.052	strong	.	OR8H3	92	.	NM_001005201	exon1	c.G878T	p.R293I	GTCTTAGAAACAG	.	PASS	Atlas-SNP
HIF3A	64344	hgsc.bcm.edu	37	19	46823751	46823751	+	Silent	SNP	C	C	T	rs3764610	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	30	50	0	0.454545	0	C|0.840;N|0.000	.	strong	HIF3A_ENST00000377670,NS,carcinoma,+1,2	HIF3A	154	2	NM_152795	exon9	c.C1077T	p.H359H	GCAACACTCTCGC	.	PASS	Atlas-SNP
FBXL16	146330	hgsc.bcm.edu	37	16	746884	746884	+	Silent	SNP	A	A	C	rs4984683	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	48	64	0	0.527473	0	A|0.718;C|0.282	0.282	strong	.	FBXL16	25	.	NM_153350	exon2	c.T522G	p.V174V	GACGCCAACCAGG	.	PASS	Atlas-SNP
KCNT2	343450	hgsc.bcm.edu	37	1	196309523	196309523	+	Silent	SNP	C	C	T	rs142546287	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	55	131	0	0.482456	0	C|0.956;T|0.044	0.044	strong	.	KCNT2	243	.	NM_198503	exon16	c.G1731A	p.S577S	ATAAAACGACCTG	.	PASS	Atlas-SNP
DYNC1H1	1778	hgsc.bcm.edu	37	14	102504838	102504838	+	Silent	SNP	C	C	T	rs17541505	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	32	46	0	0.592593	0	C|0.948;T|0.052	0.052	strong	DYNC1H1,NS,carcinoma,+1,1	DYNC1H1	395	1	NM_001376	exon58	c.C10950T	p.N3650N	GCTGAACCGTGAA	.	PASS	Atlas-SNP
OR5W2	390148	hgsc.bcm.edu	37	11	55681942	55681942	+	Missense_Mutation	SNP	G	G	T	rs17511797	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	46	113	0	0.410714	0	G|0.951;T|0.049	0.049	strong	.	OR5W2	112	.	NM_001001960	exon1	c.C117A	p.F39L	TGCTGAGAAATTA	.	PASS	Atlas-SNP
LYZL6	57151	hgsc.bcm.edu	37	17	34264859	34264859	+	Silent	SNP	A	A	G	rs2280783	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	175	89	157	0	0.508571	0	A|0.847;G|0.153	0.153	strong	LYZL6,NS,carcinoma,0,1	LYZL6	18	1	NM_020426	exon2	c.T201C	p.D67D	GCTTCCATCTGCA	.	PASS	Atlas-SNP
CARD11	84433	hgsc.bcm.edu	37	7	2976767	2976767	+	Silent	SNP	G	G	A	rs6945582	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	167	164	1	1	0.00609756	G|0.868;A|0.132	0.132	strong	.	CARD11	339	.	NM_032415	exon9	c.C1245T	p.D415D	CATCTCGTCGTTC	.	PASS	Atlas-SNP
MYCBPAP	84073	hgsc.bcm.edu	37	17	48606537	48606537	+	Missense_Mutation	SNP	C	C	G	rs1133818	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	38	51	0	0.535211	0	C|0.198;G|0.802	0.802	strong	.	MYCBPAP	135	.	NM_032133	exon18	c.C2841G	p.S947R	CCAGAGCCTGCAC	.	PASS	Atlas-SNP
ATP4B	496	hgsc.bcm.edu	37	13	114309226	114309226	+	Silent	SNP	G	G	A	rs11164142	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	72	121	0	0.533333	0	G|0.586;A|0.414	0.414	strong	.	ATP4B	35	.	NM_000705	exon2	c.C144T	p.Y48Y	CACCACGTAGAAG	.	PASS	Atlas-SNP
MTR	4548	hgsc.bcm.edu	37	1	237058828	237058828	+	Silent	SNP	C	C	T	rs1131449	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	79	162	1	0.459302	0.00617284	C|0.456;G|0.000;T|0.544	0.544	strong	MTR,NS,carcinoma,0,2	MTR	127	2	NM_000254	exon31	c.C3576T	p.L1192L	GAGACTCGCAGAC	.	scavenged	Atlas-SNP
DNASE1L3	1776	hgsc.bcm.edu	37	3	58191266	58191266	+	Silent	SNP	C	C	T	rs2070117	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	79	106	0	0.556338	0	C|0.747;T|0.253	0.253	strong	.	DNASE1L3	36	.	NM_004944	exon3	c.G252A	p.T84T	GTTGTACGTTATG	.	PASS	Atlas-SNP
PIGN	23556	hgsc.bcm.edu	37	18	59770033	59770033	+	Silent	SNP	C	C	T	rs12326381	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	31	69	0	0.563636	0	C|0.880;T|0.120	0.120	strong	.	PIGN	62	.	NM_176787	exon21	c.G1962A	p.L654L	CTGTAACAGATGT	.	PASS	Atlas-SNP
MYSM1	114803	hgsc.bcm.edu	37	1	59148118	59148118	+	Missense_Mutation	SNP	A	A	T	rs17118103	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	236	116	224	0	0.491525	0	A|0.854;T|0.146	0.146	strong	MYSM1,NS,carcinoma,0,1	MYSM1	50	1	NM_001085487	exon8	c.T598A	p.C200S	TTAAACATGATGG	.	PASS	Atlas-SNP
CPSF4	10898	hgsc.bcm.edu	37	7	99047978	99047978	+	Silent	SNP	T	T	C	rs883403	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	70	118	0	0.47619	0	T|0.639;C|0.361	0.361	strong	.	CPSF4	24	.	NM_001081559	exon4	c.T387C	p.R129R	TGACCGTGGCTTC	.	PASS	Atlas-SNP
ROR2	4920	hgsc.bcm.edu	37	9	94486321	94486321	+	Missense_Mutation	SNP	C	C	T	rs10761129	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	25	54	0	0.423729	0	C|0.262;T|0.738	0.738	strong	.	ROR2	167	.	NM_004560	exon9	c.G2455A	p.V819I	CGGGGACGTAGAG	.	PASS	Atlas-SNP
ATP13A2	23400	hgsc.bcm.edu	37	1	17312592	17312592	+	Missense_Mutation	SNP	G	G	A	rs15786	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	76	96	0	0.513514	0	G|0.979;A|0.021	0.021	strong	.	ATP13A2	85	.	NM_001141974	exon27	c.C3365T	p.P1122L	GGGGGAGGAGTGT	.	PASS	Atlas-SNP
FER1L5	90342	hgsc.bcm.edu	37	2	97351840	97351840	+	Missense_Mutation	SNP	A	A	G	rs7599598	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	162	128	1	0.993865	0.0078125	A|0.465;G|0.535	0.535	strong	.	FER1L5	113	.	NM_001113382	exon21	c.A2044G	p.T682A	CTCAACACCGTGC	.	PASS	Atlas-SNP
ADAM7	8756	hgsc.bcm.edu	37	8	24359068	24359068	+	Silent	SNP	G	G	A	rs13277171	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	93	109	0	0.978947	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
PLEKHG4B	153478	hgsc.bcm.edu	37	5	182291	182291	+	Silent	SNP	A	A	G	rs11747660	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	70	114	0	0.454545	0	A|0.923;G|0.077	0.077	strong	.	PLEKHG4B	167	.	NM_052909	exon18	c.A3669G	p.L1223L	GGGCCTATGGAGC	.	PASS	Atlas-SNP
USP24	23358	hgsc.bcm.edu	37	1	55563349	55563349	+	Silent	SNP	G	G	A	rs75297697	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	69	132	0	0.522727	0	G|0.997;A|0.003	0.003	strong	.	USP24	323	.	NM_015306	exon48	c.C5637T	p.S1879S	CAAGACGCTAGGT	.	PASS	Atlas-SNP
TULP3	7289	hgsc.bcm.edu	37	12	3049698	3049698	+	Missense_Mutation	SNP	T	T	C	rs998814	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	102	114	0	1	0	A|0.008;C|0.256	0.256	strong	.	TULP3	45	.	NM_001160408	exon12	c.T1312C	p.C438R	CCAGAATGTATCC	.	PASS	Atlas-SNP
PCDHB10	56126	hgsc.bcm.edu	37	5	140572763	140572763	+	Missense_Mutation	SNP	C	C	G	rs2907323	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	94	115	0	0.516484	0	C|0.881;G|0.119	0.119	strong	.	PCDHB10	177	.	NM_018930	exon1	c.C638G	p.T213R	CCCTCACAGCGCT	.	PASS	Atlas-SNP
PTPRQ	374462	hgsc.bcm.edu	37	12	80936082	80936082	+	Silent	SNP	C	C	T	rs11114503	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	57	110	0	0.452381	0	C|0.585;T|0.415	0.415	strong	.	PTPRQ	119	.	NM_001145026	exon19	c.C3144T	p.A1048A	TGCTGCCGCAAGA	.	PASS	Atlas-SNP
CD4	920	hgsc.bcm.edu	37	12	6924109	6924109	+	Silent	SNP	C	C	T	rs11575099	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	235	129	197	1	0.548936	0.00507614	C|0.979;T|0.021	0.021	strong	.	CD4	47	.	NM_000616	exon5	c.C558T	p.V186V	CACTGTCTTGCAG	.	PASS	Atlas-SNP
ELMOD3	84173	hgsc.bcm.edu	37	2	85595818	85595818	+	Missense_Mutation	SNP	C	C	T	rs955592	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	38	104	0	0.44186	0	C|0.951;T|0.049	0.049	strong	.	ELMOD3	53	.	NM_001135022	exon7	c.C209T	p.T70I	TGAGTACAGAGGT	.	PASS	Atlas-SNP
ZNF229	7772	hgsc.bcm.edu	37	19	44933504	44933504	+	Silent	SNP	G	G	A	rs59505617	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	60	97	0	0.526316	0	G|0.852;A|0.148	0.148	strong	ZNF229,NS,carcinoma,0,2	ZNF229	123	2	NM_014518	exon6	c.C1452T	p.T484T	CTCGCCGGTGTGT	.	PASS	Atlas-SNP
TRIM4	89122	hgsc.bcm.edu	37	7	99500911	99500911	+	Silent	SNP	A	A	G	rs2247761	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	85	111	0	1	0	A|0.383;G|0.617	0.617	strong	.	TRIM4	33	.	NM_033017	exon6	c.T849C	p.S283S	TTCAAGAGAATAG	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169484767	169484767	+	Missense_Mutation	SNP	A	A	G	rs9332701	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	199	92	167	0	0.462312	0	A|0.974;G|0.026	0.026	strong	.	F5	301	.	NM_000130	exon24	c.T6443C	p.M2148T	ACATACATTTCAG	.	PASS	Atlas-SNP
DPP7	29952	hgsc.bcm.edu	37	9	140006202	140006202	+	Silent	SNP	G	G	A	rs13631	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	68	121	0	0.492754	0	G|0.539;A|0.461	0.461	strong	.	DPP7	22	.	NM_013379	exon11	c.C1212T	p.L404L	GGCTCTGAGATCT	.	PASS	Atlas-SNP
ATP11A	23250	hgsc.bcm.edu	37	13	113481026	113481026	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	259	132	197	0	0.509652	0	.	.	none	.	ATP11A	225	.	NM_032189	exon12	c.G1042A	p.D348N	TTCACGGACTTCC	.	PASS	Atlas-SNP
TXLNB	167838	hgsc.bcm.edu	37	6	139564101	139564101	+	Silent	SNP	C	C	T	rs12529180	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	52	121	0	0.379562	0	C|0.908;T|0.092	0.092	strong	.	TXLNB	96	.	NM_153235	exon10	c.G1617A	p.K539K	TGGCTCCTTGAGA	.	PASS	Atlas-SNP
RB1CC1	9821	hgsc.bcm.edu	37	8	53555069	53555069	+	Silent	SNP	A	A	G	rs2305427	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	81	173	0	0.417526	0	A|0.779;G|0.221	0.221	strong	.	RB1CC1	163	.	NM_001083617	exon18	c.T4179C	p.R1393R	GCTACTACGCAAC	.	PASS	Atlas-SNP
KIAA1551	55196	hgsc.bcm.edu	37	12	32134207	32134207	+	Missense_Mutation	SNP	C	C	A	rs2388981	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	202	100	196	0	0.49505	0	C|0.850;A|0.150	0.150	strong	.	.	.	.	NM_018169	exon4	c.C318A	p.H106Q	AACTCACAATTTG	.	PASS	Atlas-SNP
ZNF30	90075	hgsc.bcm.edu	37	19	35434448	35434448	+	Missense_Mutation	SNP	A	A	G	rs62122088	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	47	98	0	0.47	0	A|0.892;G|0.108	0.108	strong	.	ZNF30	44	.	NM_001099438	exon5	c.A581G	p.K194R	TTGTTAAGCATGG	.	PASS	Atlas-SNP
WWC1	23286	hgsc.bcm.edu	37	5	167858434	167858434	+	Silent	SNP	T	T	C	rs3822658	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	30	55	0	0.526316	0	T|0.990;C|0.010	0.010	strong	.	WWC1	98	.	NM_015238	exon15	c.T2265C	p.H755H	GAGCCATCTGGAA	.	PASS	Atlas-SNP
CCDC135	84229	hgsc.bcm.edu	37	16	57762401	57762401	+	Missense_Mutation	SNP	T	T	C	rs2923147	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	247	118	209	0	0.477733	0	T|0.627;C|0.373	0.373	strong	CCDC135,NS,carcinoma,0,1	CCDC135	97	1	NM_032269	exon16	c.T2296C	p.C766R	CTAACATGCTGGC	.	PASS	Atlas-SNP
ERAP2	64167	hgsc.bcm.edu	37	5	96245343	96245343	+	Silent	SNP	C	C	T	rs2549796	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	228	112	176	0	0.491228	0	C|0.500;T|0.500	0.500	strong	.	ERAP2	77	.	NM_001130140	exon15	c.C2229T	p.G743G	CAAGGGCTCAGTC	.	PASS	Atlas-SNP
RGS11	8786	hgsc.bcm.edu	37	16	319511	319511	+	Missense_Mutation	SNP	A	A	G	rs739999	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	62	151	1	0.402597	0.00662252	A|0.720;G|0.280	0.280	strong	RGS11,colon,carcinoma,0,1	RGS11	29	1	NM_183337	exon16	c.T1280C	p.M427T	CTCTTCATCTCCA	.	scavenged	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31323286	31323286	+	Missense_Mutation	SNP	C	C	T	rs146555925	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	10	112	0	0.0617284	0	C|0.999;T|0.001	0.001	weak	.	HLA-B	54	.	NM_005514	exon4	c.G703A	p.A235T	TCTCCGCAGGGTA	.	PASS	Atlas-SNP
SREBF2	6721	hgsc.bcm.edu	37	22	42276742	42276742	+	Missense_Mutation	SNP	G	G	C	rs2228314	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	230	121	196	3	0.526087	0.0153061	G|0.627;C|0.373	0.373	strong	SREBF2,NS,carcinoma,+1,1	SREBF2	99	1	NM_004599	exon10	c.G1784C	p.G595A	CTGCCGGCAACCT	.	scavenged	Atlas-SNP
PSG4	5672	hgsc.bcm.edu	37	19	43709637	43709637	+	Silent	SNP	C	C	G	rs141508635	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	25	15	20	0	0.6	0	C|0.889;G|0.111	0.111	strong	PSG4_ENST00000405312,NS,carcinoma,0,3	PSG4	129	3	NM_002780	exon1	c.C52C	p.L18L	GCAGGACCCCCTT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	198	185	237	0	0.934343	0	G|0.495;A|0.505	0.505	strong	.	.	.	.	NM_001007249	exon1	c.G850A	p.G284R	GACCAGGGGAAAG	.	PASS	Atlas-SNP
KY	339855	hgsc.bcm.edu	37	3	134369716	134369716	+	Silent	SNP	C	C	A	rs13060869	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	129	116	0	1	0	C|0.832;A|0.168	0.168	strong	.	KY	92	.	NM_178554	exon1	c.G87T	p.T29T	TGAGAGCGTACCC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	10	96	0	0.0806452	0	T|0.434;A|0.566	0.566	strong	.	MAGEB16	64	.	NM_001099921	exon2	c.T743A	p.M248K	CCAGAATGCTCAT	.	PASS	Atlas-SNP
OR51Q1	390061	hgsc.bcm.edu	37	11	5443963	5443963	+	Missense_Mutation	SNP	G	G	A	rs10838095	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	250	121	228	0	0.484	0	G|0.605;A|0.395	0.395	strong	.	OR51Q1	79	.	NM_001004757	exon1	c.G533A	p.R178H	TCTCTCGCTCCTA	.	PASS	Atlas-SNP
ALX1	8092	hgsc.bcm.edu	37	12	85674221	85674221	+	Missense_Mutation	SNP	A	A	G	rs115440539	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	33	66	0	0.55	0	A|0.991;G|0.009	0.009	strong	.	ALX1	61	.	NM_006982	exon1	c.A182G	p.H61R	CCGAGCATCACGT	.	PASS	Atlas-SNP
CITED2	10370	hgsc.bcm.edu	37	6	139695061	139695061	+	Silent	SNP	G	G	T	rs1131400	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	24	11	12	0	0.458333	0	G|0.852;T|0.148	0.148	strong	.	CITED2	16	.	NM_001168389	exon2	c.C36A	p.A12A	GTTCATGGCCATC	.	PASS	Atlas-SNP
NAP1L5	266812	hgsc.bcm.edu	37	4	89618837	89618837	+	Silent	SNP	T	T	C	rs710834	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	31	13	30	0	0.419355	0	T|0.512;C|0.488	0.488	strong	.	NAP1L5	23	.	NM_153757	exon1	c.A69G	p.A23A	CTCCTCTGCCGCT	.	PASS	Atlas-SNP
SPOCK3	50859	hgsc.bcm.edu	37	4	167656073	167656073	+	Silent	SNP	C	C	T	rs1057377	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	301	164	259	1	0.54485	0.003861	C|0.843;T|0.157	0.157	strong	.	SPOCK3	90	.	NM_016950	exon12	c.G1310A	p.X437X	ATCAATCAAATGT	.	PASS	Atlas-SNP
PREX2	80243	hgsc.bcm.edu	37	8	68968166	68968166	+	Silent	SNP	C	C	A	rs1434774	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	76	115	0	0.987013	0	C|0.420;A|0.580	0.580	strong	PREX2_ENST00000354677,NS,malignant_melanoma,-1,2	PREX2	614	2	NM_025170	exon10	c.C1195A	p.R399R	AAAGACCGAAAGA	.	PASS	Atlas-SNP
CEACAM20	125931	hgsc.bcm.edu	37	19	45029208	45029208	+	Missense_Mutation	SNP	G	G	A	rs10408247	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	75	178	0	0.443787	0	G|0.725;A|0.275	0.275	strong	.	CEACAM20	31	.	NM_001102600	exon2	c.C122T	p.A41V	TGGGTGGCATCAA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	270	268	277	0	0.992593	0	T|0.458;C|0.542	0.542	strong	.	FARP1	207	.	NM_005766	exon27	c.T3114C	p.S1038S	GTTGAGTCACAAA	.	PASS	Atlas-SNP
FARP2	9855	hgsc.bcm.edu	37	2	242407588	242407588	+	Missense_Mutation	SNP	G	G	A	rs41342147	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	66	136	0	0.492537	0	G|0.892;A|0.108	0.108	strong	FARP2,rectum,carcinoma,-2,1	FARP2	92	1	NM_014808	exon18	c.G1927A	p.V643I	GACGAGGTCCTAA	.	PASS	Atlas-SNP
RNFT1	51136	hgsc.bcm.edu	37	17	58031412	58031412	+	Silent	SNP	A	A	G	rs11368	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	248	120	204	0	0.483871	0	A|0.499;G|0.501	0.501	strong	.	RNFT1	30	.	NM_016125	exon8	c.T1167C	p.I389I	CTGACAAATGAGA	.	PASS	Atlas-SNP
GRHL3	57822	hgsc.bcm.edu	37	1	24663184	24663184	+	Missense_Mutation	SNP	T	T	C	rs34637004	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	44	89	0	0.473118	0	T|0.971;C|0.029	0.029	strong	.	GRHL3	69	.	NM_021180	exon4	c.T494C	p.V165A	GCTCTGTGGACAG	.	PASS	Atlas-SNP
JPH2	57158	hgsc.bcm.edu	37	20	42747247	42747247	+	Missense_Mutation	SNP	C	C	T	rs3810510	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	35	13	26	0	0.371429	0	C|0.772;T|0.228	0.228	strong	JPH2,caecum,carcinoma,0,1	JPH2	86	1	NM_020433	exon3	c.G1186A	p.A396T	CTTTGGCCTTGGC	.	PASS	Atlas-SNP
FRAS1	80144	hgsc.bcm.edu	37	4	79403682	79403682	+	Silent	SNP	C	C	T	rs41327848	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	43	114	0	0.355372	0	C|0.828;T|0.172	0.172	strong	.	FRAS1	779	.	NM_025074	exon58	c.C8745T	p.F2915F	CACATTCCAAGAT	.	PASS	Atlas-SNP
CPZ	8532	hgsc.bcm.edu	37	4	8621167	8621167	+	Silent	SNP	G	G	A	rs9342	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	255	136	204	1	0.533333	0.00490196	G|0.936;A|0.064	0.064	strong	.	CPZ	95	.	NM_001014447	exon11	c.G1782A	p.G594G	TCATGGGCTGCGG	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954334	30954334	+	Missense_Mutation	SNP	C	C	A	rs143481246	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	18	94	3	0.119205	0.0319149	C|0.994;A|0.006	0.006	strong	MUC21,NS,carcinoma,0,1	MUC21	98	1	NM_001010909	exon2	c.C382A	p.P128T	AGCACACCCTCCA	.	scavenged	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	37	10	129910475	129910475	+	Missense_Mutation	SNP	T	T	G	rs997983	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	68	149	0	0.444444	0	T|0.906;G|0.094	0.094	strong	MKI67,rectum,carcinoma,0,2	MKI67	363	2	NM_002417	exon9	c.A1891C	p.I631L	GGCTGATAGACAC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	6	95	0	0.06	0	0|0.006;A|0.623	0.623	strong	.	MAGEB16	64	.	NM_001099921	exon2	c.G383A	p.C128Y	ACAAGTGTCAGAT	.	PASS	Atlas-SNP
AIFM2	84883	hgsc.bcm.edu	37	10	71880858	71880858	+	Missense_Mutation	SNP	A	A	G	rs10999147	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	29	41	0	0.604167	0	A|0.920;G|0.080	0.080	strong	.	AIFM2	33	.	NM_001198696	exon4	c.T404C	p.M135T	CTCACCATGTCCT	.	PASS	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	37	1	240370934	240370934	+	Missense_Mutation	SNP	G	G	C	rs4997328	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	29	102	2	0.235772	0.0196078	G|0.781;C|0.219	0.219	strong	FMN2,NS,carcinoma,0,3	FMN2	451	3	NM_020066	exon5	c.G2822C	p.G941A	GAGCGGGAATACC	.	scavenged	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31237162	31237162	+	Missense_Mutation	SNP	C	C	G	rs35708511	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	136	162	0	0.985507	0	C|0.266;G|0.734	0.734	strong	.	HLA-C	92	.	NM_002117	exon7	c.G1049C	p.C350S	TTGCTGCCTGGGG	.	PASS	Atlas-SNP
OR2T4	127074	hgsc.bcm.edu	37	1	248525146	248525146	+	Silent	SNP	C	C	T	rs28482938	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	853	245	710	0	0.287222	0	C|0.863;T|0.137	0.137	strong	.	OR2T4	126	.	NM_001004696	exon1	c.C264T	p.H88H	CCTCCACACCCCC	.	PASS	Atlas-SNP
DNMBP	23268	hgsc.bcm.edu	37	10	101645498	101645498	+	Silent	SNP	T	T	C	rs2490763	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	97	173	0	0.906542	0	T|0.492;C|0.508	0.508	strong	.	DNMBP	173	.	NM_015221	exon14	c.A3744G	p.P1248P	CTCAAATGGCTTC	.	PASS	Atlas-SNP
SCLT1	132320	hgsc.bcm.edu	37	4	129864289	129864289	+	Silent	SNP	T	T	C	rs144333168	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	66	127	0	0.5	0	T|0.999;C|0.001	0.001	strong	.	SCLT1	136	.	NM_144643	exon17	c.A1494G	p.V498V	CTCCAATACATTT	.	PASS	Atlas-SNP
SALL2	6297	hgsc.bcm.edu	37	14	21993638	21993638	+	Missense_Mutation	SNP	G	G	C	rs2242527	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	301	127	270	0	0.421927	0	G|0.901;C|0.099	0.099	strong	.	SALL2	95	.	NM_005407	exon2	c.C224G	p.S75C	GCCGAAGAGTTGT	.	PASS	Atlas-SNP
OR2T34	127068	hgsc.bcm.edu	37	1	248737319	248737319	+	Missense_Mutation	SNP	G	G	A	rs77940099	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	358	131	293	1	0.365922	0.00341297	G|0.841;A|0.159	0.159	strong	OR2T34,NS,carcinoma,0,1	OR2T34	72	1	NM_001001821	exon1	c.C740T	p.S247F	TGGGAGGAGCAGG	.	PASS	Atlas-SNP
RAB3GAP1	22930	hgsc.bcm.edu	37	2	135893372	135893372	+	Missense_Mutation	SNP	A	A	G	rs10445686	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	74	136	0	0.5	0	A|0.834;G|0.166	0.166	strong	.	RAB3GAP1	87	.	NM_001172435	exon17	c.A1793G	p.N598S	AAGGAAATGGACA	.	PASS	Atlas-SNP
SSTR3	6753	hgsc.bcm.edu	37	22	37603744	37603744	+	Silent	SNP	C	C	T	rs86583	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	57	86	1	0.487179	0.0116279	C|0.664;T|0.336	0.336	strong	SSTR3,NS,carcinoma,-1,1	SSTR3	42	1	NM_001051	exon2	c.G99A	p.A33A	TGGGCCCGCCGAC	.	scavenged	Atlas-SNP
PRPF8	10594	hgsc.bcm.edu	37	17	1580929	1580929	+	Silent	SNP	G	G	C	rs11078565	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	55	84	0	0.533981	0	G|0.698;C|0.302	0.302	strong	.	PRPF8	169	.	NM_006445	exon14	c.C1914G	p.L638L	GAAAAAGAGCCAG	.	PASS	Atlas-SNP
SENP3	26168	hgsc.bcm.edu	37	17	7474729	7474729	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	59	120	0	0.491667	0	.	.	none	.	SENP3	18	.	NM_015670	exon12	c.C1653T	p.F551F	CAGCTTCACCCAG	.	PASS	Atlas-SNP
ZFYVE19	84936	hgsc.bcm.edu	37	15	41105942	41105942	+	Missense_Mutation	SNP	G	G	A	rs34516375	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	51	87	0	0.980769	0	G|0.997;A|0.003	0.003	strong	.	ZFYVE19	31	.	NM_001077268	exon9	c.G1142A	p.S381N	AGGCAAGTGGCTT	.	PASS	Atlas-SNP
ACSM3	6296	hgsc.bcm.edu	37	16	20796387	20796387	+	Missense_Mutation	SNP	G	G	C	rs5716	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	35	88	0	0.466667	0	G|0.919;C|0.081	0.081	strong	.	ACSM3	113	.	NM_202000	exon8	c.G1101C	p.K367N	AAACAAGACGGGC	.	PASS	Atlas-SNP
PRR25	388199	hgsc.bcm.edu	37	16	855717	855717	+	Missense_Mutation	SNP	C	C	G	rs1005190	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	53	93	0	0.56383	0	C|0.548;G|0.452	0.452	strong	PRR25,rectum,carcinoma,0,1	PRR25	27	1	NM_001013638	exon1	c.C275G	p.T92S	TCCCAACCAGCTC	.	PASS	Atlas-SNP
PECR	55825	hgsc.bcm.edu	37	2	216904019	216904019	+	Missense_Mutation	SNP	A	A	T	rs9288513	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	33	56	0	0.55	0	A|0.844;T|0.156	0.156	strong	.	PECR	22	.	NM_018441	exon8	c.T891A	p.F297L	CTCCTTAAAGGTC	.	PASS	Atlas-SNP
CCDC141	285025	hgsc.bcm.edu	37	2	179732845	179732845	+	Missense_Mutation	SNP	G	G	A	rs12988301	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	72	127	0	0.517986	0	G|0.885;A|0.115	0.115	strong	.	CCDC141	362	.	NM_173648	exon16	c.C2482T	p.R828W	AGCACCGGAGGTG	.	PASS	Atlas-SNP
ANO7	50636	hgsc.bcm.edu	37	2	242149010	242149010	+	Missense_Mutation	SNP	C	C	T	rs57677160	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	267	132	207	1	0.494382	0.00483092	C|0.812;T|0.188	0.188	strong	ANO7,NS,carcinoma,+2,1	ANO7	136	1	NM_001001891	exon13	c.C1481T	p.A494V	GCCGCGCGCGCCG	.	PASS	Atlas-SNP
TPSD1	23430	hgsc.bcm.edu	37	16	1306681	1306681	+	Missense_Mutation	SNP	G	G	A	rs71384640	alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	90	143	0	0.502793	0	C|1.000;|0.000	.	alt	.	TPSD1	47	.	NM_012217	exon2	c.G247A	p.V83M	CACTGCGTGGAAC	.	PASS	Atlas-SNP
GGTLC1	92086	hgsc.bcm.edu	37	20	23965995	23965995	+	Missense_Mutation	SNP	A	A	T	rs150377656	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	99	143	0	0.538043	0	A|0.967;T|0.033	0.033	strong	.	GGTLC1	37	.	NM_178311	exon6	c.T536A	p.V179E	GCAGTCACTTCCT	.	PASS	Atlas-SNP
ZNF598	90850	hgsc.bcm.edu	37	16	2048826	2048826	+	Silent	SNP	C	C	G	rs2240691	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	58	87	0	0.5	0	C|0.564;G|0.436	0.436	strong	.	ZNF598	55	.	NM_178167	exon13	c.G2238C	p.A746A	TAGGTACGCCCGT	.	PASS	Atlas-SNP
DFFA	1676	hgsc.bcm.edu	37	1	10529326	10529326	+	Missense_Mutation	SNP	A	A	G	rs138842024	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	272	135	225	0	0.496324	0	A|0.997;G|0.003	0.003	strong	.	DFFA	24	.	NM_004401	exon2	c.T206C	p.I69T	TCCACTATGGTGC	.	PASS	Atlas-SNP
ACACB	32	hgsc.bcm.edu	37	12	109577344	109577344	+	Missense_Mutation	SNP	A	A	G	rs139767464	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	66	101	0	0.5	0	A|0.998;G|0.002	0.002	strong	.	ACACB	330	.	NM_001093	exon1	c.A134G	p.Q45R	CGAGCCAGGAGCC	.	PASS	Atlas-SNP
MANBA	4126	hgsc.bcm.edu	37	4	103557077	103557077	+	Missense_Mutation	SNP	G	G	A	rs2866413	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	143	124	0	1	0	G|0.448;A|0.552	0.552	strong	MANBA,NS,adenoma,0,1	MANBA	78	1	NM_005908	exon15	c.C2102T	p.T701M	TAGAACGTGTTTT	.	PASS	Atlas-SNP
UBXN10	127733	hgsc.bcm.edu	37	1	20517187	20517187	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	175	4	141	0	0.0228571	0	.	.	none	UBXN10,NS,carcinoma,0,3	UBXN10	29	3	NM_152376	exon2	c.C133T	p.R45W	AAGGGACGGACAA	.	scavenged	Atlas-SNP
ANKRD44	91526	hgsc.bcm.edu	37	2	197946392	197946392	+	Silent	SNP	C	C	T	rs35272229	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	78	157	0	0.448276	0	C|0.957;T|0.043	0.043	strong	.	ANKRD44	281	.	NM_001195144	exon15	c.G1515A	p.E505E	CTTCAGCTCCCTG	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238029	31238029	+	Missense_Mutation	SNP	T	T	C	rs2308622	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	73	151	0	0.986486	0	T|0.324;C|0.676	0.676	strong	.	HLA-C	92	.	NM_002117	exon4	c.A853G	p.M285V	GCTGCATATGGCA	.	PASS	Atlas-SNP
HGFAC	3083	hgsc.bcm.edu	37	4	3444592	3444592	+	Missense_Mutation	SNP	C	C	G	rs149401735	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	59	127	0	0.443609	0	C|0.997;G|0.003	0.003	strong	HGFAC,NS,carcinoma,-1,1	HGFAC	69	1	NM_001528	exon2	c.C251G	p.P84R	GGCTCCCGCCCCC	.	PASS	Atlas-SNP
PIWIL4	143689	hgsc.bcm.edu	37	11	94326765	94326765	+	Missense_Mutation	SNP	G	G	C	rs57607909	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	118	134	0	0.991597	0	G|0.768;C|0.232	0.232	strong	.	PIWIL4	70	.	NM_152431	exon9	c.G1108C	p.A370P	AGTGAGGCTCAGC	.	PASS	Atlas-SNP
ZNF554	115196	hgsc.bcm.edu	37	19	2833943	2833943	+	Missense_Mutation	SNP	G	G	A	rs34753687	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	54	91	0	0.504673	0	G|0.986;A|0.014	0.014	strong	.	ZNF554	47	.	NM_001102651	exon5	c.G710A	p.G237E	CACAGGGAAGCTC	.	PASS	Atlas-SNP
OR1K1	392392	hgsc.bcm.edu	37	9	125562651	125562651	+	Missense_Mutation	SNP	G	G	A	rs55961642	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	62	88	0	0.558559	0	G|0.979;A|0.021	0.021	strong	.	OR1K1	34	.	NM_080859	exon1	c.G250A	p.A84T	ATGTTGGCCAACT	.	PASS	Atlas-SNP
ATN1	1822	hgsc.bcm.edu	37	12	7046077	7046077	+	Silent	SNP	G	G	A	rs11547602	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	82	131	0	0.488095	0	G|0.970;A|0.030	0.030	strong	.	ATN1	95	.	NM_001007026	exon5	c.G1647A	p.L549L	ACACCTGCCCCCA	.	PASS	Atlas-SNP
CPAMD8	27151	hgsc.bcm.edu	37	19	17108094	17108094	+	Missense_Mutation	SNP	C	C	T	rs61745857	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	77	175	0	0.435028	0	C|0.909;T|0.091	0.091	strong	CPAMD8,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1	CPAMD8	192	1	NM_015692	exon11	c.G1063A	p.V355I	CAGGGACGTCCGC	.	PASS	Atlas-SNP
LRRC48	83450	hgsc.bcm.edu	37	17	17919414	17919414	+	Missense_Mutation	SNP	G	G	A	rs200381151	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	41	59	0	0.41	0	G|0.997;A|0.003	0.003	strong	.	LRRC48	49	.	NM_031294	exon13	c.G1363A	p.G455R	GCTGTCGGGGCAT	.	PASS	Atlas-SNP
OR5M3	219482	hgsc.bcm.edu	37	11	56237728	56237728	+	Silent	SNP	G	G	A	rs79240946	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	65	150	0	0.436242	0	G|0.951;A|0.049	0.049	strong	.	OR5M3	103	.	NM_001004742	exon1	c.C246T	p.N82N	TAACAGGTTTTCC	.	PASS	Atlas-SNP
HSP90AB1	3326	hgsc.bcm.edu	37	6	44221316	44221316	+	Missense_Mutation	SNP	G	G	A	rs76772157	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	220	29	192	1	0.131818	0.00520833	G|0.986;A|0.014	0.014	strong	HSP90AB1,extremity,malignant_melanoma,0,1	HSP90AB1	83	1	NM_007355	exon12	c.G2156A	p.R719H	CGTCTCGCATGGA	.	scavenged	Atlas-SNP
PSMA6	5687	hgsc.bcm.edu	37	14	35783656	35783656	+	Silent	SNP	A	A	G	rs13393	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	301	136	299	0	0.451827	0	A|0.955;G|0.045	0.045	strong	.	PSMA6	18	.	NM_002791	exon6	c.A678G	p.K226K	TCCTAAATTCAGG	.	PASS	Atlas-SNP
ERAP1	51752	hgsc.bcm.edu	37	5	96118866	96118866	+	Missense_Mutation	SNP	C	C	T	rs17482078	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	82	190	0	0.445652	0	C|0.859;T|0.141	0.141	strong	.	ERAP1	59	.	NM_001198541	exon15	c.G2174A	p.R725Q	AGCATTCGCTCTG	.	PASS	Atlas-SNP
LIPN	643418	hgsc.bcm.edu	37	10	90537942	90537942	+	Silent	SNP	C	C	T	rs11202851	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	89	171	0	0.927083	0	C|0.901;T|0.099	0.099	strong	.	LIPN	28	.	NM_001102469	exon9	c.C1140T	p.L380L	GGGCCTCGATGCC	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239050	31239050	+	Missense_Mutation	SNP	G	G	A	rs713032	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	111	191	0	0.590426	0	G|0.583;A|0.417	0.417	strong	.	HLA-C	92	.	NM_002117	exon3	c.C419T	p.S140F	TAGGCGGACTGGT	.	PASS	Atlas-SNP
SNRNP48	154007	hgsc.bcm.edu	37	6	7602857	7602857	+	Silent	SNP	C	C	T	rs9502622	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	22	11	26	0	0.5	0	C|0.857;T|0.143	0.143	strong	.	SNRNP48	32	.	NM_152551	exon6	c.C597T	p.D199D	ATTAGACAATAGT	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954963	30954963	+	Silent	SNP	G	G	A	rs55956203	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	37	78	2	0.280303	0.025641	G|0.932;A|0.068	0.068	strong	MUC21,NS,carcinoma,0,1	MUC21	98	1	NM_001010909	exon2	c.G1011A	p.T337T	CAGCACGACCTCC	.	scavenged	Atlas-SNP
MYPN	84665	hgsc.bcm.edu	37	10	69926334	69926334	+	Missense_Mutation	SNP	C	C	G	rs10823148	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	58	113	0	0.517857	0	C|0.625;G|0.374	0.374	strong	.	MYPN	189	.	NM_032578	exon10	c.C1884G	p.F628L	TTCTTTCCAGGAG	.	PASS	Atlas-SNP
GBP1	2633	hgsc.bcm.edu	37	1	89522646	89522646	+	Missense_Mutation	SNP	G	G	C	rs1048425	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	244	243	209	0	0.995902	0	G|0.240;C|0.760	0.760	strong	GBP1,colon,carcinoma,0,2	GBP1	68	2	NM_002053	exon7	c.C1046G	p.T349S	TGGAGGGTTTCTG	.	PASS	Atlas-SNP
LILRA6	79168	hgsc.bcm.edu	37	19	54744358	54744358	+	Nonsense_Mutation	SNP	A	A	C	rs1052992	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	205	24	296	8	0.117073	0.027027	A|1.000;|0.000	.	weak	LILRA6,NS,carcinoma,0,1	LILRA6	75	1	NM_024318	exon6	c.T1050G	p.Y350X	GTCAAAATAACCC	.	scavenged	Atlas-SNP
OR10AG1	282770	hgsc.bcm.edu	37	11	55735280	55735280	+	Silent	SNP	T	T	A	rs61896164	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	196	96	153	0	0.489796	0	T|0.948;A|0.052	0.052	strong	.	OR10AG1	100	.	NM_001005491	exon1	c.A660T	p.S220S	GGCTGATGACAAT	.	PASS	Atlas-SNP
SLC25A40	55972	hgsc.bcm.edu	37	7	87483585	87483585	+	Silent	SNP	T	T	A	rs150511221	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	32	101	0	0.385542	0	T|0.994;A|0.006	0.006	strong	.	SLC25A40	32	.	NM_018843	exon5	c.A198T	p.L66L	GACACATAGATGA	.	PASS	Atlas-SNP
POM121	9883	hgsc.bcm.edu	37	7	72413423	72413423	+	Missense_Mutation	SNP	C	C	T	rs75799836		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	290	78	254	1	0.268966	0.00393701	C|0.500;T|0.500	0.500	weak	POM121,rectum,carcinoma,0,1	POM121	131	1	NM_172020	exon11	c.C2096T	p.P699L	CATATCCGGGAGC	.	scavenged	Atlas-SNP
PRDM2	7799	hgsc.bcm.edu	37	1	14105139	14105139	+	Missense_Mutation	SNP	T	T	A	rs2076324	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	57	73	0	0.537736	0	T|0.662;A|0.338	0.338	strong	.	PRDM2	147	.	NM_015866	exon8	c.T849A	p.D283E	AGAAGATGATGAT	.	PASS	Atlas-SNP
MAGEC1	9947	hgsc.bcm.edu	37	X	140995712	140995712	+	Missense_Mutation	SNP	G	G	T	rs41299076	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	88	62	0	0.926316	0	G|0.992;T|0.008	0.008	strong	.	MAGEC1	317	.	NM_005462	exon4	c.G2522T	p.S841I	CATCGAGTCTTTC	.	PASS	Atlas-SNP
VCAN	1462	hgsc.bcm.edu	37	5	82837631	82837631	+	Missense_Mutation	SNP	G	G	T	rs160277	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	94	57	0	1	0	G|0.618;T|0.382	0.382	strong	.	VCAN	498	.	NM_004385	exon8	c.G8809T	p.D2937Y	AAAACCGATGGTC	.	PASS	Atlas-SNP
KIAA0141	9812	hgsc.bcm.edu	37	5	141307833	141307833	+	Missense_Mutation	SNP	T	T	C	rs10036567	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	89	141	0	0.478495	0	T|0.836;C|0.164	0.164	strong	.	KIAA0141	44	.	NM_001142603	exon4	c.T382C	p.F128L	CGTTTCTTCTCAT	.	PASS	Atlas-SNP
SMC5	23137	hgsc.bcm.edu	37	9	72912914	72912914	+	Silent	SNP	G	G	A	rs61752954	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	22	56	0	0.488889	0	G|0.964;A|0.036	0.036	strong	.	SMC5	96	.	NM_015110	exon9	c.G1086A	p.K362K	AGTAAAGCAAAAT	.	PASS	Atlas-SNP
FAM90A1	55138	hgsc.bcm.edu	37	12	8374812	8374812	+	Missense_Mutation	SNP	G	G	A	rs17855656	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	63	69	0	0.617647	0	G|0.833;A|0.167	0.167	strong	FAM90A1,caecum,carcinoma,0,1	FAM90A1	68	1	NM_018088	exon7	c.C1001T	p.P334L	GCTGGCGGAGGTT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	205	89	280	0	0.434146	0	A|0.818;G|0.182	0.182	strong	.	SAMD9	239	.	NM_001193307	exon2	c.T428C	p.I143T	TCTTCTATGAGCT	.	PASS	Atlas-SNP
FANCI	55215	hgsc.bcm.edu	37	15	89838318	89838318	+	Missense_Mutation	SNP	A	A	T	rs35875311	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	47	86	0	0.47	0	A|0.931;T|0.069	0.069	strong	.	FANCI	129	.	NM_001113378	exon24	c.A2629T	p.I877L	TGTGACATAACTC	.	PASS	Atlas-SNP
TMEM17	200728	hgsc.bcm.edu	37	2	62729653	62729653	+	Silent	SNP	A	A	G	rs6713096	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	67	98	0	0.626168	0	A|0.922;G|0.078	0.078	strong	.	TMEM17	19	.	NM_198276	exon3	c.T237C	p.I79I	GATCACAATGAAT	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150947719	150947719	+	Silent	SNP	C	C	T	rs3734060	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	147	102	1	1	0.00980392	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
SOWAHB	345079	hgsc.bcm.edu	37	4	77818548	77818548	+	Missense_Mutation	SNP	T	T	C	rs2703129	bycluster;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	11	7	12	0	0.636364	0	T|0.689;C|0.311	0.311	strong	.	.	.	.	NM_001029870	exon1	c.A455G	p.D152G	CGGGAGTCGCTGC	.	PASS	Atlas-SNP
C15orf27	123591	hgsc.bcm.edu	37	15	76496340	76496340	+	Missense_Mutation	SNP	C	C	T	rs937733	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	42	24	65	0	0.571429	0	C|0.712;T|0.288	0.288	strong	.	C15orf27	32	.	NM_152335	exon11	c.C1280T	p.P427L	CTCCCCCGCCGCT	.	PASS	Atlas-SNP
LILRB3	11025	hgsc.bcm.edu	37	19	54721012	54721012	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	247	4	222	0	0.0161943	0	.	.	none	LILRB3,colon,carcinoma,+1,2	LILRB3	67	2	NM_001081450	exon13	c.G1849A	p.G617R	GTTCCCCTTCCTG	.	scavenged	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238053	31238053	+	Missense_Mutation	SNP	G	G	C	rs707908	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	96	169	0	0.989691	0	G|0.328;C|0.672	0.672	strong	.	HLA-C	92	.	NM_002117	exon4	c.C829G	p.Q277E	GCTCTTGTCCAGA	.	PASS	Atlas-SNP
HK2	3099	hgsc.bcm.edu	37	2	75101454	75101454	+	Silent	SNP	T	T	C	rs2229622	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	459	279	234	1	0.607843	0.0042735	T|0.680;C|0.320	0.320	strong	.	HK2	85	.	NM_000189	exon7	c.T753C	p.D251D	AGGCGATGAGGGG	.	PASS	Atlas-SNP
SLC35B2	347734	hgsc.bcm.edu	37	6	44223010	44223010	+	Silent	SNP	G	G	T	rs1875324	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	252	125	210	1	0.496032	0.0047619	G|0.829;T|0.171	0.171	strong	.	SLC35B2	40	.	NM_178148	exon4	c.C732A	p.T244T	GATGAGGGTGGCT	.	PASS	Atlas-SNP
ITPKB	3707	hgsc.bcm.edu	37	1	226924642	226924642	+	Missense_Mutation	SNP	C	C	T	rs3754415	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	31	42	0	0.574074	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
KRTAP1-1	81851	hgsc.bcm.edu	37	17	39197593	39197593	+	Silent	SNP	G	G	T	rs145621540	by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	22	155	0	0.116402	0	G|0.983;A|0.017	.	strong	KRTAP1-1,NS,carcinoma,0,1	KRTAP1-1	23	1	NM_030967	exon1	c.C57A	p.T19T	GCCGCAGGTCCCA	.	scavenged	Atlas-SNP
LRRK1	79705	hgsc.bcm.edu	37	15	101464915	101464915	+	Silent	SNP	T	T	C	rs11630691	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	60	108	0	0.431655	0	T|0.682;C|0.318	0.318	strong	LRRK1_ENST00000388948,NS,carcinoma,0,1	LRRK1	310	1	NM_024652	exon2	c.T78C	p.R26R	AGAACGTGCCATG	.	PASS	Atlas-SNP
ZNF618	114991	hgsc.bcm.edu	37	9	116764283	116764283	+	Silent	SNP	C	C	T	rs4978561	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	139	134	0	0.992857	0	C|0.645;T|0.355	0.355	strong	.	ZNF618	184	.	NM_133374	exon4	c.C345T	p.Y115Y	GTCTTACGAATGC	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	145008560	145008560	+	Silent	SNP	A	A	G	rs11783799	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	62	146	0	0.4	0	A|0.702;G|0.298	0.298	strong	.	PLEC	1144	.	NM_201380	exon11	c.T1506C	p.D502D	CTCCACATCCAGC	.	PASS	Atlas-SNP
PNPLA5	150379	hgsc.bcm.edu	37	22	44287629	44287629	+	Silent	SNP	G	G	A	rs74445350	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	20	37	0	0.512821	0	G|0.878;A|0.122	0.122	strong	.	PNPLA5	46	.	NM_138814	exon1	c.C132T	p.R44R	GTAGATGCGGCGG	.	PASS	Atlas-SNP
COL5A1	1289	hgsc.bcm.edu	37	9	137707834	137707834	+	Silent	SNP	G	G	A	rs3827848	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	225	105	202	1	0.466667	0.00495049	G|0.865;A|0.135	0.135	strong	COL5A1,NS,carcinoma,0,2	COL5A1	323	2	NM_000093	exon52	c.G4122A	p.T1374T	GCAGACGGTGAGT	.	scavenged	Atlas-SNP
PLEKHN1	84069	hgsc.bcm.edu	37	1	909242	909242	+	Silent	SNP	A	A	G	rs3829739	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	54	101	0	0.457627	0	A|0.902;G|0.098	0.098	strong	.	PLEKHN1	49	.	NM_032129	exon14	c.A1464G	p.G488G	ACGTGGACCCACG	.	PASS	Atlas-SNP
OR11H2	79334	hgsc.bcm.edu	37	14	20181502	20181502	+	Missense_Mutation	SNP	C	C	T	rs201024081	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	494	346	440	0	0.700405	0	.	.	weak	.	.	.	.	NM_001197287	exon2	c.G574A	p.V192I	ACACAACATGGTC	.	PASS	Atlas-SNP
PTPRQ	374462	hgsc.bcm.edu	37	12	80900348	80900348	+	Missense_Mutation	SNP	T	T	G	rs7965277	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	19	38	0	0.527778	0	T|0.686;G|0.314	0.314	strong	PTPRQ,NS,carcinoma,0,1	PTPRQ	119	1	NM_001145026	exon13	c.T1940G	p.V647G	CTTTAGTACTGAA	.	PASS	Atlas-SNP
CDKL5	6792	hgsc.bcm.edu	37	X	18664128	18664128	+	Silent	SNP	C	C	T	rs201714912	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	5	39	0	0.102041	0	C|0.999;T|0.001	0.001	strong	.	CDKL5	124	.	NM_003159	exon19	c.C2715T	p.D905D	ACTAGACGGTGGA	.	PASS	Atlas-SNP
STARD3	10948	hgsc.bcm.edu	37	17	37815305	37815305	+	Silent	SNP	G	G	A	rs144713925	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	92	220	0	0.453202	0	G|0.999;A|0.001	0.001	strong	.	STARD3	33	.	NM_006804	exon8	c.G648A	p.G216G	TGCAGGGTCTGAC	.	PASS	Atlas-SNP
ADSSL1	122622	hgsc.bcm.edu	37	14	105196365	105196365	+	Silent	SNP	T	T	C	rs33958252	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	46	84	0	0.516854	0	T|0.432;C|0.568	0.568	strong	.	ADSSL1	37	.	NM_199165	exon1	c.T136C	p.L46L	CTCCAGTTACTGA	.	PASS	Atlas-SNP
NARG2	79664	hgsc.bcm.edu	37	15	60734697	60734697	+	Silent	SNP	A	A	G	rs55905322		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	522	517	539	1	0.990421	0.00185529	.	.	weak	.	NARG2	82	.	NM_024611	exon12	c.T2343C	p.Y781Y	AACTCCATAACAA	.	PASS	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50727811	50727811	+	Missense_Mutation	SNP	C	C	T	rs6580742	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	262	132	263	0	0.503817	0	C|0.920;T|0.080	0.080	strong	.	FAM186A	181	.	NM_001145475	exon5	c.G6579A	p.M2193I	GCTCAGCATCATG	.	PASS	Atlas-SNP
DNAJC21	134218	hgsc.bcm.edu	37	5	34945122	34945122	+	Silent	SNP	A	A	G	rs17304200	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	222	113	228	0	0.509009	0	A|0.950;G|0.050	0.050	strong	.	DNAJC21	54	.	NM_001012339	exon8	c.A1134G	p.P378P	TGCACCAAAACAA	.	PASS	Atlas-SNP
PIWIL1	9271	hgsc.bcm.edu	37	12	130841638	130841638	+	Missense_Mutation	SNP	G	G	A	rs1106042	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	40	19	48	0	0.475	0	G|0.943;A|0.057	0.057	strong	.	PIWIL1	157	.	NM_004764	exon13	c.G1580A	p.R527K	AAATGAGAAAAGC	.	PASS	Atlas-SNP
WDR11	55717	hgsc.bcm.edu	37	10	122645376	122645376	+	Silent	SNP	A	A	T	rs7899928	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	101	89	0	1	0	A|0.640;T|0.360	0.360	strong	WDR11,NS,carcinoma,0,1	WDR11	95	1	NM_018117	exon15	c.A1899T	p.A633A	ACTTGCAACTCGA	.	PASS	Atlas-SNP
METTL11B	149281	hgsc.bcm.edu	37	1	170136787	170136787	+	Silent	SNP	C	C	T	rs12075997	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	124	134	0	0.96875	0	C|0.930;T|0.070	0.070	strong	.	METTL11B	18	.	NM_001136107	exon4	c.C741T	p.S247S	CCGGAGCCTAATA	.	PASS	Atlas-SNP
KLHL24	54800	hgsc.bcm.edu	37	3	183368216	183368216	+	Silent	SNP	A	A	T	rs3755648	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	219	109	152	0	0.497717	0	A|0.647;T|0.353	0.353	strong	KLHL24,caecum,carcinoma,+1,2	KLHL24	56	2	NM_017644	exon3	c.A72T	p.R24R	TAAGCGAAAAGTT	.	PASS	Atlas-SNP
RIMBP2	23504	hgsc.bcm.edu	37	12	130941150	130941150	+	Silent	SNP	G	G	C	rs2277361	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	43	42	0	0.530864	0	G|0.590;C|0.410	0.410	strong	.	RIMBP2	220	.	NM_015347	exon4	c.C198G	p.G66G	AATCTTGCCAGCG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9072296	9072296	+	Silent	SNP	G	G	T	rs7254970	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	112	78	0	0.99115	0	G|0.815;T|0.185	0.185	strong	.	MUC16	4315	.	NM_024690	exon3	c.C15150A	p.T5050T	AGGTGTGGTCATT	.	PASS	Atlas-SNP
EIF4G1	1981	hgsc.bcm.edu	37	3	184046470	184046470	+	Silent	SNP	C	C	T	rs2230571	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	59	105	0	0.531532	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
ATP8B2	57198	hgsc.bcm.edu	37	1	154310048	154310048	+	Silent	SNP	C	C	G	rs1760795	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	259	127	248	1	0.490348	0.00403226	C|0.542;G|0.458	0.458	strong	.	ATP8B2	158	.	NM_001005855	exon12	c.C1062G	p.L354L	GGGTCTCTCCAGG	.	PASS	Atlas-SNP
ARVCF	421	hgsc.bcm.edu	37	22	19958829	19958829	+	Silent	SNP	G	G	A	rs5993890	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	32	21	28	0	0.65625	0	G|0.916;A|0.084	0.084	strong	.	ARVCF	54	.	NM_001670	exon19	c.C2811T	p.P937P	GGGCCCGGGGGGA	.	PASS	Atlas-SNP
PRCP	5547	hgsc.bcm.edu	37	11	82535963	82535963	+	Silent	SNP	C	C	T	rs4759	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	48	118	0	0.48	0	C|0.873;T|0.127	0.127	strong	.	PRCP	69	.	NM_199418	exon10	c.G1539A	p.A513A	CTTTCCCGCACTG	.	PASS	Atlas-SNP
TRPA1	8989	hgsc.bcm.edu	37	8	72948588	72948588	+	Silent	SNP	C	C	T	rs13280644	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	322	175	233	0	0.543478	0	C|0.934;T|0.066	0.066	strong	.	TRPA1	256	.	NM_007332	exon21	c.G2490A	p.L830L	CCACTGCAGATGA	.	PASS	Atlas-SNP
CDH23	64072	hgsc.bcm.edu	37	10	73537614	73537614	+	Missense_Mutation	SNP	G	G	A	rs17712523	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	75	126	0	0.513699	0	G|0.857;A|0.143	0.143	strong	CDH23,NS,carcinoma,0,1	CDH23	365	1	NM_022124	exon37	c.G5023A	p.V1675I	GCCATCGTCGCAG	.	PASS	Atlas-SNP
STAP1	26228	hgsc.bcm.edu	37	4	68447040	68447040	+	Silent	SNP	C	C	T	rs11556615	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	59	83	0	0.546296	0	T|0.162;G|0.138;C|0.673;A|0.027	0.162	strong	.	STAP1	46	.	NM_012108	exon5	c.C381T	p.N127N	CCAAAACGTGTCA	.	PASS	Atlas-SNP
WDR64	128025	hgsc.bcm.edu	37	1	241951329	241951329	+	Missense_Mutation	SNP	C	C	T	rs12074374	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	113	99	0	0.982609	0	C|0.837;T|0.163	0.163	strong	WDR64_ENST00000366552,NS,carcinoma,-1,2	WDR64	234	2	NM_144625	exon23	c.C2854T	p.R952W	TTTGACCGGGAAA	.	PASS	Atlas-SNP
RNF157	114804	hgsc.bcm.edu	37	17	74152366	74152366	+	Silent	SNP	A	A	G	rs881502	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	53	124	0	0.452991	0	A|0.685;G|0.315	0.315	strong	RNF157,NS,carcinoma,0,1	RNF157	66	1	NM_052916	exon14	c.T1450C	p.L484L	ACGACAAGGTGAG	.	PASS	Atlas-SNP
TREML2	79865	hgsc.bcm.edu	37	6	41166017	41166017	+	Missense_Mutation	SNP	C	C	T	rs77093113	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	7	87	0	0.0673077	0	C|0.995;T|0.005	0.005	strong	TREML2,caecum,carcinoma,0,2	TREML2	41	2	NM_024807	exon2	c.G206A	p.R69Q	CAGACTCGGGCAA	.	scavenged	Atlas-SNP
RARS	5917	hgsc.bcm.edu	37	5	167919726	167919726	+	Silent	SNP	A	A	G	rs2305727	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	174	214	0	0.983051	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
C1orf94	84970	hgsc.bcm.edu	37	1	34663208	34663208	+	Missense_Mutation	SNP	C	C	G	rs1382602	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	60	87	0	0.555556	0	C|0.612;G|0.387	0.387	strong	.	C1orf94	156	.	NM_001134734	exon2	c.C703G	p.Q235E	AACTTGCAAGTCA	.	PASS	Atlas-SNP
RPA4	29935	hgsc.bcm.edu	37	X	96139406	96139406	+	Missense_Mutation	SNP	G	G	A	rs2642219	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	9	73	0	0.0743802	0	G|0.556;0|0.014	.	strong	.	RPA4	29	.	NM_013347	exon1	c.G97A	p.A33T	ACTCCTGCTATTA	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62196182	62196182	+	Silent	SNP	G	G	C	rs3810488	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	79	116	0	0.496855	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
TNRC6A	27327	hgsc.bcm.edu	37	16	24801737	24801737	+	Missense_Mutation	SNP	G	G	A	rs6497759	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	92	142	0	0.522727	0	G|0.839;A|0.161	0.161	strong	.	TNRC6A	171	.	NM_014494	exon6	c.G1774A	p.A592T	AATGGCGCAAATT	.	PASS	Atlas-SNP
TNRC6B	23112	hgsc.bcm.edu	37	22	40552119	40552119	+	Missense_Mutation	SNP	G	G	A	rs9611280	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	66	146	0	0.488889	0	G|0.943;A|0.057	0.057	strong	TNRC6B_ENST00000301923,lymph_node,lymphoid_neoplasm,0,1	TNRC6B	195	1	NM_001024843	exon4	c.G46A	p.V16M	TTGCAGGTGGAAC	.	PASS	Atlas-SNP
TNS1	7145	hgsc.bcm.edu	37	2	218762616	218762616	+	Missense_Mutation	SNP	C	C	T	rs41272679	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	80	154	0	0.454545	0	C|0.975;G|0.000;T|0.025	0.025	strong	.	TNS1	251	.	NM_022648	exon6	c.G73A	p.V25I	AGGAGACAGCGAT	.	PASS	Atlas-SNP
TPSB2	64499	hgsc.bcm.edu	37	16	1279714	1279714	+	Missense_Mutation	SNP	A	A	G	rs192643610	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	25	116	1	0.337838	0.00862069	A|0.924;G|0.076	0.076	strong	TPSB2,rectum,carcinoma,0,1	TPSB2	8	1	NM_024164	exon3	c.T86C	p.V29A	ATGCCCACTCGCT	.	scavenged	Atlas-SNP
PPEF2	5470	hgsc.bcm.edu	37	4	76805745	76805745	+	Splice_Site	SNP	A	A	G	rs17220803	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	51	123	0	0.490385	0	A|0.967;G|0.033	0.033	strong	.	PPEF2	108	.	NM_006239	exon9	c.746+2T>C	.	ACTTGTACCGTAA	.	PASS	Atlas-SNP
RPS16	6217	hgsc.bcm.edu	37	19	39923952	39923952	+	Silent	SNP	G	G	A	rs17627	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	65	131	0	0.424837	0	G|0.758;A|0.242	0.242	strong	.	RPS16	12	.	NM_001020	exon5	c.C402T	p.G134G	ACCAGGGCCTCCA	.	PASS	Atlas-SNP
OR5M11	219487	hgsc.bcm.edu	37	11	56310356	56310356	+	Nonsense_Mutation	SNP	A	A	T	rs17547284	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	48	81	0	0.48	0	A|0.952;T|0.048	0.048	strong	OR5M11,NS,carcinoma,-2,1	OR5M11	60	1	NM_001005245	exon1	c.T378A	p.Y126X	AGGGTCATATATG	.	PASS	Atlas-SNP
ALPK3	57538	hgsc.bcm.edu	37	15	85382307	85382307	+	Missense_Mutation	SNP	G	G	A	rs34407151	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	45	73	0	0.436893	0	G|0.990;A|0.010	0.010	strong	.	ALPK3	289	.	NM_020778	exon4	c.G1007A	p.R336H	GCAACCGCCACAC	.	PASS	Atlas-SNP
FAM86B1	85002	hgsc.bcm.edu	37	8	12044010	12044010	+	Missense_Mutation	SNP	C	C	T	rs201876260	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	20	110	0	0.175439	0	C|0.983;T|0.016	0.016	strong	FAM86B1,NS,carcinoma,0,1	FAM86B1	7	1	NM_001083537	exon5	c.G491A	p.R164Q	TTCCCTCGGAGCT	.	scavenged	Atlas-SNP
NEU4	129807	hgsc.bcm.edu	37	2	242758203	242758203	+	Silent	SNP	T	T	C	rs2293763	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	54	158	1	0.442623	0.00632911	T|0.640;C|0.360	0.360	strong	NEU4,NS,carcinoma,0,1	NEU4	39	1	NM_001167599	exon4	c.T1323C	p.A441A	GCCGGCTCCTGAG	.	scavenged	Atlas-SNP
R3HCC1	203069	hgsc.bcm.edu	37	8	23148978	23148978	+	Silent	SNP	G	G	T	rs2272760	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	59	111	0	0.457364	0	G|0.820;T|0.180	0.180	strong	.	R3HCC1	11	.	NM_001136108	exon5	c.G396T	p.V132V	CCACGTGGTAGAG	.	PASS	Atlas-SNP
TGOLN2	10618	hgsc.bcm.edu	37	2	85549874	85549874	+	Missense_Mutation	SNP	A	A	G	rs3637	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	50	74	0	0.537634	0	A|0.637;G|0.363	0.363	strong	.	TGOLN2	32	.	NM_001206841	exon4	c.T1316C	p.F439S	AGGGGAAAAAAGA	.	PASS	Atlas-SNP
RASA4	10156	hgsc.bcm.edu	37	7	102246311	102246311	+	Missense_Mutation	SNP	T	T	C	rs200132914		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	32	129	0	0.240602	0	.	.	weak	RASA4_ENST00000262940,NS,carcinoid-endocrine_tumour,0,2	RASA4	7	2	NM_006989	exon5	c.A422G	p.E141G	CTGGCCTCCAGCA	.	scavenged	Atlas-SNP
SOAT2	8435	hgsc.bcm.edu	37	12	53516993	53516993	+	Silent	SNP	C	C	T	rs35335316	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	202	96	157	0	0.475248	0	C|0.993;T|0.007	0.007	strong	.	SOAT2	44	.	NM_003578	exon13	c.C1365T	p.V455V	CCTTGTCATTGGA	.	PASS	Atlas-SNP
OR1S1	219959	hgsc.bcm.edu	37	11	57983194	57983194	+	Missense_Mutation	SNP	A	A	G	rs7103033	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	41	115	0	0.390476	0	A|0.672;G|0.328	0.328	strong	.	OR1S1	139	.	NM_001004458	exon1	c.A978G	p.X326W	CCTTTGATGCCCT	.	PASS	Atlas-SNP
C6orf170	221322	hgsc.bcm.edu	37	6	121642916	121642916	+	Silent	SNP	C	C	T	rs75082736	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	82	145	0	0.539474	0	C|0.944;T|0.056	0.056	strong	.	C6orf170	146	.	NM_152730	exon2	c.G180A	p.R60R	ATGCTGCCTGAGG	.	PASS	Atlas-SNP
DNAJC17	55192	hgsc.bcm.edu	37	15	41068771	41068771	+	Missense_Mutation	SNP	T	T	G	rs79709714	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	57	114	0	0.826087	0	T|0.984;G|0.016	0.016	strong	.	DNAJC17	18	.	NM_018163	exon5	c.A350C	p.E117A	CGGCTCTCCTCTT	.	PASS	Atlas-SNP
NOTCH4	4855	hgsc.bcm.edu	37	6	32163799	32163799	+	Silent	SNP	T	T	C	rs8192579	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	37	14	55	0	0.378378	0	T|0.930;C|0.070	0.070	strong	NOTCH4,rectum,carcinoma,0,3	NOTCH4	201	3	NM_004557	exon30	c.A5427G	p.Q1809Q	GTTACGTTGGTGA	.	PASS	Atlas-SNP
DACT1	51339	hgsc.bcm.edu	37	14	59105188	59105188	+	Silent	SNP	C	C	T	rs2003021	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	22	22	18	0	1	0	C|0.454;T|0.546	0.546	strong	.	DACT1	119	.	NM_016651	exon1	c.C268T	p.L90L	GAGCTACTGGGGG	.	PASS	Atlas-SNP
COX10	1352	hgsc.bcm.edu	37	17	13980350	13980350	+	Missense_Mutation	SNP	G	G	A	rs2072279	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	60	148	0	0.451128	0	G|0.515;A|0.485	0.485	strong	.	COX10	36	.	NM_001303	exon3	c.G476A	p.R159Q	TGGCTCGACTATC	.	PASS	Atlas-SNP
GRM6	2916	hgsc.bcm.edu	37	5	178416288	178416288	+	Silent	SNP	G	G	A	rs2071246	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	86	144	0	0.462366	0	G|0.261;A|0.739	0.739	strong	.	GRM6	149	.	NM_000843	exon5	c.C1131T	p.D377D	GGAATCGTCTGAC	.	PASS	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	37	8	3253768	3253768	+	Silent	SNP	C	C	T	rs3802303	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	158	121	0	0.9875	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
PDE6C	5146	hgsc.bcm.edu	37	10	95372734	95372734	+	Silent	SNP	G	G	A	rs1131978	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	35	35	50	0	1	0	A|0.180;G|0.820;T|0.000	0.180	strong	.	PDE6C	97	.	NM_006204	exon1	c.G252A	p.L84L	GGCCCTGCAGAGG	.	PASS	Atlas-SNP
VPS52	6293	hgsc.bcm.edu	37	6	33235755	33235755	+	Silent	SNP	G	G	A	rs213199	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	43	79	0	0.43	0	G|0.576;A|0.424	0.424	strong	.	VPS52	56	.	NM_022553	exon9	c.C820T	p.L274L	TGCCCAGCAGAAA	.	PASS	Atlas-SNP
OR12D2	26529	hgsc.bcm.edu	37	6	29364951	29364951	+	Missense_Mutation	SNP	G	G	A	rs2073151	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	208	92	186	0	0.442308	0	G|0.639;A|0.361	0.361	strong	.	OR12D2	42	.	NM_013936	exon1	c.G475A	p.V159I	CACTCCGTAATGA	.	PASS	Atlas-SNP
DDX20	11218	hgsc.bcm.edu	37	1	112308972	112308972	+	Silent	SNP	G	G	A	rs197413	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	40	104	0	0.43956	0	G|0.512;A|0.488	0.488	strong	.	DDX20	50	.	NM_007204	exon11	c.G1926A	p.V642V	CCCTGTGTTGGCA	.	PASS	Atlas-SNP
KCNK18	338567	hgsc.bcm.edu	37	10	118957027	118957027	+	Missense_Mutation	SNP	A	A	G	rs67346047	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	35	78	0	0.384615	0	A|0.941;G|0.059	0.059	strong	.	KCNK18	70	.	NM_181840	exon1	c.A28G	p.R10G	CAGGCCAGGAGAT	.	PASS	Atlas-SNP
RBM19	9904	hgsc.bcm.edu	37	12	114395651	114395651	+	Missense_Mutation	SNP	T	T	C	rs10850256	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	65	139	0	0.416667	0	T|0.808;C|0.192	0.192	strong	.	RBM19	117	.	NM_001146699	exon6	c.A776G	p.K259R	GCACCCTTGCTGT	.	PASS	Atlas-SNP
RBMXL3	139804	hgsc.bcm.edu	37	X	114424941	114424941	+	Missense_Mutation	SNP	G	G	A	rs62601530	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	191	124	0	0.940887	0	G|0.929;A|0.071	0.071	strong	.	RBMXL3	83	.	NM_001145346	exon1	c.G937A	p.A313T	TGCGGCGCTGCCC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	38	12	55	0	0.315789	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
KLHDC7A	127707	hgsc.bcm.edu	37	1	18807781	18807781	+	Silent	SNP	C	C	T	rs35013594	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	68	129	0	0.485714	0	C|0.899;T|0.101	0.101	strong	.	KLHDC7A	60	.	NM_152375	exon1	c.C306T	p.G102G	AAGAGGCCCCTAT	.	PASS	Atlas-SNP
CYP51A1	1595	hgsc.bcm.edu	37	7	91743150	91743150	+	Silent	SNP	A	A	G	rs7797834	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	49	81	0	0.526882	0	A|0.620;G|0.380	0.380	strong	.	CYP51A1	30	.	NM_000786	exon10	c.T1359C	p.H453H	ACAACGATGACGC	.	PASS	Atlas-SNP
BAG6	7917	hgsc.bcm.edu	37	6	31611746	31611746	+	Silent	SNP	G	G	A	rs7770976	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	32	47	0	0.444444	0	G|0.940;A|0.060	0.060	strong	.	BAG6	73	.	NM_004639	exon13	c.C1587T	p.A529A	CAGACCGGCGCCC	.	PASS	Atlas-SNP
PIK3R5	23533	hgsc.bcm.edu	37	17	8809025	8809025	+	Silent	SNP	G	G	A	rs61753147	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	31	63	0	0.430556	0	G|0.972;A|0.028	0.028	strong	.	PIK3R5	79	.	NM_001142633	exon4	c.C234T	p.L78L	CGGGGTGAGCAGG	.	PASS	Atlas-SNP
C20orf26	26074	hgsc.bcm.edu	37	20	20232356	20232356	+	Silent	SNP	C	C	T	rs56102210	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	26	61	0	0.356164	0	C|0.914;T|0.086	0.086	strong	.	C20orf26	188	.	NM_015585	exon20	c.C2277T	p.D759D	CACGGACGAGATC	.	PASS	Atlas-SNP
ZNF521	25925	hgsc.bcm.edu	37	18	22805218	22805218	+	Silent	SNP	G	G	A	rs35535552	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	285	128	192	1	0.449123	0.00520833	G|0.995;A|0.005	0.005	strong	ZNF521,caecum,carcinoma,0,1	ZNF521	269	1	NM_015461	exon4	c.C2664T	p.C888C	AATGTCGCAGCCG	.	scavenged	Atlas-SNP
ANKRD55	79722	hgsc.bcm.edu	37	5	55406952	55406952	+	Silent	SNP	T	T	C	rs321775	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	39	69	0	0.40625	0	T|0.779;C|0.221	0.221	strong	ANKRD55,NS,carcinoma,0,1	ANKRD55	70	1	NM_024669	exon10	c.A1623G	p.P541P	TGATGATGGATTA	.	PASS	Atlas-SNP
SLC45A1	50651	hgsc.bcm.edu	37	1	8395560	8395560	+	Missense_Mutation	SNP	G	G	T	rs7535752	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	27	40	0	0.529412	0	G|0.849;T|0.151	0.151	strong	.	SLC45A1	85	.	NM_001080397	exon5	c.G1507T	p.A503S	GAGCGCGCGGAGC	.	PASS	Atlas-SNP
MYO7B	4648	hgsc.bcm.edu	37	2	128381808	128381808	+	Silent	SNP	C	C	T	rs13422424	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	57	92	0	0.495652	0	C|0.847;T|0.153	0.153	strong	MYO7B_ENST00000428314,NS,carcinoma,0,2	MYO7B	359	2	NM_001080527	exon29	c.C3882T	p.H1294H	CTGGCACGACTCC	.	PASS	Atlas-SNP
PANK4	55229	hgsc.bcm.edu	37	1	2444414	2444414	+	Missense_Mutation	SNP	G	G	A	rs7535528	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	213	107	169	0	0.502347	0	G|0.727;A|0.273	0.273	strong	.	PANK4	64	.	NM_018216	exon13	c.C1640T	p.A547V	CCCAGCGCGTCCA	.	PASS	Atlas-SNP
MYO7B	4648	hgsc.bcm.edu	37	2	128367092	128367092	+	Silent	SNP	G	G	A	rs777432	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	51	108	1	0.404762	0.00925926	G|0.692;A|0.308	0.308	strong	MYO7B_ENST00000428314,colon,carcinoma,0,2	MYO7B	359	2	NM_001080527	exon23	c.G2826A	p.S942S	GGAATCGAAGACC	.	scavenged	Atlas-SNP
ISX	91464	hgsc.bcm.edu	37	22	35478529	35478529	+	Missense_Mutation	SNP	G	G	A	rs8140287	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	45	42	0	0.555556	0	G|0.965;A|0.035	0.035	strong	.	ISX	62	.	NM_001008494	exon2	c.G248A	p.R83Q	GCAAGCGGAGGGT	.	PASS	Atlas-SNP
OR2B6	26212	hgsc.bcm.edu	37	6	27925367	27925367	+	Missense_Mutation	SNP	G	G	A	rs7767176	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	85	130	0	0.480226	0	G|0.897;A|0.103	0.103	strong	.	OR2B6	48	.	NM_012367	exon1	c.G349A	p.V117I	CTGGCCGTCATGT	.	PASS	Atlas-SNP
CDH23	64072	hgsc.bcm.edu	37	10	73455201	73455201	+	Silent	SNP	T	T	C	rs3752752	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	139	126	0	0.978873	0	T|0.407;C|0.593	0.593	strong	.	CDH23	365	.	NM_022124	exon21	c.T2316C	p.N772N	CATCAATGACAAC	.	PASS	Atlas-SNP
OR8I2	120586	hgsc.bcm.edu	37	11	55861650	55861650	+	Nonsense_Mutation	SNP	C	C	G	rs79114904		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	37	57	0	0.468354	0	.	.	weak	.	OR8I2	119	.	NM_001003750	exon1	c.C867G	p.Y289X	CATCTACAGTCTG	.	PASS	Atlas-SNP
SLC4A7	9497	hgsc.bcm.edu	37	3	27436597	27436597	+	Missense_Mutation	SNP	G	G	A	rs114662202	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	64	179	1	0.415584	0.00558659	G|0.988;A|0.012	0.012	strong	SLC4A7,rectum,carcinoma,+2,4	SLC4A7	119	4	NM_003615	exon19	c.C2686T	p.P896S	TCTCTGGATGAGT	.	scavenged	Atlas-SNP
ZFAT	57623	hgsc.bcm.edu	37	8	135612745	135612745	+	Silent	SNP	A	A	G	rs894344	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	216	96	201	0	0.444444	0	A|0.542;G|0.458	0.458	strong	.	ZFAT	265	.	NM_020863	exon7	c.T2409C	p.D803D	ACAGCCATCGGTG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9048170	9048170	+	Missense_Mutation	SNP	G	G	A	rs10417600	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	129	102	1	1	0.00980392	G|0.796;A|0.204	0.204	strong	.	MUC16	4315	.	NM_024690	exon5	c.C33461T	p.S11154F	ACCAGAGAGGTCA	.	PASS	Atlas-SNP
CC2D1A	54862	hgsc.bcm.edu	37	19	14040420	14040420	+	Missense_Mutation	SNP	G	G	A	rs201921029	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	51	79	0	0.520408	0	.	.	weak	.	CC2D1A	67	.	NM_017721	exon26	c.G2657A	p.R886H	TGCAACGCAGCCA	.	PASS	Atlas-SNP
KHDRBS2	202559	hgsc.bcm.edu	37	6	62442604	62442604	+	Silent	SNP	A	A	G	rs10484690	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	103	185	0	0.512438	0	A|0.601;G|0.399	0.399	strong	.	KHDRBS2	103	.	NM_152688	exon7	c.T876C	p.Y292Y	GGTCGCATAGCTG	.	PASS	Atlas-SNP
FXYD5	53827	hgsc.bcm.edu	37	19	35649281	35649281	+	Silent	SNP	A	A	G	rs1128882	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	59	128	0	0.479675	0	A|0.828;G|0.172	0.172	strong	.	FXYD5	41	.	NM_014164	exon4	c.A177G	p.P59P	CTCTCCAACCCCA	.	PASS	Atlas-SNP
GPX7	2882	hgsc.bcm.edu	37	1	53068093	53068093	+	Silent	SNP	G	G	T	rs11205977	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	31	23	32	0	0.741935	0	G|0.951;T|0.049	0.049	strong	.	GPX7	16	.	NM_015696	exon1	c.G12T	p.A4A	GGCGGCGACGGTG	.	PASS	Atlas-SNP
FAM26F	441168	hgsc.bcm.edu	37	6	116783330	116783330	+	Missense_Mutation	SNP	G	G	A	rs3087828		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	13	13	14	0	1	0	.	.	weak	.	FAM26F	12	.	NM_001010919	exon2	c.G238A	p.E80K	CTCACCGGATGCT	.	PASS	Atlas-SNP
CHIA	27159	hgsc.bcm.edu	37	1	111861822	111861822	+	Silent	SNP	G	G	A	rs17027410	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	195	82	189	0	0.420513	0	G|0.898;A|0.102	0.102	strong	.	CHIA	115	.	NM_201653	exon10	c.G996A	p.V332V	CAATGTGTGGGTT	.	PASS	Atlas-SNP
ELF1	1997	hgsc.bcm.edu	37	13	41515371	41515371	+	Silent	SNP	C	C	T	rs7987185	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	55	157	0	0.887097	0	C|0.830;T|0.170	0.170	strong	.	ELF1	65	.	NM_172373	exon8	c.G942A	p.S314S	AGATAGCGATGGA	.	PASS	Atlas-SNP
LPCAT3	10162	hgsc.bcm.edu	37	12	7090193	7090193	+	Missense_Mutation	SNP	A	A	G	rs1984564	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	96	162	0	0.48	0	A|0.759;G|0.241	0.241	strong	.	LPCAT3	33	.	NM_005768	exon6	c.T650C	p.I217T	ATGTCAATCAGCT	.	PASS	Atlas-SNP
NRK	203447	hgsc.bcm.edu	37	X	105152282	105152282	+	Missense_Mutation	SNP	G	G	A	rs209373	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	344	16	259	0	0.0465116	0	0|0.030;A|0.341	0.341	strong	.	NRK	321	.	NM_198465	exon12	c.G1072A	p.V358M	TACACCGTGAGAA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9074697	9074697	+	Missense_Mutation	SNP	G	G	A	rs202216364	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	70	136	0	0.44586	0	.	.	weak	.	MUC16	4315	.	NM_024690	exon3	c.C12749T	p.T4250M	ATATTCGTCACTG	.	PASS	Atlas-SNP
DAGLB	221955	hgsc.bcm.edu	37	7	6449967	6449967	+	Silent	SNP	T	T	G	rs77154720	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	240	117	224	0	0.4875	0	T|0.974;G|0.026	0.026	strong	DAGLB,bladder,carcinoma,-1,1	DAGLB	74	1	NM_139179	exon14	c.A1614C	p.G538G	GGGGTTTCCTCCA	.	PASS	Atlas-SNP
FREM2	341640	hgsc.bcm.edu	37	13	39263218	39263218	+	Silent	SNP	C	C	T	rs144811771		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	18	17	51	0	0.944444	0	C|1.000;T|0.000	0.000	weak	.	FREM2	385	.	NM_207361	exon1	c.C1737T	p.I579I	GCCCATCCTGCCC	.	PASS	Atlas-SNP
OR52A5	390054	hgsc.bcm.edu	37	11	5153261	5153261	+	Silent	SNP	A	A	G	rs2472530	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	138	120	1	0.992806	0.00833333	A|0.815;G|0.185	0.185	strong	.	OR52A5	80	.	NM_001005160	exon1	c.T612C	p.F204F	GGCAACAAATAGG	.	PASS	Atlas-SNP
DCAF13	25879	hgsc.bcm.edu	37	8	104432631	104432631	+	Silent	SNP	T	T	C	rs3098238	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	178	92	189	0	0.516854	0	T|0.945;C|0.055	0.055	strong	.	DCAF13	66	.	NM_015420	exon2	c.T666C	p.N222N	AGTCAATTGCTTG	.	PASS	Atlas-SNP
ZBTB46	140685	hgsc.bcm.edu	37	20	62378349	62378349	+	Silent	SNP	C	C	T	rs5019252	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	24	11	26	0	0.458333	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
IFIT1	3434	hgsc.bcm.edu	37	10	91162677	91162677	+	Silent	SNP	C	C	T	rs303210	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	33	62	0	0.916667	0	C|0.815;T|0.185	0.185	strong	.	IFIT1	30	.	NM_001270927	exon3	c.C645T	p.D215D	TCCAGACAATGGA	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134726621	134726621	+	Silent	SNP	G	G	C	rs4880467	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	87	174	0	0.448454	0	G|0.740;C|0.260	0.260	strong	.	TTC40	100	.	NM_001200049	exon18	c.C2262G	p.A754A	CCGCCCGGCCAGG	.	PASS	Atlas-SNP
ARSG	22901	hgsc.bcm.edu	37	17	66366659	66366659	+	Missense_Mutation	SNP	C	C	G	rs144503106	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	247	107	203	1	0.433198	0.00492611	C|0.988;G|0.012	0.012	strong	ARSG,rectum,carcinoma,0,1	ARSG	55	1	NM_001267727	exon8	c.C976G	p.R326G	CAAACTCGTCAAG	.	scavenged	Atlas-SNP
PRR3	80742	hgsc.bcm.edu	37	6	30530245	30530245	+	Silent	SNP	T	T	C	rs2074504	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	50	96	0	0.480769	0	T|0.274;C|0.726	0.726	strong	PRR3,NS,carcinoma,+2,1	PRR3	5	1	NM_025263	exon4	c.T540C	p.H180H	CTACCATCCAGGC	.	PASS	Atlas-SNP
ZNF486	90649	hgsc.bcm.edu	37	19	20308488	20308488	+	Silent	SNP	G	G	T	rs181719180	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	24	9	25	0	0.375	0	G|0.995;T|0.005	0.005	strong	ZNF486_ENST00000335117,NS,carcinoma,+1,4	ZNF486	74	4	NM_052852	exon4	c.G969T	p.T323T	GTACACGTGTGAT	.	PASS	Atlas-SNP
NALCN	259232	hgsc.bcm.edu	37	13	101759897	101759897	+	Silent	SNP	G	G	A	rs34513106	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	88	171	0	0.49162	0	G|0.990;A|0.010	0.010	strong	.	NALCN	431	.	NM_052867	exon22	c.C2520T	p.V840V	TCGCCCGACAATG	.	PASS	Atlas-SNP
COL25A1	84570	hgsc.bcm.edu	37	4	109745336	109745336	+	Silent	SNP	T	T	G	rs7689008	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	99	156	0	0.535135	0	T|0.648;G|0.352	0.352	strong	.	COL25A1	178	.	NM_001256074	exon32	c.A1848C	p.G616G	CTTTTCTCCCTTT	.	PASS	Atlas-SNP
ATG4C	84938	hgsc.bcm.edu	37	1	63299751	63299751	+	Missense_Mutation	SNP	A	A	C	rs146422144	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	43	95	0	0.457447	0	A|0.998;C|0.002	0.002	strong	.	ATG4C	96	.	NM_178221	exon8	c.A976C	p.K326Q	GGTGGCAAACCTA	.	PASS	Atlas-SNP
HOXD12	3238	hgsc.bcm.edu	37	2	176964904	176964904	+	Silent	SNP	G	G	A	rs847151	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	37	91	0	0.513889	0	G|0.702;A|0.298	0.298	strong	.	HOXD12	25	.	NM_021193	exon1	c.G375A	p.L125L	TAGCCTGGCTCCT	.	PASS	Atlas-SNP
SCARA5	286133	hgsc.bcm.edu	37	8	27729532	27729532	+	Silent	SNP	G	G	A	rs61737291	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	66	127	0	0.492537	0	G|0.870;A|0.130	0.130	strong	.	SCARA5	53	.	NM_173833	exon9	c.C1407T	p.I469I	GCGGAAGATGGTT	.	PASS	Atlas-SNP
PLSCR4	57088	hgsc.bcm.edu	37	3	145917761	145917761	+	Missense_Mutation	SNP	T	T	C	rs1061409	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	159	152	0	1	0	T|0.734;C|0.266	0.266	strong	.	PLSCR4	44	.	NM_020353	exon6	c.A463G	p.I155V	TTACAATGTAAAC	.	PASS	Atlas-SNP
RNF213	57674	hgsc.bcm.edu	37	17	78272294	78272294	+	Missense_Mutation	SNP	C	C	T	rs72849841	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	74	132	0	0.465409	0	C|0.869;T|0.131	0.131	strong	RNF213_ENST00000456466,colon,carcinoma,-1,3	RNF213	766	3	NM_001256071	exon11	c.C2186T	p.P729L	TCTCACCGTTCCG	.	PASS	Atlas-SNP
ATP2B3	492	hgsc.bcm.edu	37	X	152823728	152823728	+	Silent	SNP	G	G	C	rs2269415	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	339	217	157	0	0.640118	0	0|0.002;C|0.416	0.416	strong	.	ATP2B3	552	.	NM_001001344	exon15	c.G2592C	p.V864V	GGCTGTGATCGTG	.	PASS	Atlas-SNP
ANKRD30B	374860	hgsc.bcm.edu	37	18	14848820	14848820	+	Missense_Mutation	SNP	C	C	T	rs76917476	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	250	123	216	0	0.492	0	.	.	weak	ANKRD30B_ENST00000358984,NS,carcinoma,0,1	ANKRD30B	237	1	NM_001145029	exon34	c.C2930T	p.T977M	AACAAACGAAAAA	.	PASS	Atlas-SNP
OVCH1	341350	hgsc.bcm.edu	37	12	29596365	29596365	+	Missense_Mutation	SNP	T	T	C	rs78265994	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	44	81	0	0.564103	0	T|0.952;C|0.048	0.048	strong	.	OVCH1	195	.	NM_183378	exon25	c.A3086G	p.K1029R	GTTGGCTTCATCG	.	PASS	Atlas-SNP
CCND3	896	hgsc.bcm.edu	37	6	41903783	41903783	+	Silent	SNP	G	G	A	rs3218102	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	67	74	0	0.515385	0	G|0.956;A|0.044	0.044	strong	.	CCND3	40	.	NM_001760	exon5	c.C774T	p.A258A	CTGAGAGGCTTCC	.	PASS	Atlas-SNP
URB2	9816	hgsc.bcm.edu	37	1	229773441	229773441	+	Silent	SNP	C	C	T	rs3811475	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	199	92	154	0	0.462312	0	C|0.857;T|0.143	0.143	strong	.	URB2	152	.	NM_014777	exon4	c.C3081T	p.T1027T	AATCACCGCATTC	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	706534	706534	+	Silent	SNP	G	G	A	rs28485323	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	31	43	0	0.553571	0	G|0.606;A|0.394	0.394	strong	.	WDR90	107	.	NM_145294	exon18	c.G2199A	p.Q733Q	CCTGCAGCAGGTG	.	PASS	Atlas-SNP
ZC3H11A	9877	hgsc.bcm.edu	37	1	203818973	203818973	+	Silent	SNP	C	C	A	rs41299639	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	364	169	280	0	0.464286	0	C|0.815;A|0.185	0.185	strong	.	ZC3H11A	71	.	NM_014827	exon17	c.C1758A	p.A586A	TGTAGCCTCTTGC	.	PASS	Atlas-SNP
FIGN	55137	hgsc.bcm.edu	37	2	164467208	164467208	+	Silent	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	3	101	1	0.0218978	0.00990099	.	.	none	FIGN,NS,lymphoid_neoplasm,-1,1	FIGN	106	1	NM_018086	exon3	c.A1134G	p.P378P	CTTCGTTGGCTTA	.	scavenged	Atlas-SNP
TBL3	10607	hgsc.bcm.edu	37	16	2025206	2025206	+	Silent	SNP	A	A	C	rs8053843	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	65	113	0	0.503876	0	A|0.782;C|0.218	0.218	strong	.	TBL3	54	.	NM_006453	exon8	c.A654C	p.I218I	CAAGATATGTATC	.	PASS	Atlas-SNP
KCNG2	26251	hgsc.bcm.edu	37	18	77659553	77659553	+	Silent	SNP	C	C	T	rs75339189	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	212	118	193	0	0.556604	0	C|0.926;T|0.074	0.074	strong	.	KCNG2	48	.	NM_012283	exon2	c.C1138T	p.L380L	CGCAGCCTGCCCG	.	PASS	Atlas-SNP
TRAPPC9	83696	hgsc.bcm.edu	37	8	141461062	141461062	+	Silent	SNP	G	G	A	rs3735803	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	57	80	0	0.982759	0	G|0.538;A|0.462	0.462	strong	.	TRAPPC9	114	.	NM_031466	exon2	c.C705T	p.N235N	CTCGTAGTTGGGG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	190	181	229	0	0.952632	0	A|0.889;T|0.111	0.111	strong	.	PARP4	142	.	NM_006437	exon7	c.T644A	p.F215Y	TTTTCAAAGTATT	.	PASS	Atlas-SNP
ADAM7	8756	hgsc.bcm.edu	37	8	24356818	24356818	+	Missense_Mutation	SNP	A	A	C	rs13259668	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	88	78	0	1	0	A|0.694;C|0.306	0.306	strong	.	ADAM7	165	.	NM_003817	exon17	c.A1912C	p.N638H	CAGTGCAATGAAA	.	PASS	Atlas-SNP
TADA2A	6871	hgsc.bcm.edu	37	17	35771468	35771468	+	Missense_Mutation	SNP	C	C	T	rs7211875	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	61	68	0	0.983871	0	C|0.135;N|0.000	.	strong	.	TADA2A	91	.	NM_001488	exon2	c.C16T	p.P6S	TTGGGTCCCTTTA	.	PASS	Atlas-SNP
SLC4A7	9497	hgsc.bcm.edu	37	3	27442336	27442336	+	Silent	SNP	G	G	A	rs3736312	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	172	217	0	0.99422	0	G|0.828;A|0.172	0.172	strong	.	SLC4A7	119	.	NM_003615	exon16	c.C2319T	p.N773N	GCTGGGGTTTGGA	.	PASS	Atlas-SNP
WDR87	83889	hgsc.bcm.edu	37	19	38377773	38377773	+	Missense_Mutation	SNP	G	G	A	rs34785154	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	61	130	0	0.435714	0	G|0.663;A|0.337	0.337	strong	.	WDR87	191	.	NM_031951	exon6	c.C6421T	p.R2141W	GCTTCCGAGCCAG	.	PASS	Atlas-SNP
KDSR	2531	hgsc.bcm.edu	37	18	61022791	61022791	+	Silent	SNP	C	C	T	rs2003149	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	44	80	0	0.473118	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
GABRG1	2565	hgsc.bcm.edu	37	4	46086060	46086060	+	Silent	SNP	T	T	C	rs976156	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	417	184	386	0	0.441247	0	T|0.435;C|0.565	0.565	strong	GABRG1,NS,carcinoma,0,1	GABRG1	172	1	NM_173536	exon3	c.A264G	p.T88T	AATTACTGTGGGC	.	PASS	Atlas-SNP
LPCAT1	79888	hgsc.bcm.edu	37	5	1467004	1467004	+	Missense_Mutation	SNP	A	A	G	rs35452723	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	48	81	0	0.585366	0	A|0.815;G|0.185;T|0.000	0.185	strong	.	LPCAT1	70	.	NM_024830	exon13	c.T1280C	p.M427T	CCGTACATCTGCA	.	PASS	Atlas-SNP
RPTOR	57521	hgsc.bcm.edu	37	17	78921117	78921117	+	Silent	SNP	C	C	T	rs4969231	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	52	93	0	0.481481	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
ABLIM2	84448	hgsc.bcm.edu	37	4	8031471	8031471	+	Silent	SNP	A	A	G	rs2385904	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	47	45	0	1	0	A|0.269;G|0.731	0.731	strong	.	ABLIM2	59	.	NM_001130087	exon12	c.T1113C	p.C371C	GGTCCGACACTGC	.	PASS	Atlas-SNP
TMTC1	83857	hgsc.bcm.edu	37	12	29671406	29671406	+	Missense_Mutation	SNP	G	G	A	rs192684476	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	204	88	172	0	0.431373	0	G|1.000;A|0.000	0.000	strong	.	TMTC1	147	.	NM_001193451	exon13	c.C2023T	p.R675C	TTTACCGCTTGTA	.	PASS	Atlas-SNP
PSMC5	5705	hgsc.bcm.edu	37	17	61908556	61908556	+	Silent	SNP	C	C	T	rs13030	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	39	66	0	0.458824	0	C|0.689;T|0.311	0.311	strong	.	PSMC5	41	.	NM_002805	exon8	c.C840T	p.L280L	CCAGCTCGACGGC	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	717523	717523	+	Silent	SNP	G	G	T	rs3752493	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	78	57	1	1	0.0175439	G|0.369;T|0.631	0.631	strong	WDR90,colon,carcinoma,0,2	WDR90	107	2	NM_145294	exon41	c.G5181T	p.P1727P	TACACCGTCCGCC	.	scavenged	Atlas-SNP
EPHA2	1969	hgsc.bcm.edu	37	1	16456763	16456763	+	Missense_Mutation	SNP	C	C	T	rs35903225	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	309	148	253	0	0.478964	0	C|0.983;T|0.017	0.017	strong	.	EPHA2	102	.	NM_004431	exon15	c.G2627A	p.R876H	GGGGCACGAATGA	.	PASS	Atlas-SNP
TET2	54790	hgsc.bcm.edu	37	4	106196951	106196951	+	Missense_Mutation	SNP	A	A	G	rs2454206	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	46	82	0	0.484211	0	A|0.768;G|0.232	0.232	strong	.	TET2	1762	.	NM_001127208	exon11	c.A5284G	p.I1762V	TCTCACATAATCC	.	PASS	Atlas-SNP
TPP1	1200	hgsc.bcm.edu	37	11	6636106	6636106	+	Silent	SNP	T	T	A	rs1128396	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	34	77	0	0.5	0	T|0.785;A|0.215	0.215	strong	.	TPP1	71	.	NM_000391	exon12	c.A1542T	p.G514G	AAAGAGTCCTGCC	.	PASS	Atlas-SNP
CDKAL1	54901	hgsc.bcm.edu	37	6	21201493	21201493	+	Silent	SNP	G	G	A	rs9465994	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	29	34	0	0.517857	0	G|0.451;A|0.549	0.549	strong	CDKAL1,NS,carcinoma,+1,1	CDKAL1	55	1	NM_017774	exon15	c.G1536A	p.S512S	AGTCTCGGGTTTG	.	PASS	Atlas-SNP
ATP7A	538	hgsc.bcm.edu	37	X	77268502	77268502	+	Missense_Mutation	SNP	G	G	C	rs2227291	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	123	159	0	0.87234	0	0|0.066;C|0.253	0.253	strong	.	ATP7A	248	.	NM_000052	exon10	c.G2299C	p.V767L	CTTCTAGTTGCAA	.	PASS	Atlas-SNP
PRR5L	79899	hgsc.bcm.edu	37	11	36458997	36458997	+	Missense_Mutation	SNP	A	A	G	rs62621409	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	36	106	0	0.363636	0	A|0.972;G|0.028	0.028	strong	.	PRR5L	35	.	NM_024841	exon7	c.A415G	p.T139A	CTCCCTACCCTGC	.	PASS	Atlas-SNP
EXTL1	2134	hgsc.bcm.edu	37	1	26357667	26357667	+	Silent	SNP	G	G	A	rs11247848	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	83	145	0	0.5	0	G|0.819;A|0.181	0.181	strong	EXTL1,NS,carcinoma,0,1	EXTL1	61	1	NM_004455	exon5	c.G1146A	p.L382L	CTCACTGCTGTGG	.	PASS	Atlas-SNP
HECW2	57520	hgsc.bcm.edu	37	2	197183856	197183856	+	Silent	SNP	A	A	G	rs61744819	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	57	91	0	0.513514	0	A|0.982;G|0.018	0.018	strong	.	HECW2	239	.	NM_020760	exon9	c.T1758C	p.D586D	TGATGCATCGGAA	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954552	30954552	+	Silent	SNP	C	C	T	rs144720609	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	12	88	0	0.0888889	0	C|0.999;T|0.001	0.001	weak	.	MUC21	98	.	NM_001010909	exon2	c.C600T	p.S200S	TGAGTCCAGCACA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	199	82	132	0	0.41206	0	G|0.804;A|0.196	0.196	strong	.	FGFR4	174	.	NM_022963	exon1	c.G28A	p.V10I	TTGGGGGTCCTGC	.	PASS	Atlas-SNP
LMNA	4000	hgsc.bcm.edu	37	1	156105028	156105028	+	Silent	SNP	T	T	C	rs538089	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	216	96	176	0	0.444444	0	T|0.808;C|0.192	0.192	strong	.	LMNA	31	.	NM_170707	exon5	c.T861C	p.A287A	GGGGGCTGCCCAC	.	PASS	Atlas-SNP
C17orf82	388407	hgsc.bcm.edu	37	17	59489893	59489893	+	Missense_Mutation	SNP	T	T	C	rs9907379	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	4	4	1	1	1	1	T|0.261;C|0.739	0.739	strong	C17orf82_ENST00000335108,NS,carcinoma,0,2	C17orf82	16	2	NM_203425	exon1	c.T557C	p.L186P	AACTCCTCACAGG	.	scavenged	Atlas-SNP
DCAF10	79269	hgsc.bcm.edu	37	9	37861380	37861380	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	236	107	202	0	0.45339	0	.	.	none	DCAF10,NS,carcinoma,0,1	DCAF10	31	1	NM_024345	exon7	c.C1555T	p.R519W	CCCCTGCGGGTGA	.	PASS	Atlas-SNP
OR8B2	26595	hgsc.bcm.edu	37	11	124252422	124252422	+	Missense_Mutation	SNP	G	G	A	rs80334894	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	243	130	231	1	0.534979	0.004329	.	.	weak	.	OR8B2	42	.	NM_001005468	exon1	c.C818T	p.S273F	ACAGAAGAAACTT	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30955218	30955218	+	Silent	SNP	T	T	C	rs76773745	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	26	139	0	0.153846	0	T|0.858;C|0.142	0.142	strong	MUC21,NS,carcinoma,0,1	MUC21	98	1	NM_001010909	exon2	c.T1266C	p.N422N	CACCAATTCTGAG	.	PASS	Atlas-SNP
EMILIN3	90187	hgsc.bcm.edu	37	20	39990700	39990700	+	Silent	SNP	T	T	C	rs41278104	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	45	98	0	0.46875	0	T|0.802;C|0.198	0.198	strong	.	EMILIN3	63	.	NM_052846	exon4	c.A1509G	p.V503V	TGTCTGTACAAGG	.	PASS	Atlas-SNP
ICAM5	7087	hgsc.bcm.edu	37	19	10402938	10402938	+	Missense_Mutation	SNP	G	G	A	rs1056538	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	24	52	0	0.444444	0	G|0.719;A|0.281	0.281	strong	.	ICAM5	53	.	NM_003259	exon4	c.G901A	p.V301I	CAGCTGGTCTGCA	.	PASS	Atlas-SNP
COG6	57511	hgsc.bcm.edu	37	13	40229957	40229957	+	Missense_Mutation	SNP	T	T	A	rs3812883	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	48	91	0	1	0	T|0.567;A|0.433	0.433	strong	.	COG6	49	.	NM_001145079	exon1	c.T94A	p.C32S	ACGACCTGCAACC	.	PASS	Atlas-SNP
SERPINB5	5268	hgsc.bcm.edu	37	18	61156606	61156606	+	Silent	SNP	G	G	C	rs12454742	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	99	128	0	0.970588	0	G|0.285;C|0.715	0.715	strong	.	SERPINB5	35	.	NM_002639	exon4	c.G333C	p.P111P	GAGACCGTATGCA	.	PASS	Atlas-SNP
MIOS	54468	hgsc.bcm.edu	37	7	7613039	7613039	+	Silent	SNP	C	C	T	rs61744397	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	69	148	0	0.401163	0	C|0.902;T|0.098	0.098	strong	.	MIOS	68	.	NM_019005	exon4	c.C933T	p.P311P	TGAACCCACAATA	.	PASS	Atlas-SNP
GRIK1	2897	hgsc.bcm.edu	37	21	30926024	30926024	+	Missense_Mutation	SNP	G	G	A	rs363503	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	32	90	0	0.438356	0	G|0.997;A|0.003	0.003	strong	.	GRIK1	293	.	NM_000830	exon17	c.C2609T	p.A870V	CAAAAAGCCTTGC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	233	121	205	1	0.519313	0.00487805	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
TAF1A	9015	hgsc.bcm.edu	37	1	222732027	222732027	+	Missense_Mutation	SNP	T	T	C	rs76003336	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	52	89	0	0.52	0	T|0.979;C|0.021	0.021	strong	.	TAF1A	35	.	NM_001201536	exon11	c.A1328G	p.Y443C	ATACTGTATTTTT	.	PASS	Atlas-SNP
CLIP4	79745	hgsc.bcm.edu	37	2	29383256	29383256	+	Missense_Mutation	SNP	G	G	T	rs3100246	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	69	104	0	0.547619	0	G|0.905;T|0.095	0.095	strong	.	CLIP4	69	.	NM_024692	exon12	c.G1457T	p.R486L	AACTCCGCCTCGG	.	PASS	Atlas-SNP
ZNF19	7567	hgsc.bcm.edu	37	16	71509634	71509634	+	Silent	SNP	G	G	C	rs2288488	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	39	58	0	0.52	0	G|0.765;C|0.235	0.235	strong	.	ZNF19	46	.	NM_006961	exon6	c.C816G	p.P272P	CTCATAGGGTTTC	.	PASS	Atlas-SNP
PCDHGA11	56105	hgsc.bcm.edu	37	5	140802723	140802723	+	Silent	SNP	C	C	T	rs62378456	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	33	92	0	0.515625	0	C|0.963;T|0.037	0.037	strong	.	PCDHGA11	128	.	NM_032091	exon1	c.C1929T	p.L643L	GAGCCTCGTGGTG	.	PASS	Atlas-SNP
PDE9A	5152	hgsc.bcm.edu	37	21	44106372	44106372	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	2	90	0	0.0235294	0	.	.	none	PDE9A,NS,carcinoma,0,1	PDE9A	69	1	NM_001001570	exon2	c.G140A	p.R47Q	TGCCTCGGTGAGT	.	scavenged	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	37	6	51613177	51613177	+	Silent	SNP	C	C	T	rs765525	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	61	95	0	0.521368	0	T|0.317;G|0.011	0.317	strong	.	PKHD1	927	.	NM_170724	exon58	c.G9237A	p.A3079A	GATTCCCGCCACC	.	PASS	Atlas-SNP
CYP4F22	126410	hgsc.bcm.edu	37	19	15648715	15648715	+	Silent	SNP	G	G	A	rs11666601	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	52	106	0	0.45614	0	G|0.907;A|0.093	0.093	strong	CYP4F22,NS,carcinoma,0,1	CYP4F22	74	1	NM_173483	exon7	c.G582A	p.A194A	CTCAGCGGTCTCC	.	PASS	Atlas-SNP
SLCO2A1	6578	hgsc.bcm.edu	37	3	133666209	133666209	+	Missense_Mutation	SNP	C	C	T	rs34550074	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	69	122	1	0.492857	0.00819672	C|0.732;T|0.268	0.268	strong	SLCO2A1,NS,carcinoma,0,1	SLCO2A1	72	1	NM_005630	exon9	c.G1186A	p.A396T	GAATGGCTTGTAG	.	scavenged	Atlas-SNP
ZNF768	79724	hgsc.bcm.edu	37	16	30536798	30536798	+	Silent	SNP	C	C	T	rs138236969	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	64	112	0	0.516129	0	C|0.995;T|0.005	0.005	strong	.	ZNF768	28	.	NM_024671	exon2	c.G663A	p.G221G	CAGGGCCCCTGTG	.	PASS	Atlas-SNP
NUBP1	4682	hgsc.bcm.edu	37	16	10837913	10837913	+	Missense_Mutation	SNP	C	C	G	rs2233531	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	22	11	12	0	0.5	0	C|0.909;G|0.091	0.091	strong	.	NUBP1	31	.	NM_002484	exon2	c.C115G	p.P39A	GCCACTCCGGACA	.	PASS	Atlas-SNP
ZSCAN31	64288	hgsc.bcm.edu	37	6	28294550	28294550	+	Missense_Mutation	SNP	T	T	C	rs853684	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	65	138	0	0.40625	0	T|0.428;C|0.572	0.572	strong	.	.	.	.	NM_030899	exon4	c.A614G	p.K205R	TGGAGTTTGCTAT	.	PASS	Atlas-SNP
CCDC88B	283234	hgsc.bcm.edu	37	11	64109118	64109118	+	Missense_Mutation	SNP	T	T	G	rs647152	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	69	150	1	0.479167	0.00666667	T|0.649;G|0.351	0.351	strong	CCDC88B,NS,carcinoma,0,1	CCDC88B	89	1	NM_032251	exon7	c.T579G	p.D193E	GCCAGATCCTGGG	.	scavenged	Atlas-SNP
FAM135B	51059	hgsc.bcm.edu	37	8	139164570	139164570	+	Silent	SNP	C	C	T	rs3750307	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	58	100	0	0.495726	0	C|0.791;N|0.000	.	strong	LOC51059,caecum,carcinoma,0,2	FAM135B	423	2	NM_015912	exon13	c.G2148A	p.P716P	AACAAACGGGTGC	.	PASS	Atlas-SNP
SYNPO2L	79933	hgsc.bcm.edu	37	10	75406952	75406952	+	Missense_Mutation	SNP	A	A	G	rs200429699		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	48	62	1	0.527473	0.016129	.	.	weak	SYNPO2L_ENST00000394810,NS,carcinoma,+1,4	SYNPO2L	118	4	NM_001114133	exon4	c.T2458C	p.F820L	GGAAAAAGGGAGA	.	scavenged	Atlas-SNP
EFHD1	80303	hgsc.bcm.edu	37	2	233498669	233498669	+	Silent	SNP	G	G	T	rs2276557	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	8	6	4	0	0.75	0	G|0.726;T|0.274	0.274	strong	.	EFHD1	28	.	NM_025202	exon1	c.G255T	p.P85P	GTTCCCGGAGTTC	.	PASS	Atlas-SNP
RMDN1	51115	hgsc.bcm.edu	37	8	87497176	87497176	+	Silent	SNP	G	G	A	rs11539113	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	175	173	210	0	0.988571	0	G|0.596;T|0.065	.	strong	.	.	.	.	NM_016033	exon5	c.C510T	p.C170C	ACTAAGGCAGATT	.	PASS	Atlas-SNP
CDC25B	994	hgsc.bcm.edu	37	20	3783764	3783764	+	Silent	SNP	C	C	T	rs2228464	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	75	152	0	0.431034	0	C|0.955;T|0.045	0.045	strong	.	CDC25B	76	.	NM_021873	exon13	c.C1267T	p.L423L	GTGGCCCTATTGA	.	PASS	Atlas-SNP
DGKH	160851	hgsc.bcm.edu	37	13	42764564	42764564	+	Silent	SNP	C	C	G	rs7324235	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	33	71	0	0.846154	0	C|0.796;G|0.204	0.204	strong	DGKH,caecum,carcinoma,0,1	DGKH	106	1	NM_001204504	exon17	c.C1938G	p.P646P	TCACCCCTGTGAA	.	PASS	Atlas-SNP
GPR162	27239	hgsc.bcm.edu	37	12	6934804	6934804	+	Silent	SNP	C	C	T	rs148277722	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	71	97	0	0.507143	0	C|0.999;T|0.001	0.001	strong	.	GPR162	55	.	NM_019858	exon3	c.C1023T	p.C341C	GCAATGCGTGGCC	.	PASS	Atlas-SNP
GPRC6A	222545	hgsc.bcm.edu	37	6	117114290	117114290	+	Missense_Mutation	SNP	A	A	G	rs35937022	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	90	168	0	0.517241	0	A|0.803;G|0.197	0.197	strong	.	GPRC6A	152	.	NM_148963	exon6	c.T1796C	p.I599T	GAGAGAATCAGGA	.	PASS	Atlas-SNP
EML2	24139	hgsc.bcm.edu	37	19	46133251	46133251	+	Silent	SNP	C	C	T	rs7251952	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	44	95	0	0.423077	0	C|0.871;T|0.129	0.129	strong	.	EML2	64	.	NM_001193268	exon10	c.G1167A	p.S389S	CCACACCGAGAGC	.	PASS	Atlas-SNP
ZSCAN12	9753	hgsc.bcm.edu	37	6	28359170	28359170	+	Silent	SNP	A	A	G	rs2859348	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	93	149	0	0.519553	0	A|0.407;G|0.593	0.593	strong	.	ZSCAN12	35	.	NM_001163391	exon4	c.T897C	p.D299D	GGGTCTATCTCCA	.	PASS	Atlas-SNP
MAFA	389692	hgsc.bcm.edu	37	8	144512157	144512157	+	Silent	SNP	C	C	T	rs373992315		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	7	5	11	0	0.714286	0	.	.	weak	.	MAFA	9	.	NM_201589	exon1	c.G420A	p.E140E	GAGCGCCTCCACC	.	PASS	Atlas-SNP
NLRP11	204801	hgsc.bcm.edu	37	19	56321517	56321517	+	Silent	SNP	T	T	C	rs7249635	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	207	109	190	1	0.52657	0.00526316	T|0.849;C|0.151	0.151	strong	.	NLRP11	139	.	NM_145007	exon5	c.A459G	p.G153G	TCTCTCTCCCATC	.	PASS	Atlas-SNP
RNF17	56163	hgsc.bcm.edu	37	13	25428002	25428002	+	Missense_Mutation	SNP	C	C	A	rs3783082	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	34	15	41	0	0.441176	0	C|0.876;A|0.124	0.124	strong	.	RNF17	259	.	NM_031277	exon25	c.C3330A	p.N1110K	TAATAACTTAGAT	.	PASS	Atlas-SNP
ANKRD30A	91074	hgsc.bcm.edu	37	10	37505141	37505141	+	Missense_Mutation	SNP	G	G	A	rs1200876	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	117	103	0	0.991525	0	G|0.826;A|0.174	0.174	strong	.	ANKRD30A	448	.	NM_052997	exon32	c.G2734A	p.V912I	GATACAGTTCATT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179395958	179395958	+	Silent	SNP	T	T	C	rs3813250	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	403	197	358	0	0.488834	0	T|0.562;C|0.438	0.438	strong	.	TTN	18412	.	NM_001267550	exon358	c.A105384G	p.A35128A	TCTTGCTGCCAAA	.	PASS	Atlas-SNP
MRTO4	51154	hgsc.bcm.edu	37	1	19583636	19583636	+	Silent	SNP	C	C	T	rs1126682	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	81	154	0	0.543624	0	C|0.842;T|0.158	0.158	strong	MRTO4,NS,carcinoma,0,1	MRTO4	17	1	NM_016183	exon4	c.C270T	p.H90H	CCTGCACCAGGTA	.	PASS	Atlas-SNP
AIM1L	55057	hgsc.bcm.edu	37	1	26673076	26673076	+	Missense_Mutation	SNP	G	G	A	rs11247924	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	24	70	0	0.4	0	G|0.828;A|0.172	0.172	strong	.	AIM1L	98	.	NM_001039775	exon2	c.C73T	p.R25W	GGGGCCGCTGCCG	.	PASS	Atlas-SNP
PRPF8	10594	hgsc.bcm.edu	37	17	1584324	1584324	+	Silent	SNP	A	A	G	rs7503397	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	81	134	0	0.493902	0	A|0.695;G|0.305	0.305	strong	.	PRPF8	169	.	NM_006445	exon7	c.T891C	p.N297N	AATATCATTGAAT	.	PASS	Atlas-SNP
CYP4A22	284541	hgsc.bcm.edu	37	1	47607281	47607281	+	Missense_Mutation	SNP	C	C	T	rs12564525	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	202	98	176	0	0.485149	0	C|0.715;T|0.285	0.285	strong	.	CYP4A22	60	.	NM_001010969	exon3	c.C376T	p.R126W	GCTCCACGGATTG	.	PASS	Atlas-SNP
HS1BP3	64342	hgsc.bcm.edu	37	2	20840851	20840851	+	Silent	SNP	C	C	T	rs148915944	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	41	19	43	0	0.463415	0	C|0.999;T|0.001	0.001	strong	.	HS1BP3	33	.	NM_022460	exon3	c.G288A	p.K96K	CAGGACCTTCCTG	.	PASS	Atlas-SNP
SULT1A1	6817	hgsc.bcm.edu	37	16	28619920	28619920	+	Silent	SNP	A	A	G	rs1126446	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	207	65	157	0	0.31401	0	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	.	PASS	Atlas-SNP
PHACTR4	65979	hgsc.bcm.edu	37	1	28800482	28800482	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	2	102	0	0.0192308	0	.	.	none	PHACTR4,NS,carcinoma,0,1	PHACTR4	64	1	NM_023923	exon6	c.C1270T	p.P424S	CTGCCTCCACTCC	.	scavenged	Atlas-SNP
BTNL2	56244	hgsc.bcm.edu	37	6	32370816	32370816	+	Missense_Mutation	SNP	G	G	A	rs28362680	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	102	185	0	0.507463	0	G|0.869;A|0.131	0.131	strong	.	BTNL2	50	.	NM_019602	exon3	c.C605T	p.A202V	GCTTCCGCATAGA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	76	39	0	1	0	C|0.645;T|0.355	0.355	strong	.	ATP13A2	85	.	NM_001141974	exon27	c.G3214A	p.A1072T	CAGCGGCGGCCAG	.	PASS	Atlas-SNP
KCNA7	3743	hgsc.bcm.edu	37	19	49573438	49573438	+	Missense_Mutation	SNP	A	A	G	rs1017219	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	81	65	0	0.975904	0	A|0.619;G|0.381	0.381	strong	.	KCNA7	30	.	NM_031886	exon2	c.T1253C	p.M418T	GGCTGCATGTCCA	.	PASS	Atlas-SNP
COX6C	1345	hgsc.bcm.edu	37	8	100899793	100899793	+	Silent	SNP	G	G	A	rs1130569	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	33	66	0	0.52381	0	G|0.733;A|0.267	0.267	strong	COX6C_ENST00000520468,NS,carcinoma,0,1	COX6C	25	1	NM_004374	exon3	c.C168T	p.Y56Y	GACATCGTAGTTT	.	PASS	Atlas-SNP
SPTB	6710	hgsc.bcm.edu	37	14	65245962	65245962	+	Silent	SNP	A	A	G	rs1741487	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	72	150	0	0.464516	0	A|0.635;G|0.365	0.365	strong	.	SPTB	378	.	NM_001024858	exon21	c.T4476C	p.L1492L	CACCCAAAGCTGC	.	PASS	Atlas-SNP
SPTB	6710	hgsc.bcm.edu	37	14	65246623	65246623	+	Silent	SNP	T	T	C	rs1626923	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	157	141	0	0.993671	0	T|0.575;C|0.425	0.425	strong	SPTB_ENST00000542895,NS,malignant_melanoma,-1,6	SPTB	378	6	NM_001024858	exon20	c.A4293G	p.R1431R	CTCTTTTCGCACA	.	PASS	Atlas-SNP
STPG2	285555	hgsc.bcm.edu	37	4	99049593	99049593	+	Missense_Mutation	SNP	A	A	G	rs17558193	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	227	226	211	0	0.995595	0	A|0.611;G|0.389	0.389	strong	.	.	.	.	NM_174952	exon3	c.T373C	p.Y125H	GTTTGTAGTATGC	.	PASS	Atlas-SNP
KIAA1551	55196	hgsc.bcm.edu	37	12	32137512	32137512	+	Missense_Mutation	SNP	C	C	G	rs3759299	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	65	119	0	0.524194	0	C|0.797;G|0.203	0.203	strong	.	.	.	.	NM_018169	exon4	c.C3623G	p.S1208C	AGTGTTCTCCTTT	.	PASS	Atlas-SNP
DPCR1	135656	hgsc.bcm.edu	37	6	30918441	30918441	+	Missense_Mutation	SNP	A	A	G	rs111658797	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	36	48	0	0.444444	0	A|0.944;G|0.056	0.056	strong	.	DPCR1	99	.	NM_080870	exon2	c.A2200G	p.T734A	AAGACCACACCAT	.	PASS	Atlas-SNP
TTC27	55622	hgsc.bcm.edu	37	2	32983480	32983480	+	Missense_Mutation	SNP	G	G	A	rs2273664	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	84	133	0	0.563758	0	G|0.933;A|0.067	0.067	strong	.	TTC27	71	.	NM_017735	exon13	c.G1574A	p.R525H	GGTACCGCAGTGC	.	PASS	Atlas-SNP
MTMR12	54545	hgsc.bcm.edu	37	5	32263316	32263316	+	Missense_Mutation	SNP	C	C	T	rs61748194	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	348	151	370	1	0.433908	0.0027027	C|0.985;T|0.015	0.015	strong	.	MTMR12	76	.	NM_001040446	exon7	c.G616A	p.D206N	GTGTGTCAAACAT	.	PASS	Atlas-SNP
MOV10L1	54456	hgsc.bcm.edu	37	22	50588131	50588131	+	Silent	SNP	C	C	T	rs138271	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	59	139	0	0.495798	0	C|0.799;T|0.201	0.201	strong	.	MOV10L1	238	.	NM_018995	exon20	c.C2715T	p.D905D	GTCGGACATCAGT	.	PASS	Atlas-SNP
KIAA1462	57608	hgsc.bcm.edu	37	10	30316208	30316208	+	Missense_Mutation	SNP	T	T	C	rs2185724	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	31	56	0	0.5	0	C|0.373;N|0.000	0.373	strong	KIAA1462,NS,carcinoma,0,1	KIAA1462	162	1	NM_020848	exon3	c.A2869G	p.R957G	GGTGTCTCTTCTC	.	PASS	Atlas-SNP
KIAA0753	9851	hgsc.bcm.edu	37	17	6515454	6515454	+	Missense_Mutation	SNP	C	C	T	rs2289643	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	69	153	0	0.428571	0	C|0.456;T|0.544	0.544	strong	KIAA0753,NS,carcinoma,0,1	KIAA0753	63	1	NM_014804	exon8	c.G1330A	p.D444N	CCGTATCGGGCTG	.	PASS	Atlas-SNP
TOR1A	1861	hgsc.bcm.edu	37	9	132585058	132585058	+	Silent	SNP	G	G	A	rs2296793	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	218	108	266	1	0.495413	0.0037594	G|0.763;A|0.237	0.237	strong	TOR1A,NS,carcinoma,0,1	TOR1A	36	1	NM_000113	exon2	c.C246T	p.A82A	AAACACGGCATTT	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158626378	158626378	+	Silent	SNP	C	C	T	rs857691	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	47	83	0	0.534091	0	C|0.581;T|0.419	0.419	strong	.	SPTA1	720	.	NM_003126	exon20	c.G2874A	p.L958L	ATTCCGCAGAGCT	.	PASS	Atlas-SNP
CHAF1B	8208	hgsc.bcm.edu	37	21	37759957	37759957	+	Missense_Mutation	SNP	C	C	T	rs62229404	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	342	157	316	1	0.459064	0.00316456	C|0.940;T|0.060	0.060	strong	.	CHAF1B	47	.	NM_005441	exon3	c.C188T	p.A63V	ATCTTGCTCGTCA	.	PASS	Atlas-SNP
TMEM171	134285	hgsc.bcm.edu	37	5	72419267	72419267	+	Missense_Mutation	SNP	T	T	C	rs638333	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	349	173	336	1	0.495702	0.00297619	T|0.791;C|0.209	0.209	strong	.	TMEM171	41	.	NM_173490	exon2	c.T67C	p.F23L	CTCATCTTCTGCT	.	PASS	Atlas-SNP
STAG2	10735	hgsc.bcm.edu	37	X	123184082	123184082	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	231	78	121	0	0.337662	0	.	.	none	.	STAG2	309	.	NM_001042749	exon11	c.A940G	p.I314V	ATTGGCATTTGGA	.	PASS	Atlas-SNP
TTLL6	284076	hgsc.bcm.edu	37	17	46877063	46877063	+	Missense_Mutation	SNP	G	G	A	rs61739953	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	72	122	0	0.510638	0	G|0.953;A|0.047	0.047	strong	.	TTLL6	113	.	NM_001130918	exon6	c.C671T	p.P224L	GAATCCGGCTTAC	.	PASS	Atlas-SNP
CXADR	1525	hgsc.bcm.edu	37	21	18937758	18937758	+	Missense_Mutation	SNP	A	A	G	rs437470	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	218	112	212	0	0.513761	0	A|0.808;G|0.192	0.192	strong	.	CXADR	44	.	NM_001207063	exon5	c.A584G	p.H195R	TGTGCCACCTCCA	.	PASS	Atlas-SNP
HLX	3142	hgsc.bcm.edu	37	1	221057662	221057662	+	Silent	SNP	G	G	A	rs3738182	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	101	167	0	0.540107	0	G|0.810;A|0.190	0.190	strong	.	HLX	67	.	NM_021958	exon4	c.G1083A	p.E361E	TGGCGAGCAGGAC	.	PASS	Atlas-SNP
KLHL33	123103	hgsc.bcm.edu	37	14	20898308	20898308	+	Missense_Mutation	SNP	C	C	T	rs17242648	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	29	61	0	0.568627	0	C|0.873;T|0.127	0.127	strong	.	KLHL33	37	.	NM_001109997	exon2	c.G527A	p.R176Q	GCTGCCCGCACCC	.	PASS	Atlas-SNP
KCNJ1	3758	hgsc.bcm.edu	37	11	128709126	128709126	+	Missense_Mutation	SNP	A	A	G	rs59172778	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	64	100	0	0.507937	0	A|0.993;G|0.007	0.007	strong	.	KCNJ1	68	.	NM_000220	exon2	c.T1070C	p.M357T	AGGCACATGGCAC	.	PASS	Atlas-SNP
PNP	4860	hgsc.bcm.edu	37	14	20940515	20940515	+	Silent	SNP	C	C	T	rs1049562	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	180	87	183	0	0.483333	0	C|0.817;T|0.183	0.183	strong	.	PNP	21	.	NM_000270	exon2	c.C60T	p.H20H	GTCTCACACTAAG	.	PASS	Atlas-SNP
PARD3B	117583	hgsc.bcm.edu	37	2	205986321	205986321	+	Silent	SNP	A	A	G	rs2289023	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	58	132	0	0.43609	0	A|0.743;G|0.257	0.257	strong	PARD3B_ENST00000358768,right_upper_lobe,carcinoma,+2,3	PARD3B	314	3	NM_205863	exon8	c.A813G	p.Q271Q	GGCTCAAGATGTC	.	PASS	Atlas-SNP
CD109	135228	hgsc.bcm.edu	37	6	74493432	74493432	+	Missense_Mutation	SNP	A	A	C	rs10455097	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	33	80	0	0.471429	0	A|0.454;C|0.546	0.546	strong	.	CD109	170	.	NM_133493	exon19	c.A2108C	p.Y703S	TCAGTTACAGGAT	.	PASS	Atlas-SNP
NACA	4666	hgsc.bcm.edu	37	12	57109792	57109792	+	Missense_Mutation	SNP	A	A	G	rs2958149	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	59	147	0	0.504274	0	A|0.211;G|0.789	0.789	strong	.	NACA	131	.	NM_001113203	exon5	c.T2063C	p.L688P	AGAGGCAGCAGCT	.	PASS	Atlas-SNP
MICA	100507436	hgsc.bcm.edu	37	6	31379752	31379752	+	Silent	SNP	C	C	T	rs17206680	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	24	49	0	0.352941	0	C|0.967;T|0.033	0.033	strong	.	MICA	21	.	NM_001177519	exon4	c.C642T	p.S214S	CCGCAGCGAGGCC	.	PASS	Atlas-SNP
ZNF19	7567	hgsc.bcm.edu	37	16	71509588	71509588	+	Silent	SNP	G	G	A	rs2288487	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	36	54	0	0.580645	0	G|0.747;A|0.253	0.253	strong	ZNF19,NS,carcinoma,0,1	ZNF19	46	1	NM_006961	exon6	c.C862T	p.L288L	GAAGTAGGGGTGA	.	PASS	Atlas-SNP
TEP1	7011	hgsc.bcm.edu	37	14	20876282	20876282	+	Missense_Mutation	SNP	G	G	A	rs41310936	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	195	115	187	1	0.589744	0.00534759	G|0.988;A|0.012	0.012	strong	.	TEP1	224	.	NM_007110	exon2	c.C317T	p.S106F	TCCAAGGAGAGGA	.	PASS	Atlas-SNP
PLEKHG2	64857	hgsc.bcm.edu	37	19	39913634	39913634	+	Missense_Mutation	SNP	G	G	A	rs10407035	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	54	102	0	0.504673	0	G|0.823;A|0.177	0.177	strong	.	PLEKHG2	329	.	NM_022835	exon18	c.G1940A	p.R647H	CCAGCCGCTGTGA	.	PASS	Atlas-SNP
TBX2	6909	hgsc.bcm.edu	37	17	59477903	59477903	+	Silent	SNP	C	C	A	rs75743672	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	10	40	0	0.333333	0	C|0.894;A|0.106	0.106	strong	.	TBX2	30	.	NM_005994	exon1	c.C366A	p.G122G	GCTAGGCACGGAG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	50	121	0	0.561798	0	G|0.644;A|0.356	0.356	strong	.	SEC14L2	24	.	NM_001204204	exon1	c.G32A	p.R11K	GCCCCAGGCAGAA	.	PASS	Atlas-SNP
GAS8	2622	hgsc.bcm.edu	37	16	90097748	90097748	+	Silent	SNP	C	C	T	rs2302513	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	29	18	18	0	0.62069	0	T|0.179;G|0.000;C|0.821	0.179	strong	GAS8,NS,carcinoma,+1,1	GAS8	29	1	NM_001481	exon3	c.C132T	p.R44R	GGACCGCGAGCGG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	64	139	0	0.460432	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
RBBP7	5931	hgsc.bcm.edu	37	X	16887655	16887655	+	Missense_Mutation	SNP	C	C	T	rs67984110	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	138	93	0	0.945205	0	C|0.769;T|0.231	0.231	strong	.	RBBP7	58	.	NM_001198719	exon1	c.G110A	p.R37H	GCTGCGCGACCCA	.	PASS	Atlas-SNP
RNF213	57674	hgsc.bcm.edu	37	17	78338305	78338305	+	Silent	SNP	C	C	T	rs148958011	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	79	102	0	0.576642	0	C|0.999;T|0.001	0.001	strong	.	RNF213	766	.	NM_001256071	exon42	c.C11823T	p.V3941V	CCGCGTCCCCGAG	.	PASS	Atlas-SNP
OR6Y1	391112	hgsc.bcm.edu	37	1	158517142	158517142	+	Missense_Mutation	SNP	C	C	T	rs41273491	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	73	95	0	0.51773	0	C|0.799;T|0.201	0.201	strong	OR6Y1,rectum,carcinoma,0,2	OR6Y1	73	2	NM_001005189	exon1	c.G754A	p.V252I	TTACGACGGTCAG	.	PASS	Atlas-SNP
TMEM132D	121256	hgsc.bcm.edu	37	12	129566469	129566469	+	Silent	SNP	C	C	T	rs77363876	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	100	125	0	0.537634	0	C|0.970;T|0.030	0.030	strong	TMEM132D,NS,carcinoma,-2,1	TMEM132D	299	1	NM_133448	exon7	c.G1758A	p.E586E	GGCCGCCTCAGCC	.	PASS	Atlas-SNP
RIPK4	54101	hgsc.bcm.edu	37	21	43164232	43164232	+	Silent	SNP	C	C	A	rs2277789	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	88	70	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
EXO1	9156	hgsc.bcm.edu	37	1	242030151	242030151	+	Missense_Mutation	SNP	A	A	G	rs735943	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	30	73	0	0.375	0	T|0.001;G|0.609	0.609	strong	.	EXO1	103	.	NM_006027	exon9	c.A1061G	p.H354R	GAAGTCATAGTTG	.	PASS	Atlas-SNP
LMF2	91289	hgsc.bcm.edu	37	22	50943004	50943004	+	Silent	SNP	C	C	A	rs762671	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	66	52	0	0.985075	0	C|0.815;A|0.185	0.185	strong	.	LMF2	40	.	NM_033200	exon11	c.G1590T	p.L530L	GCCCTGCAGCAGG	.	PASS	Atlas-SNP
DOCK2	1794	hgsc.bcm.edu	37	5	169504743	169504743	+	Silent	SNP	T	T	C	rs1045168	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	49	104	1	0.457944	0.00961538	A|0.000;C|0.311;T|0.689	0.311	strong	DOCK2,NS,carcinoma,0,3	DOCK2	389	3	NM_004946	exon48	c.T4896C	p.R1632R	GGGCCGTCCCAGG	.	scavenged	Atlas-SNP
RBMXL3	139804	hgsc.bcm.edu	37	X	114425923	114425923	+	Missense_Mutation	SNP	C	C	A	rs142223554	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	167	144	0	0.893048	0	C|0.930;A|0.070	0.070	strong	.	RBMXL3	83	.	NM_001145346	exon1	c.C1919A	p.A640D	TTGATGCCAACAG	.	PASS	Atlas-SNP
OTOGL	283310	hgsc.bcm.edu	37	12	80750659	80750659	+	Missense_Mutation	SNP	G	G	A	rs11836060	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	92	205	1	0.497297	0.00487805	G|0.823;A|0.177	0.177	strong	.	OTOGL	235	.	NM_173591	exon48	c.G5957A	p.R1986Q	AAGTTCGACAGGA	.	PASS	Atlas-SNP
MOV10L1	54456	hgsc.bcm.edu	37	22	50558946	50558946	+	Silent	SNP	A	A	G	rs71316583	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	47	75	0	0.635135	0	A|0.954;G|0.046	0.046	strong	.	MOV10L1	238	.	NM_018995	exon10	c.A1470G	p.Q490Q	ACGACAACTTCCA	.	PASS	Atlas-SNP
SLK	9748	hgsc.bcm.edu	37	10	105758670	105758670	+	Silent	SNP	A	A	G	rs10883960	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	102	204	0	0.980769	0	A|0.817;G|0.183	0.183	strong	.	SLK	107	.	NM_014720	exon5	c.A528G	p.V176V	TGGAGTATCAGCT	.	PASS	Atlas-SNP
NDUFAF1	51103	hgsc.bcm.edu	37	15	41679685	41679685	+	Missense_Mutation	SNP	G	G	C	rs12900702	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	57	136	0	0.904762	0	G|0.873;C|0.127	0.127	strong	.	NDUFAF1	39	.	NM_016013	exon5	c.C941G	p.A314G	TCATAGGCAAATT	.	PASS	Atlas-SNP
NDUFV3	4731	hgsc.bcm.edu	37	21	44323461	44323461	+	Silent	SNP	G	G	A	rs4148972	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	69	132	0	0.507353	0	G|0.930;A|0.070	0.070	strong	.	NDUFV3	23	.	NM_021075	exon3	c.G339A	p.P113P	GGTTCCGAAATTT	.	PASS	Atlas-SNP
FCGR3A	2214	hgsc.bcm.edu	37	1	161512873	161512873	+	Missense_Mutation	SNP	T	T	A	rs115866423	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	407	196	417	0	0.481572	0	T|0.993;A|0.007	0.007	strong	.	FCGR3A	38	.	NM_000569	exon5	c.A802T	p.N268Y	GAATGTTTGTCTT	.	PASS	Atlas-SNP
CD163L1	283316	hgsc.bcm.edu	37	12	7585247	7585247	+	Silent	SNP	T	T	C	rs58195891	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	222	106	197	0	0.477477	0	T|0.523;C|0.477	0.477	strong	.	CD163L1	238	.	NM_174941	exon4	c.A531G	p.G177G	TATAGTTCCCCAC	.	PASS	Atlas-SNP
FSIP2	401024	hgsc.bcm.edu	37	2	186671256	186671256	+	Silent	SNP	T	T	C	rs17826498	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	67	112	0	0.558333	0	T|0.985;C|0.015	0.015	strong	.	FSIP2	251	.	NM_173651	exon17	c.T17490C	p.N5830N	CAAAAATATCTCT	.	PASS	Atlas-SNP
OR4N2	390429	hgsc.bcm.edu	37	14	20295778	20295778	+	Silent	SNP	C	C	A	rs11621883	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	197	206	0	0.970443	0	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
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32557510	32557510	+	Silent	SNP	G	G	A	rs201125976	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	233	25	185	0	0.107296	0	G|0.981;A|0.019	0.019	strong	.	HLA-DRB1	41	.	NM_002124	exon1	c.C10T	p.L4L	GCTTCAGACACAC	.	PASS	Atlas-SNP
GOT1L1	137362	hgsc.bcm.edu	37	8	37797467	37797467	+	Silent	SNP	A	A	G	rs151011886	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	196	96	224	0	0.489796	0	A|0.999;G|0.001	0.001	strong	.	GOT1L1	87	.	NM_152413	exon1	c.T81C	p.D27D	GTAATCATCTTGT	.	PASS	Atlas-SNP
IARS	3376	hgsc.bcm.edu	37	9	94985637	94985637	+	Missense_Mutation	SNP	T	T	C	rs556155	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	60	107	0	0.521739	0	A|0.007;C|0.130	0.130	strong	IARS,rectum,carcinoma,0,1	IARS	74	1	NM_013417	exon32	c.A3544G	p.K1182E	GTGGCTTTGCATT	.	PASS	Atlas-SNP
MUC1	4582	hgsc.bcm.edu	37	1	155161794	155161794	+	Silent	SNP	C	C	T	rs147048677	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	28	12	32	0	0.428571	0	C|0.971;T|0.029	0.029	strong	.	MUC1	94	.	NM_001204286	exon2	c.G366A	p.P122P	GGCTGGCGGGGTG	.	PASS	Atlas-SNP
PKD1L1	168507	hgsc.bcm.edu	37	7	47854956	47854956	+	Silent	SNP	C	C	T	rs17545564	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	39	35	0	0.573529	0	C|0.867;T|0.133	0.133	strong	.	PKD1L1	328	.	NM_138295	exon47	c.G7065A	p.P2355P	GGCTGACGGGGTG	.	PASS	Atlas-SNP
RNF20	56254	hgsc.bcm.edu	37	9	104309445	104309445	+	Silent	SNP	T	T	C	rs2273976	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	215	106	209	1	0.493023	0.00478469	T|0.867;C|0.133	0.133	strong	.	RNF20	110	.	NM_019592	exon8	c.T921C	p.Y307Y	GGTGTATGGAGCG	.	PASS	Atlas-SNP
PPP3CC	5533	hgsc.bcm.edu	37	8	22390522	22390522	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	48	60	0	0.466019	0	.	.	none	.	PPP3CC	39	.	NM_001243974	exon13	c.A1339G	p.I447V	CAGACTATCGAGA	.	PASS	Atlas-SNP
OR56A5	390084	hgsc.bcm.edu	37	11	5989180	5989180	+	Missense_Mutation	SNP	C	C	T	rs147979628	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	58	87	0	0.464	0	C|0.998;T|0.002	0.002	strong	.	.	.	.	NM_001146033	exon1	c.G545A	p.C182Y	TTAGTACAGATGC	.	PASS	Atlas-SNP
TCEAL4	79921	hgsc.bcm.edu	37	X	102842041	102842041	+	Silent	SNP	T	T	C	rs11010	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	8	74	0	0.0879121	0	0|0.006;C|0.292	0.292	strong	.	TCEAL4	18	.	NM_001006935	exon3	c.T438C	p.H146H	CATACATGATATG	.	PASS	Atlas-SNP
YIPF3	25844	hgsc.bcm.edu	37	6	43484532	43484532	+	Missense_Mutation	SNP	G	G	A	rs2231763	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	39	59	0	0.609375	0	G|0.978;A|0.022	0.022	strong	YIPF3,lymph_node,lymphoid_neoplasm,0,1	YIPF3	20	1	NM_015388	exon1	c.C14T	p.A5V	GGCGCCGCTGTAG	.	PASS	Atlas-SNP
C11orf52	91894	hgsc.bcm.edu	37	11	111795085	111795085	+	Missense_Mutation	SNP	C	C	G	rs7124407	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	40	21	45	0	0.525	0	C|0.705;G|0.295	0.295	strong	.	C11orf52	5	.	NM_080659	exon2	c.C68G	p.T23R	AGAAAACAGGTAA	.	PASS	Atlas-SNP
EFCAB7	84455	hgsc.bcm.edu	37	1	64021096	64021096	+	Missense_Mutation	SNP	G	G	A	rs2273367	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	171	89	196	0	0.520468	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
OR51A7	119687	hgsc.bcm.edu	37	11	4928866	4928866	+	Silent	SNP	C	C	T	rs7941509	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	175	175	170	0	1	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
SCAND3	114821	hgsc.bcm.edu	37	6	28543264	28543264	+	Silent	SNP	C	C	T	rs17336532	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	45	84	0	0.473684	0	C|0.820;T|0.180	0.180	strong	.	SCAND3	156	.	NM_052923	exon3	c.G1218A	p.L406L	TGACCGCAAAAAA	.	PASS	Atlas-SNP
EZH2	2146	hgsc.bcm.edu	37	7	148525904	148525904	+	Missense_Mutation	SNP	C	C	G	rs2302427	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	103	202	0	0.507389	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
CENPJ	55835	hgsc.bcm.edu	37	13	25487103	25487103	+	Missense_Mutation	SNP	T	T	C	rs35498994	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	48	131	0	0.396694	0	A|0.000;C|0.138;T|0.862	0.138	strong	.	CENPJ	116	.	NM_018451	exon2	c.A61G	p.M21V	TGGTCATCCACTG	.	PASS	Atlas-SNP
GRPR	2925	hgsc.bcm.edu	37	X	16168677	16168677	+	Silent	SNP	T	T	C	rs4986946	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	122	119	0	0.945736	0	0|0.003;C|0.426	0.426	strong	.	GRPR	51	.	NM_005314	exon2	c.T663C	p.I221I	CGTCATTCCACTG	.	PASS	Atlas-SNP
OR1N2	138882	hgsc.bcm.edu	37	9	125315557	125315557	+	Missense_Mutation	SNP	T	T	C	rs1831370	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	210	97	228	0	0.461905	0	T|0.471;C|0.529	0.529	strong	OR1N2,colon,carcinoma,-1,2	OR1N2	51	2	NM_001004457	exon1	c.T109C	p.W37R	TCTGAGTGGCCAG	.	PASS	Atlas-SNP
MADCAM1	8174	hgsc.bcm.edu	37	19	496532	496532	+	Silent	SNP	G	G	A	rs78668504	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	252	138	212	0	0.547619	0	G|0.875;A|0.125	0.125	strong	.	MADCAM1	29	.	NM_130760	exon1	c.G33A	p.G11G	GGCGGGGCTTCTG	.	PASS	Atlas-SNP
MYH13	8735	hgsc.bcm.edu	37	17	10247199	10247199	+	Silent	SNP	G	G	A	rs12938754	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	88	120	0	0.567742	0	G|0.817;A|0.183	0.183	strong	.	MYH13	533	.	NM_003802	exon16	c.C1812T	p.N604N	AGTCTCGTTCAGG	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	37	16	72993925	72993925	+	Silent	SNP	C	C	T	rs62053192	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	106	86	0	1	0	C|0.955;T|0.045	0.045	strong	.	ZFHX3	404	.	NM_006885	exon2	c.G120A	p.E40E	GGACTGCTCCATG	.	PASS	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39135089	39135089	+	Missense_Mutation	SNP	G	G	A	rs11649834	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	29	68	0	0.432836	0	G|0.922;A|0.078	0.078	strong	.	KRT40	27	.	NM_182497	exon8	c.C1163T	p.T388M	CAGTACGTGTTGA	.	PASS	Atlas-SNP
KANSL1	284058	hgsc.bcm.edu	37	17	44117119	44117119	+	Missense_Mutation	SNP	A	A	G	rs34043286	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	68	126	0	0.523077	0	A|0.853;G|0.147	0.147	strong	.	.	.	.	NM_001193466	exon8	c.T2152C	p.S718P	GAGCTGAATCTGG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	233	91	222	0	0.390558	0	C|0.741;G|0.259	0.259	strong	.	FXYD3	15	.	NM_001136010	exon5	c.C107G	p.P36R	AGAGCCCGTGCCC	.	PASS	Atlas-SNP
TRPM3	80036	hgsc.bcm.edu	37	9	73150873	73150873	+	Missense_Mutation	SNP	T	T	G	rs17535963	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	59	109	0	0.44697	0	T|0.781;G|0.219	0.219	strong	.	TRPM3	700	.	NM_001007471	exon25	c.A5120C	p.N1707T	GTTTAGTTGTGCT	.	PASS	Atlas-SNP
ERCC6	2074	hgsc.bcm.edu	37	10	50681033	50681033	+	Silent	SNP	G	G	A	rs2229760	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	100	106	0	1	0	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
OR4C16	219428	hgsc.bcm.edu	37	11	55339676	55339676	+	Missense_Mutation	SNP	G	G	T	rs12800642	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	178	178	113	0	1	0	G|0.817;T|0.183	0.183	strong	.	OR4C16	104	.	NM_001004701	exon1	c.G73T	p.V25L	AAAATAGTGTTTG	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11687721	11687721	+	Silent	SNP	G	G	A	rs16945337	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	219	107	190	0	0.488584	0	G|0.956;A|0.044	0.044	strong	DNAH9,NS,carcinoma,+1,1	DNAH9	695	1	NM_001372	exon41	c.G7926A	p.A2642A	CCCGGCGTCCCTG	.	PASS	Atlas-SNP
SLC25A29	123096	hgsc.bcm.edu	37	14	100759690	100759690	+	Missense_Mutation	SNP	C	C	T	rs200054689	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	57	64	0	0.59375	0	C|1.000;T|0.000	0.000	strong	.	SLC25A29	14	.	NM_001039355	exon3	c.G103A	p.E35K	GCTTCTCCACGCT	.	PASS	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	37	11	62297162	62297162	+	Missense_Mutation	SNP	G	G	A	rs75855515	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	39	81	0	0.428571	0	G|0.968;A|0.032	0.032	strong	.	AHNAK	532	.	NM_001620	exon5	c.C4727T	p.T1576M	TTGTGCGTCTGTA	.	PASS	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	37	6	32049423	32049423	+	Missense_Mutation	SNP	C	C	T	rs12211410	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	55	103	0	0.390071	0	C|0.904;T|0.096	0.096	strong	.	TNXB	553	.	NM_019105	exon10	c.G3764A	p.R1255H	TCAGGGCGGGGGG	.	PASS	Atlas-SNP
OR5M9	390162	hgsc.bcm.edu	37	11	56230611	56230611	+	Silent	SNP	G	G	T	rs79837116	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	59	124	1	0.460938	0.00806452	G|0.950;T|0.050	0.050	strong	OR5M9,NS,carcinoma,-1,1	OR5M9	75	1	NM_001004743	exon1	c.C267A	p.T89T	GGAAATGGTTTTT	.	scavenged	Atlas-SNP
DMKN	93099	hgsc.bcm.edu	37	19	36004171	36004171	+	Missense_Mutation	SNP	C	C	A	rs12460932	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	48	96	0	0.436364	0	C|0.751;A|0.249	0.249	strong	.	DMKN	116	.	NM_001190347	exon1	c.G207T	p.E69D	AAGGGCCTCACTG	.	PASS	Atlas-SNP
MLXIPL	51085	hgsc.bcm.edu	37	7	73011060	73011060	+	Silent	SNP	C	C	T	rs41271232	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	38	20	53	0	0.526316	0	C|0.958;T|0.042	0.042	strong	.	MLXIPL	54	.	NM_032954	exon11	c.G1731A	p.P577P	CCGGGGCGGTGTA	.	PASS	Atlas-SNP
CSF3	1440	hgsc.bcm.edu	37	17	38173143	38173143	+	Silent	SNP	G	G	A	rs25645	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	30	62	0	0.6	0	G|0.705;A|0.295	0.295	strong	.	CSF3	9	.	NM_000759	exon5	c.G555A	p.L185L	GGTCCTGGTTGCC	.	PASS	Atlas-SNP
LDHAL6A	160287	hgsc.bcm.edu	37	11	18487305	18487305	+	Silent	SNP	C	C	G	rs17851143	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	235	108	239	0	0.459574	0	C|0.890;G|0.110	0.110	strong	LDHAL6A,NS,adenoma,0,1	LDHAL6A	35	1	NM_144972	exon3	c.C366G	p.P122P	GATTCCCAATATT	.	PASS	Atlas-SNP
ILK	3611	hgsc.bcm.edu	37	11	6629665	6629665	+	Silent	SNP	C	C	T	rs1043388	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	175	86	149	0	0.491429	0	C|0.690;T|0.310	0.310	strong	.	ILK	41	.	NM_001014794	exon4	c.C297T	p.H99H	TGAACACGGGAAT	.	PASS	Atlas-SNP
PJA1	64219	hgsc.bcm.edu	37	X	68382836	68382836	+	Silent	SNP	G	G	A	rs7067170	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	68	68	0	0.894737	0	0|0.013;A|0.149	0.149	strong	.	PJA1	106	.	NM_145119	exon2	c.C246T	p.S82S	ACTCTCGCTGTCG	.	PASS	Atlas-SNP
SARDH	1757	hgsc.bcm.edu	37	9	136573412	136573412	+	Silent	SNP	G	G	A	rs2073815	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	74	55	0	1	0	G|0.539;A|0.461	0.461	strong	SARDH,NS,carcinoma,0,2	SARDH	112	2	NM_007101	exon11	c.C1467T	p.H489H	TACCTCGTGCAGC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	88	166	0	0.465608	0	A|0.868;T|0.132	0.132	strong	.	KIF15	103	.	NM_020242	exon25	c.A2986T	p.T996S	CTAAGAACATCGG	.	PASS	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	37	22	26304363	26304363	+	Silent	SNP	G	G	A	rs58609797	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	40	67	0	0.47619	0	G|0.952;A|0.048	0.048	strong	.	MYO18B	322	.	NM_032608	exon32	c.G5223A	p.E1741E	GGAGGAGGAACTG	.	PASS	Atlas-SNP
LRRC16A	55604	hgsc.bcm.edu	37	6	25420350	25420350	+	Silent	SNP	A	A	C	rs41271807	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	67	155	0	0.41875	0	A|0.861;C|0.139	0.139	strong	.	LRRC16A	168	.	NM_001173977	exon3	c.A147C	p.T49T	CCTTACATCATGC	.	PASS	Atlas-SNP
RHBDD3	25807	hgsc.bcm.edu	37	22	29656431	29656431	+	Nonsense_Mutation	SNP	C	C	T	rs138870856	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	35	75	0	0.384615	0	C|0.993;T|0.007	0.007	strong	.	RHBDD3	17	.	NM_012265	exon6	c.G867A	p.W289X	GGCCGCCCACATC	.	PASS	Atlas-SNP
TCP10	6953	hgsc.bcm.edu	37	6	167789473	167789473	+	Silent	SNP	C	C	T	rs76263155	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	35	53	0	0.472973	0	C|0.980;T|0.020	0.020	strong	.	TCP10	35	.	NM_004610	exon6	c.G669A	p.T223T	TGCTGCCGTCTGC	.	PASS	Atlas-SNP
DST	667	hgsc.bcm.edu	37	6	56485365	56485365	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	6	121	0	0.0357143	0	.	.	none	DST_ENST00000370765,NS,carcinoma,-1,4	DST	1427	4	NM_001723	exon23	c.G3467A	p.R1156Q	TCTACTCGGGACT	.	scavenged	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954438	30954438	+	Silent	SNP	C	C	T	rs41288646	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	14	61	0	0.133333	0	C|0.997;T|0.003	0.003	strong	.	MUC21	98	.	NM_001010909	exon2	c.C486T	p.A162A	TGAGGCCAGCACA	.	PASS	Atlas-SNP
ING2	3622	hgsc.bcm.edu	37	4	184426387	184426387	+	Silent	SNP	C	C	T	rs8872	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	113	115	0	0.974138	0	C|0.275;T|0.725	0.725	strong	ING2,NS,carcinoma,0,1	ING2	20	1	NM_001564	exon1	c.C39T	p.A13A	GTCGGCCGCGCTC	.	PASS	Atlas-SNP
LEPR	3953	hgsc.bcm.edu	37	1	66036441	66036441	+	Missense_Mutation	SNP	A	A	G	rs1137100	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	47	103	0	0.423423	0	A|0.705;G|0.295	0.295	strong	.	LEPR	284	.	NM_001003680	exon4	c.A326G	p.K109R	AAGGAAAGACATT	.	PASS	Atlas-SNP
A1CF	29974	hgsc.bcm.edu	37	10	52573698	52573698	+	Silent	SNP	G	G	A	rs41274048	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	271	143	223	1	0.527675	0.00448431	G|0.908;A|0.092	0.092	strong	.	A1CF	190	.	NM_001198819	exon12	c.C1290T	p.L430L	GTCATAGAGTTTG	.	PASS	Atlas-SNP
PCSK5	5125	hgsc.bcm.edu	37	9	78969059	78969059	+	Missense_Mutation	SNP	C	C	A	rs7036921	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	98	145	1	0.52973	0.00689655	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
REST	5978	hgsc.bcm.edu	37	4	57797414	57797414	+	Missense_Mutation	SNP	C	C	T	rs3796529	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	46	96	0	0.45098	0	C|0.784;T|0.216	0.216	strong	REST,NS,carcinoma,0,1	REST	104	1	NM_001193508	exon4	c.C2390T	p.P797L	GGGAGCCACCTCC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	175	83	125	0	0.474286	0	A|0.363;T|0.637	0.637	strong	.	NACA	131	.	NM_001113203	exon5	c.T1924A	p.S642T	GTGGGGAGGGTGC	.	PASS	Atlas-SNP
SLC25A37	51312	hgsc.bcm.edu	37	8	23423669	23423669	+	Missense_Mutation	SNP	A	A	G	rs2942194	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	34	52	0	0.465753	0	A|0.818;G|0.182	0.182	strong	.	SLC25A37	27	.	NM_016612	exon2	c.A259G	p.I87V	ACAAGTATCTACG	.	PASS	Atlas-SNP
DNM1L	10059	hgsc.bcm.edu	37	12	32860302	32860302	+	Silent	SNP	G	G	A	rs2272238	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	105	197	0	0.46875	0	G|0.839;A|0.161	0.161	strong	.	DNM1L	52	.	NM_012062	exon3	c.G252A	p.G84G	TCCAGGGGTGGAA	.	PASS	Atlas-SNP
PTPN13	5783	hgsc.bcm.edu	37	4	87706506	87706506	+	Missense_Mutation	SNP	T	T	G	rs989902	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	159	172	0	0.99375	0	T|0.475;G|0.513	0.513	strong	.	PTPN13	203	.	NM_080685	exon39	c.T6256G	p.Y2086D	GCAGGATACTCCT	.	PASS	Atlas-SNP
C16orf46	123775	hgsc.bcm.edu	37	16	81095091	81095091	+	Missense_Mutation	SNP	A	A	G	rs7198494	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	273	122	256	1	0.446886	0.00390625	A|0.792;G|0.208	0.208	strong	.	C16orf46	57	.	NM_001100873	exon3	c.T863C	p.I288T	AGGGATATCTGGG	.	PASS	Atlas-SNP
NPTX1	4884	hgsc.bcm.edu	37	17	78444679	78444679	+	Silent	SNP	T	T	C	rs28364735	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	42	85	0	0.5	0	T|0.780;C|0.220	0.220	strong	.	NPTX1	28	.	NM_002522	exon5	c.A1233G	p.E411E	GTGGGATTCAGCC	.	PASS	Atlas-SNP
TRAF3IP3	80342	hgsc.bcm.edu	37	1	209948711	209948711	+	Silent	SNP	A	A	C	rs17015183	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	200	181	1	0.995025	0.00552486	A|0.807;C|0.193	0.193	strong	.	TRAF3IP3	68	.	NM_025228	exon10	c.A792C	p.G264G	TTGGGGAATGAAA	.	PASS	Atlas-SNP
AKT1	207	hgsc.bcm.edu	37	14	105239894	105239894	+	Silent	SNP	C	C	T	rs1130233	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	56	149	0	0.405797	0	C|0.769;T|0.231	0.231	strong	.	AKT1	379	.	NM_005163	exon9	c.G726A	p.E242E	CACACGCTCCCGG	.	PASS	Atlas-SNP
CXorf56	63932	hgsc.bcm.edu	37	X	118678364	118678364	+	Silent	SNP	G	G	A	rs5910611	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	26	72	0	0.20155	0	G|0.425;A|0.575	0.575	strong	.	CXorf56	26	.	NM_022101	exon4	c.C375T	p.G125G	CCCAAAGCCCTGG	.	PASS	Atlas-SNP
ASTL	431705	hgsc.bcm.edu	37	2	96795608	96795608	+	Missense_Mutation	SNP	T	T	G	rs1657502	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	186	202	0	0.994652	0	T|0.636;G|0.364	0.364	strong	.	ASTL	59	.	NM_001002036	exon8	c.A829C	p.K277Q	AGAGTTTGAGGAC	.	PASS	Atlas-SNP
CA9	768	hgsc.bcm.edu	37	9	35674101	35674101	+	Silent	SNP	T	T	C	rs12553173	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	64	86	0	0.512	0	T|0.791;C|0.209	0.209	strong	.	CA9	48	.	NM_001216	exon1	c.T145C	p.L49L	TCCCCCTTGGGAG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9068990	9068990	+	Missense_Mutation	SNP	G	G	T	rs35092547	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	527	266	459	0	0.504744	0	G|0.981;T|0.019	0.019	strong	.	MUC16	4315	.	NM_024690	exon3	c.C18456A	p.H6152Q	GGTCTTGTGTGTA	.	PASS	Atlas-SNP
HGFAC	3083	hgsc.bcm.edu	37	4	3449886	3449886	+	Silent	SNP	G	G	A	rs28468427	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	86	130	0	0.581081	0	G|0.745;A|0.255	0.255	strong	.	HGFAC	69	.	NM_001528	exon13	c.G1668A	p.E556E	GCGGGAGGCCCTG	.	PASS	Atlas-SNP
ART4	420	hgsc.bcm.edu	37	12	14982352	14982352	+	Missense_Mutation	SNP	G	G	C	rs3088190	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	69	148	0	0.492857	0	G|0.894;C|0.106	0.106	strong	ART4,NS,carcinoma,0,1	ART4	27	1	NM_021071	exon3	c.C898G	p.L300V	AGGAGAGAGATGC	.	PASS	Atlas-SNP
PRDM5	11107	hgsc.bcm.edu	37	4	121738049	121738049	+	Silent	SNP	T	T	C	rs343192	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	226	226	212	0	1	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
EHD2	30846	hgsc.bcm.edu	37	19	48244401	48244401	+	Silent	SNP	G	G	A	rs35910701	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	42	22	41	0	0.52381	0	A|0.141;C|0.000;G|0.858	0.141	strong	.	EHD2	59	.	NM_014601	exon6	c.G1344A	p.K448K	GACCAAGGACAAG	.	PASS	Atlas-SNP
FBLN7	129804	hgsc.bcm.edu	37	2	112922697	112922697	+	Missense_Mutation	SNP	G	G	A	rs35586251	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	82	161	0	0.450549	0	G|0.972;A|0.028	0.028	strong	.	FBLN7	49	.	NM_153214	exon3	c.G355A	p.V119M	AGCAGCGTGGTGT	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324025	31324025	+	Missense_Mutation	SNP	G	G	A	rs9266144	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	232	78	39	0	0.336207	0	A|0.189;C|0.007;G|0.804	0.189	strong	.	HLA-B	54	.	NM_005514	exon3	c.C538T	p.R180W	CTCTCCGCTGCTC	.	PASS	Atlas-SNP
TNS1	7145	hgsc.bcm.edu	37	2	218745685	218745685	+	Silent	SNP	G	G	A	rs10199795	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	46	71	0	0.505495	0	A|0.589;G|0.411;T|0.000	0.589	strong	TNS1,NS,carcinoma,0,1	TNS1	251	1	NM_022648	exon16	c.C990T	p.S330S	GGGGTCGGAGGTG	.	PASS	Atlas-SNP
PRKD3	23683	hgsc.bcm.edu	37	2	37505108	37505108	+	Silent	SNP	C	C	T	rs116096831	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	82	155	0	0.585714	0	C|0.996;T|0.004	0.004	strong	.	PRKD3	170	.	NM_005813	exon8	c.G1197A	p.P399P	CATTAGCGGAATA	.	PASS	Atlas-SNP
NGEF	25791	hgsc.bcm.edu	37	2	233757679	233757679	+	Silent	SNP	G	G	A	rs748002	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	195	193	171	0	0.989744	0	G|0.695;A|0.305	0.305	strong	NGEF_ENST00000264051,caecum,carcinoma,-1,4	NGEF	198	4	NM_019850	exon7	c.C1071T	p.A357A	GTGGTCGGCCGCA	.	PASS	Atlas-SNP
CDH15	1013	hgsc.bcm.edu	37	16	89245884	89245884	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	82	125	0	0.557823	0	.	.	none	CDH15,NS,carcinoma,-1,2	CDH15	54	2	NM_004933	exon2	c.C103T	p.R35C	CCCTGGCGCCGGG	.	PASS	Atlas-SNP
UTRN	7402	hgsc.bcm.edu	37	6	144898276	144898276	+	Missense_Mutation	SNP	C	C	T	rs367807203		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	89	139	0	0.497207	0	.	.	weak	.	UTRN	327	.	NM_007124	exon50	c.C7331T	p.T2444M	GGAGGACGGTGCA	.	PASS	Atlas-SNP
TMEM106B	54664	hgsc.bcm.edu	37	7	12263971	12263971	+	Missense_Mutation	SNP	G	G	A	rs147889591	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	280	123	320	0	0.439286	0	G|0.988;A|0.012	0.012	strong	.	TMEM106B	34	.	NM_001134232	exon4	c.G401A	p.S134N	ATGTCAGTTATGA	.	PASS	Atlas-SNP
TC2N	123036	hgsc.bcm.edu	37	14	92251587	92251587	+	Silent	SNP	A	A	G	rs61990064	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	37	84	0	0.4625	0	A|0.864;G|0.136	0.136	strong	TC2N,NS,adenoma,0,2	TC2N	49	2	NM_001128596	exon11	c.T1281C	p.L427L	CTGTATAAGTGGA	.	PASS	Atlas-SNP
CEACAM18	729767	hgsc.bcm.edu	37	19	51984725	51984725	+	Missense_Mutation	SNP	T	T	A	rs8106673	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	157	165	1	0.98125	0.00606061	T|0.151;A|0.849	0.849	strong	.	CEACAM18	96	.	NM_001080405	exon4	c.T662A	p.L221H	ACTGCCTCACAAA	.	PASS	Atlas-SNP
KIAA1683	80726	hgsc.bcm.edu	37	19	18375815	18375815	+	Silent	SNP	G	G	A	rs8103177	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	25	29	0	0.568182	0	G|0.737;A|0.263	0.263	strong	.	KIAA1683	190	.	NM_001145304	exon3	c.C2535T	p.N845N	CTCAACGTTGCAT	.	PASS	Atlas-SNP
MYCT1	80177	hgsc.bcm.edu	37	6	153043035	153043035	+	Missense_Mutation	SNP	G	G	A	rs17710008	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	270	118	264	1	0.437037	0.00378788	G|0.882;A|0.118	0.118	strong	.	MYCT1	48	.	NM_025107	exon2	c.G355A	p.G119S	ACCCACGGCCTCA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	172	204	0	1	0	T|0.683;G|0.317	0.317	strong	.	MDH1B	89	.	NM_001039845	exon12	c.A1530C	p.E510D	TTCAAATTCTGTA	.	PASS	Atlas-SNP
SLCO1B1	10599	hgsc.bcm.edu	37	12	21331625	21331625	+	Silent	SNP	C	C	T	rs2291075	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	71	171	1	0.432927	0.00584795	C|0.548;T|0.452	0.452	strong	SLCO1B1,NS,carcinoma,+2,1	SLCO1B1	151	1	NM_006446	exon6	c.C597T	p.F199F	TGATTTCGCTAAA	.	scavenged	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	37	16	72993622	72993622	+	Silent	SNP	C	C	T	rs62053190	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	131	116	0	1	0	C|0.941;T|0.059	0.059	strong	ZFHX3,NS,carcinoma,0,2	ZFHX3	404	2	NM_006885	exon2	c.G423A	p.A141A	AATGTACGCGGAG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	40	40	47	0	1	0	A|0.658;G|0.342	0.342	strong	.	EI24	33	.	NM_001007277	exon9	c.A745G	p.I249V	CAAAGCATAGTAA	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954572	30954572	+	Missense_Mutation	SNP	C	C	T	rs146037191	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	10	94	0	0.0724638	0	C|0.998;T|0.002	0.002	weak	MUC21,NS,malignant_melanoma,0,2	MUC21	98	2	NM_001010909	exon2	c.C620T	p.A207V	GTGGGGCCAGCAC	.	PASS	Atlas-SNP
CIC	23152	hgsc.bcm.edu	37	19	42799049	42799049	+	Silent	SNP	C	C	T	rs1052023	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	16	10	20	0	0.625	0	C|0.756;T|0.244	0.244	strong	.	CIC	249	.	NM_015125	exon20	c.C4533T	p.I1511I	GAAGATCCGTGAG	.	PASS	Atlas-SNP
ARHGEF12	23365	hgsc.bcm.edu	37	11	120317731	120317731	+	Missense_Mutation	SNP	G	G	A	rs138160103	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	180	96	166	0	0.533333	0	G|0.998;A|0.002	0.002	strong	.	ARHGEF12	133	.	NM_015313	exon18	c.G1526A	p.R509Q	AGGACCGATTGAC	.	PASS	Atlas-SNP
DNAH3	55567	hgsc.bcm.edu	37	16	21045369	21045369	+	Silent	SNP	A	A	G	rs2112494	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	55	121	0	0.447154	0	A|0.912;G|0.088	0.088	strong	.	DNAH3	1142	.	NM_017539	exon36	c.T5124C	p.I1708I	TCCTACAATCATA	.	PASS	Atlas-SNP
CHIA	27159	hgsc.bcm.edu	37	1	111854889	111854889	+	Missense_Mutation	SNP	A	A	G	rs41282492	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	61	142	2	0.414966	0.0140845	A|0.881;G|0.119	0.119	strong	CHIA_ENST00000369740,NS,carcinoma,-1,1	CHIA	115	1	NM_201653	exon4	c.A133G	p.N45D	CCTGACAACATCG	.	scavenged	Atlas-SNP
RIPK2	8767	hgsc.bcm.edu	37	8	90770393	90770393	+	Silent	SNP	C	C	T	rs200258974		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	55	66	0	0.639535	0	.	.	weak	RIPK2,NS,malignant_melanoma,+2,1	RIPK2	37	1	NM_003821	exon1	c.C105T	p.A35A	GTCCGCCCGCCAC	.	PASS	Atlas-SNP
IL6ST	3572	hgsc.bcm.edu	37	5	55248135	55248135	+	Missense_Mutation	SNP	C	C	T	rs34417936	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	59	144	0	0.522124	0	C|0.980;T|0.020	0.020	strong	.	IL6ST	75	.	NM_002184	exon12	c.G1495A	p.V499I	CATATACTGGAGT	.	PASS	Atlas-SNP
ACTRT2	140625	hgsc.bcm.edu	37	1	2938989	2938989	+	Missense_Mutation	SNP	G	G	A	rs3795263	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	59	82	0	0.513043	0	G|0.842;A|0.158	0.158	strong	.	ACTRT2	69	.	NM_080431	exon1	c.G739A	p.G247R	CCCGACGGGAACA	.	PASS	Atlas-SNP
DPP4	1803	hgsc.bcm.edu	37	2	162865133	162865133	+	Silent	SNP	C	C	T	rs41268649	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	45	94	0	0.428571	0	C|0.969;T|0.031	0.031	strong	DPP4,colon,carcinoma,0,1	DPP4	90	1	NM_001935	exon22	c.G1926A	p.S642S	ACTTCCCGATCCC	.	PASS	Atlas-SNP
HSPBAP1	79663	hgsc.bcm.edu	37	3	122474121	122474121	+	Missense_Mutation	SNP	G	G	C	rs61756481	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	71	144	0	0.473333	0	G|0.952;C|0.048	0.048	strong	.	HSPBAP1	32	.	NM_024610	exon5	c.C727G	p.L243V	GGCTCAGTGTAAC	.	PASS	Atlas-SNP
ACP1	52	hgsc.bcm.edu	37	2	277003	277003	+	Missense_Mutation	SNP	A	A	G	rs79716074	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	80	168	0	0.39801	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
PZP	5858	hgsc.bcm.edu	37	12	9315209	9315209	+	Silent	SNP	A	A	G	rs10771381	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	76	86	0	1	0	A|0.580;G|0.420	0.420	strong	.	PZP	422	.	NM_002864	exon22	c.T2772C	p.S924S	GGTCATAGAACTG	.	PASS	Atlas-SNP
TUBA1B	10376	hgsc.bcm.edu	37	12	49522578	49522578	+	Silent	SNP	T	T	C	rs1057725	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	215	73	281	0	0.339535	0	T|0.527;C|0.473	0.473	strong	.	TUBA1B	24	.	NM_006082	exon4	c.A519G	p.P173P	GGGTGCTGGGTAA	.	PASS	Atlas-SNP
CPA5	93979	hgsc.bcm.edu	37	7	130007381	130007381	+	Missense_Mutation	SNP	T	T	C	rs11761888	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	379	187	331	0	0.493404	0	C|0.239;T|0.761	0.239	strong	.	CPA5	61	.	NM_080385	exon11	c.T1007C	p.L336S	GCCGATTGCTGGA	.	PASS	Atlas-SNP
CELA3A	10136	hgsc.bcm.edu	37	1	22336305	22336305	+	Silent	SNP	C	C	T	rs9187	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	247	111	260	1	0.449393	0.00384615	C|0.737;T|0.263	0.263	strong	CELA3A,NS,carcinoma,+2,1	CELA3A	35	1	NM_005747	exon7	c.C750T	p.P250P	GAAGCCCACGGTG	.	PASS	Atlas-SNP
MICA	100507436	hgsc.bcm.edu	37	6	31379990	31379990	+	Missense_Mutation	SNP	C	C	G	rs41553616	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	60	78	0	0.48	0	C|0.977;G|0.023	0.023	strong	.	MICA	21	.	NM_001177519	exon4	c.C880G	p.P294A	ACTCACCCTGTGC	.	PASS	Atlas-SNP
CCDC77	84318	hgsc.bcm.edu	37	12	520947	520947	+	Missense_Mutation	SNP	A	A	C	rs4980895	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	32	78	0	0.426667	0	A|0.803;C|0.197	0.197	strong	.	CCDC77	35	.	NM_032358	exon4	c.A73C	p.S25R	GCCGTCAGTGGTC	.	PASS	Atlas-SNP
AMPH	273	hgsc.bcm.edu	37	7	38431436	38431436	+	Silent	SNP	C	C	T	rs1058656	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	75	120	0	0.559702	0	C|0.804;T|0.196	0.196	strong	.	AMPH	157	.	NM_001635	exon19	c.G1791A	p.T597T	AGAAGGCGTGGGC	.	PASS	Atlas-SNP
PLCB3	5331	hgsc.bcm.edu	37	11	64031241	64031241	+	Missense_Mutation	SNP	C	C	T	rs35169799	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	42	109	1	0.4375	0.00917431	C|0.957;T|0.043	0.043	strong	PLCB3,brain,primitive_neuroectodermal_tumour-medulloblastoma,-1,1	PLCB3	103	1	NM_000932	exon21	c.C2534T	p.S845L	AAGCCTCGGACTA	.	scavenged	Atlas-SNP
OR7C1	26664	hgsc.bcm.edu	37	19	14910321	14910321	+	Missense_Mutation	SNP	A	A	G	rs16979912	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	29	74	0	0.432836	0	A|0.757;G|0.243	0.243	strong	.	OR7C1	58	.	NM_198944	exon1	c.T628C	p.S210P	TGAAGGAAATCAC	.	PASS	Atlas-SNP
C1orf114	57821	hgsc.bcm.edu	37	1	169390957	169390957	+	Missense_Mutation	SNP	A	A	T	rs35107735	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	209	103	190	0	0.492823	0	A|0.752;T|0.248	0.248	strong	.	C1orf114	67	.	NM_021179	exon3	c.T712A	p.F238I	GCAAAAACCCCTG	.	PASS	Atlas-SNP
ZNF460	10794	hgsc.bcm.edu	37	19	57802824	57802824	+	Silent	SNP	G	G	A	rs2041110	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	35	82	0	0.426829	0	G|0.806;A|0.194	0.194	strong	.	ZNF460	59	.	NM_006635	exon3	c.G915A	p.K305K	TGAGAAGAAACCC	.	PASS	Atlas-SNP
CTSH	1512	hgsc.bcm.edu	37	15	79224727	79224727	+	Missense_Mutation	SNP	T	T	C	rs78155742	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	40	91	0	0.506329	0	T|0.984;C|0.016	0.016	strong	.	CTSH	23	.	NM_004390	exon6	c.A479G	p.K160R	AGCATCTTTCCGG	.	PASS	Atlas-SNP
ABCA4	24	hgsc.bcm.edu	37	1	94544234	94544234	+	Missense_Mutation	SNP	T	T	C	rs3112831	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	114	208	1	0.57	0.00480769	T|0.748;C|0.251;N|0.001	0.251	strong	ABCA4,NS,carcinoma,-1,2	ABCA4	275	2	NM_000350	exon10	c.A1268G	p.H423R	CTAACGTGTTCCA	.	PASS	Atlas-SNP
PI4KA	5297	hgsc.bcm.edu	37	22	21066897	21066897	+	Silent	SNP	G	G	A	rs60856465		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	208	161	378	1	0.774038	0.0026455	A|1.000;|0.000	1.000	weak	PI4KA_ENST00000255882,NS,carcinoma,0,2	PI4KA	313	2	NM_058004	exon50	c.C5679T	p.C1893C	CACCCCGCACTAG	.	scavenged	Atlas-SNP
KIF25	3834	hgsc.bcm.edu	37	6	168440826	168440826	+	Silent	SNP	C	C	T	rs6928620	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	32	43	0	0.5	0	C|0.944;T|0.056	0.056	strong	KIF25,NS,carcinoma,0,1	KIF25	75	1	NM_030615	exon6	c.C576T	p.H192H	GGTGCACGCGGAT	.	PASS	Atlas-SNP
APEH	327	hgsc.bcm.edu	37	3	49714225	49714225	+	Silent	SNP	T	T	C	rs1131095	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	349	184	239	0	0.527221	0	T|0.737;C|0.263	0.263	strong	APEH,NS,carcinoma,0,1	APEH	45	1	NM_001640	exon9	c.T852C	p.Y284Y	GTATTATGTGGAC	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40399385	40399385	+	Missense_Mutation	SNP	C	C	T	rs78608182	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	242	50	189	0	0.206612	0	C|0.500;T|0.500	0.500	strong	FCGBP,NS,carcinoma,0,2	FCGBP	416	2	NM_003890	exon13	c.G6310A	p.G2104R	GTGGTCCGTGGCA	.	scavenged	Atlas-SNP
ZNF418	147686	hgsc.bcm.edu	37	19	58437791	58437791	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	20	93	0	0.235294	0	.	.	none	.	ZNF418	76	.	NM_133460	exon4	c.T1758C	p.T586T	TTCTCCAGTGTGA	.	PASS	Atlas-SNP
CCDC38	120935	hgsc.bcm.edu	37	12	96312686	96312686	+	Missense_Mutation	SNP	C	C	A	rs12368787	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	68	151	0	0.386364	0	C|0.915;A|0.085	0.085	strong	.	CCDC38	45	.	NM_182496	exon3	c.G106T	p.V36F	CTTTGACAAGAAA	.	PASS	Atlas-SNP
SLC25A32	81034	hgsc.bcm.edu	37	8	104417045	104417045	+	Missense_Mutation	SNP	C	C	T	rs17803441	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	87	128	0	0.59589	0	C|0.952;T|0.048	0.048	strong	.	SLC25A32	36	.	NM_030780	exon3	c.G350A	p.R117H	TCTAAACGTTCAG	.	PASS	Atlas-SNP
DND1	373863	hgsc.bcm.edu	37	5	140050926	140050926	+	Silent	SNP	G	G	A	rs62384220	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	752	100	441	2	0.132979	0.00453515	G|0.970;A|0.030	0.030	strong	DND1,NS,carcinoma,0,1	DND1	15	1	NM_194249	exon4	c.C1014T	p.N338N	CAGGAGGTTGGCC	.	scavenged	Atlas-SNP
GIGYF2	26058	hgsc.bcm.edu	37	2	233712223	233712223	+	Missense_Mutation	SNP	T	T	A	rs114013774	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	38	9	42	0	0.236842	0	T|0.966;A|0.034	0.034	strong	.	GIGYF2	288	.	NM_001103147	exon29	c.T3689A	p.L1230Q	AGCAGCTGCCACA	.	PASS	Atlas-SNP
KDM4B	23030	hgsc.bcm.edu	37	19	5110794	5110794	+	Silent	SNP	A	A	G	rs2613739	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	53	53	88	0	1	0	A|0.406;G|0.594	0.594	strong	.	KDM4B	120	.	NM_015015	exon10	c.A1080G	p.A360A	GAGTGCATCCCGG	.	PASS	Atlas-SNP
DCAKD	79877	hgsc.bcm.edu	37	17	43111688	43111688	+	Silent	SNP	G	G	A	rs9900173	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	46	86	0	0.522727	0	G|0.719;A|0.281	0.281	strong	.	DCAKD	25	.	NM_001128631	exon3	c.C183T	p.N61N	GTCGCCGTTCTCC	.	PASS	Atlas-SNP
C19orf45	374877	hgsc.bcm.edu	37	19	7573098	7573098	+	Missense_Mutation	SNP	T	T	A	rs475923	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	64	150	0	0.426667	0	T|0.677;A|0.323	0.323	strong	C19orf45,NS,carcinoma,0,1	C19orf45	36	1	NM_198534	exon9	c.T1300A	p.Y434N	TGCAAGTACAGCC	.	PASS	Atlas-SNP
SMPDL3B	27293	hgsc.bcm.edu	37	1	28282292	28282292	+	Missense_Mutation	SNP	T	T	C	rs3813803	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	73	120	0	0.540741	0	T|0.782;C|0.218	0.218	strong	.	SMPDL3B	54	.	NM_001009568	exon6	c.T788C	p.V263A	AGGTGGTCCGGAA	.	PASS	Atlas-SNP
CSF2RB	1439	hgsc.bcm.edu	37	22	37326443	37326443	+	Missense_Mutation	SNP	G	G	C	rs16845	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	40	76	0	0.449438	0	G|0.901;C|0.099	0.099	strong	.	CSF2RB	104	.	NM_000395	exon7	c.G745C	p.E249Q	AACCTGGAGTGCT	.	PASS	Atlas-SNP
TTYH2	94015	hgsc.bcm.edu	37	17	72240177	72240177	+	Missense_Mutation	SNP	T	T	G	rs35999669	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	37	37	38	0	1	0	T|0.580;G|0.420	0.420	strong	TTYH2,NS,carcinoma,0,1	TTYH2	63	1	NM_032646	exon6	c.T793G	p.S265A	GATGGCTCTGCGG	.	PASS	Atlas-SNP
CERS4	79603	hgsc.bcm.edu	37	19	8326944	8326944	+	Missense_Mutation	SNP	G	G	A	rs17160349	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	30	64	0	0.535714	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
ARSD	414	hgsc.bcm.edu	37	X	2836037	2836037	+	Missense_Mutation	SNP	G	G	C	rs211653	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	4	77	0	0.0555556	0	0|0.004;C|0.405	0.405	strong	.	ARSD	47	.	NM_001669	exon5	c.C671G	p.S224C	GAGACAGAGAAGA	.	PASS	Atlas-SNP
ZBTB37	84614	hgsc.bcm.edu	37	1	173855208	173855208	+	Silent	SNP	A	A	G	rs16846520	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	43	73	0	0.505882	0	A|0.907;G|0.093	0.093	strong	.	ZBTB37	38	.	NM_001122770	exon5	c.A1458G	p.T486T	AGAGACAGTTGCT	.	PASS	Atlas-SNP
GAS2L2	246176	hgsc.bcm.edu	37	17	34077232	34077232	+	Missense_Mutation	SNP	G	G	A	rs11654604	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	40	69	0	0.597015	0	G|0.857;A|0.143	0.143	strong	.	GAS2L2	94	.	NM_139285	exon2	c.C491T	p.A164V	GGCGCCGCAACAC	.	PASS	Atlas-SNP
MROH7	374977	hgsc.bcm.edu	37	1	55119515	55119515	+	Missense_Mutation	SNP	T	T	G	rs1655519	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	73	155	0	0.45625	0	T|0.604;G|0.396	0.396	strong	.	.	.	.	NM_001039464	exon3	c.T916G	p.Y306D	TCCAGCTATGGTA	.	PASS	Atlas-SNP
ZBED1	9189	hgsc.bcm.edu	37	X	2408434	2408434	+	Silent	SNP	C	C	T	rs199866649	alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	79	139	0	0.908046	0	C|0.999;G|0.001	.	alt	.	ZBED1	64	.	NM_001171135	exon2	c.G327A	p.A109A	GGCCAGCGCGTCC	.	PASS	Atlas-SNP
TANC2	26115	hgsc.bcm.edu	37	17	61498500	61498500	+	Silent	SNP	C	C	T	rs117474655	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	83	116	0	0.509202	0	C|0.988;T|0.012	0.012	strong	.	TANC2	266	.	NM_025185	exon25	c.C5157T	p.R1719R	CGGACGCAGCCAG	.	PASS	Atlas-SNP
CFTR	1080	hgsc.bcm.edu	37	7	117235055	117235055	+	Silent	SNP	T	T	G	rs1042077	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	216	105	212	0	0.486111	0	G|0.425;N|0.000	0.425	strong	.	CFTR	171	.	NM_000492	exon15	c.T2562G	p.T854T	TATTACTGTCCAC	.	PASS	Atlas-SNP
MYH11	4629	hgsc.bcm.edu	37	16	15814100	15814100	+	Missense_Mutation	SNP	T	T	G	rs34321232	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	190	98	147	0	0.515789	0	T|0.987;G|0.013	0.013	weak	.	MYH11	520	.	NM_001040114	exon35	c.A4882C	p.K1628Q	CCAGCTTCTTCTT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	126	109	0	1	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
MRPL51	51258	hgsc.bcm.edu	37	12	6601475	6601475	+	Missense_Mutation	SNP	G	G	A	rs11380	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	331	166	326	0	0.501511	0	G|0.999;A|0.001	0.001	strong	MRPL51,NS,carcinoma,0,1	MRPL51	17	1	NM_016497	exon3	c.C349T	p.L117F	TGTAGAGATAGCG	.	PASS	Atlas-SNP
PRUNE	58497	hgsc.bcm.edu	37	1	150999737	150999737	+	Silent	SNP	A	A	G	rs11204762	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	66	145	0	0.431373	0	A|0.743;G|0.257	0.257	strong	.	PRUNE	40	.	NM_021222	exon6	c.A708G	p.K236K	GAGAAAAGACCAG	.	PASS	Atlas-SNP
DKKL1	27120	hgsc.bcm.edu	37	19	49878196	49878196	+	Missense_Mutation	SNP	G	G	A	rs2288481	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	34	50	0	0.441558	0	G|0.767;A|0.233	0.233	strong	.	DKKL1	23	.	NM_014419	exon5	c.G640A	p.E214K	GTCCTAGAAGAGG	.	PASS	Atlas-SNP
MAB21L3	126868	hgsc.bcm.edu	37	1	116670774	116670774	+	Silent	SNP	A	A	G	rs10754431	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	73	156	0	0.483444	0	A|0.608;G|0.392	0.392	strong	.	MAB21L3	33	.	NM_152367	exon6	c.A669G	p.G223G	GTTTGGATTTAAC	.	PASS	Atlas-SNP
PCDH15	65217	hgsc.bcm.edu	37	10	56106173	56106173	+	Silent	SNP	T	T	C	rs34164469	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	85	126	0	0.480226	0	T|0.986;C|0.014	0.014	strong	.	PCDH15	1715	.	NM_001142763	exon7	c.A561G	p.G187G	ATTTGGTCCATCA	.	PASS	Atlas-SNP
MYH1	4619	hgsc.bcm.edu	37	17	10404046	10404046	+	Silent	SNP	G	G	A	rs17811250	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	63	108	0	0.463235	0	G|0.880;A|0.120	0.120	strong	.	MYH1	403	.	NM_005963	exon28	c.C3762T	p.R1254R	TAGAGCGCGGCAC	.	PASS	Atlas-SNP
ARMCX2	9823	hgsc.bcm.edu	37	X	100911066	100911066	+	Silent	SNP	C	C	T	rs3850315	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	110	63	0	1	0	C|0.042;T|0.958	0.958	strong	.	ARMCX2	75	.	NM_014782	exon5	c.G1509A	p.Q503Q	CAGGTGCTGGTAG	.	PASS	Atlas-SNP
MZF1	7593	hgsc.bcm.edu	37	19	59082605	59082605	+	Missense_Mutation	SNP	C	C	T	rs3752109	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	49	98	0	0.457944	0	C|0.795;T|0.205	0.205	strong	.	MZF1	37	.	NM_198055	exon2	c.G152A	p.R51H	TCATAGCGGAAGC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	55	144	0	0.466102	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
LENG8	114823	hgsc.bcm.edu	37	19	54966557	54966557	+	Missense_Mutation	SNP	G	G	C	rs35061854	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	33	52	0	0.559322	0	G|0.983;C|0.017	0.017	strong	.	LENG8	73	.	NM_052925	exon8	c.G836C	p.R279P	CTGCCCGGGGGAA	.	PASS	Atlas-SNP
KIAA0753	9851	hgsc.bcm.edu	37	17	6513329	6513329	+	Missense_Mutation	SNP	G	G	A	rs2304977	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	281	150	238	0	0.533808	0	G|0.714;A|0.286	0.286	strong	.	KIAA0753	63	.	NM_014804	exon9	c.C1697T	p.P566L	GACGCTGGTGGGG	.	PASS	Atlas-SNP
UBAP2L	9898	hgsc.bcm.edu	37	1	154209591	154209591	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	344	6	326	0	0.0174419	0	.	.	none	UBAP2L_ENST00000343815,right_lower_lobe,carcinoma,-2,2	UBAP2L	197	2	NM_001127320	exon8	c.T682C	p.F228L	GGCCACTTTGAAC	.	scavenged	Atlas-SNP
USP3	9960	hgsc.bcm.edu	37	15	63855190	63855190	+	Silent	SNP	G	G	A	rs61751106	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	31	75	0	0.455882	0	G|0.990;A|0.010	0.010	strong	.	USP3	37	.	NM_006537	exon8	c.G744A	p.K248K	TTGGAAGATTATG	.	PASS	Atlas-SNP
PCDHB15	56121	hgsc.bcm.edu	37	5	140626767	140626767	+	Silent	SNP	C	C	T	rs3096081	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	39	189	0	0.534247	0	C|0.770;T|0.230	0.230	strong	PCDHB15,NS,carcinoma,-2,1	PCDHB15	138	1	NM_018935	exon1	c.C1621T	p.L541L	CCGGCGCTGAGCA	.	PASS	Atlas-SNP
XRRA1	143570	hgsc.bcm.edu	37	11	74559446	74559446	+	Missense_Mutation	SNP	G	G	C	rs4944960	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	50	145	0	0.364964	0	G|0.659;C|0.341	0.341	strong	.	XRRA1	46	.	NM_182969	exon15	c.C1418G	p.T473R	GTTGTCGTCATGC	.	PASS	Atlas-SNP
ZSCAN20	7579	hgsc.bcm.edu	37	1	33957130	33957130	+	Silent	SNP	C	C	A	rs3795419	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	30	59	1	0.410959	0.0169492	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	.	scavenged	Atlas-SNP
BACE2	25825	hgsc.bcm.edu	37	21	42622786	42622786	+	Silent	SNP	C	C	T	rs1046210	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	67	155	0	0.446667	0	C|0.656;G|0.000	.	strong	.	BACE2	45	.	NM_138992	exon7	c.C1092T	p.D364D	GAGAGACGAGAAC	.	PASS	Atlas-SNP
HAND1	9421	hgsc.bcm.edu	37	5	153857101	153857101	+	Silent	SNP	A	A	C	rs34402828	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	237	100	161	0	0.421941	0	A|0.958;C|0.042	0.042	strong	.	HAND1	21	.	NM_004821	exon1	c.T468G	p.S156S	ATCGCCAGACTGT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	139	321	0	0.972028	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
OR4A15	81328	hgsc.bcm.edu	37	11	55136157	55136157	+	Silent	SNP	C	C	T	rs147678504	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	236	107	205	0	0.45339	0	C|0.997;T|0.003	0.003	strong	.	OR4A15	161	.	NM_001005275	exon1	c.C798T	p.Y266Y	TTTCTACACCTGT	.	PASS	Atlas-SNP
ITGB4	3691	hgsc.bcm.edu	37	17	73750859	73750859	+	Silent	SNP	C	C	G	rs8669	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	84	163	0	0.506024	0	C|0.640;G|0.360	0.360	strong	.	ITGB4	165	.	NM_000213	exon34	c.C4521G	p.P1507P	ACTGCCCAGGGAC	.	PASS	Atlas-SNP
KDM3B	51780	hgsc.bcm.edu	37	5	137754808	137754808	+	Missense_Mutation	SNP	G	G	A	rs7706614	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	289	142	239	0	0.491349	0	G|0.953;A|0.047	0.047	strong	.	KDM3B	177	.	NM_016604	exon14	c.G3602A	p.S1201N	CAAATAGCAATAG	.	PASS	Atlas-SNP
AGL	178	hgsc.bcm.edu	37	1	100316589	100316589	+	Splice_Site	SNP	A	A	G	rs2307130	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	66	154	0	0.44898	0	A|0.571;G|0.429	0.429	strong	.	AGL	137	.	.	.	.	.	TCCTCTAGAAGCC	.	PASS	Atlas-SNP
KANSL1	284058	hgsc.bcm.edu	37	17	44111613	44111613	+	Silent	SNP	A	A	G	rs17574604	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	199	90	150	0	0.452261	0	A|0.853;G|0.147	0.147	strong	KIAA1267,NS,carcinoma,0,1	.	.	1	NM_001193466	exon11	c.T2580C	p.F860F	AATATCAAATGAG	.	PASS	Atlas-SNP
GPR55	9290	hgsc.bcm.edu	37	2	231775297	231775297	+	Silent	SNP	T	T	G	rs1992186	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	33	63	0	0.458333	0	T|0.502;G|0.498	0.498	strong	.	GPR55	46	.	NM_005683	exon2	c.A381C	p.L127L	CACCAGTAGCGGG	.	PASS	Atlas-SNP
POLD3	10714	hgsc.bcm.edu	37	11	74347244	74347244	+	Silent	SNP	C	C	T	rs35745457	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	73	139	0	0.459119	0	C|0.990;T|0.010	0.010	strong	.	POLD3	87	.	NM_006591	exon11	c.C1122T	p.S374S	TTAGAGCTCAAGT	.	PASS	Atlas-SNP
HEXDC	284004	hgsc.bcm.edu	37	17	80391684	80391684	+	Missense_Mutation	SNP	A	A	G	rs4789773	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	297	137	255	1	0.461279	0.00392157	A|0.477;G|0.523	0.523	strong	.	HEXDC	43	.	NM_173620	exon5	c.A433G	p.I145V	CTGCACATCGGGT	.	PASS	Atlas-SNP
SERPINB10	5273	hgsc.bcm.edu	37	18	61602360	61602360	+	Missense_Mutation	SNP	G	G	A	rs35453062	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	57	117	0	0.413043	0	G|0.938;A|0.062	0.062	strong	.	SERPINB10	53	.	NM_005024	exon7	c.G1078A	p.D360N	GAGATAGATATAC	.	PASS	Atlas-SNP
CDC42BPG	55561	hgsc.bcm.edu	37	11	64606177	64606177	+	Silent	SNP	C	C	T	rs653343	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	54	70	0	0.62069	0	C|0.813;T|0.187	0.187	strong	CDC42BPG_ENST00000342711,NS,carcinoma,-1,1	CDC42BPG	101	1	NM_017525	exon8	c.G1074A	p.G358G	CATGGGCCCCCGC	.	PASS	Atlas-SNP
SLC9A7	84679	hgsc.bcm.edu	37	X	46472826	46472826	+	Silent	SNP	G	G	A	rs3208940	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	31	31	20	0	1	0	G|0.321;A|0.679	0.679	strong	.	SLC9A7	73	.	NM_001257291	exon16	c.C1827T	p.Y609Y	CTTCAGGTAACTT	.	PASS	Atlas-SNP
FUCA2	2519	hgsc.bcm.edu	37	6	143825104	143825104	+	Missense_Mutation	SNP	G	G	T	rs11155297	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	183	105	192	1	0.57377	0.00520833	G|0.844;T|0.156	0.156	strong	FUCA2,colon,carcinoma,0,1	FUCA2	28	1	NM_032020	exon3	c.C698A	p.A233E	TCCGGTGCTCCTC	.	PASS	Atlas-SNP
TARSL2	123283	hgsc.bcm.edu	37	15	102224341	102224341	+	Silent	SNP	G	G	A	rs12901450	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	90	185	1	0.552147	0.00540541	G|0.676;A|0.324	0.324	strong	TARSL2,NS,carcinoma,-1,1	TARSL2	63	1	NM_152334	exon12	c.C1587T	p.S529S	CAAGCCGCTGAGA	.	PASS	Atlas-SNP
SFSWAP	6433	hgsc.bcm.edu	37	12	132240010	132240010	+	Missense_Mutation	SNP	G	G	A	rs34541796	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	22	35	0	0.488889	0	G|0.987;A|0.013	0.013	strong	SFSWAP,colon,carcinoma,-2,1	SFSWAP	69	1	NM_001261411	exon10	c.G1534A	p.G512S	GAAGGGGGCGATA	.	PASS	Atlas-SNP
HUWE1	10075	hgsc.bcm.edu	37	X	53641647	53641647	+	Silent	SNP	T	T	C	rs6638360	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	101	88	0	0.95283	0	T|0.629;C|0.371	0.371	strong	.	HUWE1	724	.	NM_031407	exon23	c.A2109G	p.S703S	CTGGATTGATGGC	.	PASS	Atlas-SNP
BTNL3	10917	hgsc.bcm.edu	37	5	180432416	180432416	+	Silent	SNP	C	C	T	rs78885278	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	213	209	167	0	0.981221	0	T|1.000;|0.000	1.000	weak	BTNL3,NS,carcinoma,+1,1	BTNL3	55	1	NM_197975	exon8	c.C945T	p.P315P	AGCTCCCCAGGAG	.	PASS	Atlas-SNP
ARHGEF12	23365	hgsc.bcm.edu	37	11	120328858	120328858	+	Silent	SNP	T	T	C	rs766894	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	96	205	3	0.510638	0.0146341	T|0.833;C|0.167	0.167	strong	ARHGEF12,NS,carcinoma,+2,1	ARHGEF12	133	1	NM_015313	exon25	c.T2295C	p.D765D	GACAGATCCACCC	.	scavenged	Atlas-SNP
PAAF1	80227	hgsc.bcm.edu	37	11	73620537	73620537	+	Missense_Mutation	SNP	C	C	G	rs3741138	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	206	111	164	0	0.538835	0	C|0.891;G|0.109	0.109	strong	.	PAAF1	39	.	NM_025155	exon7	c.C626G	p.A209G	GCTCAGCCTGCTT	.	PASS	Atlas-SNP
DNAH3	55567	hgsc.bcm.edu	37	16	20975069	20975069	+	Silent	SNP	G	G	A	rs3743696	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	197	177	1	0.985	0.00564972	G|0.930;A|0.070	0.070	strong	.	DNAH3	1142	.	NM_017539	exon53	c.C10137T	p.I3379I	GATGCCGATGGTC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	87	176	0	0.467742	0	T|0.753;C|0.247	0.247	strong	.	PIP4K2A	59	.	NM_005028	exon7	c.A752G	p.N251S	TTCTTGTTGTTGT	.	PASS	Atlas-SNP
MAP6	4135	hgsc.bcm.edu	37	11	75298797	75298797	+	Silent	SNP	A	A	G	rs1231128	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	328	175	312	0	0.533537	0	A|0.685;G|0.315	0.315	strong	.	MAP6	45	.	NM_033063	exon4	c.T1749C	p.D583D	ACCTTCATCCTTG	.	PASS	Atlas-SNP
PI4KA	5297	hgsc.bcm.edu	37	22	21064203	21064203	+	Missense_Mutation	SNP	G	G	A	rs1801982		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	705	21	731	9	0.0297872	0.0123119	.	.	weak	PI4KA_ENST00000255882,trunk,malignant_melanoma,0,4	PI4KA	313	4	NM_058004	exon53	c.C6166T	p.L2056F	TCAAGAGCTTGAT	.	scavenged	Atlas-SNP
SPAG1	6674	hgsc.bcm.edu	37	8	101206484	101206484	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	232	3	291	0	0.012931	0	.	.	none	SPAG1,NS,carcinoma,0,1	SPAG1	80	1	NM_003114	exon10	c.G1084T	p.G362C	GATGGCGGTGGAG	.	scavenged	Atlas-SNP
C17orf97	400566	hgsc.bcm.edu	37	17	263516	263516	+	Silent	SNP	C	C	T	rs75627881	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	347	113	146	0	0.325648	0	C|0.913;T|0.087	0.087	strong	.	C17orf97	76	.	NM_001013672	exon2	c.C882T	p.G294G	CAAGGGCTTCCAC	.	PASS	Atlas-SNP
URGCP	55665	hgsc.bcm.edu	37	7	43917604	43917604	+	Silent	SNP	C	C	T	rs2232098	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	82	157	0	0.5	0	C|0.972;T|0.028	0.028	strong	.	URGCP	170	.	NM_001077663	exon6	c.G1458A	p.S486S	GGCATCCGAGTCT	.	PASS	Atlas-SNP
PMEPA1	56937	hgsc.bcm.edu	37	20	56227514	56227514	+	Silent	SNP	T	T	C	rs6025698	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	46	83	0	0.383333	0	T|0.715;C|0.285	0.285	strong	PMEPA1,NS,lymphoid_neoplasm,0,1	PMEPA1	29	1	NM_020182	exon4	c.A459G	p.S153S	CCCGTCTGACAGC	.	PASS	Atlas-SNP
ESX1	80712	hgsc.bcm.edu	37	X	103495552	103495552	+	Missense_Mutation	SNP	T	T	C	rs41305431	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	51	46	0	0.980769	0	T|0.951;C|0.049	0.049	strong	.	ESX1	57	.	NM_153448	exon4	c.A578G	p.K193R	TTCCACTTGGCTC	.	PASS	Atlas-SNP
EMC1	23065	hgsc.bcm.edu	37	1	19566881	19566881	+	Silent	SNP	C	C	T	rs12084825	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	59	111	0	0.508621	0	C|0.864;T|0.136	0.136	strong	.	.	.	.	NM_001271427	exon7	c.G696A	p.E232E	GACAGCCTCATCC	.	PASS	Atlas-SNP
PCDHA1	56147	hgsc.bcm.edu	37	5	140167463	140167463	+	Silent	SNP	C	C	T	rs3733710	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	24	62	0	0.436364	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
VWA5B2	90113	hgsc.bcm.edu	37	3	183953972	183953972	+	Silent	SNP	G	G	A	rs1709657	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	243	218	251	1	0.897119	0.00398406	G|0.823;A|0.177	0.177	strong	.	VWA5B2	47	.	NM_138345	exon8	c.G1134A	p.P378P	CCTCCCGCCCCAG	.	PASS	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	37	22	29885562	29885562	+	Missense_Mutation	SNP	G	G	A	rs370929798		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	40	12	46	0	0.3	0	.	.	weak	NEFH,rectum,carcinoma,-2,1	NEFH	178	1	NM_021076	exon4	c.G1933A	p.E645K	AAGGAGGAAGCAA	.	PASS	Atlas-SNP
MMP14	4323	hgsc.bcm.edu	37	14	23313633	23313633	+	Missense_Mutation	SNP	G	G	A	rs17880989	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	93	127	0	0.556886	0	G|0.985;A|0.015	0.015	strong	.	MMP14	40	.	NM_004995	exon7	c.G1065A	p.M355I	CCCAATGCCCATT	.	PASS	Atlas-SNP
MEGF6	1953	hgsc.bcm.edu	37	1	3418428	3418428	+	Missense_Mutation	SNP	G	G	A	rs200472001	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	250	137	251	1	0.548	0.00398406	G|0.996;A|0.004	0.004	strong	.	MEGF6	91	.	NM_001409	exon18	c.C2246T	p.A749V	CAGGGGGCCCCCC	.	PASS	Atlas-SNP
SP9	100131390	hgsc.bcm.edu	37	2	175200903	175200903	+	Silent	SNP	G	G	C	rs35548534	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	63	142	0	0.453237	0	G|0.839;C|0.161	0.161	strong	.	SP9	15	.	NM_001145250	exon2	c.G90C	p.T30T	CAACACGAGCCCG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	45	70	0	0.548781	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
GRIK2	2898	hgsc.bcm.edu	37	6	102503317	102503317	+	Silent	SNP	G	G	A	rs2227283	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	43	73	0	0.494253	0	A|0.381;C|0.006	0.381	strong	.	GRIK2	487	.	NM_021956	exon15	c.G2424A	p.E808E	AGAGGAGAGCAAA	.	PASS	Atlas-SNP
ZNF578	147660	hgsc.bcm.edu	37	19	53015366	53015366	+	Missense_Mutation	SNP	C	C	T	rs376297084		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	25	72	0	0.520833	0	.	.	weak	.	.	.	.	NM_001099694	exon6	c.C1732T	p.H578Y	CACAATCACTTGA	.	PASS	Atlas-SNP
A4GALT	53947	hgsc.bcm.edu	37	22	43089849	43089849	+	Missense_Mutation	SNP	T	T	C	rs11541159	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	62	133	0	0.452555	0	T|0.620;C|0.380	0.380	strong	.	A4GALT	35	.	NM_017436	exon3	c.A109G	p.M37V	AGATCATGATGGA	.	PASS	Atlas-SNP
ZNF443	10224	hgsc.bcm.edu	37	19	12541250	12541250	+	Missense_Mutation	SNP	T	T	C	rs45531232	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	56	101	0	0.459016	0	T|0.955;C|0.045	0.045	strong	.	ZNF443	63	.	NM_005815	exon4	c.A1736G	p.E579G	ATTCTTTCATGTC	.	PASS	Atlas-SNP
KRT4	3851	hgsc.bcm.edu	37	12	53207583	53207583	+	Missense_Mutation	SNP	C	C	G	rs76773498	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	6	48	2	0.084507	0.0416667	.	.	weak	KRT4,rectum,carcinoma,+1,2	KRT4	110	2	NM_002272	exon1	c.G260C	p.G87A	AATCCACCACCAA	.	scavenged	Atlas-SNP
OR2AG1	144125	hgsc.bcm.edu	37	11	6807163	6807163	+	Missense_Mutation	SNP	C	C	G	rs2659879	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	259	127	198	1	0.490348	0.00505051	G|0.250;C|0.750	0.250	strong	OR2AG1,colon,carcinoma,0,5	OR2AG1	57	5	NM_001004489	exon1	c.C895G	p.R299G	GTCATGCGGGCCT	.	scavenged	Atlas-SNP
RHAG	6005	hgsc.bcm.edu	37	6	49580247	49580247	+	Missense_Mutation	SNP	C	C	T	rs16879498	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	65	101	0	0.481481	0	C|0.956;T|0.044	0.044	strong	RHAG,NS,carcinoma,+1,1	RHAG	85	1	NM_000324	exon6	c.G808A	p.V270I	TGTGAACCTGTGT	.	PASS	Atlas-SNP
PPP1R26	9858	hgsc.bcm.edu	37	9	138377498	138377498	+	Missense_Mutation	SNP	G	G	T	rs34151777	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	32	51	0	0.551724	0	G|0.956;T|0.044	0.044	strong	.	.	.	.	NM_014811	exon4	c.G1142T	p.R381L	AAACACGCAAGGA	.	PASS	Atlas-SNP
CGB2	114336	hgsc.bcm.edu	37	19	49536390	49536390	+	Missense_Mutation	SNP	C	C	A	rs78219294		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	103	177	1	0.903509	0.00564972	A|1.000;|0.000	1.000	weak	CGB2,NS,carcinoma,0,1	CGB2	6	1	NM_033378	exon3	c.C404A	p.A135D	TCCAGGCCTCCTC	.	scavenged	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	76	139	0	0.452381	0	C|0.461;G|0.539	0.539	strong	.	OVCH1	195	.	NM_183378	exon22	c.G2641C	p.A881P	TGCTTGCTGAAAC	.	PASS	Atlas-SNP
OR2A5	393046	hgsc.bcm.edu	37	7	143748364	143748364	+	Silent	SNP	T	T	C	rs4407791	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	45	66	0	0.494505	0	T|0.357;C|0.643	0.643	strong	.	OR2A5	78	.	NM_012365	exon1	c.T870C	p.Y290Y	GATCTATAGCCTG	.	PASS	Atlas-SNP
PSG9	5678	hgsc.bcm.edu	37	19	43763059	43763059	+	Missense_Mutation	SNP	C	C	T	rs12977717	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	30	45	0	0.508475	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
SERPINB7	8710	hgsc.bcm.edu	37	18	61471529	61471529	+	Missense_Mutation	SNP	C	C	T	rs61735186	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	18	29	0	0.409091	0	C|0.939;T|0.061	0.061	strong	.	SERPINB7	66	.	NM_001261830	exon8	c.C803T	p.T268I	GAATGACCTCTAA	.	PASS	Atlas-SNP
PPP1R9A	55607	hgsc.bcm.edu	37	7	94540527	94540527	+	Missense_Mutation	SNP	G	G	A	rs61737465	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	88	129	0	0.497175	0	G|0.960;A|0.040	0.040	strong	.	PPP1R9A	264	.	NM_017650	exon2	c.G1102A	p.D368N	GGTGGTGATTTCA	.	PASS	Atlas-SNP
HLA-DPA1	3113	hgsc.bcm.edu	37	6	33037522	33037522	+	Missense_Mutation	SNP	T	T	C	rs1042178	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	52	174	0	0.327044	0	T|0.688;C|0.310	0.310	strong	.	HLA-DPA1	20	.	NM_033554	exon2	c.A242G	p.Q81R	AAGGCTTGGCCAA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9086123	9086123	+	Missense_Mutation	SNP	A	A	C	rs10402812	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	165	105	0	1	0	A|0.765;C|0.235	0.235	strong	.	MUC16	4315	.	NM_024690	exon1	c.T5692G	p.Y1898D	CTGTGTAAGTCAT	.	PASS	Atlas-SNP
PRL	5617	hgsc.bcm.edu	37	6	22287745	22287745	+	Silent	SNP	C	C	T	rs6239	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	55	97	0	0.561224	0	C|0.946;T|0.054	0.054	strong	.	PRL	41	.	NM_000948	exon5	c.G570A	p.E190E	GCGAGACTCTTCA	.	PASS	Atlas-SNP
ZBTB7B	51043	hgsc.bcm.edu	37	1	154988957	154988957	+	Silent	SNP	A	A	G	rs2242195	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	125	108	0	0.968992	0	A|0.422;G|0.578	0.578	strong	ZBTB7B,NS,carcinoma,+1,1	ZBTB7B	69	1	NM_001252406	exon5	c.A1518G	p.P506P	CTACCCACCACCC	.	PASS	Atlas-SNP
TPSG1	25823	hgsc.bcm.edu	37	16	1272684	1272684	+	Missense_Mutation	SNP	C	C	G	rs4984638	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	89	140	0	0.517442	0	C|0.853;G|0.147	0.147	strong	.	TPSG1	19	.	NM_012467	exon4	c.G479C	p.W160S	GTCACCCAGCACC	.	PASS	Atlas-SNP
YBEY	54059	hgsc.bcm.edu	37	21	47717493	47717493	+	Missense_Mutation	SNP	G	G	T	rs61736728	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	51	94	0	0.621951	0	G|0.968;T|0.032	0.032	strong	YBEY,NS,carcinoma,0,1	YBEY	23	1	NM_058181	exon5	c.G449T	p.R150L	TGGGCCGACGCAC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	70	122	0	0.578512	0	C|0.732;T|0.268	0.268	strong	.	PTPRF	172	.	NM_002840	exon20	c.C3591T	p.T1197T	GGAGACCTTTACC	.	PASS	Atlas-SNP
NCKAP1L	3071	hgsc.bcm.edu	37	12	54911426	54911426	+	Missense_Mutation	SNP	C	C	T	rs2270581	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	70	115	0	0.542636	0	C|0.929;T|0.071	0.071	strong	NCKAP1L,NS,carcinoma,0,1	NCKAP1L	180	1	NM_005337	exon12	c.C1205T	p.S402L	CTGACTCGTTAGT	.	PASS	Atlas-SNP
SLC22A14	9389	hgsc.bcm.edu	37	3	38357961	38357961	+	Missense_Mutation	SNP	C	C	G	rs240033	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	114	78	0	1	0	C|0.724;G|0.276	0.276	strong	.	SLC22A14	64	.	NM_004803	exon9	c.C1679G	p.P560R	TGCTGCCGGAAAC	.	PASS	Atlas-SNP
F13B	2165	hgsc.bcm.edu	37	1	197030087	197030087	+	Silent	SNP	C	C	T	rs17514253	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	102	219	0	0.455357	0	C|0.995;T|0.005	0.005	strong	F13B,NS,carcinoma,0,2	F13B	137	2	NM_001994	exon4	c.G570A	p.K190K	TGTCTTCTTTCCT	.	PASS	Atlas-SNP
HLTF	6596	hgsc.bcm.edu	37	3	148766666	148766666	+	Silent	SNP	T	T	C	rs34474865	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	80	139	0	0.519481	0	T|0.950;C|0.050	0.050	strong	.	HLTF	87	.	NM_139048	exon16	c.A1740G	p.R580R	CCATCTTCTTTCT	.	PASS	Atlas-SNP
OR51B2	79345	hgsc.bcm.edu	37	11	5344681	5344681	+	Missense_Mutation	SNP	G	G	A	rs11036815	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	90	192	0	0.483871	0	G|0.720;A|0.280	0.280	strong	.	OR51B2	69	.	NM_033180	exon1	c.C847T	p.P283S	TTAAAGGAGGAAA	.	PASS	Atlas-SNP
KIAA0825	285600	hgsc.bcm.edu	37	5	93722036	93722036	+	Missense_Mutation	SNP	G	G	A	rs72771666	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	63	168	0	0.384146	0	G|0.969;A|0.031	0.031	strong	KIAA0825_ENST00000513200,NS,carcinoma,+1,1	KIAA0825	172	1	NM_001145678	exon19	c.C3530T	p.T1177M	AAGGTCGTCTTTA	.	PASS	Atlas-SNP
B4GALNT3	283358	hgsc.bcm.edu	37	12	644351	644351	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	46	4	43	0	0.0869565	0	.	.	none	.	B4GALNT3	64	.	NM_173593	exon2	c.A189G	p.E63E	GAGAGAACTGGCC	.	PASS	Atlas-SNP
ZNF471	57573	hgsc.bcm.edu	37	19	57037103	57037103	+	Missense_Mutation	SNP	C	C	G	rs16987303	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	23	39	0	0.522727	0	C|0.882;G|0.118	0.118	strong	.	ZNF471	99	.	NM_020813	exon5	c.C1667G	p.S556C	AAACTTCCAATCT	.	PASS	Atlas-SNP
PRRC2A	7916	hgsc.bcm.edu	37	6	31603189	31603189	+	Missense_Mutation	SNP	G	G	A	rs11538264	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	302	137	276	0	0.453642	0	G|0.943;A|0.057	0.057	strong	.	PRRC2A	152	.	NM_004638	exon23	c.G5320A	p.V1774M	CGCCTAGTGGTAG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	56	119	0	0.513761	0	C|0.714;T|0.286	0.286	strong	.	SLC26A8	95	.	NM_052961	exon3	c.G217A	p.V73M	TAAGCACGCATCG	.	PASS	Atlas-SNP
RPA4	29935	hgsc.bcm.edu	37	X	96139459	96139459	+	Silent	SNP	T	T	C	rs2642218	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	10	106	0	0.0724638	0	T|0.558;0|0.003	.	strong	.	RPA4	29	.	NM_013347	exon1	c.T150C	p.N50N	GTGTAATGTGAAC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	90	101	0	0.989011	0	T|0.575;G|0.005	0.575	strong	.	NPAT	124	.	NM_002519	exon13	c.G1723A	p.V575I	TGTGAACTTCACT	.	PASS	Atlas-SNP
ABCA2	20	hgsc.bcm.edu	37	9	139916833	139916833	+	Silent	SNP	T	T	G	rs35590326	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	78	175	11	0.503226	0.0628571	T|0.914;G|0.086	0.086	strong	ABCA2,NS,carcinoma,0,1	ABCA2	113	1	NM_212533	exon6	c.A627C	p.A209A	CAAGAGTGCTTGG	.	scavenged	Atlas-SNP
C16orf96	342346	hgsc.bcm.edu	37	16	4625274	4625274	+	Missense_Mutation	SNP	A	A	G	rs1256768	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	24	43	0	0.5	0	A|0.856;G|0.144	0.144	strong	.	C16orf96	28	.	NM_001145011	exon5	c.A793G	p.I265V	CGTGCCATCCAGG	.	PASS	Atlas-SNP
NAALADL2	254827	hgsc.bcm.edu	37	3	174814738	174814738	+	Missense_Mutation	SNP	G	G	A	rs9823911	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	223	119	205	0	0.533632	0	G|0.642;A|0.358	0.358	strong	.	NAALADL2	86	.	NM_207015	exon2	c.G202A	p.G68S	CTAGACGGTGCTG	.	PASS	Atlas-SNP
STPG1	90529	hgsc.bcm.edu	37	1	24706292	24706292	+	Missense_Mutation	SNP	T	T	C	rs1142057	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	48	121	0	0.380952	0	T|0.638;C|0.362	0.362	strong	.	.	.	.	NM_001199012	exon5	c.A313G	p.I105V	TAGAAATGATGGT	.	PASS	Atlas-SNP
CCDC155	147872	hgsc.bcm.edu	37	19	49901318	49901318	+	Silent	SNP	T	T	C	rs10421748	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	162	158	1	1	0.00632911	T|0.445;C|0.555	0.555	strong	.	CCDC155	46	.	NM_144688	exon7	c.T547C	p.L183L	GCCAAATTGCAGC	.	PASS	Atlas-SNP
FNDC1	84624	hgsc.bcm.edu	37	6	159672419	159672419	+	Silent	SNP	G	G	C	rs551392	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	58	96	0	0.42963	0	G|0.777;C|0.222	0.222	strong	.	FNDC1	250	.	NM_032532	exon17	c.G4920C	p.L1640L	CAGCCTGGATGAA	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30955211	30955211	+	Missense_Mutation	SNP	C	C	T	rs2429292	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	46	134	0	0.294872	0	C|0.886;T|0.114	0.114	strong	.	MUC21	98	.	NM_001010909	exon2	c.C1259T	p.A420V	GCACTGCCACCAA	.	PASS	Atlas-SNP
FLVCR2	55640	hgsc.bcm.edu	37	14	76045362	76045362	+	Missense_Mutation	SNP	T	T	C	rs2287015	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	43	89	0	0.483146	0	T|0.591;C|0.409	0.409	strong	.	FLVCR2	39	.	NM_017791	exon1	c.T47C	p.V16A	CCCCTGTGCCGGA	.	PASS	Atlas-SNP
TET2	54790	hgsc.bcm.edu	37	4	106196829	106196829	+	Missense_Mutation	SNP	T	T	G	rs34402524	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	221	107	192	0	0.484163	0	T|0.903;G|0.097	0.097	strong	TET2,NS,haematopoietic_neoplasm,0,1	TET2	1762	1	NM_001127208	exon11	c.T5162G	p.L1721W	GGAAATTGCCTCC	.	PASS	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	37	11	62285441	62285441	+	Missense_Mutation	SNP	A	A	G	rs61312994	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	57	127	0	0.459677	0	A|0.958;G|0.042	0.042	strong	.	AHNAK	532	.	NM_001620	exon5	c.T16448C	p.I5483T	ACACCAATGCCTG	.	PASS	Atlas-SNP
CEP290	80184	hgsc.bcm.edu	37	12	88508258	88508258	+	Missense_Mutation	SNP	T	T	C	rs79705698	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	206	92	171	0	0.446602	0	T|0.950;C|0.050	0.050	strong	.	CEP290	195	.	NM_025114	exon20	c.A1991G	p.D664G	TCAGGATCTTTCT	.	PASS	Atlas-SNP
KIAA1683	80726	hgsc.bcm.edu	37	19	18375608	18375608	+	Silent	SNP	G	G	A	rs8102923	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	59	101	0	0.472	0	G|0.726;A|0.274	0.274	strong	.	KIAA1683	190	.	NM_001145304	exon3	c.C2742T	p.A914A	GGACAGGGCCTGG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	89	148	0	0.489011	0	T|0.784;C|0.216	0.216	strong	.	ZNF202	72	.	NM_003455	exon7	c.A732G	p.V244V	AAAGCATACGGCC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	34	74	0	0.492754	0	T|0.719;C|0.281	0.281	strong	.	ZBBX	299	.	NM_024687	exon10	c.A533G	p.K178R	TGAGATTTTGCCT	.	PASS	Atlas-SNP
TNK1	8711	hgsc.bcm.edu	37	17	7286266	7286266	+	Silent	SNP	C	C	T	rs1554947	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	105	103	0	1	0	C|0.631;T|0.369	0.369	strong	.	TNK1	31	.	NM_003985	exon2	c.C21T	p.S7S	TGGCTCCCTGTGG	.	PASS	Atlas-SNP
LYZL2	119180	hgsc.bcm.edu	37	10	30918597	30918597	+	Missense_Mutation	SNP	T	T	C	rs74551644	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	13	104	0	0.0955882	0	.	.	weak	LYZL2,NS,carcinoma,0,1	LYZL2	33	1	NM_183058	exon1	c.A38G	p.K13R	CTCCACTTAGTCG	.	scavenged	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9057750	9057750	+	Missense_Mutation	SNP	T	T	A	rs12982113	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	281	281	252	0	1	0	T|0.754;A|0.246	0.246	strong	.	MUC16	4315	.	NM_024690	exon3	c.A29696T	p.Y9899F	ACTCCATAAAGGA	.	PASS	Atlas-SNP
ZBTB45	84878	hgsc.bcm.edu	37	19	59028162	59028162	+	Missense_Mutation	SNP	G	G	C	rs35430780	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	325	145	321	0	0.446154	0	G|0.965;C|0.035	0.035	strong	.	ZBTB45	37	.	NM_032792	exon2	c.C879G	p.D293E	ATCCTCGTCGTGC	.	PASS	Atlas-SNP
RAMP3	10268	hgsc.bcm.edu	37	7	45217015	45217015	+	Missense_Mutation	SNP	T	T	C	rs2074654	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	92	178	0	0.453202	0	T|0.943;C|0.057	0.057	strong	RAMP3,NS,carcinoma,-2,2	RAMP3	32	2	NM_005856	exon2	c.T166C	p.W56R	TGGAAGTGGTGCA	.	PASS	Atlas-SNP
CRYBB3	1417	hgsc.bcm.edu	37	22	25599849	25599849	+	Silent	SNP	G	G	A	rs17670506	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	93	127	0	0.550296	0	G|0.956;A|0.044	0.044	strong	.	CRYBB3	13	.	NM_004076	exon4	c.A314A	p.E105E	CCCTCCGGCCTCT	.	PASS	Atlas-SNP
C7orf72	100130988	hgsc.bcm.edu	37	7	50180972	50180972	+	Missense_Mutation	SNP	C	C	T	rs1456908	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	153	203	0	0.987097	0	C|0.671;T|0.329	0.329	strong	.	C7orf72	26	.	NM_001161834	exon7	c.C1073T	p.T358I	TTTATACAAACAC	.	PASS	Atlas-SNP
HS3ST3B1	9953	hgsc.bcm.edu	37	17	14248423	14248423	+	Silent	SNP	T	T	C	rs9906855	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	73	229	1	0.960526	0.00436681	T|0.518;C|0.482	0.482	strong	.	HS3ST3B1	19	.	NM_006041	exon2	c.T633C	p.P211P	GGCCCCTGCGCGC	.	PASS	Atlas-SNP
CMYA5	202333	hgsc.bcm.edu	37	5	79095299	79095299	+	Missense_Mutation	SNP	A	A	G	rs115059007	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	197	93	203	0	0.472081	0	A|0.987;G|0.013	0.013	strong	.	CMYA5	643	.	NM_153610	exon13	c.A12070G	p.N4024D	TTCATCAACGCAG	.	PASS	Atlas-SNP
SETBP1	26040	hgsc.bcm.edu	37	18	42532693	42532693	+	Missense_Mutation	SNP	C	C	A	rs1064204	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	63	118	0	0.492188	0	C|0.892;A|0.108	0.108	strong	.	SETBP1	577	.	NM_015559	exon4	c.C3388A	p.P1130T	ATGCAGCCTTCTC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	294	117	269	0	0.397959	0	G|0.774;A|0.226	0.226	strong	.	WDR17	198	.	NM_170710	exon31	c.G3883A	p.A1295T	AAATCTGCTATCT	.	PASS	Atlas-SNP
HLA-DPB1	3115	hgsc.bcm.edu	37	6	33048539	33048539	+	Missense_Mutation	SNP	T	T	A	rs1042117	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	38	44	0	0.404255	0	T|0.803;A|0.197	0.197	strong	HLA-DPB1,rectum,carcinoma,-1,1	HLA-DPB1	28	1	NM_002121	exon2	c.T191A	p.F64Y	AGGAGTTCGCGCG	.	PASS	Atlas-SNP
CNTROB	116840	hgsc.bcm.edu	37	17	7843053	7843053	+	Silent	SNP	C	C	T	rs11078719	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	31	52	0	0.5	0	C|0.506;T|0.494	0.494	strong	.	CNTROB	61	.	NM_001037144	exon8	c.C1150T	p.L384L	GCTCAGCTGGAAA	.	PASS	Atlas-SNP
LPIN3	64900	hgsc.bcm.edu	37	20	39986085	39986085	+	Missense_Mutation	SNP	A	A	C	rs12625565	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	24	59	0	0.428571	0	A|0.667;C|0.333	0.333	strong	.	LPIN3	69	.	NM_022896	exon16	c.A2037C	p.Q679H	AATCCAACTGTGA	.	PASS	Atlas-SNP
CCDC68	80323	hgsc.bcm.edu	37	18	52605279	52605279	+	Missense_Mutation	SNP	C	C	T	rs72928889	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	89	182	0	0.473404	0	C|0.975;T|0.025	0.025	strong	.	CCDC68	38	.	NM_025214	exon5	c.G254A	p.C85Y	CTGCAACAAGAAG	.	PASS	Atlas-SNP
SIGLEC15	284266	hgsc.bcm.edu	37	18	43420177	43420177	+	Silent	SNP	G	G	A	rs61104666	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	50	87	0	0.561798	0	G|0.844;A|0.156	0.156	strong	.	SIGLEC15	10	.	NM_213602	exon5	c.G876A	p.E292E	CACAGAGCATCTG	.	PASS	Atlas-SNP
ERBB2IP	55914	hgsc.bcm.edu	37	5	65321311	65321311	+	Missense_Mutation	SNP	C	C	T	rs3213837	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	39	96	0	0.419355	0	C|0.896;T|0.104	0.104	strong	.	ERBB2IP	120	.	NM_001253701	exon11	c.C821T	p.S274L	TAGGTTCGTTGAA	.	PASS	Atlas-SNP
SH3BP4	23677	hgsc.bcm.edu	37	2	235951819	235951819	+	Silent	SNP	A	A	G	rs3795962	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	87	174	1	0.455497	0.00574713	G|0.647;N|0.001	0.647	strong	SH3BP4,NS,carcinoma,0,1	SH3BP4	109	1	NM_014521	exon4	c.A2406G	p.L802L	CGTCCTAGAAAAG	.	scavenged	Atlas-SNP
MAST2	23139	hgsc.bcm.edu	37	1	46493460	46493460	+	Missense_Mutation	SNP	T	T	G	rs1707336	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	88	145	0	0.52071	0	G|0.474;N|0.000	0.474	strong	.	MAST2	136	.	NM_015112	exon17	c.T1977G	p.I659M	CAAAATTGGCCTC	.	PASS	Atlas-SNP
ARVCF	421	hgsc.bcm.edu	37	22	19969495	19969495	+	Silent	SNP	G	G	T	rs33992092	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	229	108	194	0	0.471616	0	G|0.979;T|0.021	0.021	strong	.	ARVCF	54	.	NM_001670	exon4	c.C330A	p.V110V	GGATGTGACAATA	.	PASS	Atlas-SNP
TREML2	79865	hgsc.bcm.edu	37	6	41166022	41166022	+	Silent	SNP	A	A	G	rs139267947		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	7	88	1	0.0673077	0.0113636	A|0.997;G|0.003	0.003	weak	TREML2,caecum,carcinoma,0,1	TREML2	41	1	NM_024807	exon2	c.T201C	p.F67F	TCGGGCAAAGCCA	.	scavenged	Atlas-SNP
C11orf44	283171	hgsc.bcm.edu	37	11	130542882	130542882	+	Silent	SNP	C	C	T	rs7933829	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	74	111	0	0.548148	0	C|0.739;T|0.261	0.261	strong	.	C11orf44	6	.	NM_001271983	exon1	c.C9T	p.L3L	GGTCCTCCTCTGT	.	PASS	Atlas-SNP
LGALS14	56891	hgsc.bcm.edu	37	19	40197924	40197924	+	Missense_Mutation	SNP	T	T	C	rs4830	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	367	181	334	0	0.493188	0	T|0.330;C|0.670	0.670	strong	LGALS14,NS,carcinoma,0,1	LGALS14	38	1	NM_203471	exon4	c.T286C	p.C96R	AACAGTTGTGTGT	.	PASS	Atlas-SNP
OR5W2	390148	hgsc.bcm.edu	37	11	55681149	55681149	+	Missense_Mutation	SNP	G	G	C	rs62639688	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	34	55	0	0.43038	0	G|0.941;C|0.059	0.059	strong	.	OR5W2	112	.	NM_001001960	exon1	c.C910G	p.L304V	TTTTCAGTTTTTT	.	PASS	Atlas-SNP
ZNF440	126070	hgsc.bcm.edu	37	19	11942362	11942362	+	Missense_Mutation	SNP	A	A	G	rs427880	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	223	120	231	0	0.538117	0	A|0.546;G|0.454	0.454	strong	.	ZNF440	56	.	NM_152357	exon4	c.A371G	p.N124S	ATATGAACATCAG	.	PASS	Atlas-SNP
RAP1GAP2	23108	hgsc.bcm.edu	37	17	2930339	2930339	+	Silent	SNP	G	G	A	rs4790115	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	257	131	274	0	0.509728	0	G|0.567;A|0.433	0.433	strong	RAP1GAP2_ENST00000254695,colon,carcinoma,0,2	RAP1GAP2	90	2	NM_015085	exon22	c.G2082A	p.P694P	CACCCCGATCATC	.	PASS	Atlas-SNP
CHD2	1106	hgsc.bcm.edu	37	15	93552488	93552488	+	Silent	SNP	C	C	T	rs34315566	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	48	69	0	0.607595	0	C|0.967;T|0.033	0.033	strong	.	CHD2	280	.	NM_001271	exon35	c.C4527T	p.I1509I	GAAAATCGGAGAC	.	PASS	Atlas-SNP
CT45A5	441521	hgsc.bcm.edu	37	X	134948034	134948034	+	Silent	SNP	A	A	G	rs2034920	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	122	0	0	0.890511	.	0|0.004;G|0.789	0.789	strong	.	CT45A5	26	.	NM_001007551	exon3	c.T291C	p.N97N	GGTAACATTTCCT	.	PASS	Atlas-SNP
LZTFL1	54585	hgsc.bcm.edu	37	3	45869972	45869972	+	Missense_Mutation	SNP	C	C	T	rs1129183	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	269	143	249	0	0.531599	0	C|0.937;T|0.063	0.063	strong	LZTFL1_ENST00000539217,lymph_node,lymphoid_neoplasm,0,2	LZTFL1	37	2	NM_020347	exon8	c.G736A	p.D246N	GTAGATCGTGCTT	.	PASS	Atlas-SNP
MMEL1	79258	hgsc.bcm.edu	37	1	2560903	2560903	+	Silent	SNP	T	T	G	rs4648659	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	76	85	0	0.974359	0	T|0.424;G|0.576	0.576	strong	.	MMEL1	64	.	NM_033467	exon2	c.A21C	p.P7P	CCCCACTGGGCCT	.	PASS	Atlas-SNP
TMEM184A	202915	hgsc.bcm.edu	37	7	1587440	1587440	+	Missense_Mutation	SNP	G	G	A	rs61747419	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	76	133	0	0.487179	0	G|0.992;A|0.008	0.008	strong	.	TMEM184A	35	.	NM_001097620	exon8	c.C950T	p.S317F	GCCACGGAGGCGA	.	PASS	Atlas-SNP
RNF152	220441	hgsc.bcm.edu	37	18	59483514	59483514	+	Silent	SNP	A	A	G	rs9319985	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	45	83	1	0.459184	0.0120482	A|0.767;G|0.233	0.233	strong	RNF152,caecum,carcinoma,0,1	RNF152	37	1	NM_173557	exon2	c.T183C	p.P61P	GCCGGGAGGCAGC	.	scavenged	Atlas-SNP
BRCA2	675	hgsc.bcm.edu	37	13	32911463	32911463	+	Missense_Mutation	SNP	A	A	G	rs1799944	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	53	113	0	0.929825	0	A|0.948;G|0.052	0.052	strong	.	BRCA2	812	.	NM_000059	exon11	c.A2971G	p.N991D	TACATGAACAAAT	.	PASS	Atlas-SNP
PCDH15	65217	hgsc.bcm.edu	37	10	56423968	56423968	+	Missense_Mutation	SNP	A	A	C	rs11004439	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	84	77	0	1	0	A|0.797;C|0.203	0.203	strong	.	PCDH15	1715	.	NM_001142763	exon2	c.T55G	p.S19A	AGAGAGAGCCCAG	.	PASS	Atlas-SNP
DND1	373863	hgsc.bcm.edu	37	5	140052320	140052320	+	Missense_Mutation	SNP	T	T	C	rs201446376	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	9	3	6	1	0.333333	0.166667	T|0.983;C|0.016	0.016	strong	DND1,NS,carcinoma,0,1	DND1	15	1	NM_194249	exon3	c.A314G	p.Y105C	GAGCTGTAGCGGG	.	scavenged	Atlas-SNP
OS9	10956	hgsc.bcm.edu	37	12	58114677	58114677	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	59	111	0	0.526786	0	.	.	none	.	OS9	55	.	NM_006812	exon15	c.C1989T	p.D663D	CCTGGACGAATTT	.	PASS	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50749294	50749294	+	Silent	SNP	A	A	G	rs4421818	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	196	98	215	0	0.5	0	A|0.677;G|0.323	0.323	strong	.	FAM186A	181	.	NM_001145475	exon4	c.T1321C	p.L441L	TCTTCAATGATAC	.	PASS	Atlas-SNP
OR5I1	10798	hgsc.bcm.edu	37	11	55702961	55702961	+	Missense_Mutation	SNP	C	C	T	rs9665861	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	33	94	0	0.392857	0	C|0.955;T|0.045	0.045	strong	.	OR5I1	110	.	NM_006637	exon1	c.G916A	p.V306I	TTAGAACTTTCTC	.	PASS	Atlas-SNP
UGT2B7	7364	hgsc.bcm.edu	37	4	69973921	69973921	+	Silent	SNP	C	C	T	rs57913007	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	400	191	390	2	0.4775	0.00512821	C|0.963;T|0.037	0.037	strong	UGT2B7,colon,carcinoma,0,2	UGT2B7	79	2	NM_001074	exon5	c.C1191T	p.A397A	GTTTGCCGATCAA	.	scavenged	Atlas-SNP
ATP8A1	10396	hgsc.bcm.edu	37	4	42457332	42457332	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	260	4	210	0	0.0153846	0	.	.	none	ATP8A1_ENST00000264449,NS,carcinoma,-1,2	ATP8A1	206	2	NM_006095	exon29	c.C2799T	p.A933A	GTCCAGGGCATTC	.	scavenged	Atlas-SNP
SLC36A2	153201	hgsc.bcm.edu	37	5	150696498	150696498	+	Silent	SNP	G	G	A	rs428064	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	130	127	0	1	0	G|0.708;A|0.292	0.292	strong	.	SLC36A2	71	.	NM_181776	exon10	c.C1332T	p.D444D	CAGGGCGTCCTTG	.	PASS	Atlas-SNP
MICA	100507436	hgsc.bcm.edu	37	6	31382910	31382910	+	Silent	SNP	C	C	T	rs41545213	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	44	92	0	0.415094	0	C|0.984;T|0.016	0.016	strong	.	MICA	21	.	NM_000247	exon7	c.C1146T	p.G382G	TGAGGGCACCTAG	.	PASS	Atlas-SNP
RAC3	5881	hgsc.bcm.edu	37	17	79990881	79990881	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	3	133	0	0.0184049	0	.	.	none	RAC3,NS,carcinoma,0,1	RAC3	8	1	NM_005052	exon4	c.C284T	p.A95V	TTCGTGCCAAGGT	.	scavenged	Atlas-SNP
ND2	0	hgsc.bcm.edu	37	MT	5231	5231	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	20	20	9	0	1	0	.	.	none	.	.	.	.	ENST00000361453	exon1	c.G762A	p.L254L	AGGCCTGCCCCCG	.	PASS	Atlas-SNP
SPIRE2	84501	hgsc.bcm.edu	37	16	89920957	89920957	+	Silent	SNP	A	A	G	rs12598737	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	66	124	0	0.554622	0	A|0.933;G|0.067	0.067	strong	.	SPIRE2	63	.	NM_032451	exon5	c.A789G	p.Q263Q	GGTGCAAGAGCAG	.	PASS	Atlas-SNP
KCTD9	54793	hgsc.bcm.edu	37	8	25287397	25287397	+	Silent	SNP	T	T	C	rs1812594	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	463	203	407	0	0.438445	0	T|0.828;C|0.172	0.172	strong	.	KCTD9	33	.	NM_017634	exon12	c.A1146G	p.L382L	CATGTGTAGTGGT	.	PASS	Atlas-SNP
ADAMTSL1	92949	hgsc.bcm.edu	37	9	18777196	18777196	+	Missense_Mutation	SNP	A	A	C	rs41268983	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	43	67	0	0.452632	0	A|0.895;C|0.105	0.105	strong	.	ADAMTSL1	306	.	NM_001040272	exon19	c.A2969C	p.E990A	CGAAGGAGGCCCT	.	PASS	Atlas-SNP
WDTC1	23038	hgsc.bcm.edu	37	1	27622847	27622847	+	Missense_Mutation	SNP	C	C	T	rs140726657	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	240	3	192	0	0.0125	0	C|0.999;A|0.001	.	alt	WDTC1,NS,carcinoma,-1,1	WDTC1	69	1	NM_015023	exon10	c.C904T	p.R302W	AAGCAGCGGCCGT	.	scavenged	Atlas-SNP
ZNF100	163227	hgsc.bcm.edu	37	19	21948570	21948570	+	Missense_Mutation	SNP	T	T	C	rs12974842	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	14	35	0	0.388889	0	T|0.950;C|0.050	0.050	strong	.	ZNF100	62	.	NM_173531	exon2	c.A22G	p.M8V	GACACATTCCATA	.	PASS	Atlas-SNP
KLHL36	79786	hgsc.bcm.edu	37	16	84695280	84695280	+	Silent	SNP	A	A	G	rs17755815	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	36	96	1	0.418605	0.0104167	A|0.757;G|0.243	0.243	strong	KLHL36,NS,carcinoma,0,1	KLHL36	51	1	NM_024731	exon5	c.A1392G	p.L464L	CCTGCTATGCTAC	.	scavenged	Atlas-SNP
FAM65C	140876	hgsc.bcm.edu	37	20	49214188	49214188	+	Silent	SNP	C	C	T	rs35976890	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	59	112	0	0.513043	0	C|0.957;T|0.043	0.043	strong	.	FAM65C	87	.	NM_080829	exon14	c.G1707A	p.E569E	GAAGCTCTCCAGG	.	PASS	Atlas-SNP
KIF20B	9585	hgsc.bcm.edu	37	10	91497631	91497631	+	Missense_Mutation	SNP	T	T	A	rs1062465	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	6	114	0	0.111111	0	T|0.696;A|0.304	0.304	strong	.	KIF20B	191	.	NM_016195	exon20	c.T2913A	p.D971E	CAGGGATCTGTCA	.	PASS	Atlas-SNP
OR8H2	390151	hgsc.bcm.edu	37	11	55872990	55872990	+	Missense_Mutation	SNP	G	G	C	rs61734403	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	288	141	267	1	0.489583	0.00374532	G|0.948;C|0.052	0.052	strong	.	OR8H2	117	.	NM_001005200	exon1	c.G472C	p.V158L	TCCTTTGTCAACG	.	PASS	Atlas-SNP
PECR	55825	hgsc.bcm.edu	37	2	216923679	216923679	+	Missense_Mutation	SNP	C	C	T	rs1429148	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	87	164	0	0.47027	0	C|0.862;T|0.138	0.138	strong	.	PECR	22	.	NM_018441	exon4	c.G445A	p.E149K	CATGCTCTTTCAT	.	PASS	Atlas-SNP
SLC41A2	84102	hgsc.bcm.edu	37	12	105282893	105282893	+	Silent	SNP	T	T	C	rs17036463	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	77	207	0	0.418478	0	T|0.956;C|0.044	0.044	strong	.	SLC41A2	66	.	NM_032148	exon4	c.A798G	p.P266P	TCCTTCTGGAATC	.	PASS	Atlas-SNP
C14orf166B	145497	hgsc.bcm.edu	37	14	77332408	77332408	+	Missense_Mutation	SNP	T	T	C	rs7160583	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	58	151	1	0.4	0.00662252	T|0.768;C|0.232	0.232	strong	C14orf166B,trunk,malignant_melanoma,+1,1	C14orf166B	52	1	NM_194287	exon12	c.T1349C	p.V450A	AGAAAGTGATGAT	.	scavenged	Atlas-SNP
TPTE	7179	hgsc.bcm.edu	37	21	10959771	10959771	+	Missense_Mutation	SNP	A	A	T	rs111657679	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	555	113	550	0	0.203604	0	A|0.964;T|0.036	0.036	strong	.	TPTE	513	.	NM_199261	exon8	c.T203A	p.V68D	TCTTCAACTTCAA	.	PASS	Atlas-SNP
ARHGAP35	2909	hgsc.bcm.edu	37	19	47422388	47422388	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	56	110	0	0.538462	0	.	.	none	GRLF1_ENST00000317082,NS,carcinoma,+1,2	.	.	2	NM_004491	exon1	c.C456T	p.D152D	GCCAGACGGAAAG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179400895	179400895	+	Missense_Mutation	SNP	C	C	T	rs2278196	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	264	119	260	0	0.450758	0	C|0.930;T|0.070	0.070	strong	.	TTN	18412	.	NM_001267550	exon357	c.G100579A	p.V33527I	ATTTGACGATAGG	.	PASS	Atlas-SNP
PSMG1	8624	hgsc.bcm.edu	37	21	40552307	40552307	+	Silent	SNP	A	A	G	rs3171465	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	73	126	0	0.486667	0	A|0.545;G|0.455	0.455	strong	PSMG1,colon,carcinoma,0,1	PSMG1	11	1	NM_203433	exon3	c.T297C	p.A99A	GAGTTTAGCACAA	.	PASS	Atlas-SNP
COLEC11	78989	hgsc.bcm.edu	37	2	3691548	3691548	+	Missense_Mutation	SNP	A	A	G	rs7567833	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	67	115	0	0.471831	0	A|0.765;G|0.235	0.235	strong	.	COLEC11	93	.	NM_001255985	exon8	c.A698G	p.H233R	CTGACCACTCCCC	.	PASS	Atlas-SNP
ADAMTS2	9509	hgsc.bcm.edu	37	5	178770981	178770981	+	Silent	SNP	A	A	G	rs2271212	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	42	107	0	0.451613	0	A|0.677;G|0.323	0.323	strong	.	ADAMTS2	190	.	NM_021599	exon2	c.T321C	p.S107S	GAGGTGACTGCCA	.	PASS	Atlas-SNP
CYP4A22	284541	hgsc.bcm.edu	37	1	47607851	47607851	+	Missense_Mutation	SNP	A	A	T	rs55910803		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	84	136	0	0.456522	0	.	.	weak	.	CYP4A22	60	.	NM_001010969	exon4	c.A454T	p.N152Y	TTCCACAATGACA	.	PASS	Atlas-SNP
BAI2	576	hgsc.bcm.edu	37	1	32193647	32193647	+	Silent	SNP	T	T	C	rs1127100	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	22	22	55	0	1	0	T|0.343;C|0.657	0.657	strong	.	BAI2	128	.	NM_001703	exon32	c.A4551G	p.A1517A	CTCGGCTGCCCCA	.	PASS	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240627	39240627	+	Missense_Mutation	SNP	T	T	C	rs189343211	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	16	49	4	0.197531	0.0816327	.	.	weak	KRTAP4-9_ENST00000377734,NS,carcinoma,0,22	KRTAP4-7	49	22	NM_033061	exon1	c.T169C	p.S57P	TGCCAGTCTGTGT	.	scavenged	Atlas-SNP
RAI14	26064	hgsc.bcm.edu	37	5	34807928	34807928	+	Silent	SNP	C	C	T	rs6895634	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	206	96	210	0	0.466019	0	C|0.628;T|0.372	0.372	strong	.	RAI14	100	.	NM_001145525	exon8	c.C354T	p.V118V	AAGTGTCGACAGC	.	PASS	Atlas-SNP
APOBEC4	403314	hgsc.bcm.edu	37	1	183617105	183617105	+	Missense_Mutation	SNP	A	A	G	rs1174658	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	488	257	428	1	0.526639	0.00233645	A|0.606;G|0.394	0.394	strong	APOBEC4,NS,carcinoma,0,1	APOBEC4	45	1	NM_203454	exon2	c.T812C	p.F271S	TGAAAAAACTGTC	.	PASS	Atlas-SNP
ZNF292	23036	hgsc.bcm.edu	37	6	87969480	87969480	+	Missense_Mutation	SNP	G	G	A	rs6910541	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	231	88	222	0	0.380952	0	G|0.875;A|0.125	0.125	strong	.	ZNF292	479	.	NM_015021	exon8	c.G6133A	p.V2045I	CAACTTGTAGAAA	.	PASS	Atlas-SNP
DNALI1	7802	hgsc.bcm.edu	37	1	38023316	38023316	+	Missense_Mutation	SNP	C	C	T	rs11749	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	35	59	0	0.421687	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
EARS2	124454	hgsc.bcm.edu	37	16	23544061	23544061	+	Silent	SNP	C	C	T	rs77939239	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	48	105	0	0.551724	0	C|0.976;T|0.024	0.024	strong	.	EARS2	26	.	NM_001083614	exon5	c.G984A	p.P328P	CAGCTCCGGCAGG	.	PASS	Atlas-SNP
SCAND3	114821	hgsc.bcm.edu	37	6	28542424	28542424	+	Silent	SNP	G	G	A	rs450630	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	256	119	234	1	0.464844	0.0042735	G|0.391;A|0.609	0.609	strong	.	SCAND3	156	.	NM_052923	exon3	c.C2058T	p.D686D	TACCCAGTCTCCT	.	PASS	Atlas-SNP
IGF1R	3480	hgsc.bcm.edu	37	15	99500605	99500605	+	Silent	SNP	C	C	T	rs17847203	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	52	106	1	0.472727	0.00943396	C|0.936;T|0.064	0.064	strong	IGF1R,NS,carcinoma,0,1	IGF1R	147	1	NM_000875	exon21	c.C4038T	p.Y1346Y	GCCTTACGCCCAC	.	scavenged	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25029295	25029295	+	Missense_Mutation	SNP	C	C	T	rs7140044	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	117	101	0	1	0	C|0.795;T|0.205	0.205	strong	.	PARP4	142	.	NM_006437	exon22	c.G2618A	p.S873N	CTCTCACTGGCTA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	55	105	0	0.319767	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
DNAH17	8632	hgsc.bcm.edu	37	17	76503624	76503624	+	Silent	SNP	C	C	T	rs626439	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	54	143	0	0.457627	0	C|0.716;T|0.284	0.284	strong	.	DNAH17	347	.	NM_173628	exon28	c.G4500A	p.E1500E	GATGCTCTCCAGG	.	PASS	Atlas-SNP
MYCBPAP	84073	hgsc.bcm.edu	37	17	48603503	48603503	+	Missense_Mutation	SNP	C	C	T	rs9890721	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	53	98	0	0.546392	0	C|0.507;N|0.000	.	strong	.	MYCBPAP	135	.	NM_032133	exon14	c.C2173T	p.R725W	CCTCAGCGGAAGA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	244	127	204	0	0.520492	0	C|0.698;T|0.302	0.302	strong	.	JAKMIP2	154	.	NM_001270941	exon6	c.G987A	p.R329R	CTTGTTCCTTTCC	.	PASS	Atlas-SNP
CST5	1473	hgsc.bcm.edu	37	20	23860178	23860178	+	Missense_Mutation	SNP	A	A	G	rs1799841	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	67	108	0	0.54918	0	A|0.455;G|0.545	0.545	strong	CST5,NS,carcinoma,0,1	CST5	24	1	NM_001900	exon1	c.T136C	p.C46R	GGGCACACTGCAC	.	PASS	Atlas-SNP
WDR81	124997	hgsc.bcm.edu	37	17	1636950	1636950	+	Missense_Mutation	SNP	C	C	A	rs11657394	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	42	111	0	0.567568	0	C|0.946;A|0.054	0.054	strong	.	WDR81	180	.	NM_001163809	exon7	c.C4619A	p.P1540H	CCGGGCCCGAGTG	.	PASS	Atlas-SNP
CGB8	94115	hgsc.bcm.edu	37	19	49551573	49551573	+	Silent	SNP	C	C	T	rs62126048		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	25	127	0	0.185185	0	T|1.000;|0.000	1.000	weak	CGB8,NS,carcinoma,0,1	CGB8	2	1	NM_033183	exon2	c.G72A	p.P24P	CCGAAGCGGCTCC	.	scavenged	Atlas-SNP
SP8	221833	hgsc.bcm.edu	37	7	20825271	20825271	+	Silent	SNP	C	C	T	rs145875827		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	34	54	0	0.548387	0	C|1.000;T|0.000	0.000	weak	.	SP8	43	.	NM_182700	exon2	c.G165A	p.S55S	AGAGGACGAGGAG	.	PASS	Atlas-SNP
CATSPER2	117155	hgsc.bcm.edu	37	15	43927973	43927973	+	Missense_Mutation	SNP	C	C	T	rs148320269	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	86	146	0	0.945055	0	C|0.995;T|0.005	0.005	strong	CATSPER2,colon,carcinoma,-1,1	CATSPER2	49	1	NM_054020	exon9	c.G1073A	p.R358Q	ACCTCCCGACGCG	.	PASS	Atlas-SNP
TAPBPL	55080	hgsc.bcm.edu	37	12	6562285	6562285	+	Silent	SNP	C	C	T	rs2041384	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	38	102	0	0.44186	0	C|0.782;G|0.000;T|0.218	0.218	strong	.	TAPBPL	21	.	NM_018009	exon2	c.C117T	p.C39C	AGACTGCTTCCTG	.	PASS	Atlas-SNP
KIF18B	146909	hgsc.bcm.edu	37	17	43003484	43003484	+	Silent	SNP	T	T	C	rs3169733	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	38	94	0	0.395833	0	T|0.699;C|0.301	0.301	strong	.	KIF18B	63	.	NM_001265577	exon16	c.A2523G	p.A841A	TGAGAGTGCTCTC	.	PASS	Atlas-SNP
PCDHA13	56136	hgsc.bcm.edu	37	5	140262492	140262492	+	Silent	SNP	A	A	T	rs11744560	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	53	99	0	0.495327	0	A|0.877;T|0.123	0.123	strong	.	PCDHA13	213	.	NM_031865	exon1	c.A639T	p.T213T	ACTGACAGCCAGT	.	PASS	Atlas-SNP
ZNF880	400713	hgsc.bcm.edu	37	19	52887282	52887282	+	Missense_Mutation	SNP	A	A	G	rs324125	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	178	74	181	0	0.41573	0	A|0.833;G|0.167	0.167	strong	.	ZNF880	45	.	NM_001145434	exon4	c.A449G	p.Y150C	AAATTTATTCTAG	.	PASS	Atlas-SNP
MOV10L1	54456	hgsc.bcm.edu	37	22	50555635	50555635	+	Silent	SNP	C	C	T	rs882753	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	71	127	0	0.47973	0	C|0.869;T|0.131	0.131	strong	.	MOV10L1	238	.	NM_018995	exon9	c.C1309T	p.L437L	GATTTCCTAATTG	.	PASS	Atlas-SNP
PCMTD1	115294	hgsc.bcm.edu	37	8	52733209	52733209	+	Missense_Mutation	SNP	A	A	G	rs202074278		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	193	7	170	4	0.0362694	0.0235294	.	.	weak	PCMTD1,NS,carcinoma,0,2	PCMTD1	73	2	NM_052937	exon6	c.T776C	p.I259T	TCATTTATGAAAT	.	scavenged	Atlas-SNP
PDXDC1	23042	hgsc.bcm.edu	37	16	15111265	15111265	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	34	110	0	0.231293	0	.	.	none	.	PDXDC1	59	.	NM_015027	exon11	c.G949A	p.D317N	AAACACGATGACC	.	PASS	Atlas-SNP
LRRK1	79705	hgsc.bcm.edu	37	15	101567547	101567547	+	Silent	SNP	G	G	C	rs41319544	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	42	59	0	0.47191	0	G|0.892;C|0.108	0.108	strong	.	LRRK1	310	.	NM_024652	exon18	c.G2487C	p.V829V	GGACGTGGGCAGC	.	PASS	Atlas-SNP
ERAP1	51752	hgsc.bcm.edu	37	5	96129535	96129535	+	Missense_Mutation	SNP	T	T	C	rs2287987	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	248	105	232	0	0.423387	0	T|0.857;C|0.143	0.143	strong	.	ERAP1	59	.	NM_001198541	exon6	c.A1045G	p.M349V	CAGTCATTGTGAT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	30	43	0	0.483871	0	A|0.582;G|0.418	0.418	strong	.	AEBP1	102	.	NM_001129	exon21	c.A3397G	p.K1133E	GAGGAGAAAGAGG	.	PASS	Atlas-SNP
DEFB104B	503618	hgsc.bcm.edu	37	8	7694034	7694034	+	Missense_Mutation	SNP	A	A	G	rs2680507	bycluster;byhapmap	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	1679	421	1434	2	0.250744	0.0013947	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
OR5AS1	219447	hgsc.bcm.edu	37	11	55798533	55798533	+	Silent	SNP	A	A	C	rs17528803	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	288	136	222	0	0.472222	0	A|0.948;C|0.052	0.052	strong	OR5AS1,NS,carcinoma,0,1	OR5AS1	121	1	NM_001001921	exon1	c.A639C	p.V213V	TGTGGTAATATTT	.	PASS	Atlas-SNP
CTSF	8722	hgsc.bcm.edu	37	11	66335548	66335548	+	Silent	SNP	A	A	G	rs1127894	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	38	98	1	0.550725	0.0102041	A|0.416;G|0.584	0.584	strong	CTSF,rectum,carcinoma,0,5	CTSF	42	5	NM_003793	exon2	c.T219C	p.G73G	CCCCTGACCCGCC	.	scavenged	Atlas-SNP
FUT5	2527	hgsc.bcm.edu	37	19	5867177	5867177	+	Missense_Mutation	SNP	G	G	A	rs79852809	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	65	106	0	0.439189	0	A|1.000;|0.000	1.000	weak	.	FUT5	29	.	NM_002034	exon2	c.C560T	p.P187L	GACCACGGCTCCA	.	PASS	Atlas-SNP
EIF5B	9669	hgsc.bcm.edu	37	2	99995804	99995804	+	Silent	SNP	T	T	C	rs1376443	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	193	193	194	0	1	0	T|0.415;C|0.585	0.585	strong	.	EIF5B	95	.	NM_015904	exon12	c.T1974C	p.D658D	ACAAGATGGTGAA	.	PASS	Atlas-SNP
MLLT10	8028	hgsc.bcm.edu	37	10	21827796	21827796	+	Silent	SNP	G	G	A	rs1802669	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	53	114	0	0.595506	0	A|0.343;G|0.657;T|0.000	0.343	strong	.	MLLT10	183	.	NM_001195626	exon2	c.G195A	p.P65P	TGGACCGTGGTTT	.	PASS	Atlas-SNP
IL4R	3566	hgsc.bcm.edu	37	16	27373915	27373915	+	Silent	SNP	G	G	T	rs2234898	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	54	73	1	0.534653	0.0136986	G|0.756;T|0.244	0.244	strong	IL4R,NS,carcinoma,0,1	IL4R	70	1	NM_000418	exon11	c.G1242T	p.L414L	GGACCTGCTCGGA	.	scavenged	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238010	31238010	+	Missense_Mutation	SNP	T	T	G	rs1131015	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	49	136	0	1	0	T|0.429;G|0.571	0.571	strong	HLA-C_ENST00000383329,colon,carcinoma,+1,2	HLA-C	92	2	NM_002117	exon4	c.A872C	p.Q291P	GGCTCTTGCAGCC	.	PASS	Atlas-SNP
UGT1A8	54576	hgsc.bcm.edu	37	2	234526871	234526871	+	Missense_Mutation	SNP	C	C	G	rs1042597	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	85	125	0	0.442708	0	C|0.755;G|0.245	0.245	strong	.	UGT1A8	69	.	NM_019076	exon1	c.C518G	p.A173G	GAATAGCTTGCCA	.	PASS	Atlas-SNP
SYTL2	54843	hgsc.bcm.edu	37	11	85447611	85447611	+	Silent	SNP	T	T	C	rs680498	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	139	172	1	1	0.00581395	C|0.687;T|0.313	0.687	strong	SYTL2_ENST00000316356,bladder,carcinoma,-1,1	SYTL2	231	1	NM_001162953	exon5	c.A519G	p.S173S	TTGTGATGAGTGA	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62191558	62191558	+	Silent	SNP	G	G	A	rs3810479	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	41	16	39	0	0.390244	0	G|0.863;A|0.137	0.137	strong	.	.	.	.	NM_001037335	exon18	c.C7623T	p.A2541A	CACCCCGGCGATG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	43	16	47	0	0.372093	0	T|0.563;C|0.437	0.437	strong	.	CCDC9	37	.	NM_015603	exon12	c.T1433C	p.L478P	CCCTGCTGGAGCC	.	PASS	Atlas-SNP
BRCA1	672	hgsc.bcm.edu	37	17	41245237	41245237	+	Silent	SNP	A	A	G	rs16940	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	232	113	213	0	0.487069	0	A|0.716;G|0.284	0.284	strong	.	BRCA1	304	.	NM_007300	exon10	c.T2311C	p.L771L	GTACCAATGAAAT	.	PASS	Atlas-SNP
TPSD1	23430	hgsc.bcm.edu	37	16	1306986	1306986	+	Missense_Mutation	SNP	C	C	T	rs72775467	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	427	80	263	0	0.187354	0	C|0.646;T|0.354	0.354	strong	TPSD1,NS,NS,0,1	TPSD1	47	1	NM_012217	exon3	c.C443T	p.T148M	CGGTCACGCTGCC	.	PASS	Atlas-SNP
ERAP2	64167	hgsc.bcm.edu	37	5	96231000	96231000	+	Missense_Mutation	SNP	G	G	T	rs2549782	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	69	172	0	0.475862	0	G|0.452;N|0.000	.	strong	.	ERAP2	77	.	NM_001130140	exon7	c.G1176T	p.K392N	GCTTAAGGAGGGT	.	PASS	Atlas-SNP
OR1S1	219959	hgsc.bcm.edu	37	11	57982832	57982832	+	Missense_Mutation	SNP	T	T	A	rs61739243	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	56	197	1	0.325581	0.00507614	T|0.703;A|0.297	0.297	strong	OR1S1,NS,carcinoma,0,1	OR1S1	139	1	NM_001004458	exon1	c.T616A	p.L206M	GATACATTGATCA	.	scavenged	Atlas-SNP
WSCD1	23302	hgsc.bcm.edu	37	17	5984001	5984001	+	Missense_Mutation	SNP	T	T	C	rs199969111	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	93	176	0	0.5	0	T|0.999;C|0.001	0.001	weak	.	WSCD1	84	.	NM_015253	exon2	c.T23C	p.L8P	TCCGACTCCAGAA	.	PASS	Atlas-SNP
PGM2	55276	hgsc.bcm.edu	37	4	37857342	37857342	+	Silent	SNP	G	G	C	rs11554509	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	72	150	0	0.486486	0	G|0.826;C|0.174	0.174	strong	.	PGM2	45	.	NM_018290	exon13	c.G1716C	p.L572L	AGAGCTGTGTGCC	.	PASS	Atlas-SNP
MICAL3	57553	hgsc.bcm.edu	37	22	18300594	18300594	+	Silent	SNP	G	G	A	rs11704160	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	57	101	0	0.587629	0	G|0.811;A|0.189	0.189	strong	.	MICAL3	53	.	NM_015241	exon26	c.C4833T	p.D1611D	CATGGCGTCCCGC	.	PASS	Atlas-SNP
TRPC3	7222	hgsc.bcm.edu	37	4	122854116	122854116	+	Silent	SNP	G	G	C	rs13121031	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	60	128	0	0.491803	0	G|0.932;C|0.068	0.068	strong	.	TRPC3	201	.	NM_001130698	exon2	c.C297G	p.A99A	CATGAAGGCCGGG	.	PASS	Atlas-SNP
LINS	55180	hgsc.bcm.edu	37	15	101109677	101109677	+	Missense_Mutation	SNP	C	C	A	rs8451	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	80	145	0	0.487805	0	C|0.633;A|0.367	0.367	strong	LINS,NS,carcinoma,0,1	LINS	62	1	NM_001040616	exon7	c.G2040T	p.R680S	CAGAGGCCTTGAT	.	PASS	Atlas-SNP
HCN4	10021	hgsc.bcm.edu	37	15	73660505	73660505	+	Missense_Mutation	SNP	C	C	T	rs143090627	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	22	15	41	0	0.681818	0	C|0.957;T|0.043	0.043	strong	.	HCN4	150	.	NM_005477	exon1	c.G107A	p.G36E	CCGGCCCCCTCCT	.	PASS	Atlas-SNP
TRAPPC9	83696	hgsc.bcm.edu	37	8	141381103	141381103	+	Silent	SNP	G	G	A	rs3735804	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	57	98	0	0.467213	0	G|0.996;A|0.004	0.004	strong	.	TRAPPC9	114	.	NM_031466	exon8	c.C1605T	p.P535P	GTAGCCGGGCAGC	.	PASS	Atlas-SNP
GBP7	388646	hgsc.bcm.edu	37	1	89599037	89599037	+	Silent	SNP	A	A	G	rs72728707	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	550	84	444	0	0.152727	0	A|0.989;G|0.011	0.011	strong	.	GBP7	57	.	NM_207398	exon10	c.T1566C	p.S522S	CTGGAAACTTCTC	.	PASS	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	37	1	240370952	240370952	+	Missense_Mutation	SNP	C	C	T	rs201741828	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	9	89	0	0.09375	0	C|0.986;G|0.000;T|0.014	0.014	strong	FMN2,NS,carcinoma,+1,2	FMN2	451	2	NM_020066	exon5	c.C2840T	p.P947L	CGCCCCCTCTACC	.	PASS	Atlas-SNP
DNAJC11	55735	hgsc.bcm.edu	37	1	6705874	6705874	+	Missense_Mutation	SNP	G	G	C	rs200454	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	65	138	0	0.451389	0	G|0.786;C|0.214	0.214	strong	.	DNAJC11	93	.	NM_018198	exon8	c.C869G	p.T290S	TGGCTGGTTTTAG	.	PASS	Atlas-SNP
ACIN1	22985	hgsc.bcm.edu	37	14	23530622	23530622	+	Silent	SNP	T	T	C	rs60168438	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	82	82	0	0.97619	0	T|0.751;C|0.249	0.249	strong	.	ACIN1	147	.	NM_014977	exon17	c.A3483G	p.S1161S	ACGCTCTGATCGA	.	PASS	Atlas-SNP
LAMB3	3914	hgsc.bcm.edu	37	1	209807972	209807972	+	Silent	SNP	G	G	A	rs1130667	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	35	59	0	0.384615	0	G|0.713;A|0.287	0.287	strong	.	LAMB3	136	.	NM_000228	exon6	c.C384T	p.P128P	GCCGGCGGGCATG	.	PASS	Atlas-SNP
SLCO1B3	28234	hgsc.bcm.edu	37	12	21069049	21069049	+	Silent	SNP	G	G	A	rs60571683	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	71	116	0	0.514493	0	G|0.964;A|0.036	0.036	strong	.	SLCO1B3	151	.	NM_019844	exon16	c.G1977A	p.S659S	GGCATCGGACAAT	.	PASS	Atlas-SNP
ZNF630	57232	hgsc.bcm.edu	37	X	47918205	47918205	+	Silent	SNP	G	G	A	rs501128	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	50	30	0	0.980392	0	0|0.004;A|0.588	0.588	strong	.	ZNF630	71	.	NM_001037735	exon5	c.C1626T	p.P542P	CTCATAGGGTTTC	.	PASS	Atlas-SNP
ZNF426	79088	hgsc.bcm.edu	37	19	9639710	9639710	+	Silent	SNP	T	T	C	rs45489098	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	54	70	0	0.490909	0	T|0.995;C|0.005	0.005	strong	.	ZNF426	56	.	NM_024106	exon8	c.A1011G	p.V337V	CTTACATACATAG	.	PASS	Atlas-SNP
POLR3A	11128	hgsc.bcm.edu	37	10	79769647	79769647	+	Missense_Mutation	SNP	C	C	A	rs34588967	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	96	154	2	0.542373	0.012987	A|0.005;C|0.990;T|0.006	0.005	strong	POLR3A,NS,carcinoma,-1,2	POLR3A	104	2	NM_007055	exon13	c.G1745T	p.R582L	GGGAGGCGAACTT	.	scavenged	Atlas-SNP
CACNA1A	773	hgsc.bcm.edu	37	19	13470522	13470522	+	Silent	SNP	T	T	C	rs16006	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	101	207	0	0.450893	0	T|0.909;C|0.089	0.089	strong	.	CACNA1A	715	.	NM_001127221	exon6	c.A876G	p.E292E	GGGCCCTTCCCAG	.	PASS	Atlas-SNP
OGDHL	55753	hgsc.bcm.edu	37	10	50953406	50953406	+	Missense_Mutation	SNP	G	G	T	rs145957744		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	49	62	0	0.556818	0	G|1.000;T|0.000	0.000	weak	.	OGDHL	149	.	NM_018245	exon12	c.C1613A	p.T538N	TGCAGGGTGACTG	.	PASS	Atlas-SNP
DMBX1	127343	hgsc.bcm.edu	37	1	46976717	46976717	+	Silent	SNP	C	C	T	rs12045245	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	81	127	0	0.54	0	C|0.749;T|0.251	0.251	strong	.	DMBX1	50	.	NM_147192	exon3	c.C459T	p.A153A	CAAGGCCGAGGCC	.	PASS	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	37	11	62284468	62284468	+	Silent	SNP	A	A	C	rs11555629	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	180	87	182	0	0.483333	0	T|0.000;C|0.050;A|0.950	0.050	strong	.	AHNAK	532	.	NM_001620	exon5	c.T17421G	p.S5807S	TTCCAGAGACACT	.	PASS	Atlas-SNP
USP30	84749	hgsc.bcm.edu	37	12	109511256	109511256	+	Silent	SNP	T	T	C	rs7967322	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	132	147	0	1	0	C|0.814;T|0.186	0.814	strong	.	USP30	48	.	NM_032663	exon7	c.T639C	p.P213P	TCACCCTACATCC	.	PASS	Atlas-SNP
RADIL	55698	hgsc.bcm.edu	37	7	4874334	4874334	+	Silent	SNP	C	C	G	rs75074289	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	72	131	0	0.507042	0	C|0.925;G|0.075	0.075	strong	.	RADIL	110	.	NM_018059	exon4	c.G1320C	p.L440L	GAGGCACAGGAGG	.	PASS	Atlas-SNP
OSR1	130497	hgsc.bcm.edu	37	2	19552913	19552913	+	Silent	SNP	C	C	T	rs12329305	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	31	45	0	0.469697	0	C|0.894;T|0.106	0.106	strong	.	OSR1	29	.	NM_145260	exon2	c.G654A	p.L218L	GTCTCGCAGGTGG	.	PASS	Atlas-SNP
WDR81	124997	hgsc.bcm.edu	37	17	1634183	1634183	+	Missense_Mutation	SNP	C	C	T	rs375054918		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	49	98	0	0.418803	0	.	.	weak	.	WDR81	180	.	NM_001163809	exon3	c.C3910T	p.R1304C	ATCGCCCGCCTGT	.	PASS	Atlas-SNP
DAPK1	1612	hgsc.bcm.edu	37	9	90219920	90219920	+	Silent	SNP	G	G	A	rs36207428	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	73	114	0	0.51049	0	G|0.931;A|0.069	0.069	strong	.	DAPK1	329	.	NM_004938	exon3	c.G114A	p.Q38Q	CCTCCAGTATGCC	.	PASS	Atlas-SNP
PKD1	5310	hgsc.bcm.edu	37	16	2140321	2140321	+	Silent	SNP	G	G	A	rs79899502	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	91	174	0	0.551515	0	G|0.946;A|0.054	0.054	strong	PKD1,NS,haematopoietic_neoplasm,0,2	PKD1	184	2	NM_001009944	exon45	c.C12409T	p.L4137L	GGCGCAGCCTGCG	.	PASS	Atlas-SNP
PPP1R12C	54776	hgsc.bcm.edu	37	19	55614923	55614923	+	Silent	SNP	T	T	C	rs2532060	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	69	211	0	0.408284	0	T|0.385;C|0.615	0.615	strong	.	PPP1R12C	46	.	NM_017607	exon4	c.A585G	p.E195E	GGCTGCTTCCACA	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	705795	705795	+	Silent	SNP	C	C	T	rs12599798	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	43	23	54	0	0.534884	0	C|0.785;T|0.215	0.215	strong	.	WDR90	107	.	NM_145294	exon17	c.C1872T	p.S624S	CAGCAGCCTCAGC	.	PASS	Atlas-SNP
IL17C	27189	hgsc.bcm.edu	37	16	88706330	88706330	+	Silent	SNP	C	C	T	rs11076688	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	29	15	19	0	0.517241	0	C|0.932;T|0.068	0.068	strong	.	IL17C	6	.	NM_013278	exon3	c.C444T	p.S148S	CAACTCCGTGCGG	.	PASS	Atlas-SNP
CACNA1H	8912	hgsc.bcm.edu	37	16	1270162	1270162	+	Missense_Mutation	SNP	G	G	A	rs1054645	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	28	27	9	0	0.964286	0	G|0.269;A|0.731	0.731	strong	CACNA1H_ENST00000358590,NS,carcinoma,0,2	CACNA1H	317	2	NM_021098	exon35	c.G6230A	p.R2077H	GACAGCGCTGCGT	.	PASS	Atlas-SNP
ZNF519	162655	hgsc.bcm.edu	37	18	14104957	14104957	+	Missense_Mutation	SNP	G	G	A	rs149267105	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	38	49	0	0.542857	0	G|0.998;A|0.002	0.002	strong	.	ZNF519	53	.	NM_145287	exon3	c.C1582T	p.R528C	TTGAGCGTCTGTT	.	PASS	Atlas-SNP
C16orf3	750	hgsc.bcm.edu	37	16	90095484	90095484	+	Silent	SNP	C	C	T	rs3785184	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	34	84	0	0.326923	0	C|0.821;T|0.179	0.179	strong	C16orf3,rectum,carcinoma,-2,2	C16orf3	14	2	NM_001214	exon1	c.G267A	p.T89T	GCTGCCCGTCTCC	.	PASS	Atlas-SNP
PCDHA5	56143	hgsc.bcm.edu	37	5	140201420	140201420	+	Silent	SNP	T	T	C	rs11958868	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	33	74	0	0.458333	0	T|0.406;C|0.594	0.594	strong	.	PCDHA5	361	.	NM_018908	exon1	c.T60C	p.L20L	TCTCCTTGCCTAC	.	PASS	Atlas-SNP
FCGR3B	2215	hgsc.bcm.edu	37	1	161599571	161599571	+	Missense_Mutation	SNP	T	T	C	rs2290834	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	73	280	1	0.608333	0.00357143	.	.	weak	FCGR3B,NS,carcinoma,+2,1	FCGR3B	35	1	NM_001244753	exon3	c.A424G	p.I142V	CACCGATATGGAC	.	scavenged	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39137104	39137104	+	Missense_Mutation	SNP	A	A	G	rs9908389	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	42	85	0	0.43299	0	A|0.657;G|0.343	0.343	strong	.	KRT40	27	.	NM_182497	exon7	c.T908C	p.M303T	ATCTCCATCTGGC	.	PASS	Atlas-SNP
DDX11	1663	hgsc.bcm.edu	37	12	31256546	31256546	+	Missense_Mutation	SNP	G	G	A	rs1046457	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	70	114	0	0.448718	0	G|0.494;A|0.506	0.506	strong	.	DDX11	188	.	NM_030653	exon26	c.G2572A	p.V858I	GCCAGCGTAGTGC	.	PASS	Atlas-SNP
ZNF99	7652	hgsc.bcm.edu	37	19	22940899	22940899	+	Silent	SNP	G	G	A	rs59017672	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	37	49	0	0.552239	0	A|0.316;G|0.683;T|0.001	0.316	strong	.	ZNF99	273	.	NM_001080409	exon4	c.C1812T	p.H604H	TGAGAAGTGGTTA	.	PASS	Atlas-SNP
PEX6	5190	hgsc.bcm.edu	37	6	42933464	42933464	+	Missense_Mutation	SNP	G	G	A	rs35830695	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	36	85	0	0.418605	0	G|0.921;A|0.079	0.079	strong	.	PEX6	44	.	NM_000287	exon13	c.C2426T	p.A809V	CTTGGGGCCAAAG	.	PASS	Atlas-SNP
AFAP1L2	84632	hgsc.bcm.edu	37	10	116073801	116073801	+	Silent	SNP	T	T	C	rs621375	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	64	123	0	0.435374	0	C|0.337;N|0.000	0.337	strong	.	AFAP1L2	90	.	NM_032550	exon7	c.A621G	p.K207K	GGAGGATTTGTAG	.	PASS	Atlas-SNP
PSPN	5623	hgsc.bcm.edu	37	19	6375831	6375831	+	Silent	SNP	G	G	A	rs2304198	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	73	125	0	0.5	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
PKD1	5310	hgsc.bcm.edu	37	16	2144176	2144176	+	Missense_Mutation	SNP	G	G	A	rs34197769	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	219	105	164	0	0.479452	0	G|0.911;A|0.089	0.089	strong	.	PKD1	184	.	NM_001009944	exon35	c.C10535T	p.A3512V	TGCAGCGCCAGCG	.	PASS	Atlas-SNP
ZNF653	115950	hgsc.bcm.edu	37	19	11598483	11598483	+	Silent	SNP	T	T	C	rs311805	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	78	199	0	0.40625	0	T|0.731;C|0.269	0.269	strong	ZNF653,NS,carcinoma,0,2	ZNF653	48	2	NM_138783	exon4	c.A795G	p.P265P	GCCTGCTGGGTTG	.	PASS	Atlas-SNP
OR5M3	219482	hgsc.bcm.edu	37	11	56237410	56237410	+	Silent	SNP	A	A	G	rs617315	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	226	116	221	0	0.513274	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
LEPR	3953	hgsc.bcm.edu	37	1	66058513	66058513	+	Missense_Mutation	SNP	A	A	G	rs1137101	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	158	134	0	1	0	A|0.463;G|0.537	0.537	strong	.	LEPR	284	.	NM_001003680	exon6	c.A668G	p.Q223R	TTTTCCAGTCACC	.	PASS	Atlas-SNP
KIAA1683	80726	hgsc.bcm.edu	37	19	18376522	18376522	+	Missense_Mutation	SNP	T	T	G	rs2277922	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	98	212	5	0.49	0.0235849	T|0.469;G|0.531	0.531	strong	KIAA1683_ENST00000392413,brain,glioma,0,2	KIAA1683	190	2	NM_001145304	exon3	c.A1828C	p.T610P	TCTGGGTGCCAGT	.	scavenged	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31323115	31323115	+	Missense_Mutation	SNP	T	T	C	rs41541515	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	171	47	96	0	0.274854	0	.	.	weak	.	HLA-B	54	.	NM_005514	exon4	c.A874G	p.K292E	GGGGCTTCGGCAG	.	PASS	Atlas-SNP
AKD1	221264	hgsc.bcm.edu	37	6	109827716	109827716	+	Missense_Mutation	SNP	C	C	T	rs2277114	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	227	92	190	0	0.405286	0	C|0.610;T|0.390	0.390	strong	.	AKD1	223	.	NM_001145128	exon35	c.G4663A	p.V1555I	CAGCTACAATTTG	.	PASS	Atlas-SNP
ADCY3	109	hgsc.bcm.edu	37	2	25062875	25062875	+	Missense_Mutation	SNP	C	C	T	rs201606553	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	60	93	0	0.48	0	.	.	weak	.	ADCY3	114	.	NM_004036	exon6	c.G1222A	p.G408R	CCACCCCAGTCTT	.	PASS	Atlas-SNP
OR5B12	390191	hgsc.bcm.edu	37	11	58207036	58207036	+	Missense_Mutation	SNP	T	T	A	rs148519730	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	59	112	0	0.433824	0	T|0.996;A|0.004	0.004	strong	.	OR5B12	80	.	NM_001004733	exon1	c.A589T	p.I197F	AAAAAATAACCAT	.	PASS	Atlas-SNP
FKBP15	23307	hgsc.bcm.edu	37	9	115931692	115931692	+	Silent	SNP	A	A	G	rs3810909	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	235	118	224	0	0.502128	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
OR2A14	135941	hgsc.bcm.edu	37	7	143826697	143826697	+	Missense_Mutation	SNP	C	C	G	rs2961161	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	267	112	253	1	0.419476	0.00395257	C|0.374;G|0.626	0.626	strong	.	OR2A14	66	.	NM_001001659	exon1	c.C492G	p.S164R	CCTGAGCCTGCCC	.	PASS	Atlas-SNP
SF3B3	23450	hgsc.bcm.edu	37	16	70602221	70602221	+	Silent	SNP	C	C	T	rs12909	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	283	142	273	0	0.501767	0	C|0.569;T|0.431	0.431	strong	SF3B3,NS,carcinoma,0,1	SF3B3	99	1	NM_012426	exon22	c.C2988T	p.I996I	GACTATCGGACAT	.	PASS	Atlas-SNP
DNAH7	56171	hgsc.bcm.edu	37	2	196791276	196791276	+	Silent	SNP	T	T	G	rs1489802	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	41	98	0	0.465909	0	T|0.505;G|0.495	0.495	strong	.	DNAH7	512	.	NM_018897	exon22	c.A3486C	p.A1162A	AAAAGTTGCATCT	.	PASS	Atlas-SNP
EGF	1950	hgsc.bcm.edu	37	4	110897315	110897315	+	Silent	SNP	C	C	T	rs11568993	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	212	100	172	0	0.471698	0	C|0.950;T|0.050	0.050	strong	.	EGF	113	.	NM_001963	exon13	c.C1977T	p.C659C	CTGGTGCGATGCC	.	PASS	Atlas-SNP
TJP1	7082	hgsc.bcm.edu	37	15	30020172	30020172	+	Missense_Mutation	SNP	C	C	T	rs201475376		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	3	151	1	0.0215827	0.00662252	C|0.999;T|0.001	0.001	weak	TJP1,NS,carcinoma,0,1	TJP1	140	1	NM_175610	exon16	c.G2069A	p.R690H	TGCAGGCGAATAA	.	scavenged	Atlas-SNP
MFSD5	84975	hgsc.bcm.edu	37	12	53647373	53647373	+	Silent	SNP	T	T	C	rs10876422	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	65	76	0	0.984848	0	T|0.569;C|0.431	0.431	strong	.	MFSD5	40	.	NM_001170790	exon2	c.T1075C	p.L359L	CTGCTGTTGGGCA	.	PASS	Atlas-SNP
CCDC155	147872	hgsc.bcm.edu	37	19	49899076	49899076	+	Missense_Mutation	SNP	G	G	A	rs10405154	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	32	32	27	0	1	0	G|0.485;A|0.515	0.515	strong	.	CCDC155	46	.	NM_144688	exon5	c.G386A	p.R129Q	CCTCCCGGCAACT	.	PASS	Atlas-SNP
LCP2	3937	hgsc.bcm.edu	37	5	169685163	169685163	+	Silent	SNP	C	C	T	rs315717	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	153	109	0	0.993506	0	C|0.429;T|0.571	0.571	strong	.	LCP2	133	.	NM_005565	exon16	c.G978A	p.Q326Q	AGGTCTCTGATGC	.	PASS	Atlas-SNP
TMEM259	91304	hgsc.bcm.edu	37	19	1012120	1012120	+	Silent	SNP	G	G	A	rs7145	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	43	97	0	0.483146	0	G|0.868;A|0.132	0.132	strong	C19orf6,NS,carcinoma,0,1	.	.	1	NM_033420	exon5	c.C786T	p.Y262Y	GTCATCGTAGCCC	.	PASS	Atlas-SNP
UTRN	7402	hgsc.bcm.edu	37	6	145103215	145103215	+	Silent	SNP	C	C	T	rs10499236	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	261	118	245	0	0.452107	0	C|0.961;T|0.039	0.039	strong	.	UTRN	327	.	NM_007124	exon60	c.C8790T	p.L2930L	TCCACTCTGTGTT	.	PASS	Atlas-SNP
TCEANC	170082	hgsc.bcm.edu	37	X	13681115	13681115	+	Missense_Mutation	SNP	C	C	T	rs2361159	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	6	65	0	0.0740741	0	C|0.472;T|0.528	0.528	strong	.	TCEANC	29	.	NM_152634	exon4	c.C578T	p.S193L	AGAGATCGAGTGA	.	PASS	Atlas-SNP
ND4L	0	hgsc.bcm.edu	37	MT	10550	10550	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	12	12	2	0	1	0	.	.	none	.	.	.	.	ENST00000361335	exon1	c.A81G	p.M27M	CCTCATATCCTCC	.	PASS	Atlas-SNP
SPATA31D1	389763	hgsc.bcm.edu	37	9	84609913	84609913	+	Silent	SNP	C	C	T	rs12341627	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	61	109	0	0.472868	0	C|0.882;T|0.118	0.118	strong	.	.	.	.	NM_001001670	exon4	c.C4528T	p.L1510L	AAGATACTGTGTC	.	PASS	Atlas-SNP
STK10	6793	hgsc.bcm.edu	37	5	171523513	171523513	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	7	46	0	0.112903	0	.	.	none	.	STK10	100	.	NM_005990	exon8	c.G922T	p.A308S	CCTCAGCCACCAG	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1103296	1103296	+	Silent	SNP	T	T	C	rs7126405	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	282	137	212	0	0.485816	0	T|0.845;C|0.155	0.155	strong	.	MUC2	614	.	NM_002457	exon47	c.T8034C	p.F2678F	CAACTTTGATGCC	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238868	31238868	+	Missense_Mutation	SNP	C	C	T	rs1131103	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	65	186	0	0.347594	0	T|0.114;C|0.886	0.114	strong	.	HLA-C	92	.	NM_002117	exon3	c.G601A	p.E201K	GCGTCTCCTTCCC	.	PASS	Atlas-SNP
KRTAP10-4	386672	hgsc.bcm.edu	37	21	45994488	45994488	+	Missense_Mutation	SNP	G	G	T	rs396912	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	181	87	146	0	0.480663	0	G|0.785;T|0.215	0.215	strong	KRTAP10-4,colon,carcinoma,-1,1	KRTAP10-4	44	1	NM_198687	exon1	c.G853T	p.G285C	CCTGTCGGCTCTG	.	PASS	Atlas-SNP
AKAP13	11214	hgsc.bcm.edu	37	15	86122916	86122916	+	Silent	SNP	T	T	C	rs2061823	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	59	64	1	1	0.015625	T|0.379;C|0.621	0.621	strong	AKAP13_ENST00000394518,NS,carcinoma,+2,2	AKAP13	394	2	NM_007200	exon7	c.T1617C	p.A539A	CCCTGCTGCCAGT	.	scavenged	Atlas-SNP
ERI2	112479	hgsc.bcm.edu	37	16	20809283	20809283	+	Silent	SNP	C	C	A	rs11648835	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	277	142	202	0	0.512635	0	C|0.817;A|0.183	0.183	strong	.	ERI2	50	.	NM_001142725	exon9	c.G1839T	p.P613P	ATGGTTCGGTCCA	.	PASS	Atlas-SNP
OR2F2	135948	hgsc.bcm.edu	37	7	143633157	143633157	+	Missense_Mutation	SNP	T	T	C	rs13235235	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	62	132	0	0.492063	0	T|0.805;C|0.195	0.195	strong	.	OR2F2	63	.	NM_001004685	exon1	c.T832C	p.Y278H	GTCTTCTATGCCA	.	PASS	Atlas-SNP
POLE	5426	hgsc.bcm.edu	37	12	133233812	133233812	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	101	160	0	0.502488	0	.	.	none	.	POLE	416	.	NM_006231	exon29	c.C3492T	p.P1164P	CCAGTCGGGGTGT	.	PASS	Atlas-SNP
ITGB1	3688	hgsc.bcm.edu	37	10	33211227	33211227	+	Silent	SNP	T	T	G	rs2230395	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	57	100	0	0.478992	0	T|0.709;G|0.135;C|0.036;A|0.120	0.135	strong	ITGB1_ENST00000396033,colon,carcinoma,0,2	ITGB1	156	2	NM_002211	exon9	c.A1086C	p.A362A	AGAATTTGCAGAT	.	PASS	Atlas-SNP
OR2T34	127068	hgsc.bcm.edu	37	1	248737511	248737511	+	Missense_Mutation	SNP	A	A	G	rs74461933		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	632	140	469	0	0.221519	0	.	.	weak	OR2T34,NS,haematopoietic_neoplasm,0,2	OR2T34	72	2	NM_001001821	exon1	c.T548C	p.F183S	TCACAGAAAAAAC	.	PASS	Atlas-SNP
OR5R1	219479	hgsc.bcm.edu	37	11	56185224	56185224	+	Missense_Mutation	SNP	A	A	G	rs12785840	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	44	95	0	0.415094	0	A|0.853;G|0.147	0.147	strong	OR5R1,NS,carcinoma,0,1	OR5R1	83	1	NM_001004744	exon1	c.T485C	p.I162T	AAAGTGATAACGG	.	PASS	Atlas-SNP
LILRA6	79168	hgsc.bcm.edu	37	19	54745907	54745907	+	Missense_Mutation	SNP	A	A	G	rs77267627		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	422	118	385	0	0.279621	0	A|0.250;G|0.750	0.750	weak	LILRA6,NS,neuroblastoma,0,2	LILRA6	75	2	NM_024318	exon3	c.T350C	p.M117T	CCTGTCATCACCA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9083174	9083174	+	Missense_Mutation	SNP	G	G	A	rs7245960	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	202	201	167	0	0.995049	0	G|0.757;A|0.243	0.243	strong	.	MUC16	4315	.	NM_024690	exon1	c.C8641T	p.P2881S	AAGTTGGGGGAGC	.	PASS	Atlas-SNP
SCN7A	6332	hgsc.bcm.edu	37	2	167262939	167262939	+	Silent	SNP	A	A	G	rs33953730	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	418	209	334	0	0.5	0	A|0.948;G|0.052	0.052	strong	SCN7A_ENST00000409855,NS,carcinoma,-1,2	SCN7A	410	2	NM_002976	exon25	c.T4200C	p.Y1400Y	AAAATTATACATT	.	PASS	Atlas-SNP
SDK2	54549	hgsc.bcm.edu	37	17	71384010	71384010	+	Silent	SNP	G	G	A	rs35928335	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	88	136	0	0.556962	0	G|0.944;A|0.056	0.056	strong	.	SDK2	219	.	NM_001144952	exon30	c.C4359T	p.S1453S	GCTCACGGAGGCC	.	PASS	Atlas-SNP
PDZD2	23037	hgsc.bcm.edu	37	5	32087802	32087802	+	Silent	SNP	A	A	G	rs157497	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	73	138	0	0.474026	0	A|0.596;G|0.404	0.404	strong	.	PDZD2	306	.	NM_178140	exon19	c.A4248G	p.P1416P	CTGCCCAGGGGGG	.	PASS	Atlas-SNP
ZNF280C	55609	hgsc.bcm.edu	37	X	129349295	129349295	+	Silent	SNP	T	T	G	rs209238	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	99	97	0	0.916667	0	0|0.003;G|0.509	0.509	strong	.	ZNF280C	63	.	NM_017666	exon15	c.A1851C	p.G617G	GTGAATTCCCCGA	.	PASS	Atlas-SNP
FANCA	2175	hgsc.bcm.edu	37	16	89805914	89805914	+	Missense_Mutation	SNP	T	T	C	rs9282681	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	73	140	0	0.431953	0	T|0.933;C|0.067	0.067	strong	.	FANCA	99	.	NM_000135	exon40	c.A3982G	p.T1328A	GCCTGGTGTGCTG	.	PASS	Atlas-SNP
KRTAP1-3	81850	hgsc.bcm.edu	37	17	39190943	39190943	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	181	16	162	0	0.0883978	0	.	.	none	.	KRTAP1-3	18	.	NM_030966	exon1	c.T131G	p.F44C	CCGCAGAAGCTGG	.	PASS	Atlas-SNP
VWA3B	200403	hgsc.bcm.edu	37	2	98844674	98844674	+	Missense_Mutation	SNP	C	C	G	rs7601049	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	36	42	0	1	0	C|0.354;G|0.646	0.646	strong	.	VWA3B	138	.	NM_144992	exon15	c.C2029G	p.L677V	GAAGATCTGACTC	.	PASS	Atlas-SNP
FAM171B	165215	hgsc.bcm.edu	37	2	187626338	187626338	+	Silent	SNP	C	C	T	rs13026081	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	253	133	223	0	0.525692	0	C|0.809;N|0.000	.	strong	.	FAM171B	146	.	NM_177454	exon8	c.C1269T	p.D423D	TGAGGACAAGTCG	.	PASS	Atlas-SNP
SH3BP1	23616	hgsc.bcm.edu	37	22	38044341	38044341	+	Silent	SNP	C	C	T	rs118183308	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	23	13	26	0	0.565217	0	C|0.986;T|0.014	0.014	strong	SH3BP1,NS,haematopoietic_neoplasm,0,1	SH3BP1	41	1	NM_018957	exon14	c.C1215T	p.F405F	GAAGTTCCTGGCA	.	PASS	Atlas-SNP
PSAT1	29968	hgsc.bcm.edu	37	9	80919756	80919756	+	Silent	SNP	T	T	G	rs3739474	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	178	177	156	0	0.994382	0	T|0.414;G|0.586	0.586	strong	.	PSAT1	33	.	NM_021154	exon4	c.T297G	p.A99A	GTGTGCTGACTAT	.	PASS	Atlas-SNP
IGLL1	3543	hgsc.bcm.edu	37	22	23922281	23922281	+	Missense_Mutation	SNP	C	C	T	rs116760479	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	53	28	76	0	0.528302	0	C|0.980;T|0.020	0.020	strong	.	IGLL1	27	.	NM_020070	exon1	c.G97A	p.V33M	TTACCACGGCCAG	.	PASS	Atlas-SNP
CASP8	841	hgsc.bcm.edu	37	2	202149696	202149696	+	Silent	SNP	G	G	A	rs1045487	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	73	120	0	0.557252	0	G|0.862;A|0.138	0.138	strong	.	CASP8	272	.	NM_001080125	exon8	c.G1137A	p.K379K	AGACAAGGGCATC	.	PASS	Atlas-SNP
ILK	3611	hgsc.bcm.edu	37	11	6630833	6630833	+	Silent	SNP	G	G	A	rs1043390	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	243	110	194	0	0.452675	0	G|0.669;A|0.331	0.331	strong	.	ILK	41	.	NM_001014794	exon9	c.G819A	p.P273P	GATGCCGTATGGA	.	PASS	Atlas-SNP
PLXNB2	23654	hgsc.bcm.edu	37	22	50722134	50722134	+	Missense_Mutation	SNP	T	T	C	rs11547731	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	90	83	0	0.989011	0	T|0.360;C|0.640	0.640	strong	PLXNB2,NS,carcinoma,0,1	PLXNB2	172	1	NM_012401	exon15	c.A2467G	p.I823V	CCAGGATGGTGAT	.	PASS	Atlas-SNP
CES5A	221223	hgsc.bcm.edu	37	16	55907811	55907811	+	Missense_Mutation	SNP	C	C	T	rs2397965	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	64	105	0	0.507937	0	C|0.743;T|0.257	0.257	strong	.	CES5A	206	.	NM_001190158	exon3	c.G299A	p.R100Q	GTAAATCGCAGGG	.	PASS	Atlas-SNP
DNAH3	55567	hgsc.bcm.edu	37	16	21145648	21145648	+	Silent	SNP	C	C	T	rs11074483	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	32	86	0	0.372093	0	C|0.759;T|0.241	0.241	strong	DNAH3_ENST00000261383,NS,carcinoma,0,2	DNAH3	1142	2	NM_017539	exon7	c.G1014A	p.K338K	GTTCCACTTCTTG	.	PASS	Atlas-SNP
CNTNAP5	129684	hgsc.bcm.edu	37	2	125660582	125660582	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	62	144	0	0.488189	0	.	.	none	CNTNAP5,caecum,carcinoma,-1,1	CNTNAP5	405	1	NM_130773	exon22	c.C3557T	p.A1186V	CTGTCGCGCCTGT	.	PASS	Atlas-SNP
SH3TC2	79628	hgsc.bcm.edu	37	5	148386525	148386525	+	Silent	SNP	T	T	G	rs6871030	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	190	93	165	0	0.489474	0	C|0.005;G|0.447;T|0.549	0.447	strong	.	SH3TC2	178	.	NM_024577	exon16	c.A3594C	p.P1198P	CAGCCATGGTGGA	.	PASS	Atlas-SNP
KIF19	124602	hgsc.bcm.edu	37	17	72350412	72350412	+	Missense_Mutation	SNP	G	G	A	rs2271535	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	6	6	14	0	1	0	G|0.631;A|0.369	0.369	strong	KIF19,NS,carcinoma,0,1	KIF19	102	1	NM_153209	exon18	c.G2420A	p.R807H	CAGAGCGCAGCAG	.	scavenged	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238147	31238147	+	Silent	SNP	C	C	G	rs1050326	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	90	185	0	1	0	G|0.330;C|0.670	0.330	strong	.	HLA-C	92	.	NM_002117	exon4	c.G735C	p.G245G	GTCCTCCCCATCC	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40408128	40408128	+	Silent	SNP	C	C	T	rs4803310	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	419	206	307	3	0.491647	0.00977199	C|0.824;T|0.176	0.176	strong	FCGBP,NS,malignant_melanoma,0,2	FCGBP	416	2	NM_003890	exon9	c.G4593A	p.E1531E	AGGGCACTCCATG	.	scavenged	Atlas-SNP
LANCL2	55915	hgsc.bcm.edu	37	7	55433880	55433880	+	Silent	SNP	G	G	C	rs2272262	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	22	22	72	0	1	0	G|0.685;C|0.315	0.315	strong	.	LANCL2	54	.	NM_018697	exon1	c.G162C	p.A54A	CCCGGCGACCACG	.	PASS	Atlas-SNP
PNLIPRP3	119548	hgsc.bcm.edu	37	10	118236610	118236610	+	Missense_Mutation	SNP	T	T	A	rs2116286	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	40	22	33	0	0.55	0	T|0.906;A|0.094	0.094	strong	PNLIPRP3,NS,carcinoma,-1,1	PNLIPRP3	101	1	NM_001011709	exon12	c.T1349A	p.F450Y	CTACCTTCTGTAG	.	PASS	Atlas-SNP
DENND2C	163259	hgsc.bcm.edu	37	1	115164554	115164554	+	Missense_Mutation	SNP	C	C	T	rs56861557	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	73	137	0	0.548872	0	C|0.960;T|0.040	0.040	strong	.	DENND2C	105	.	NM_001256404	exon7	c.G1189A	p.G397S	CTTCACCAGCTCG	.	PASS	Atlas-SNP
PYGL	5836	hgsc.bcm.edu	37	14	51383432	51383432	+	Silent	SNP	G	G	A	rs2075643	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	75	136	0	0.465839	0	G|0.807;A|0.193	0.193	strong	.	PYGL	77	.	NM_002863	exon9	c.C1020T	p.D340D	GTGAGTGTCATTC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179558366	179558366	+	Missense_Mutation	SNP	T	T	C	rs2042995	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	385	164	390	1	0.425974	0.0025641	T|0.582;C|0.418	0.418	strong	.	TTN	18412	.	NM_001267550	exon119	c.A31564G	p.I10522V	TGGAAATGGCAAC	.	PASS	Atlas-SNP
MATN2	4147	hgsc.bcm.edu	37	8	99044528	99044528	+	Missense_Mutation	SNP	C	C	T	rs2255317	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	93	134	0	0.528409	0	C|0.856;T|0.143	0.143	strong	MATN2_ENST00000520016,NS,carcinoma,0,1	MATN2	165	1	NM_002380	exon16	c.C2564T	p.T855M	CAAAAACGGTCCA	.	PASS	Atlas-SNP
ULK4	54986	hgsc.bcm.edu	37	3	41877414	41877414	+	Missense_Mutation	SNP	T	T	C	rs3774372	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	263	111	248	0	0.422053	0	T|0.818;C|0.182	0.182	strong	.	ULK4	150	.	NM_017886	exon18	c.A1706G	p.K569R	TTTAATTTGCTGT	.	PASS	Atlas-SNP
KIF21B	23046	hgsc.bcm.edu	37	1	200978422	200978422	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	116	170	0	0.549763	0	.	.	none	.	KIF21B	208	.	NM_017596	exon2	c.A236G	p.Y79C	GCATTATAGCCCT	.	PASS	Atlas-SNP
CRCT1	54544	hgsc.bcm.edu	37	1	152487979	152487979	+	Silent	SNP	C	C	T	rs2282296	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	4	4	4	0	1	0	C|0.483;T|0.517	0.517	strong	.	CRCT1	6	.	NM_019060	exon2	c.C120T	p.C40C	CTGCTGCGGCTCC	.	PASS	Atlas-SNP
NCKAP5	344148	hgsc.bcm.edu	37	2	133542574	133542574	+	Missense_Mutation	SNP	C	C	T	rs61995744	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	77	102	0	0.562044	0	C|0.793;T|0.207	0.207	strong	.	NCKAP5	322	.	NM_207363	exon14	c.G1810A	p.V604M	ATGACACGTCTGA	.	PASS	Atlas-SNP
OGFOD3	79701	hgsc.bcm.edu	37	17	80373452	80373452	+	Silent	SNP	C	C	T	rs4789769	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	37	37	37	0	1	0	C|0.728;T|0.272	0.272	strong	.	.	.	.	NM_175902	exon2	c.G126A	p.P42P	TAGCCACGGCCTC	.	PASS	Atlas-SNP
PAMR1	25891	hgsc.bcm.edu	37	11	35456153	35456153	+	Silent	SNP	C	C	T	rs35216474	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	239	239	209	0	1	0	C|0.820;T|0.180	0.180	strong	.	PAMR1	85	.	NM_015430	exon11	c.G1584A	p.K528K	GGTGACCTTCCCC	.	PASS	Atlas-SNP
GPC1	2817	hgsc.bcm.edu	37	2	241404317	241404317	+	Silent	SNP	C	C	T	rs2229458	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	51	82	0	0.579545	0	C|0.493;T|0.507	0.507	strong	GPC1,NS,carcinoma,0,1	GPC1	32	1	NM_002081	exon6	c.C1059T	p.P353P	GGGCCCCGGGCCT	.	PASS	Atlas-SNP
FAM26D	221301	hgsc.bcm.edu	37	6	116875427	116875427	+	Silent	SNP	G	G	A	rs7762318	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	127	107	0	0.969466	0	G|0.359;A|0.641	0.641	strong	.	FAM26D	29	.	NM_001256887	exon3	c.G42A	p.L14L	GATCCTGGCTGGG	.	PASS	Atlas-SNP
RAI1	10743	hgsc.bcm.edu	37	17	17696531	17696531	+	Missense_Mutation	SNP	G	G	C	rs3803763	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	40	67	0	0.645161	0	G|0.503;C|0.497	0.497	strong	RAI1,colon,carcinoma,0,1	RAI1	121	1	NM_030665	exon3	c.G269C	p.G90A	AGCAAGGCCTGCA	.	PASS	Atlas-SNP
SVEP1	79987	hgsc.bcm.edu	37	9	113132221	113132221	+	Missense_Mutation	SNP	G	G	A	rs17204533	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	65	153	0	0.507812	0	G|0.836;A|0.164	0.164	strong	.	SVEP1	326	.	NM_153366	exon47	c.C10676T	p.T3559M	TGTCCCGTCCAAG	.	PASS	Atlas-SNP
LMLN	89782	hgsc.bcm.edu	37	3	197701913	197701913	+	Missense_Mutation	SNP	G	G	T	rs7373165	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	22	108	0	0.354839	0	G|0.784;T|0.216	0.216	strong	.	LMLN	53	.	NM_001136049	exon3	c.G318T	p.E106D	TTTCAGGTTGCTC	.	PASS	Atlas-SNP
LRRN2	10446	hgsc.bcm.edu	37	1	204587569	204587569	+	Missense_Mutation	SNP	G	G	C	rs3747631	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	47	100	0	0.419643	0	G|0.818;C|0.182	0.182	strong	.	LRRN2	81	.	NM_006338	exon3	c.C1552G	p.L518V	GGAGGAGAGCACG	.	PASS	Atlas-SNP
OR8H3	390152	hgsc.bcm.edu	37	11	55890273	55890273	+	Missense_Mutation	SNP	T	T	C	rs61743852	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	323	134	260	0	0.414861	0	T|0.949;C|0.051	0.051	strong	.	OR8H3	92	.	NM_001005201	exon1	c.T425C	p.L142P	TCTGCCTCGCTCT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	64	91	0	1	0	G|0.275;A|0.725	0.725	strong	.	CCDC91	63	.	NM_018318	exon10	c.G940A	p.V314M	GAAGCAGTGAAGG	.	PASS	Atlas-SNP
KRTAP5-10	387273	hgsc.bcm.edu	37	11	71276888	71276888	+	Silent	SNP	T	T	C	rs12793134	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	7	58	3	0.102941	0.0517241	T|0.998;C|0.002	0.002	weak	KRTAP5-10,NS,neuroblastoma,0,1	KRTAP5-10	37	1	NM_001012710	exon1	c.T255C	p.G85G	CTGTGGTTCCTGT	.	scavenged	Atlas-SNP
FPR1	2357	hgsc.bcm.edu	37	19	52249680	52249680	+	Missense_Mutation	SNP	T	T	A	rs5030880	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	54	55	0	0.964286	0	T|0.887;A|0.113	0.113	strong	FPR1,NS,carcinoma,0,1	FPR1	64	1	NM_001193306	exon3	c.A568T	p.R190W	TTATCCTCTCTTT	.	PASS	Atlas-SNP
CHDH	55349	hgsc.bcm.edu	37	3	53857676	53857676	+	Silent	SNP	C	C	T	rs17053532	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	12	5	12	0	0.416667	0	C|0.905;T|0.095	0.095	strong	.	CHDH	34	.	NM_018397	exon3	c.G360A	p.L120L	CCAGTACAGCACG	.	PASS	Atlas-SNP
KIF23	9493	hgsc.bcm.edu	37	15	69729049	69729049	+	Missense_Mutation	SNP	T	T	C	rs17310879	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	37	58	0	0.506849	0	T|0.988;C|0.012	0.012	strong	.	KIF23	57	.	NM_138555	exon14	c.T1543C	p.F515L	GATGAGTTTAACA	.	PASS	Atlas-SNP
XRCC4	7518	hgsc.bcm.edu	37	5	82648977	82648977	+	Silent	SNP	T	T	G	rs1056503	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	297	144	292	0	0.484848	0	T|0.685;G|0.315	0.315	strong	.	XRCC4	37	.	NM_022406	exon8	c.T927G	p.S309S	GACGTCTAAAAAG	.	PASS	Atlas-SNP
SLC5A10	125206	hgsc.bcm.edu	37	17	18923180	18923180	+	Missense_Mutation	SNP	C	C	T	rs12604020	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	47	60	0	0.5	0	C|0.885;T|0.115	0.115	strong	.	SLC5A10	55	.	NM_152351	exon13	c.C1613T	p.A538V	TCTTTGCACTCAG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	243	102	254	2	0.419753	0.00787402	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	.	scavenged	Atlas-SNP
CBS	875	hgsc.bcm.edu	37	21	44485350	44485350	+	Silent	SNP	G	G	A	rs234706	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	47	103	0	0.474747	0	G|0.735;A|0.264	0.264	strong	CBS_ENST00000398168,colon,carcinoma,0,2	CBS	85	2	NM_000071	exon8	c.C699T	p.Y233Y	GGTGTCGTAGTGA	.	PASS	Atlas-SNP
OR8G5	219865	hgsc.bcm.edu	37	11	124135662	124135662	+	Missense_Mutation	SNP	A	A	G	rs2512166	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	293	135	252	1	0.460751	0.00396825	A|0.887;G|0.113	0.113	strong	.	.	.	.	NM_001005198	exon1	c.A940G	p.T314A	TTTTATACTATTG	.	PASS	Atlas-SNP
IMP3	55272	hgsc.bcm.edu	37	15	75932129	75932129	+	Silent	SNP	G	G	T	rs13737	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	30	71	2	0.625	0.028169	G|0.628;T|0.372	0.372	strong	IMP3,colon,carcinoma,0,1	IMP3	10	1	NM_018285	exon1	c.C381A	p.A127A	GGCCACGGCAGCC	.	scavenged	Atlas-SNP
PGPEP1L	145814	hgsc.bcm.edu	37	15	99511873	99511873	+	Missense_Mutation	SNP	G	G	A	rs2715423	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	61	108	0	0.504132	0	G|0.846;A|0.154	0.154	strong	PGPEP1L,NS,carcinoma,-1,2	PGPEP1L	26	2	NM_001102612	exon5	c.C425T	p.A142V	AGTGCCGCGCAGC	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28422609	28422609	+	Silent	SNP	C	C	T	rs61756153	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	26	71	0	0.351351	0	C|0.932;T|0.068	0.068	strong	HERC2,NS,adenoma,-1,1	HERC2	501	1	NM_004667	exon60	c.G9210A	p.S3070S	GCCCCACGAAAAC	.	PASS	Atlas-SNP
CCDC171	203238	hgsc.bcm.edu	37	9	15784631	15784631	+	Missense_Mutation	SNP	A	A	G	rs1539172	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	31	90	0	0.407895	0	A|0.511;G|0.489	0.489	strong	.	.	.	.	NM_173550	exon21	c.A3206G	p.K1069R	ATTATAAACTTGA	.	PASS	Atlas-SNP
AKAP3	10566	hgsc.bcm.edu	37	12	4735737	4735737	+	Silent	SNP	A	A	G	rs2072358	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	309	152	250	1	0.491909	0.004	G|0.259;A|0.741	0.259	strong	.	AKAP3	212	.	NM_006422	exon4	c.T2331C	p.L777L	CCATTGAAGGACG	.	PASS	Atlas-SNP
YWHAG	7532	hgsc.bcm.edu	37	7	75959188	75959188	+	Silent	SNP	G	G	A	rs2072435	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	46	113	0	0.386555	0	G|0.697;A|0.303	0.303	strong	.	YWHAG	24	.	NM_012479	exon2	c.C450T	p.S150S	CTTCTCGGAGGAC	.	PASS	Atlas-SNP
ZZEF1	23140	hgsc.bcm.edu	37	17	4017695	4017695	+	Missense_Mutation	SNP	T	T	C	rs138134000	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	234	111	195	0	0.474359	0	T|0.996;C|0.004	0.004	strong	ZZEF1,NS,lymphoid_neoplasm,0,1	ZZEF1	195	1	NM_015113	exon4	c.A764G	p.Y255C	TCTATATAAGCAT	.	PASS	Atlas-SNP
SDK1	221935	hgsc.bcm.edu	37	7	4213940	4213940	+	Silent	SNP	T	T	C	rs671756	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	108	101	0	0.990826	0	T|0.351;C|0.649	0.649	strong	.	SDK1	361	.	NM_152744	exon33	c.T4887C	p.T1629T	AGGCACTGAGGCC	.	PASS	Atlas-SNP
ESR1	2099	hgsc.bcm.edu	37	6	152129077	152129077	+	Silent	SNP	T	T	C	rs2077647	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	118	82	0	0.983333	0	T|0.538;C|0.462	0.462	strong	.	ESR1	94	.	NM_000125	exon1	c.T30C	p.S10S	AGCATCTGGGATG	.	PASS	Atlas-SNP
ZBTB46	140685	hgsc.bcm.edu	37	20	62407176	62407176	+	Silent	SNP	G	G	A	rs35738769	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	41	100	0	0.431579	0	G|0.950;A|0.050	0.050	strong	.	ZBTB46	72	.	NM_025224	exon3	c.C1077T	p.D359D	CAGGGCGTCGTCC	.	PASS	Atlas-SNP
ZP2	7783	hgsc.bcm.edu	37	16	21222672	21222672	+	Missense_Mutation	SNP	C	C	A	rs2075520	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	35	69	0	0.486111	0	C|0.593;A|0.407	0.407	strong	.	ZP2	92	.	NM_003460	exon2	c.G107T	p.G36V	GAGTTCCCTGAAG	.	PASS	Atlas-SNP
KIF20B	9585	hgsc.bcm.edu	37	10	91498254	91498254	+	Missense_Mutation	SNP	A	A	G	rs1886997	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	7	150	0	0.0804598	0	A|0.698;G|0.302	0.302	strong	.	KIF20B	191	.	NM_016195	exon20	c.A3536G	p.N1179S	ATTTAAATGTAAA	.	PASS	Atlas-SNP
MYH11	4629	hgsc.bcm.edu	37	16	15818653	15818653	+	Silent	SNP	G	G	A	rs12907	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	40	21	54	0	0.525	0	G|0.897;A|0.103	0.103	strong	.	MYH11	520	.	NM_001040114	exon31	c.C3988T	p.L1330L	GAAGCAGCTCCTG	.	PASS	Atlas-SNP
ZNF470	388566	hgsc.bcm.edu	37	19	57089375	57089375	+	Silent	SNP	A	A	G	rs4570977	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	18	41	0	0.382979	0	A|0.797;G|0.203	0.203	strong	.	ZNF470	103	.	NM_001001668	exon6	c.A1578G	p.Q526Q	CGCGCAACATCAG	.	PASS	Atlas-SNP
GLTSCR1	29998	hgsc.bcm.edu	37	19	48198675	48198675	+	Missense_Mutation	SNP	A	A	G	rs13346368	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	48	89	0	0.521739	0	A|0.713;G|0.287	0.287	strong	.	GLTSCR1	79	.	NM_015711	exon10	c.A3130G	p.T1044A	CTCCCGACCCTGA	.	PASS	Atlas-SNP
KLF12	11278	hgsc.bcm.edu	37	13	74339104	74339104	+	Silent	SNP	G	G	T	rs3764134	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	34	33	68	0	0.970588	0	G|0.544;T|0.456	0.456	strong	.	KLF12	42	.	NM_007249	exon6	c.C840A	p.G280G	TCGATTGCCCCGG	.	PASS	Atlas-SNP
LPCAT1	79888	hgsc.bcm.edu	37	5	1494935	1494935	+	Missense_Mutation	SNP	T	T	C	rs28715640	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	27	49	0	0.473684	0	T|0.954;C|0.046	0.046	strong	.	LPCAT1	70	.	NM_024830	exon3	c.A373G	p.T125A	CCTCGGTGGGCAG	.	PASS	Atlas-SNP
TPSAB1	7177	hgsc.bcm.edu	37	16	1291639	1291639	+	Silent	SNP	A	A	G	rs201223167	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	571	41	386	0	0.0718039	0	A|0.802;G|0.198	0.198	strong	.	TPSAB1	24	.	NM_003294	exon4	c.A438G	p.S146S	TGCCTCAGAGACC	.	PASS	Atlas-SNP
MCM9	254394	hgsc.bcm.edu	37	6	119137445	119137445	+	Missense_Mutation	SNP	C	C	A	rs78791427	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	223	112	159	0	0.502242	0	C|0.993;A|0.007	0.007	strong	MCM9_ENST00000316316,NS,carcinoma,-1,2	MCM9	73	2	NM_017696	exon12	c.G1974T	p.Q658H	CACACTCTGATTC	.	PASS	Atlas-SNP
EPHA5	2044	hgsc.bcm.edu	37	4	66197804	66197804	+	Silent	SNP	C	C	T	rs7349683	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	97	105	0	0.989796	0	C|0.704;T|0.296	0.296	strong	.	EPHA5	315	.	NM_004439	exon17	c.G2895A	p.G965G	GTAGGCCCCAGAT	.	PASS	Atlas-SNP
TUSC5	286753	hgsc.bcm.edu	37	17	1183347	1183347	+	Missense_Mutation	SNP	G	G	A	rs111701043	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	81	171	0	0.445055	0	A|0.014;C|0.000;G|0.986	0.014	strong	.	TUSC5	25	.	NM_172367	exon1	c.G52A	p.A18T	GGCTCCGCCGCAT	.	PASS	Atlas-SNP
C2orf71	388939	hgsc.bcm.edu	37	2	29296870	29296870	+	Silent	SNP	C	C	T	rs62132765	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	522	256	491	0	0.490421	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
NOXA1	10811	hgsc.bcm.edu	37	9	140327663	140327663	+	Missense_Mutation	SNP	C	C	T	rs34155071	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	31	64	1	0.413333	0.015625	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	.	scavenged	Atlas-SNP
SULT1A1	6817	hgsc.bcm.edu	37	16	28619911	28619911	+	Silent	SNP	T	T	C	rs1126447	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	63	156	0	0.313433	0	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	.	PASS	Atlas-SNP
LY6G5B	58496	hgsc.bcm.edu	37	6	31639845	31639845	+	Missense_Mutation	SNP	C	C	A	rs11758242	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	70	112	0	0.522388	0	C|0.932;A|0.068	0.068	strong	LY6G5B,NS,carcinoma,0,1	LY6G5B	8	1	NM_021221	exon3	c.C392A	p.S131Y	CTGACTCCCAGAT	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954414	30954414	+	Missense_Mutation	SNP	C	C	G	rs138015704	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	18	62	5	0.2	0.0806452	C|0.993;G|0.007	0.007	strong	MUC21,NS,carcinoma,0,2	MUC21	98	2	NM_001010909	exon2	c.C462G	p.D154E	CTCTGACTCCAGC	.	scavenged	Atlas-SNP
MOG	4340	hgsc.bcm.edu	37	6	29638101	29638101	+	Silent	SNP	T	T	C	rs112913018	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	423	209	406	0	0.49409	0	A|0.002;C|0.001;T|0.997	0.001	strong	.	MOG	47	.	NM_002433	exon6	c.T636C	p.F212F	CCTGTTTGTAATT	.	PASS	Atlas-SNP
EPHX2	2053	hgsc.bcm.edu	37	8	27358509	27358509	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	36	67	0	0.5	0	.	.	none	EPHX2,scalp,carcinoma,+2,1	EPHX2	57	1	NM_001979	exon2	c.A168G	p.G56G	GAAAGGAGAGATC	.	PASS	Atlas-SNP
TNKS1BP1	85456	hgsc.bcm.edu	37	11	57077464	57077464	+	Silent	SNP	T	T	C	rs10896602	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	193	193	175	1	1	0.00571429	T|0.650;C|0.350	0.350	strong	.	TNKS1BP1	148	.	NM_033396	exon6	c.A2721G	p.Q907Q	CAAATCTTGGCCC	.	PASS	Atlas-SNP
ZNF440	126070	hgsc.bcm.edu	37	19	11942771	11942771	+	Silent	SNP	G	G	A	rs436411	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	43	25	44	0	0.581395	0	G|0.655;A|0.345	0.345	strong	.	ZNF440	56	.	NM_152357	exon4	c.G780A	p.E260E	TCAGGAGTGTGGG	.	PASS	Atlas-SNP
PTCHD3	374308	hgsc.bcm.edu	37	10	27702726	27702726	+	Silent	SNP	G	G	A	rs11015753	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	53	94	0	0.56383	0	G|0.786;A|0.214	0.214	strong	.	PTCHD3	140	.	NM_001034842	exon1	c.C454T	p.L152L	TGCCCAGCGCGGC	.	PASS	Atlas-SNP
FYB	2533	hgsc.bcm.edu	37	5	39141240	39141240	+	Silent	SNP	G	G	A	rs3188386	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	258	113	251	0	0.437984	0	G|0.843;A|0.157	0.157	strong	.	FYB	354	.	NM_001243093	exon4	c.C1326T	p.S442S	GACAGGGCTTCTG	.	PASS	Atlas-SNP
HR	55806	hgsc.bcm.edu	37	8	21978734	21978734	+	Silent	SNP	G	G	A	rs77689228	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	70	105	0	0.534351	0	G|0.988;A|0.012	0.012	strong	.	HR	71	.	NM_018411	exon10	c.C2211T	p.P737P	GGAATCGGGGGTC	.	PASS	Atlas-SNP
SCN10A	6336	hgsc.bcm.edu	37	3	38768334	38768334	+	Silent	SNP	T	T	C	rs7374804	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	85	148	0	0.456989	0	T|0.913;C|0.087	0.087	strong	SCN10A,NS,carcinoma,0,1	SCN10A	359	1	NM_006514	exon16	c.A2850G	p.K950K	TGGGAGTTTCACC	.	PASS	Atlas-SNP
GRIK4	2900	hgsc.bcm.edu	37	11	120827609	120827609	+	Silent	SNP	A	A	G	rs644057	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	41	19	32	0	0.463415	0	A|0.360;G|0.640	0.640	strong	.	GRIK4	149	.	NM_014619	exon14	c.A1821G	p.Q607Q	GCAGCAAGGCTCC	.	PASS	Atlas-SNP
SYK	6850	hgsc.bcm.edu	37	9	93640009	93640009	+	Silent	SNP	G	G	A	rs2290887	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	193	95	176	0	0.492228	0	G|0.824;A|0.176	0.176	strong	.	SYK	132	.	NM_003177	exon10	c.G1338A	p.L446L	GATGCTGGTTATG	.	PASS	Atlas-SNP
RB1CC1	9821	hgsc.bcm.edu	37	8	53537316	53537316	+	Silent	SNP	A	A	G	rs1129660	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	96	209	0	0.472906	0	A|0.804;G|0.196	0.196	strong	.	RB1CC1	163	.	NM_014781	exon23	c.T4668C	p.L1556L	TTTTCCAAGTACC	.	PASS	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201184275	201184275	+	Silent	SNP	C	C	T	rs2275673	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	243	125	215	0	0.514403	0	C|0.683;T|0.317	0.317	strong	.	IGFN1	220	.	NM_001164586	exon14	c.C8988T	p.T2996T	CCTGACCGTCCAG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	93	72	0	1	0	A|0.494;N|0.000	0.494	strong	.	CCDC50	39	.	NM_178335	exon6	c.T773A	p.I258N	CTAAGATTAACCA	.	PASS	Atlas-SNP
LTBP1	4052	hgsc.bcm.edu	37	2	33412077	33412077	+	Silent	SNP	G	G	A	rs1065324	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	159	139	1	0.987578	0.00719424	G|0.567;A|0.433	0.433	strong	.	LTBP1	317	.	NM_206943	exon6	c.G1356A	p.A452A	CAAGGCGTTGGGG	.	PASS	Atlas-SNP
TAS2R31	259290	hgsc.bcm.edu	37	12	11183035	11183035	+	Nonsense_Mutation	SNP	C	C	T	rs78820764	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	263	16	314	0	0.0608365	0	C|0.989;T|0.011	0.011	strong	.	TAS2R31	24	.	NM_176885	exon1	c.G900A	p.W300X	TTTCACCCAGTAC	.	PASS	Atlas-SNP
TLR2	7097	hgsc.bcm.edu	37	4	154625042	154625042	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	57	80	0	0.495652	0	.	.	none	.	TLR2	84	.	NM_003264	exon3	c.T983G	p.L328R	ATGATCTGAGCAC	.	PASS	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	37	22	29885861	29885861	+	Silent	SNP	T	T	C	rs165923	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	109	127	0	0.990909	0	T|0.192;C|0.808	0.808	strong	.	NEFH	178	.	NM_021076	exon4	c.T2232C	p.A744A	AGAAGCTAAGTCC	.	PASS	Atlas-SNP
SMYD1	150572	hgsc.bcm.edu	37	2	88396120	88396120	+	Silent	SNP	G	G	A	rs2919882	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	76	181	0	0.484076	0	G|0.647;A|0.353	0.353	strong	.	SMYD1	95	.	NM_198274	exon6	c.G705A	p.E235E	AATTGAGCTCCGG	.	PASS	Atlas-SNP
TRIM6-TRIM34	445372	hgsc.bcm.edu	37	11	5664831	5664831	+	Silent	SNP	C	C	A	rs3740998	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	249	125	229	0	0.502008	0	C|0.716;A|0.284	0.284	strong	.	TRIM6-TRIM34	68	.	NM_001003819	exon14	c.C2421A	p.G807G	CCATGGCTCCCTC	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225528183	225528183	+	Missense_Mutation	SNP	C	C	A	rs3856145	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	324	155	380	0	0.478395	0	C|0.498;A|0.500	0.500	strong	.	DNAH14	300	.	NM_001373	exon67	c.C10179A	p.D3393E	AATAGACAACCCC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	25	37	0	0.490196	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
LAMP5	24141	hgsc.bcm.edu	37	20	9496716	9496716	+	Missense_Mutation	SNP	C	C	G	rs2232264	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	81	123	0	0.529412	0	C|0.731;G|0.269	0.269	strong	C20orf103,colon,carcinoma,0,1	.	.	1	NM_012261	exon3	c.C307G	p.Q103E	CACAGCCAGTCGG	.	PASS	Atlas-SNP
GPRASP2	114928	hgsc.bcm.edu	37	X	101970123	101970123	+	Missense_Mutation	SNP	G	G	A	rs139789934	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	73	37	0	0.9125	0	G|0.999;A|0.001	0.001	strong	.	GPRASP2	89	.	NM_138437	exon4	c.G326A	p.R109H	GCGCTCGTTCTAA	.	PASS	Atlas-SNP
STX16	8675	hgsc.bcm.edu	37	20	57242602	57242602	+	Silent	SNP	G	G	A	rs376636519		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	54	108	0	0.514286	0	.	.	weak	.	STX16	36	.	NM_001001433	exon3	c.G201A	p.A67A	AGCAGCGATTGGT	.	PASS	Atlas-SNP
NOTCH1	4851	hgsc.bcm.edu	37	9	139418260	139418260	+	Silent	SNP	A	A	G	rs4489420	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	50	112	0	0.364964	0	A|0.323;G|0.677	0.677	strong	.	NOTCH1	1980	.	NM_017617	exon3	c.T312C	p.N104N	GCAGGCATTGTCC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	149	111	0	0.993333	0	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	.	PASS	Atlas-SNP
OR11H6	122748	hgsc.bcm.edu	37	14	20691888	20691888	+	Missense_Mutation	SNP	C	C	A	rs10140652	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	170	81	164	0	0.476471	0	C|0.909;A|0.091	0.091	strong	.	OR11H6	60	.	NM_001004480	exon1	c.C20A	p.S7Y	TTCATTCTTTGGT	.	PASS	Atlas-SNP
WRN	7486	hgsc.bcm.edu	37	8	30999280	30999280	+	Missense_Mutation	SNP	G	G	T	rs1801195	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	57	143	0	0.431818	0	G|0.501;N|0.000	.	strong	.	WRN	116	.	NM_000553	exon26	c.G3222T	p.L1074F	GAAGTTGCTTCTG	.	PASS	Atlas-SNP
METTL21A	151194	hgsc.bcm.edu	37	2	208478055	208478055	+	Silent	SNP	A	A	G	rs17520056	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	47	98	0	0.447619	0	A|0.705;G|0.295	0.295	strong	METTL21A,NS,carcinoma,0,1	METTL21A	24	1	NM_145280	exon4	c.T372C	p.T124T	TCCCCAAGTCAGC	.	PASS	Atlas-SNP
CCDC28A	25901	hgsc.bcm.edu	37	6	139094937	139094937	+	Silent	SNP	C	C	T	rs11154999	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	60	134	0	0.483871	0	C|0.970;T|0.030	0.030	strong	.	CCDC28A	34	.	NM_015439	exon1	c.C126T	p.S42S	CGGGTCCCGGGAT	.	PASS	Atlas-SNP
EFNA3	1944	hgsc.bcm.edu	37	1	155058663	155058663	+	Missense_Mutation	SNP	G	G	A	rs17723260	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	292	116	327	0	0.39726	0	G|0.911;A|0.089	0.089	strong	EFNA3,colon,carcinoma,0,1	EFNA3	15	1	NM_004952	exon4	c.G568A	p.V190M	CCCAATGTGAAGA	.	PASS	Atlas-SNP
TRPM6	140803	hgsc.bcm.edu	37	9	77416972	77416972	+	Silent	SNP	C	C	T	rs11144089	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	80	155	0	0.418848	0	C|0.911;T|0.089	0.089	strong	.	TRPM6	377	.	NM_017662	exon16	c.G1851A	p.L617L	TTTCATCAGCACA	.	PASS	Atlas-SNP
EHF	26298	hgsc.bcm.edu	37	11	34668143	34668143	+	Silent	SNP	C	C	T	rs2281910	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	48	97	0	0.363636	0	C|0.792;T|0.208	0.208	strong	.	EHF	38	.	NM_001206616	exon3	c.C321T	p.L107L	GCACCTCTGCAGC	.	PASS	Atlas-SNP
TAS2R7	50837	hgsc.bcm.edu	37	12	10954258	10954258	+	Missense_Mutation	SNP	C	C	T	rs619381	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	51	89	0	0.56044	0	C|0.919;T|0.081	0.081	strong	TAS2R7,NS,carcinoma,0,1	TAS2R7	35	1	NM_023919	exon1	c.G912A	p.M304I	AATAGACATTACT	.	PASS	Atlas-SNP
ARHGEF28	64283	hgsc.bcm.edu	37	5	73142296	73142296	+	Missense_Mutation	SNP	C	C	T	rs2973571	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	58	74	0	0.568627	0	C|0.829;T|0.171	0.171	strong	.	.	.	.	NM_001080479	exon12	c.C1631T	p.S544L	TACAGTCGAAGGT	.	PASS	Atlas-SNP
HEMGN	55363	hgsc.bcm.edu	37	9	100692330	100692330	+	Silent	SNP	A	A	G	rs35223978	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	205	89	176	0	0.434146	0	A|0.995;G|0.005	0.005	strong	.	HEMGN	55	.	NM_197978	exon3	c.T1347C	p.Y449Y	AAAAGTATAAGCA	.	PASS	Atlas-SNP
HLA-DPA1	3113	hgsc.bcm.edu	37	6	33036853	33036853	+	Missense_Mutation	SNP	A	A	C	rs1042308	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	57	94	0	0.5	0	T|0.000;G|0.000;C|0.321;N|0.000;A|0.679	0.321	strong	.	HLA-DPA1	20	.	NM_033554	exon3	c.T571G	p.F191V	CATAGAAGTCCTC	.	PASS	Atlas-SNP
GOLGB1	2804	hgsc.bcm.edu	37	3	121412892	121412892	+	Silent	SNP	A	A	G	rs11915822	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	231	94	220	0	0.406926	0	A|0.878;G|0.122	0.122	strong	.	GOLGB1	319	.	NM_001256486	exon13	c.T6478C	p.L2160L	CTTCCAAGTGGAC	.	PASS	Atlas-SNP
GABRP	2568	hgsc.bcm.edu	37	5	170239112	170239112	+	Missense_Mutation	SNP	C	C	A	rs1063310	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	90	141	0	0.5625	0	C|0.739;A|0.261	0.261	strong	.	GABRP	65	.	NM_014211	exon10	c.C1173A	p.F391L	CAAGTTCAAGTTT	.	PASS	Atlas-SNP
ZNF17	7565	hgsc.bcm.edu	37	19	57931303	57931303	+	Missense_Mutation	SNP	C	C	A	rs2014827	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	38	58	0	0.452381	0	C|0.816;A|0.184	0.184	strong	.	ZNF17	49	.	NM_006959	exon3	c.C443A	p.T148K	ACCTCACATGCAT	.	PASS	Atlas-SNP
LMF2	91289	hgsc.bcm.edu	37	22	50943010	50943010	+	Silent	SNP	G	G	A	rs762670	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	73	55	0	0.986486	0	G|0.821;A|0.179	0.179	strong	.	LMF2	40	.	NM_033200	exon11	c.C1584T	p.R528R	CAGCAGGCGCAAG	.	PASS	Atlas-SNP
LAMB1	3912	hgsc.bcm.edu	37	7	107603431	107603431	+	Silent	SNP	A	A	C	rs2230156	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	125	122	0	0.992063	0	T|0.137;G|0.054;C|0.234;N|0.000;A|0.575	0.234	strong	.	LAMB1	185	.	NM_002291	exon15	c.T1776G	p.P592P	CCCTTCAGGCACT	.	PASS	Atlas-SNP
MRPS21	54460	hgsc.bcm.edu	37	1	150280546	150280546	+	Missense_Mutation	SNP	C	C	T	rs10480	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	202	108	203	1	0.534653	0.00492611	C|0.979;T|0.021	0.021	strong	.	MRPS21	8	.	NM_018997	exon2	c.C148T	p.R50C	CCATGCCGCCGGC	.	PASS	Atlas-SNP
OBP2A	29991	hgsc.bcm.edu	37	9	138440562	138440562	+	Missense_Mutation	SNP	C	C	T	rs3178137	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	175	89	139	0	0.508571	0	C|0.781;T|0.219	0.219	strong	.	OBP2A	21	.	NM_014582	exon5	c.C397T	p.P133S	AGGAATCCTAATA	.	PASS	Atlas-SNP
APOBEC3B	9582	hgsc.bcm.edu	37	22	39381935	39381935	+	Missense_Mutation	SNP	C	C	T	rs59708943	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	243	122	296	1	0.502058	0.00337838	C|0.919;T|0.081	0.081	strong	APOBEC3B,colon,carcinoma,0,1	APOBEC3B	32	1	NM_004900	exon3	c.C293T	p.P98L	CCTGCCCGGACTG	.	PASS	Atlas-SNP
RBM12B	389677	hgsc.bcm.edu	37	8	94746698	94746698	+	Silent	SNP	G	G	T	rs3133974	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	40	76	0	0.444444	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
OR2G6	391211	hgsc.bcm.edu	37	1	248685719	248685719	+	Missense_Mutation	SNP	A	A	T	rs9330305	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	78	154	0	0.4875	0	A|0.832;T|0.168	0.168	strong	OR2G6,NS,carcinoma,0,1	OR2G6	124	1	NM_001013355	exon1	c.A772T	p.M258L	ATATTCATGTACC	.	PASS	Atlas-SNP
AGTPBP1	23287	hgsc.bcm.edu	37	9	88193858	88193858	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	3	124	1	0.0232558	0.00806452	.	.	none	AGTPBP1,NS,carcinoma,+2,1	AGTPBP1	128	1	NM_015239	exon24	c.G3199A	p.G1067S	CACAGCCACATAA	.	scavenged	Atlas-SNP
GHR	2690	hgsc.bcm.edu	37	5	42719239	42719239	+	Missense_Mutation	SNP	A	A	C	rs6180	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	315	315	297	1	1	0.003367	A|0.548;C|0.448	0.448	strong	.	GHR	94	.	NM_001242399	exon10	c.A1651C	p.I551L	AAGTGCATCCCTG	.	PASS	Atlas-SNP
CPA1	1357	hgsc.bcm.edu	37	7	130023539	130023539	+	Silent	SNP	C	C	T	rs12706927	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	74	125	0	0.48366	0	C|0.903;T|0.097	0.097	strong	.	CPA1	73	.	NM_001868	exon6	c.C600T	p.Y200Y	AGACTACGGGCAG	.	PASS	Atlas-SNP
MYO19	80179	hgsc.bcm.edu	37	17	34871813	34871813	+	Silent	SNP	T	T	C	rs752493	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	43	71	0	0.483146	0	T|0.926;C|0.074	0.074	strong	.	MYO19	130	.	NM_001163735	exon8	c.A435G	p.L145L	CTTCATTAGGCAG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179434516	179434516	+	Missense_Mutation	SNP	C	C	T	rs3813243	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	50	99	0	0.45045	0	C|0.918;T|0.082	0.082	strong	.	TTN	18412	.	NM_001267550	exon326	c.G76343A	p.S25448N	CCAACACTCACAT	.	PASS	Atlas-SNP
PRDM2	7799	hgsc.bcm.edu	37	1	14109114	14109114	+	Silent	SNP	A	A	G	rs1203651	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	43	77	0	0.443299	0	A|0.657;G|0.343	0.343	strong	.	PRDM2	147	.	NM_015866	exon8	c.A4824G	p.S1608S	AACATCACGGAGC	.	PASS	Atlas-SNP
LRRC52	440699	hgsc.bcm.edu	37	1	165533005	165533005	+	Silent	SNP	C	C	A	rs453717	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	132	110	1	0.985075	0.00909091	C|0.692;A|0.308	0.308	strong	LRRC52,caecum,carcinoma,0,1	LRRC52	50	1	NM_001005214	exon2	c.C886A	p.R296R	GTCAGCCGGCGGA	.	PASS	Atlas-SNP
USP35	57558	hgsc.bcm.edu	37	11	77920863	77920863	+	Silent	SNP	C	C	A	rs2512527	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	71	112	0	0.522059	0	C|0.808;A|0.192	0.192	strong	.	USP35	179	.	NM_020798	exon10	c.C1962A	p.P654P	CCCCCCCACCAGC	.	PASS	Atlas-SNP
FAM102A	399665	hgsc.bcm.edu	37	9	130710489	130710489	+	Silent	SNP	G	G	A	rs144841491	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	38	75	0	0.567164	0	G|0.997;A|0.003	0.003	strong	.	FAM102A	32	.	NM_001035254	exon6	c.C477T	p.A159A	GGACTTGGCAGTC	.	PASS	Atlas-SNP
FBXO43	286151	hgsc.bcm.edu	37	8	101153024	101153024	+	Silent	SNP	G	G	A	rs1460934	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	71	173	0	0.5	0	G|0.370;A|0.630	0.630	strong	.	FBXO43	155	.	NM_001029860	exon2	c.C1458T	p.I486I	CTTGCCGATCAGT	.	PASS	Atlas-SNP
ADAMTS18	170692	hgsc.bcm.edu	37	16	77353973	77353973	+	Missense_Mutation	SNP	G	G	T	rs9930984	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	16	34	0	0.533333	0	G|0.434;T|0.566	0.566	strong	.	ADAMTS18	270	.	NM_199355	exon16	c.C2305A	p.L769I	GAATGAGGACCAC	.	PASS	Atlas-SNP
C19orf57	79173	hgsc.bcm.edu	37	19	14000170	14000170	+	Missense_Mutation	SNP	T	T	C	rs3803892	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	56	87	0	0.482759	0	T|0.637;C|0.362	0.362	strong	.	C19orf57	34	.	NM_024323	exon6	c.A1499G	p.Q500R	ATGCCCTGCTGAG	.	PASS	Atlas-SNP
MRS2	57380	hgsc.bcm.edu	37	6	24418786	24418786	+	Silent	SNP	T	T	C	rs79527965	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	280	142	264	0	0.507143	0	T|0.887;C|0.113	0.113	strong	MRS2,NS,carcinoma,0,1	MRS2	31	1	NM_020662	exon9	c.T1087C	p.L363L	ATGAATTTGGAAT	.	PASS	Atlas-SNP
SRRM4	84530	hgsc.bcm.edu	37	12	119554751	119554751	+	Silent	SNP	C	C	G	rs73213764	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	32	59	0	0.653061	0	C|0.975;G|0.025	0.025	strong	SRRM4_ENST00000267260,NS,carcinoma,+1,3	SRRM4	131	3	NM_194286	exon4	c.C375G	p.S125S	CTCATCCTATAGC	.	PASS	Atlas-SNP
SNCG	6623	hgsc.bcm.edu	37	10	88719789	88719789	+	Silent	SNP	C	C	G	rs760113	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	146	211	2	0.993197	0.00947867	C|0.759;G|0.241	0.241	strong	.	SNCG	8	.	NM_003087	exon3	c.C195G	p.A65A	CAACGCCGTGAGC	.	PASS	Atlas-SNP
OR5T2	219464	hgsc.bcm.edu	37	11	55999897	55999897	+	Silent	SNP	G	G	A	rs7122000	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	252	99	251	0	0.392857	0	G|0.952;A|0.048	0.048	strong	OR5T2,NS,carcinoma,0,1	OR5T2	107	1	NM_001004746	exon1	c.C765T	p.I255I	ATAGGAGATCAGA	.	PASS	Atlas-SNP
ADA	100	hgsc.bcm.edu	37	20	43252915	43252915	+	Silent	SNP	T	T	C	rs244076	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	48	85	0	0.444444	0	T|0.751;C|0.249	0.249	strong	.	ADA	42	.	NM_000022	exon6	c.A534G	p.V178V	AATGGCTACCACG	.	PASS	Atlas-SNP
KBTBD7	84078	hgsc.bcm.edu	37	13	41767338	41767338	+	Silent	SNP	A	A	G	rs2039134	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	90	185	0	0.978261	0	A|0.388;G|0.612	0.612	strong	KBTBD7,caecum,carcinoma,0,1	KBTBD7	60	1	NM_032138	exon1	c.T1056C	p.P352P	ATCTCTAGGATGT	.	PASS	Atlas-SNP
TRIM69	140691	hgsc.bcm.edu	37	15	45048651	45048651	+	Missense_Mutation	SNP	C	C	T	rs3759880	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	28	50	0	0.4375	0	C|0.866;N|0.000	.	strong	.	TRIM69	47	.	NM_182985	exon3	c.C569T	p.A190V	CTATTGCTGCTCA	.	PASS	Atlas-SNP
COL16A1	1307	hgsc.bcm.edu	37	1	32158374	32158374	+	Silent	SNP	T	T	C	rs3818788	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	141	162	0	0.992958	0	T|0.401;C|0.599	0.599	strong	.	COL16A1	137	.	NM_001856	exon14	c.A1107G	p.P369P	CTGAAGTGGGGCA	.	PASS	Atlas-SNP
METTL20	254013	hgsc.bcm.edu	37	12	31820718	31820718	+	Missense_Mutation	SNP	C	C	G	rs11051523	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	218	112	241	0	0.513761	0	C|0.998;G|0.002	0.002	strong	.	METTL20	23	.	NM_173802	exon4	c.C583G	p.L195V	GAAGACCTTGCAG	.	PASS	Atlas-SNP
ATG2B	55102	hgsc.bcm.edu	37	14	96769560	96769560	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	52	104	0	0.444444	0	.	.	none	.	ATG2B	169	.	NM_018036	exon33	c.C4875G	p.C1625W	AGGTTTGCATGGC	.	PASS	Atlas-SNP
MXRA5	25878	hgsc.bcm.edu	37	X	3241591	3241591	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	73	66	0	0.901235	0	.	.	none	.	MXRA5	815	.	NM_015419	exon5	c.G2135A	p.R712K	AGTCTCCTTGAAG	.	PASS	Atlas-SNP
ZNF735	730291	hgsc.bcm.edu	37	7	63680099	63680099	+	Missense_Mutation	SNP	C	C	A	rs4320434	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	42	68	0	0.5	0	C|0.813;A|0.187	0.187	strong	.	.	.	.	NM_001159524	exon4	c.C670A	p.H224N	TTTAACCACTCCT	.	PASS	Atlas-SNP
HLA-DPA1	3113	hgsc.bcm.edu	37	6	33036505	33036505	+	Silent	SNP	G	G	C	rs1042434	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	202	57	220	0	0.282178	0	G|0.663;C|0.337	0.337	strong	.	HLA-DPA1	20	.	NM_033554	exon4	c.C705G	p.V235V	GATGCCGACTAGG	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11651057	11651057	+	Missense_Mutation	SNP	A	A	G	rs3744581	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	44	82	0	0.494382	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
JAG2	3714	hgsc.bcm.edu	37	14	105615648	105615648	+	Missense_Mutation	SNP	C	C	T	rs9972231	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	53	83	0	0.481818	0	C|0.899;T|0.101	0.101	strong	JAG2,scalp,carcinoma,0,3	JAG2	69	3	NM_002226	exon13	c.G1612A	p.D538N	AAAGGTCGACATC	.	PASS	Atlas-SNP
ELL2	22936	hgsc.bcm.edu	37	5	95236415	95236415	+	Silent	SNP	G	G	A	rs17085249	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	197	89	195	1	0.451777	0.00512821	G|0.697;A|0.303	0.303	strong	ELL2,NS,carcinoma,0,1	ELL2	63	1	NM_012081	exon7	c.C936T	p.D312D	TACAGCGTCTCTA	.	scavenged	Atlas-SNP
KRT73	319101	hgsc.bcm.edu	37	12	53011955	53011955	+	Silent	SNP	G	G	A	rs61736102	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	82	132	0	0.473988	0	G|0.827;A|0.173	0.173	strong	.	KRT73	101	.	NM_175068	exon1	c.C354T	p.N118N	CTCCACGTTCAGG	.	PASS	Atlas-SNP
C6orf170	221322	hgsc.bcm.edu	37	6	121602795	121602795	+	Silent	SNP	C	C	T	rs79788801	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	69	127	0	0.526718	0	C|0.954;T|0.046	0.046	strong	C6orf170,NS,carcinoma,0,1	C6orf170	146	1	NM_152730	exon14	c.G1503A	p.L501L	TATCCACAGAACT	.	PASS	Atlas-SNP
PCDHGA1	56114	hgsc.bcm.edu	37	5	140712210	140712210	+	Silent	SNP	G	G	T	rs62378403	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	37	23	77	0	0.621622	0	G|0.826;T|0.174	0.174	strong	PCDHGA1_ENST00000517417,NS,carcinoma,0,2	PCDHGA1	397	2	NM_018912	exon1	c.G1959T	p.P653P	GCCCCCGCTCTCC	.	scavenged	Atlas-SNP
OR8G2	26492	hgsc.bcm.edu	37	11	124095647	124095647	+	Missense_Mutation	SNP	A	A	C	rs2466615	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	209	206	198	1	0.985646	0.00505051	A|0.408;C|0.592	0.592	strong	.	.	.	.	NM_001007249	exon1	c.A250C	p.I84L	ATTGATATCTGCC	.	PASS	Atlas-SNP
UTRN	7402	hgsc.bcm.edu	37	6	144743015	144743015	+	Missense_Mutation	SNP	G	G	A	rs114750149	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	43	102	0	0.457447	0	G|0.990;A|0.010	0.010	strong	.	UTRN	327	.	NM_007124	exon3	c.G143A	p.S48N	TACAGAGTGGGAA	.	PASS	Atlas-SNP
COL4A1	1282	hgsc.bcm.edu	37	13	110804809	110804809	+	Silent	SNP	G	G	A	rs650724	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	50	105	0	0.5	0	G|0.870;A|0.130	0.130	strong	.	COL4A1	372	.	NM_001845	exon51	c.C4800T	p.S1600S	GCCGGGGGACGCC	.	PASS	Atlas-SNP
TBC1D4	9882	hgsc.bcm.edu	37	13	76055726	76055726	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	4	63	0	0.0769231	0	.	.	none	.	TBC1D4	142	.	NM_014832	exon1	c.G178A	p.A60T	TCTCGGCCATGAG	.	PASS	Atlas-SNP
SLC6A5	9152	hgsc.bcm.edu	37	11	20623023	20623023	+	Silent	SNP	C	C	T	rs2241941	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	49	27	0	1	0	C|0.662;A|0.004	.	strong	.	SLC6A5	151	.	NM_004211	exon2	c.C352T	p.L118L	AACGCGCTGCACT	.	PASS	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	37	1	22200998	22200998	+	Missense_Mutation	SNP	C	C	T	rs2229481	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	91	133	0	0.484043	0	C|0.915;T|0.085	0.085	strong	.	HSPG2	311	.	NM_005529	exon28	c.G3557A	p.R1186Q	TCACACCGAGGGC	.	PASS	Atlas-SNP
HGFAC	3083	hgsc.bcm.edu	37	4	3444593	3444593	+	Silent	SNP	G	G	A	rs2073504	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	66	126	0	0.507692	0	G|0.806;A|0.194	0.194	strong	HGFAC,NS,carcinoma,0,1	HGFAC	69	1	NM_001528	exon2	c.G252A	p.P84P	GCTCCCGCCCCCG	.	PASS	Atlas-SNP
CCDC141	285025	hgsc.bcm.edu	37	2	179749720	179749720	+	Missense_Mutation	SNP	G	G	C	rs199718873		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	266	145	226	0	0.545113	0	G|0.999;C|0.001	0.001	weak	.	CCDC141	362	.	NM_173648	exon11	c.C1627G	p.L543V	CTGCTAGCCATCT	.	PASS	Atlas-SNP
KRTAP10-12	386685	hgsc.bcm.edu	37	21	46117359	46117359	+	Silent	SNP	G	G	A	rs183770957	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	54	91	0	0.469565	0	G|0.994;A|0.006	0.006	strong	.	KRTAP10-12	21	.	NM_198699	exon1	c.G243A	p.T81T	CTGCACGCCCTCG	.	PASS	Atlas-SNP
NCKAP5	344148	hgsc.bcm.edu	37	2	133489601	133489601	+	Silent	SNP	A	A	G	rs56284623	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	59	92	0	0.430657	0	A|0.822;G|0.178	0.178	strong	.	NCKAP5	322	.	NM_207363	exon17	c.T5152C	p.L1718L	TGTCCAATGTTCT	.	PASS	Atlas-SNP
GSTZ1	2954	hgsc.bcm.edu	37	14	77793237	77793237	+	Missense_Mutation	SNP	G	G	A	rs7972	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	27	59	0	0.391304	0	G|0.949;A|0.051	0.051	strong	.	GSTZ1	35	.	NM_145871	exon3	c.G124A	p.G42R	AAGGATGGGGGCC	.	PASS	Atlas-SNP
GATA4	2626	hgsc.bcm.edu	37	8	11614575	11614575	+	Missense_Mutation	SNP	A	A	G	rs3729856	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	290	130	248	0	0.448276	0	A|0.912;G|0.088	0.088	strong	.	GATA4	29	.	NM_002052	exon6	c.A1129G	p.S377G	GGGCACAGCAGCT	.	PASS	Atlas-SNP
NUP107	57122	hgsc.bcm.edu	37	12	69082805	69082805	+	Silent	SNP	G	G	A	rs2259588	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	111	123	0	1	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
SPEF2	79925	hgsc.bcm.edu	37	5	35654711	35654711	+	Silent	SNP	C	C	T	rs2270558	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	69	186	1	0.479167	0.00537634	C|0.379;A|0.004	.	strong	SPEF2,NS,carcinoma,+2,1	SPEF2	324	1	NM_024867	exon7	c.C861T	p.D287D	AGATGACGAGTAC	.	scavenged	Atlas-SNP
CAMTA2	23125	hgsc.bcm.edu	37	17	4875566	4875566	+	Silent	SNP	T	T	C	rs238230	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	79	63	0	1	0	T|0.359;C|0.641	0.641	strong	.	CAMTA2	93	.	NM_001171167	exon16	c.A2838G	p.P946P	GTCCTCTGGAGCA	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13780991	13780991	+	Silent	SNP	C	C	T	rs111995400	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	55	89	0	0.504587	0	C|0.979;T|0.021	0.021	strong	.	DNAH5	868	.	NM_001369	exon53	c.G8898A	p.T2966T	CAACCTCGTCAGG	.	PASS	Atlas-SNP
GPR146	115330	hgsc.bcm.edu	37	7	1097183	1097183	+	Missense_Mutation	SNP	G	G	A	rs11761941	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	69	134	0	0.511111	0	G|0.903;A|0.097	0.097	strong	.	GPR146	20	.	NM_138445	exon1	c.G32A	p.G11E	GCACAGGGCTGGT	.	PASS	Atlas-SNP
MAVS	57506	hgsc.bcm.edu	37	20	3844929	3844929	+	Missense_Mutation	SNP	C	C	T	rs45437096	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	56	112	0	0.455285	0	C|0.888;T|0.112	0.112	strong	.	MAVS	34	.	NM_020746	exon6	c.C652T	p.R218C	CCATCCCGTGGGC	.	PASS	Atlas-SNP
ABCA2	20	hgsc.bcm.edu	37	9	139911983	139911983	+	Silent	SNP	T	T	G	rs12348881	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	34	59	0	0.390805	0	T|0.905;G|0.095	0.095	strong	.	ABCA2	113	.	NM_212533	exon17	c.A2463C	p.A821A	GTAGACTGCCAGG	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954560	30954560	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	13	94	0	0.0915493	0	.	.	none	.	MUC21	98	.	NM_001010909	exon2	c.C608T	p.T203I	GCACAACCTCCAG	.	PASS	Atlas-SNP
ZNF512B	57473	hgsc.bcm.edu	37	20	62595547	62595547	+	Missense_Mutation	SNP	C	C	T	rs6062599	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	41	51	0	0.44086	0	C|0.882;T|0.118	0.118	strong	ZNF512B,caecum,carcinoma,0,1	ZNF512B	72	1	NM_020713	exon8	c.G1357A	p.A453T	CTCGGGCCTTGTC	.	PASS	Atlas-SNP
OR2T4	127074	hgsc.bcm.edu	37	1	248525647	248525647	+	Silent	SNP	C	C	A	rs28405645	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	701	325	678	0	0.463623	0	C|0.790;A|0.210	0.210	strong	.	OR2T4	126	.	NM_001004696	exon1	c.C765A	p.L255L	CCTCCTCACCATC	.	PASS	Atlas-SNP
NCOA1	8648	hgsc.bcm.edu	37	2	24980955	24980955	+	Missense_Mutation	SNP	A	A	G	rs150066931	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	272	130	226	0	0.477941	0	A|0.999;G|0.001	0.001	strong	.	NCOA1	210	.	NM_147223	exon19	c.A3995G	p.N1332S	ACATGAACCCAAT	.	PASS	Atlas-SNP
MUM1	84939	hgsc.bcm.edu	37	19	1370742	1370742	+	Missense_Mutation	SNP	G	G	A	rs34502536	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	43	54	0	0.544304	0	G|0.988;A|0.012	0.012	strong	.	MUM1	54	.	NM_032853	exon12	c.G1654A	p.G552R	CCCCTGGGGCAGA	.	PASS	Atlas-SNP
PNPLA3	80339	hgsc.bcm.edu	37	22	44324727	44324727	+	Missense_Mutation	SNP	C	C	G	rs738409	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	34	141	0	0.377778	0	C|0.774;G|0.226	0.226	strong	PNPLA3,NS,carcinoma,0,1	PNPLA3	53	1	NM_025225	exon3	c.C444G	p.I148M	CTTCATCCCCTTC	.	PASS	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	37	6	51892977	51892977	+	Silent	SNP	A	A	G	rs141574387	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	58	81	0	0.604167	0	A|0.999;G|0.001	0.001	strong	.	PKHD1	927	.	NM_170724	exon30	c.T3537C	p.N1179N	GACCCCATTGATA	.	PASS	Atlas-SNP
CPT1A	1374	hgsc.bcm.edu	37	11	68560787	68560787	+	Silent	SNP	C	C	T	rs2229737	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	52	111	0	0.40625	0	C|0.914;T|0.086	0.086	strong	.	CPT1A	89	.	NM_001876	exon9	c.G963A	p.E321E	ACCTGTCTCCTCT	.	PASS	Atlas-SNP
ZNF250	58500	hgsc.bcm.edu	37	8	146108178	146108178	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	256	4	230	1	0.015625	0.00434783	.	.	none	ZNF250,NS,carcinoma,0,1	ZNF250	37	1	NM_021061	exon6	c.G405A	p.P135P	TGGCTTCGGACTC	.	scavenged	Atlas-SNP
BLVRA	644	hgsc.bcm.edu	37	7	43830888	43830888	+	Silent	SNP	T	T	C	rs1802846	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	54	165	0	0.469565	0	T|0.890;C|0.110	0.110	strong	BLVRA,NS,carcinoma,0,1	BLVRA	26	1	NM_001253823	exon5	c.T175C	p.L59L	ATTTCTTTGGAGG	.	PASS	Atlas-SNP
OR2A25	392138	hgsc.bcm.edu	37	7	143771937	143771937	+	Missense_Mutation	SNP	G	G	C	rs2961135	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	262	138	203	0	0.526718	0	G|0.409;C|0.590	0.590	strong	.	OR2A25	66	.	NM_001004488	exon1	c.G625C	p.A209P	GTGGGAGCCTTCT	.	PASS	Atlas-SNP
ITIH4	3700	hgsc.bcm.edu	37	3	52860816	52860816	+	Silent	SNP	C	C	T	rs2276816	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	70	114	0	0.5	0	C|0.919;T|0.081	0.081	strong	.	ITIH4	74	.	NM_001166449	exon4	c.G510A	p.K170K	CAGGTGCTTGACC	.	PASS	Atlas-SNP
OR51G2	81282	hgsc.bcm.edu	37	11	4935982	4935982	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	2	130	0	0.0135135	0	.	.	none	OR51G2,right_upper_lobe,carcinoma,-1,1	OR51G2	70	1	NM_001005238	exon1	c.C912T	p.I304I	ATCCCGGATCTGT	.	scavenged	Atlas-SNP
DYX1C1	161582	hgsc.bcm.edu	37	15	55759193	55759193	+	Missense_Mutation	SNP	T	T	C	rs600753	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	126	91	0	0.961832	0	T|0.503;C|0.497	0.497	strong	.	DYX1C1	54	.	NM_001033560	exon5	c.A572G	p.E191G	TTTCTTTCTTCTT	.	PASS	Atlas-SNP
GTF2I	2969	hgsc.bcm.edu	37	7	74105424	74105424	+	Silent	SNP	A	A	G	rs143931854	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	213	97	206	0	0.455399	0	A|0.999;G|0.001	0.001	strong	.	GTF2I	40	.	NM_032999	exon3	c.A219G	p.Q73Q	TTTTCAAAAAGAT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	48	48	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
HUS1B	135458	hgsc.bcm.edu	37	6	656343	656343	+	Missense_Mutation	SNP	T	T	C	rs17136239	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	53	98	0	0.469027	0	T|0.905;C|0.095	0.095	strong	.	HUS1B	26	.	NM_148959	exon1	c.A602G	p.Q201R	TAACTTTGAATGG	.	PASS	Atlas-SNP
KCNJ18	100134444	hgsc.bcm.edu	37	17	21318741	21318741	+	Silent	SNP	C	C	T	rs75113504	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	20	101	0	0.169492	0	C|0.883;T|0.117	0.117	strong	KCNJ12,NS,neuroblastoma,0,2	.	.	2	NM_001194958	exon3	c.C87T	p.N29N	CGCCAACGGCTTC	.	PASS	Atlas-SNP
SEC16B	89866	hgsc.bcm.edu	37	1	177923440	177923440	+	Silent	SNP	T	T	G	rs12129817	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	122	108	1	1	0.00925926	T|0.822;G|0.178	0.178	strong	.	SEC16B	92	.	NM_033127	exon11	c.A1437C	p.P479P	GGTCTGTGGGTCC	.	PASS	Atlas-SNP
POTEE	445582	hgsc.bcm.edu	37	2	132020976	132020976	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	404	162	428	1	0.40099	0.00233645	.	.	none	ENSG00000188219,NS,carcinoma,-1,1	.	.	1	NM_001083538	exon15	c.A1948G	p.T650A	AATAGTACGTTGC	.	scavenged	Atlas-SNP
NLRP13	126204	hgsc.bcm.edu	37	19	56416409	56416409	+	Silent	SNP	G	G	A	rs28506091	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	83	149	0	0.597122	0	G|0.922;A|0.078	0.078	strong	.	NLRP13	220	.	NM_176810	exon8	c.C2517T	p.H839H	AGTTACGTGTTGG	.	PASS	Atlas-SNP
DOCK10	55619	hgsc.bcm.edu	37	2	225750861	225750861	+	Silent	SNP	C	C	T	rs2304336	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	61	83	0	0.5	0	C|0.784;T|0.216	0.216	strong	DOCK10,colon,carcinoma,-1,1	DOCK10	308	1	NM_014689	exon6	c.G531A	p.A177A	TCCTCCCGCTCCT	.	PASS	Atlas-SNP
AMPH	273	hgsc.bcm.edu	37	7	38431481	38431481	+	Silent	SNP	C	C	A	rs1058655	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	86	111	0	0.605634	0	C|0.852;A|0.148	0.148	strong	.	AMPH	157	.	NM_001635	exon19	c.G1746T	p.P582P	CAGCTCCGGTGTC	.	PASS	Atlas-SNP
SPPL2C	162540	hgsc.bcm.edu	37	17	43924130	43924130	+	Missense_Mutation	SNP	G	G	A	rs12373139	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	63	89	0	0.470149	0	G|0.856;A|0.144	0.144	strong	.	.	.	.	NM_175882	exon1	c.G1858A	p.G620R	CCCCCTGGGGCCT	.	PASS	Atlas-SNP
OR5W2	390148	hgsc.bcm.edu	37	11	55681580	55681580	+	Missense_Mutation	SNP	A	A	G	rs17596519	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	44	66	0	0.494382	0	A|0.952;G|0.048	0.048	strong	.	OR5W2	112	.	NM_001001960	exon1	c.T479C	p.M160T	AGTGTCATATGTA	.	PASS	Atlas-SNP
CCDC86	79080	hgsc.bcm.edu	37	11	60610065	60610065	+	Silent	SNP	G	G	A	rs2074420	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	49	66	0	0.515789	0	G|0.725;A|0.275	0.275	strong	CCDC86,NS,carcinoma,0,1	CCDC86	24	1	NM_024098	exon1	c.G468A	p.P156P	ACCGCCGGTCCCA	.	PASS	Atlas-SNP
KIAA1683	80726	hgsc.bcm.edu	37	19	18377761	18377761	+	Missense_Mutation	SNP	A	A	G	rs12609001	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	48	94	0	0.475248	0	A|0.874;G|0.126	0.126	strong	.	KIAA1683	190	.	NM_001145304	exon3	c.T589C	p.C197R	TGTCACAGGAAGG	.	PASS	Atlas-SNP
SPON2	10417	hgsc.bcm.edu	37	4	1165764	1165764	+	Silent	SNP	C	C	T	rs11538062	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	63	145	0	0.512195	0	C|0.870;T|0.130	0.130	strong	.	SPON2	22	.	NM_012445	exon2	c.G96A	p.E32E	GATGGACTCTCCC	.	PASS	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	68	158	0	0.425	0	C|0.625;T|0.374	0.374	strong	.	IKBIP	46	.	NM_201612	exon3	c.G793A	p.G265S	TGTCACCTTCTAA	.	PASS	Atlas-SNP
PDXDC1	23042	hgsc.bcm.edu	37	16	15129940	15129940	+	Silent	SNP	C	C	T	rs3198697	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	51	49	0	0.980769	0	C|0.746;T|0.254	0.254	strong	.	PDXDC1	59	.	NM_015027	exon23	c.C2175T	p.H725H	CAGTCACATTGAA	.	PASS	Atlas-SNP
GBP7	388646	hgsc.bcm.edu	37	1	89599084	89599084	+	Missense_Mutation	SNP	G	G	C	rs79037912	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	536	70	415	0	0.130597	0	.	.	weak	GBP7,extremity,malignant_melanoma,0,1	GBP7	57	1	NM_207398	exon10	c.C1519G	p.Q507E	GTTTTTGTCTTAG	.	PASS	Atlas-SNP
SH3PXD2A	9644	hgsc.bcm.edu	37	10	105362104	105362104	+	Silent	SNP	G	G	A	rs11191741	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	6	93	1	0.115385	0.0107527	G|0.718;A|0.282	0.282	strong	SH3PXD2A,NS,neuroblastoma,0,1	SH3PXD2A	90	1	NM_014631	exon14	c.C2787T	p.F929F	CTTGCCGAAGCCC	.	scavenged	Atlas-SNP
TMEM109	79073	hgsc.bcm.edu	37	11	60689534	60689534	+	Missense_Mutation	SNP	C	C	T	rs75070807	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	37	25	0	0.616667	0	C|0.983;T|0.017	0.017	strong	.	TMEM109	24	.	NM_024092	exon4	c.C629T	p.A210V	CTGGGGCCCAACT	.	PASS	Atlas-SNP
MLF2	8079	hgsc.bcm.edu	37	12	6858126	6858126	+	Silent	SNP	G	G	A	rs2302371	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	77	140	0	0.574627	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
HNF1A	6927	hgsc.bcm.edu	37	12	121432117	121432117	+	Silent	SNP	G	G	C	rs56348580	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	22	25	0	0.488889	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
ZSCAN12	9753	hgsc.bcm.edu	37	6	28358320	28358320	+	Missense_Mutation	SNP	A	A	G	rs1361385	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	199	105	209	1	0.527638	0.00478469	A|0.632;G|0.368	0.368	strong	.	ZSCAN12	35	.	NM_001163391	exon4	c.T1747C	p.C583R	CTTTACATACATA	.	PASS	Atlas-SNP
BDP1	55814	hgsc.bcm.edu	37	5	70798541	70798541	+	Missense_Mutation	SNP	A	A	G	rs36009281	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	49	128	0	0.422414	0	A|0.949;G|0.051	0.051	strong	.	BDP1	204	.	NM_018429	exon15	c.A2164G	p.K722E	GAAAGAAAAGAAA	.	PASS	Atlas-SNP
OR8D4	338662	hgsc.bcm.edu	37	11	123777412	123777412	+	Missense_Mutation	SNP	A	A	G	rs17127950	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	80	157	0	0.47619	0	A|0.800;G|0.200	0.200	strong	.	OR8D4	62	.	NM_001005197	exon1	c.A274G	p.I92V	AGATCCATCTCCT	.	PASS	Atlas-SNP
FASTKD2	22868	hgsc.bcm.edu	37	2	207631461	207631461	+	Missense_Mutation	SNP	G	G	A	rs3762568	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	246	246	194	1	1	0.00515464	G|0.885;A|0.115	0.115	strong	.	FASTKD2	49	.	NM_001136193	exon2	c.G44A	p.S15N	TGGAGAGCAAAAT	.	PASS	Atlas-SNP
HAPLN4	404037	hgsc.bcm.edu	37	19	19369435	19369435	+	Silent	SNP	A	A	G	rs2074295	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	32	16	24	0	0.5	0	A|0.702;G|0.298	0.298	strong	HAPLN4,NS,carcinoma,0,3	HAPLN4	44	3	NM_023002	exon4	c.T714C	p.S238S	CCCTGCACTCCCG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	250	117	217	1	0.468	0.00460829	T|0.655;C|0.345	0.345	strong	.	PTPLAD2	26	.	NM_001010915	exon2	c.A106G	p.T36A	TATTTGTAAATAT	.	PASS	Atlas-SNP
DEAF1	10522	hgsc.bcm.edu	37	11	653968	653968	+	Silent	SNP	T	T	C	rs10615	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	24	63	0	0.48	0	T|0.726;C|0.274	0.274	strong	.	DEAF1	47	.	NM_021008	exon11	c.A1587G	p.Q529Q	CTTGCGTTGGCAG	.	PASS	Atlas-SNP
EVPL	2125	hgsc.bcm.edu	37	17	74005611	74005611	+	Silent	SNP	G	G	A	rs75019874	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	58	137	0	0.432836	0	G|0.983;A|0.017	0.017	strong	.	EVPL	155	.	NM_001988	exon22	c.C3675T	p.S1225S	CACACCGCTCCTC	.	PASS	Atlas-SNP
USP29	57663	hgsc.bcm.edu	37	19	57642413	57642413	+	Missense_Mutation	SNP	C	C	A	rs35394887	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	60	105	0	0.46875	0	C|0.996;A|0.004	0.004	strong	.	USP29	186	.	NM_020903	exon4	c.C2370A	p.D790E	TTCTGACAACCCA	.	PASS	Atlas-SNP
LRRC55	219527	hgsc.bcm.edu	37	11	56949691	56949691	+	Missense_Mutation	SNP	G	G	A	rs12364102	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	175	82	144	0	0.468571	0	G|0.920;A|0.080	0.080	strong	.	LRRC55	52	.	NM_001005210	exon1	c.G324A	p.M108I	GCCAATGGACACC	.	PASS	Atlas-SNP
TMEM17	200728	hgsc.bcm.edu	37	2	62733189	62733189	+	Missense_Mutation	SNP	C	C	T	rs17854454	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	107	110	0	0.636905	0	C|0.865;T|0.135	0.135	strong	.	TMEM17	19	.	NM_198276	exon1	c.G76A	p.G26S	CTGGACCGGTCCG	.	PASS	Atlas-SNP
ATRX	546	hgsc.bcm.edu	37	X	76937963	76937963	+	Missense_Mutation	SNP	G	G	C	rs3088074	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	121	106	0	0.930769	0	G|0.461;0|0.024	.	strong	.	ATRX	833	.	NM_000489	exon9	c.C2785G	p.Q929E	AACTCTGCTCTTT	.	PASS	Atlas-SNP
BIRC6	57448	hgsc.bcm.edu	37	2	32690189	32690189	+	Silent	SNP	A	A	G	rs35682129	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	181	265	0	0.978378	0	A|0.932;G|0.068	0.068	strong	BIRC6_ENST00000421745,caecum,carcinoma,0,11	BIRC6	838	11	NM_016252	exon26	c.A5313G	p.Q1771Q	TCTTCAACCTCCG	.	PASS	Atlas-SNP
SIPA1L2	57568	hgsc.bcm.edu	37	1	232534957	232534957	+	Silent	SNP	T	T	C	rs12043251	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	53	66	0	0.504762	0	T|0.628;C|0.372	0.372	strong	.	SIPA1L2	218	.	NM_020808	exon21	c.A5085G	p.R1695R	CTGCAGTCTCATG	.	PASS	Atlas-SNP
LCE1F	353137	hgsc.bcm.edu	37	1	152748962	152748962	+	Missense_Mutation	SNP	C	C	T	rs116630978	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	7	132	0	0.0482759	0	C|0.998;T|0.002	0.002	strong	LCE1F,NS,carcinoma,0,2	LCE1F	42	2	NM_178354	exon1	c.C115T	p.P39S	TGCCCTCCTGTCT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	60	97	0	0.508475	0	C|0.606;G|0.394	0.394	strong	.	.	.	.	NM_001007249	exon1	c.C17G	p.S6C	TTTCCTCCGTAGA	.	PASS	Atlas-SNP
GJB5	2709	hgsc.bcm.edu	37	1	35223345	35223345	+	Silent	SNP	G	G	A	rs3738345	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	143	95	0	0.979452	0	G|0.718;A|0.282	0.282	strong	GJB5,NS,carcinoma,0,1	GJB5	35	1	NM_005268	exon2	c.G414A	p.K138K	GTTCAAGGCGAGC	.	PASS	Atlas-SNP
EAPP	55837	hgsc.bcm.edu	37	14	34985645	34985645	+	Silent	SNP	G	G	A	rs7797	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	245	126	261	0	0.514286	0	G|0.697;A|0.303	0.303	strong	.	EAPP	28	.	NM_018453	exon6	c.C729T	p.A243A	CTTCTCGGCAGCA	.	PASS	Atlas-SNP
MATN2	4147	hgsc.bcm.edu	37	8	99019799	99019799	+	Missense_Mutation	SNP	G	G	A	rs372608950		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	51	75	0	0.536842	0	.	.	weak	.	MATN2	165	.	NM_002380	exon10	c.G1543A	p.V515M	GGACACGTGCTCC	.	PASS	Atlas-SNP
STEAP1B	256227	hgsc.bcm.edu	37	7	22532336	22532336	+	Missense_Mutation	SNP	T	T	C	rs149580813	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	108	151	0	0.537313	0	T|0.936;C|0.064	0.064	strong	.	STEAP1B	22	.	NM_001164460	exon4	c.A610G	p.K204E	CTTCTTTATTTTG	.	PASS	Atlas-SNP
IL17RD	54756	hgsc.bcm.edu	37	3	57136585	57136585	+	Missense_Mutation	SNP	C	C	T	rs17057718	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	73	121	0	0.453416	0	C|0.840;T|0.160	0.160	strong	.	IL17RD	93	.	NM_017563	exon10	c.G901A	p.V301M	TGGCCACGGCTCT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	100	102	0	0.990099	0	C|0.767;T|0.232	0.232	strong	.	CYP39A1	41	.	NM_016593	exon2	c.G308A	p.R103H	CCTGTACGATAAA	.	PASS	Atlas-SNP
CHML	1122	hgsc.bcm.edu	37	1	241798631	241798631	+	Silent	SNP	C	C	T	rs3737604	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	93	132	1	0.534483	0.00757576	C|0.714;T|0.286	0.286	strong	CHML,bladder,carcinoma,-1,2	CHML	82	2	NM_001821	exon1	c.G438A	p.S146S	AAAATACGATAAC	.	scavenged	Atlas-SNP
TIAL1	7073	hgsc.bcm.edu	37	10	121336248	121336248	+	Silent	SNP	T	T	C	rs12356865	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	66	126	0	0.458333	0	T|0.953;C|0.047	0.047	strong	TIAL1,NS,carcinoma,-2,2	TIAL1	47	2	NM_001033925	exon11	c.A927G	p.Q309Q	GCCCCATTGACTA	.	PASS	Atlas-SNP
ZNF582	147948	hgsc.bcm.edu	37	19	56895496	56895496	+	Silent	SNP	C	C	T	rs12978696	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	45	86	0	0.441176	0	C|0.865;T|0.135	0.135	strong	.	ZNF582	56	.	NM_144690	exon5	c.G1290A	p.K430K	AAAAGCCTTCCCA	.	PASS	Atlas-SNP
TSNARE1	203062	hgsc.bcm.edu	37	8	143413136	143413136	+	Missense_Mutation	SNP	C	C	T	rs10435683	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	51	91	0	0.490385	0	C|0.605;T|0.395	0.395	strong	TSNARE1,NS,carcinoma,0,1	TSNARE1	59	1	NM_145003	exon5	c.G802A	p.V268I	GGAAGACGTTGGC	.	PASS	Atlas-SNP
TNC	3371	hgsc.bcm.edu	37	9	117803271	117803271	+	Missense_Mutation	SNP	C	C	T	rs2274750	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	231	117	230	2	0.506494	0.00869565	C|0.937;T|0.063	0.063	strong	TNC,NS,carcinoma,+2,1	TNC	282	1	NM_002160	exon19	c.G5341A	p.A1781T	TCATGGCGATGAT	.	scavenged	Atlas-SNP
CCDC50	152137	hgsc.bcm.edu	37	3	191093310	191093310	+	Missense_Mutation	SNP	A	A	G	rs4677728	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	86	86	0	0.988506	0	A|0.502;G|0.498	0.498	strong	.	CCDC50	39	.	NM_178335	exon6	c.A908G	p.K303R	ACAGAAAAAGGAG	.	PASS	Atlas-SNP
COL11A1	1301	hgsc.bcm.edu	37	1	103405892	103405892	+	Silent	SNP	G	G	A	rs17127270	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	69	137	0	0.463087	0	G|0.843;A|0.157	0.157	strong	.	COL11A1	972	.	NM_080629	exon43	c.C3411T	p.D1137D	GTCTCCGTCTTCC	.	PASS	Atlas-SNP
MAML1	9794	hgsc.bcm.edu	37	5	179193598	179193598	+	Silent	SNP	C	C	T	rs3797776	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	104	99	0	1	0	C|0.800;T|0.200	0.200	strong	.	MAML1	118	.	NM_014757	exon2	c.C1587T	p.S529S	AGGCAGCCCGGGG	.	PASS	Atlas-SNP
STK31	56164	hgsc.bcm.edu	37	7	23811822	23811822	+	Silent	SNP	A	A	G	rs147172261		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	93	166	0	0.5	0	A|1.000;G|0.000	0.000	weak	STK31,NS,carcinoma,+2,1	STK31	175	1	NM_031414	exon15	c.A1890G	p.L630L	CTTGCTATCCATT	.	PASS	Atlas-SNP
TMEM128	85013	hgsc.bcm.edu	37	4	4239589	4239589	+	Missense_Mutation	SNP	C	C	T	rs2433883	by2hit2allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	387	30	371	1	0.0775194	0.00269542	.	.	weak	TMEM128,NS,carcinoma,+2,1	TMEM128	12	1	NM_032927	exon4	c.G400A	p.V134I	ACATGACAACCCC	.	scavenged	Atlas-SNP
PPARGC1B	133522	hgsc.bcm.edu	37	5	149212590	149212590	+	Silent	SNP	C	C	T	rs144195384	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	95	180	0	0.505319	0	C|0.998;T|0.002	0.002	strong	.	PPARGC1B	74	.	NM_133263	exon5	c.C954T	p.N318N	CAGCAACCCCTCC	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169510233	169510233	+	Silent	SNP	G	G	A	rs9332607	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	339	169	287	1	0.498525	0.00348432	G|0.698;A|0.302	0.302	strong	.	F5	301	.	NM_000130	exon13	c.C4095T	p.T1365T	AGAAAGGGTTGTA	.	PASS	Atlas-SNP
MRO	83876	hgsc.bcm.edu	37	18	48333203	48333203	+	Missense_Mutation	SNP	C	C	G	rs4940019	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	30	66	0	0.447761	0	C|0.579;G|0.421	0.421	strong	.	MRO	36	.	NM_001127175	exon3	c.G159C	p.R53S	CTGGAACCTCAGT	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144992862	144992862	+	Silent	SNP	A	A	G	rs7819099	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	41	69	0	0.506173	0	A|0.555;G|0.445	0.445	strong	PLEC_ENST00000436759,NS,carcinoma,0,3	PLEC	1144	3	NM_201380	exon32	c.T11538C	p.A3846A	CTTGAGAGCCTGG	.	PASS	Atlas-SNP
OCSTAMP	128506	hgsc.bcm.edu	37	20	45174026	45174026	+	Silent	SNP	A	A	C	rs202396	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	44	65	0	0.578947	0	A|0.805;C|0.195	0.195	strong	.	OCSTAMP	34	.	NM_080721	exon2	c.T987G	p.A329A	CACAGTAGCCTGT	.	PASS	Atlas-SNP
APOB	338	hgsc.bcm.edu	37	2	21250914	21250914	+	Missense_Mutation	SNP	G	G	A	rs679899	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	77	171	0	0.445087	0	G|0.577;A|0.423	0.423	strong	.	APOB	761	.	NM_000384	exon14	c.C1853T	p.A618V	TTCAGAGCTTCTT	.	PASS	Atlas-SNP
ANO7	50636	hgsc.bcm.edu	37	2	242129524	242129524	+	Missense_Mutation	SNP	G	G	A	rs34069570	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	240	118	201	0	0.491667	0	G|0.983;A|0.017	0.017	strong	.	ANO7	136	.	NM_001001666	exon2	c.G208A	p.D70N	CTGATCGATGTGA	.	PASS	Atlas-SNP
SLC35G5	83650	hgsc.bcm.edu	37	8	11189616	11189616	+	Missense_Mutation	SNP	G	G	A	rs200495954		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	10	121	0	0.102041	0	G|0.999;A|0.001	0.001	weak	AMAC1L2,right_upper_lobe,carcinoma,+1,1	.	.	1	NM_054028	exon1	c.G1001A	p.G334E	GGACAGGGAAGGT	.	scavenged	Atlas-SNP
OMA1	115209	hgsc.bcm.edu	37	1	58971831	58971831	+	Silent	SNP	G	G	A	rs3087585	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	78	114	0	0.557143	0	G|0.701;A|0.299	0.299	strong	.	OMA1	50	.	NM_145243	exon8	c.C1266T	p.F422F	ATCAACGAACTCC	.	PASS	Atlas-SNP
C1orf85	112770	hgsc.bcm.edu	37	1	156264648	156264648	+	Missense_Mutation	SNP	C	C	T	rs1570805	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	92	135	0	0.486772	0	C|0.930;T|0.070	0.070	strong	.	C1orf85	41	.	NM_001256608	exon2	c.G280A	p.V94I	AGTTGACGCTCAG	.	PASS	Atlas-SNP
TMEM259	91304	hgsc.bcm.edu	37	19	1014377	1014377	+	Silent	SNP	A	A	G	rs1058506	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	48	153	0	0.355556	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
RERE	473	hgsc.bcm.edu	37	1	8425900	8425900	+	Silent	SNP	T	T	C	rs3753275	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	41	72	0	0.460674	0	T|0.771;C|0.229	0.229	strong	.	RERE	129	.	NM_012102	exon14	c.A1419G	p.T473T	GGAGGGTGTGTTG	.	PASS	Atlas-SNP
OR5A1	219982	hgsc.bcm.edu	37	11	59210761	59210761	+	Silent	SNP	C	C	G	rs11605572	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	40	67	0	0.481928	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
NANOS3	342977	hgsc.bcm.edu	37	19	13988416	13988416	+	Silent	SNP	A	A	G	rs2016163	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	36	56	0	0.537313	0	A|0.677;G|0.323	0.323	strong	NANOS3,NS,carcinoma,0,1	NANOS3	19	1	NM_001098622	exon1	c.A354G	p.T118T	CGCCACACGTGAG	.	PASS	Atlas-SNP
SDK1	221935	hgsc.bcm.edu	37	7	4213975	4213975	+	Missense_Mutation	SNP	A	A	G	rs671694	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	85	90	0	1	0	A|0.203;G|0.797	0.797	strong	.	SDK1	361	.	NM_152744	exon33	c.A4922G	p.H1641R	CTTTACATGCTGA	.	PASS	Atlas-SNP
TSPAN13	27075	hgsc.bcm.edu	37	7	16823095	16823095	+	Silent	SNP	G	G	A	rs11491	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	66	61	0	1	0	T|0.000;G|0.537;C|0.000;A|0.463	0.463	strong	TSPAN13,NS,carcinoma,0,1	TSPAN13	13	1	NM_014399	exon6	c.G594A	p.A198A	CCGCGCGAATCCT	.	PASS	Atlas-SNP
TBL3	10607	hgsc.bcm.edu	37	16	2026292	2026292	+	Silent	SNP	T	T	C	rs17604	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	84	128	0	0.528302	0	T|0.923;C|0.077	0.077	strong	.	TBL3	54	.	NM_006453	exon13	c.T1269C	p.S423S	ACACAGTGTGGGC	.	PASS	Atlas-SNP
CAV3	859	hgsc.bcm.edu	37	3	8775661	8775661	+	Silent	SNP	C	C	T	rs1008642	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	65	71	0	1	0	C|0.636;T|0.364	0.364	strong	.	CAV3	20	.	NM_033337	exon1	c.C99T	p.N33N	CATTAACGAGGAC	.	PASS	Atlas-SNP
OBP2A	29991	hgsc.bcm.edu	37	9	138440624	138440624	+	Silent	SNP	G	G	C	rs3827835	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	75	135	0	0.496689	0	A|0.001;C|0.197;G|0.802	0.197	strong	.	OBP2A	21	.	NM_014582	exon5	c.G459C	p.S153S	ACTCTCGGAGGAG	.	PASS	Atlas-SNP
SLC8A2	6543	hgsc.bcm.edu	37	19	47969394	47969394	+	Silent	SNP	G	G	A	rs12459087	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	183	86	171	0	0.469945	0	G|0.927;A|0.073	0.073	strong	.	SLC8A2	77	.	NM_015063	exon2	c.C267T	p.I89I	GTCGGCGATGATG	.	PASS	Atlas-SNP
ACPT	93650	hgsc.bcm.edu	37	19	51297826	51297826	+	Missense_Mutation	SNP	C	C	A	rs55735528	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	37	67	0	0.425287	0	C|0.752;A|0.248	0.248	strong	.	ACPT	43	.	NM_033068	exon9	c.C974A	p.A325D	ATCCCGCCAAAGA	.	PASS	Atlas-SNP
ZNF696	79943	hgsc.bcm.edu	37	8	144378184	144378184	+	Silent	SNP	C	C	G	rs2235115	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	46	24	54	0	0.521739	0	C|0.518;G|0.482	0.482	strong	.	ZNF696	18	.	NM_030895	exon3	c.C339G	p.G113G	CCCCGGCGCAGAG	.	PASS	Atlas-SNP
CACNA1H	8912	hgsc.bcm.edu	37	16	1269029	1269029	+	Silent	SNP	T	T	C	rs2738893	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	195	195	199	0	1	0	T|0.277;C|0.723	0.723	strong	.	CACNA1H	317	.	NM_021098	exon34	c.T5947C	p.L1983L	ATCCCATTGGCTG	.	PASS	Atlas-SNP
CPSF6	11052	hgsc.bcm.edu	37	12	69646914	69646914	+	Silent	SNP	G	G	A	rs2305641	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	356	153	341	1	0.429775	0.00293255	G|0.568;A|0.432	0.432	strong	.	CPSF6	96	.	NM_007007	exon3	c.G354A	p.R118R	AAATCGGGCAAAT	.	PASS	Atlas-SNP
POM121L12	285877	hgsc.bcm.edu	37	7	53103794	53103794	+	Missense_Mutation	SNP	C	C	T	rs73357087	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	29	12	22	0	0.413793	0	C|0.843;T|0.157	0.157	strong	POM121L12,NS,carcinoma,-1,1	POM121L12	146	1	NM_182595	exon1	c.C430T	p.P144S	GCGCCCCCTGAGC	.	PASS	Atlas-SNP
CLK1	1195	hgsc.bcm.edu	37	2	201728858	201728858	+	Missense_Mutation	SNP	C	C	T	rs140874256	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	44	71	0	0.594595	0	C|0.998;T|0.002	0.002	strong	.	CLK1	103	.	NM_001162407	exon1	c.G92A	p.R31H	GGCTCACGCACAT	.	PASS	Atlas-SNP
AUNIP	79000	hgsc.bcm.edu	37	1	26162313	26162313	+	Missense_Mutation	SNP	T	T	G	rs34449716	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	66	135	0	0.488889	0	T|0.963;G|0.037	0.037	strong	C1orf135,NS,carcinoma,+1,1	AUNIP	1	1	NM_024037	exon3	c.A245C	p.K82T	ACACTCTTCTGGT	.	PASS	Atlas-SNP
D2HGDH	728294	hgsc.bcm.edu	37	2	242690745	242690745	+	Missense_Mutation	SNP	C	C	T	rs1105273	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	63	130	0	0.398734	0	C|0.817;T|0.183	0.183	strong	D2HGDH,NS,carcinoma,-1,1	D2HGDH	39	1	NM_152783	exon8	c.C1082T	p.A361V	AGCACGCGCTGGG	.	PASS	Atlas-SNP
SMC5	23137	hgsc.bcm.edu	37	9	72897440	72897440	+	Missense_Mutation	SNP	T	T	C	rs1180117	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	336	167	347	1	0.497024	0.00288184	T|0.778;C|0.222	0.222	strong	.	SMC5	96	.	NM_015110	exon7	c.T922C	p.C308R	GTAACATGTCGAA	.	PASS	Atlas-SNP
OR1N2	138882	hgsc.bcm.edu	37	9	125316350	125316350	+	Missense_Mutation	SNP	C	C	T	rs1411272	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	76	162	1	0.431818	0.00617284	C|0.431;N|0.000	.	strong	OR1N2,NS,carcinoma,0,1	OR1N2	51	1	NM_001004457	exon1	c.C902T	p.T301M	TTCCCACGCTAAA	.	scavenged	Atlas-SNP
SLC25A29	123096	hgsc.bcm.edu	37	14	100759046	100759046	+	Silent	SNP	C	C	A	rs3825555	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	22	10	28	0	0.454545	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
DKK2	27123	hgsc.bcm.edu	37	4	107845794	107845794	+	Missense_Mutation	SNP	C	C	T	rs17037102	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	331	4	269	2	0.0120846	0.00743494	C|0.879;T|0.121	0.121	strong	DKK2,NS,carcinoma,0,3	DKK2	96	3	NM_014421	exon3	c.G437A	p.R146Q	CTGTGCCGAGTAC	.	scavenged	Atlas-SNP
SPATA16	83893	hgsc.bcm.edu	37	3	172766822	172766822	+	Silent	SNP	G	G	A	rs508508	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	76	103	1	0.539007	0.00970874	G|0.824;A|0.176	0.176	strong	SPATA16,NS,haematopoietic_neoplasm,-1,2	SPATA16	111	2	NM_031955	exon3	c.C675T	p.S225S	TGCCACGCTTGCT	.	scavenged	Atlas-SNP
RTTN	25914	hgsc.bcm.edu	37	18	67687860	67687860	+	Silent	SNP	T	T	C	rs2304378	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	75	124	0	0.431034	0	T|0.826;C|0.174	0.174	strong	.	RTTN	184	.	NM_173630	exon45	c.A6144G	p.V2048V	CTGAATTACTCCT	.	PASS	Atlas-SNP
EID2	163126	hgsc.bcm.edu	37	19	40030704	40030704	+	Missense_Mutation	SNP	C	C	T	rs7252027	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	58	58	0	1	0	C|0.788;T|0.212	0.212	strong	.	EID2	14	.	NM_153232	exon1	c.G16A	p.A6T	TGTCTGCGGGCAG	.	PASS	Atlas-SNP
ZAK	0	hgsc.bcm.edu	37	2	174128513	174128513	+	Missense_Mutation	SNP	C	C	T	rs3769148	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	88	115	0	0.56051	0	C|0.702;T|0.298	0.298	strong	.	ZAK	62	.	NM_016653	exon19	c.C1592T	p.S531L	TCCATTCGATTCA	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179444939	179444939	+	Missense_Mutation	SNP	C	C	T	rs2303838	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	64	131	0	0.423841	0	C|0.677;T|0.323	0.323	strong	.	TTN	18412	.	NM_001267550	exon318	c.G67075A	p.V22359I	CATTGACAGGTGG	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10466309	10466309	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	5	143	0	0.0271739	0	.	.	none	RP1L1,right_upper_lobe,carcinoma,0,1	RP1L1	453	1	NM_178857	exon4	c.G5299A	p.A1767T	CCATTGCATCTCC	.	scavenged	Atlas-SNP
DENND1A	57706	hgsc.bcm.edu	37	9	126220114	126220114	+	Silent	SNP	C	C	T	rs61736953	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	45	58	0	0.592105	0	C|0.921;T|0.079	0.079	strong	.	DENND1A	112	.	NM_024820	exon14	c.G1056A	p.R352R	GAACTGCCTCATG	.	PASS	Atlas-SNP
ARHGEF40	55701	hgsc.bcm.edu	37	14	21557021	21557021	+	Silent	SNP	G	G	A	rs74584322	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	77	123	1	0.490446	0.00813008	G|0.965;A|0.035	0.035	strong	ARHGEF40,colon,carcinoma,0,1	ARHGEF40	84	1	NM_018071	exon23	c.G4551A	p.T1517T	CACCACGCCTCTG	.	scavenged	Atlas-SNP
AKR1C4	1109	hgsc.bcm.edu	37	10	5242164	5242164	+	Silent	SNP	A	A	G	rs17306779	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	230	113	196	0	0.491304	0	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	.	PASS	Atlas-SNP
DRD2	1813	hgsc.bcm.edu	37	11	113283484	113283484	+	Missense_Mutation	SNP	G	G	C	rs1801028	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	264	135	222	1	0.511364	0.0045045	G|0.982;C|0.018	0.018	strong	.	DRD2	98	.	NM_000795	exon7	c.C932G	p.S311C	TGGTGGGACGGGT	.	PASS	Atlas-SNP
WDR65	149465	hgsc.bcm.edu	37	1	43652442	43652442	+	Missense_Mutation	SNP	G	G	C	rs11210805	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	92	69	0	0.989247	0	G|0.929;C|0.071	0.071	strong	.	WDR65	76	.	NM_152498	exon6	c.G1034C	p.C345S	GCCTGTGCTTCAG	.	PASS	Atlas-SNP
HLA-DPA1	3113	hgsc.bcm.edu	37	6	33037579	33037579	+	Missense_Mutation	SNP	A	A	T	rs36013091	alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	63	186	0	0.379518	0	.	.	alt	.	HLA-DPA1	20	.	NM_033554	exon2	c.T185A	p.M62K	TAGAACATCTCAT	.	PASS	Atlas-SNP
CCDC69	26112	hgsc.bcm.edu	37	5	150565008	150565008	+	Missense_Mutation	SNP	C	C	T	rs248427	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	44	133	0	0.494382	0	A|0.000;C|0.559;G|0.000;N|0.000;T|0.441	0.441	strong	.	CCDC69	30	.	NM_015621	exon7	c.G590A	p.R197K	AGCCGCCTGTCCA	.	PASS	Atlas-SNP
UNC13A	23025	hgsc.bcm.edu	37	19	17743622	17743622	+	Missense_Mutation	SNP	C	C	A	rs75595663	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	85	153	0	0.544872	0	C|0.950;A|0.050	0.050	strong	UNC13A_ENST00000519716,colon,carcinoma,0,1	UNC13A	299	1	NM_001080421	exon27	c.G3397T	p.A1133S	TGAAGGCGGGAAG	.	PASS	Atlas-SNP
RAP1GAP2	23108	hgsc.bcm.edu	37	17	2929674	2929674	+	Silent	SNP	T	T	C	rs12941934	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	217	106	226	0	0.488479	0	T|0.421;C|0.579	0.579	strong	RAP1GAP2_ENST00000254695,NS,lymphoid_neoplasm,0,2	RAP1GAP2	90	2	NM_015085	exon21	c.T1896C	p.R632R	CGGCCGTGCCATC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	72	145	2	0.436364	0.0137931	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	.	scavenged	Atlas-SNP
PDZD2	23037	hgsc.bcm.edu	37	5	32093070	32093070	+	Silent	SNP	G	G	A	rs16889442	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	232	101	204	0	0.435345	0	G|0.904;A|0.096	0.096	strong	.	PDZD2	306	.	NM_178140	exon20	c.G7785A	p.S2595S	TTTATCGTCAGTG	.	PASS	Atlas-SNP
GDPD4	220032	hgsc.bcm.edu	37	11	76954812	76954812	+	Missense_Mutation	SNP	T	T	C	rs11237145	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	33	95	0	0.388235	0	C|0.254;N|0.000	0.254	strong	.	GDPD4	49	.	NM_182833	exon12	c.A1168G	p.I390V	TTTCAATGGATAC	.	PASS	Atlas-SNP
CHI3L2	1117	hgsc.bcm.edu	37	1	111778325	111778325	+	Missense_Mutation	SNP	C	C	T	rs11556868	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	238	116	187	0	0.487395	0	C|0.915;T|0.085	0.085	strong	.	CHI3L2	38	.	NM_004000	exon6	c.C545T	p.A182V	TGACTGCGGGCGT	.	PASS	Atlas-SNP
ZNF682	91120	hgsc.bcm.edu	37	19	20116963	20116963	+	Missense_Mutation	SNP	C	C	T	rs17679334	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	18	46	0	0.327273	0	C|0.804;T|0.196	0.196	strong	.	ZNF682	51	.	NM_033196	exon4	c.G1348A	p.V450I	GTTTGACGGCAGT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	77	147	0	0.509934	0	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	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152286126	152286126	+	Silent	SNP	A	A	G	rs11582620	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	172	117	0	0.99422	0	A|0.918;G|0.082	0.082	strong	FLG,NS,carcinoma,0,1	FLG	900	1	NM_002016	exon3	c.T1236C	p.R412R	GTGTCCACGATCG	.	PASS	Atlas-SNP
PLCB1	23236	hgsc.bcm.edu	37	20	8130943	8130943	+	Missense_Mutation	SNP	C	C	T	rs16994453	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	111	170	0	0.552239	0	C|0.817;T|0.183	0.183	strong	.	PLCB1	394	.	NM_015192	exon2	c.A102T	p.Q34H	CTAGGACTCAACT	.	PASS	Atlas-SNP
ANO7	50636	hgsc.bcm.edu	37	2	242129487	242129487	+	Silent	SNP	G	G	T	rs11695874	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	197	105	159	0	0.532995	0	G|0.805;T|0.195	0.195	strong	.	ANO7	136	.	NM_001001666	exon2	c.G171T	p.R57R	GCTGCGGCGACGG	.	PASS	Atlas-SNP
SYT10	341359	hgsc.bcm.edu	37	12	33535289	33535289	+	Silent	SNP	G	G	A	rs10844571	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	59	106	0	0.475806	0	G|0.800;A|0.200	0.200	strong	.	SYT10	109	.	NM_198992	exon5	c.C1365T	p.Y455Y	CCTATCGTAATCC	.	PASS	Atlas-SNP
NBEAL2	23218	hgsc.bcm.edu	37	3	47043538	47043538	+	Silent	SNP	C	C	T	rs2305634	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	31	69	0	0.392405	0	C|0.518;G|0.000;T|0.481	0.481	strong	NBEAL2_ENST00000450053,NS,carcinoma,0,4	NBEAL2	267	4	NM_015175	exon31	c.C4911T	p.S1637S	CTCTTCCTTGGAG	.	PASS	Atlas-SNP
TMEM39B	55116	hgsc.bcm.edu	37	1	32557486	32557486	+	Silent	SNP	A	A	G	rs744455	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	52	101	0	0.444444	0	A|0.849;G|0.151	0.151	strong	.	TMEM39B	66	.	NM_018056	exon6	c.A801G	p.S267S	CCTGTCACCCAGC	.	PASS	Atlas-SNP
YME1L1	10730	hgsc.bcm.edu	37	10	27434483	27434483	+	Silent	SNP	G	G	A	rs2274634	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	48	141	0	0.384	0	G|0.727;A|0.273	0.273	strong	.	YME1L1	71	.	NM_139312	exon4	c.C376T	p.L126L	TTTTTAGTTCAGA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	78	108	0	0.509804	0	G|0.521;N|0.000	0.521	strong	.	PCDHA3	396	.	NM_031497	exon1	c.A952G	p.I318V	TATGAAATCCAGG	.	PASS	Atlas-SNP
C17orf70	80233	hgsc.bcm.edu	37	17	79514129	79514129	+	Missense_Mutation	SNP	G	G	A	rs11552304	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	87	115	0	0.617021	0	G|0.418;A|0.582	0.582	strong	.	C17orf70	79	.	NM_025161	exon5	c.C1979T	p.P660L	TGTGGCGGGGCCA	.	PASS	Atlas-SNP
CELA3A	10136	hgsc.bcm.edu	37	1	22336308	22336308	+	Silent	SNP	G	G	A	rs12908	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	248	114	257	0	0.459677	0	G|0.745;A|0.255	0.255	strong	CELA3A,NS,carcinoma,+2,1	CELA3A	35	1	NM_005747	exon7	c.G753A	p.T251T	GCCCACGGTGTTC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	24	37	0	0.615385	0	G|0.485;A|0.515	0.515	strong	.	MYO15A	268	.	NM_016239	exon2	c.G1783A	p.A595T	CAGAAGGCCCGGG	.	PASS	Atlas-SNP
SDK1	221935	hgsc.bcm.edu	37	7	4218155	4218155	+	Missense_Mutation	SNP	G	G	A	rs141831391	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	42	23	43	0	0.547619	0	G|0.996;A|0.004	0.004	strong	.	SDK1	361	.	NM_152744	exon35	c.G5035A	p.A1679T	ATGACCGCCTATA	.	PASS	Atlas-SNP
C5orf58	133874	hgsc.bcm.edu	37	5	169661994	169661994	+	Missense_Mutation	SNP	G	G	C	rs957998	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	103	182	0	0.990385	0	G|0.480;C|0.520	0.520	strong	.	C5orf58	13	.	NM_001102609	exon3	c.G77C	p.R26P	AGAAGCGTGTTAC	.	PASS	Atlas-SNP
LRRC14B	389257	hgsc.bcm.edu	37	5	192467	192467	+	Missense_Mutation	SNP	G	G	A	rs78454293	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	102	132	0	0.539683	0	G|0.996;A|0.004	0.004	strong	.	LRRC14B	30	.	NM_001080478	exon1	c.G814A	p.A272T	TCCATCGCCCGGG	.	PASS	Atlas-SNP
C12orf54	121273	hgsc.bcm.edu	37	12	48888594	48888594	+	Missense_Mutation	SNP	C	C	T	rs11458	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	52	89	0	0.412698	0	C|0.697;T|0.303	0.303	strong	.	C12orf54	11	.	NM_152319	exon8	c.C256T	p.P86S	AGGCCTCCAGATT	.	PASS	Atlas-SNP
SYCE1L	100130958	hgsc.bcm.edu	37	16	77246218	77246218	+	Missense_Mutation	SNP	G	G	A	rs13331769	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	17	17	12	0	1	0	G|0.598;A|0.402	0.402	strong	SYCE1L,NS,carcinoma,0,1	SYCE1L	10	1	NM_001129979	exon9	c.G533A	p.R178Q	AGCGGCGGCTGCA	.	PASS	Atlas-SNP
POTEE	445582	hgsc.bcm.edu	37	2	132021908	132021908	+	Silent	SNP	G	G	A	rs76904766		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	41	165	0	0.222826	0	A|1.000;|0.000	1.000	weak	.	.	.	.	NM_001083538	exon15	c.G2880A	p.A960A	CGAGGCGCTCTTC	.	PASS	Atlas-SNP
HID1	283987	hgsc.bcm.edu	37	17	72949146	72949146	+	Silent	SNP	C	C	T	rs2307010	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	179	253	0	1	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
PTPN7	5778	hgsc.bcm.edu	37	1	202129895	202129895	+	Missense_Mutation	SNP	G	G	A	rs3935295	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	35	59	0	0.564516	0	G|0.868;A|0.132	0.132	strong	.	PTPN7	31	.	NM_002832	exon1	c.C41T	p.T14M	GGCCCCGTTCCCT	.	PASS	Atlas-SNP
FRMPD2	143162	hgsc.bcm.edu	37	10	49383976	49383976	+	Missense_Mutation	SNP	T	T	C	rs76009671		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	392	117	342	1	0.298469	0.00292398	T|0.500;C|0.500	0.500	weak	FRMPD2,NS,carcinoma,0,1	FRMPD2	157	1	NM_001018071	exon23	c.A2902G	p.I968V	TGTTAATGCCACC	.	scavenged	Atlas-SNP
ATP8A2	51761	hgsc.bcm.edu	37	13	26148966	26148966	+	Silent	SNP	C	C	T	rs6491066	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	65	114	0	0.496183	0	C|0.420;T|0.580	0.580	strong	.	ATP8A2	181	.	NM_016529	exon19	c.C1683T	p.F561F	AACATTCGGAATC	.	PASS	Atlas-SNP
CCDC40	55036	hgsc.bcm.edu	37	17	78073562	78073562	+	Silent	SNP	A	A	G	rs2304854	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	56	74	0	0.56	0	A|0.508;G|0.492	0.492	strong	.	CCDC40	198	.	NM_017950	exon20	c.A3417G	p.P1139P	GTCACCAGGGCCC	.	PASS	Atlas-SNP
ANKRD55	79722	hgsc.bcm.edu	37	5	55407542	55407542	+	Missense_Mutation	SNP	C	C	T	rs321776	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	170	87	147	0	0.511765	0	C|0.786;T|0.214	0.214	strong	.	ANKRD55	70	.	NM_024669	exon10	c.G1033A	p.V345M	TGAGCACGTTGAA	.	PASS	Atlas-SNP
SNAP91	9892	hgsc.bcm.edu	37	6	84300997	84300997	+	Silent	SNP	A	A	G	rs2273363	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	32	72	0	0.5	0	A|0.813;G|0.187	0.187	strong	.	SNAP91	199	.	NM_001242792	exon21	c.T1947C	p.S649S	AGAAGCACTACTT	.	PASS	Atlas-SNP
PRRC2C	23215	hgsc.bcm.edu	37	1	171526570	171526570	+	Silent	SNP	G	G	A	rs1687057	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	55	141	0	0.387324	0	G|0.194;A|0.806	0.806	strong	.	.	.	.	NM_015172	exon19	c.G5313A	p.P1771P	ACTTCCGGCAACC	.	PASS	Atlas-SNP
ROS1	6098	hgsc.bcm.edu	37	6	117725448	117725448	+	Missense_Mutation	SNP	T	T	G	rs1998206	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	73	138	0	0.486667	0	T|0.852;G|0.148	0.148	strong	.	ROS1	728	.	NM_002944	exon5	c.A433C	p.T145P	CCTTAGTATAAGT	.	PASS	Atlas-SNP
CCDC170	80129	hgsc.bcm.edu	37	6	151917660	151917660	+	Missense_Mutation	SNP	G	G	A	rs34430497	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	39	73	1	0.397959	0.0136986	G|0.967;A|0.033	0.033	strong	C6orf97,colon,carcinoma,+1,1	.	.	1	NM_025059	exon9	c.G1658A	p.R553Q	CGTGTCGAGACTT	.	scavenged	Atlas-SNP
SLC4A5	57835	hgsc.bcm.edu	37	2	74466594	74466594	+	Silent	SNP	G	G	A	rs4853018	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	196	129	93	0	0.658163	0	G|0.694;A|0.306	0.306	strong	SLC4A5_ENST00000377634,colon,carcinoma,0,2	SLC4A5	215	2	NM_021196	exon16	c.C2187T	p.G729G	GCGCCCGCCGTAG	.	PASS	Atlas-SNP
DCPS	28960	hgsc.bcm.edu	37	11	126174038	126174038	+	Silent	SNP	C	C	T	rs3740915	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	31	67	0	0.476923	0	C|0.950;T|0.050	0.050	strong	.	DCPS	33	.	NM_014026	exon1	c.C63T	p.H21H	GGCCCACGCCGCC	.	PASS	Atlas-SNP
TACC2	10579	hgsc.bcm.edu	37	10	123844503	123844503	+	Missense_Mutation	SNP	C	C	T	rs10887063	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	27	36	0	0.529412	0	C|0.791;T|0.209	0.209	strong	.	TACC2	271	.	NM_206862	exon4	c.C2488T	p.L830F	AAGCATCTCCAGC	.	PASS	Atlas-SNP
RAD51B	5890	hgsc.bcm.edu	37	14	68352672	68352672	+	Missense_Mutation	SNP	A	A	G	rs28910275	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	68	158	0	0.492754	0	A|0.996;G|0.004	0.004	strong	.	RAD51B	80	.	NM_133509	exon6	c.A539G	p.Y180C	ATCTTTATCGGGA	.	PASS	Atlas-SNP
PDILT	204474	hgsc.bcm.edu	37	16	20410547	20410547	+	Missense_Mutation	SNP	C	C	T	rs9926580	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	33	74	0	0.375	0	C|0.673;T|0.327	0.327	strong	.	PDILT	120	.	NM_174924	exon2	c.G76A	p.A26T	CACCGGCGTTAAC	.	PASS	Atlas-SNP
BCL3	602	hgsc.bcm.edu	37	19	45262848	45262848	+	Silent	SNP	C	C	A	rs139295630	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	30	44	0	0.6	0	C|0.982;A|0.018	0.018	strong	.	BCL3	28	.	NM_005178	exon9	c.C1341A	p.P447P	GCCCCCCTCCCCA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	207	99	203	0	0.478261	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
LYZL4	131375	hgsc.bcm.edu	37	3	42448471	42448471	+	Silent	SNP	G	G	A	rs2286720	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	60	124	0	0.444444	0	G|0.901;A|0.099	0.099	strong	LYZL4,NS,adenoma,0,2	LYZL4	19	2	NM_144634	exon3	c.C159T	p.F53F	GCTCTCGAAGTAG	.	PASS	Atlas-SNP
CCDC22	28952	hgsc.bcm.edu	37	X	49103224	49103224	+	Silent	SNP	G	G	A	rs2294020	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	48	41	0	1	0	0|0.005;A|0.488	0.488	strong	.	CCDC22	69	.	NM_014008	exon7	c.G747A	p.Q249Q	GCTGCAGAAGCAA	.	PASS	Atlas-SNP
ADAMTS18	170692	hgsc.bcm.edu	37	16	77323235	77323235	+	Missense_Mutation	SNP	C	C	G	rs3743749	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	37	68	0	0.389474	0	C|0.827;G|0.173	0.173	strong	.	ADAMTS18	270	.	NM_199355	exon22	c.G3476C	p.S1159T	AGACAACTTGAGG	.	PASS	Atlas-SNP
MADD	8567	hgsc.bcm.edu	37	11	47298360	47298360	+	Silent	SNP	G	G	A	rs326214	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	79	124	0	0.612403	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
POM121L12	285877	hgsc.bcm.edu	37	7	53103425	53103425	+	Missense_Mutation	SNP	C	C	A	rs10229800	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	46	75	0	0.541176	0	C|0.870;A|0.130	0.130	strong	.	POM121L12	146	.	NM_182595	exon1	c.C61A	p.P21T	GGAGAACCCCTGC	.	PASS	Atlas-SNP
KRTAP1-1	81851	hgsc.bcm.edu	37	17	39197549	39197549	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	48	119	0	0.255319	0	.	.	none	KRTAP1-1,NS,carcinoma,0,7	KRTAP1-1	23	7	NM_030967	exon1	c.C101G	p.S34C	TGGCAGGAGCTGG	.	scavenged	Atlas-SNP
HSPA1L	3305	hgsc.bcm.edu	37	6	31778529	31778529	+	Silent	SNP	C	C	T	rs2075799	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	54	116	0	0.486486	0	C|0.854;T|0.146	0.146	strong	HSPA1L,caecum,carcinoma,0,1	HSPA1L	185	1	NM_005527	exon2	c.G1221A	p.T407T	CCCAGCCGTCTCC	.	PASS	Atlas-SNP
TCTE1	202500	hgsc.bcm.edu	37	6	44255387	44255387	+	Missense_Mutation	SNP	C	C	T	rs61742784	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	480	262	410	1	0.545833	0.00243902	C|0.961;T|0.039	0.039	strong	.	TCTE1	77	.	NM_182539	exon2	c.G176A	p.R59H	ATCCGACGGATAT	.	PASS	Atlas-SNP
ADAMTS12	81792	hgsc.bcm.edu	37	5	33535060	33535060	+	Missense_Mutation	SNP	G	G	A	rs25754	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	46	48	0	0.560976	0	G|0.483;A|0.516	0.516	strong	.	ADAMTS12	464	.	NM_030955	exon23	c.C4484T	p.T1495I	TGGACAGTCCTCT	.	PASS	Atlas-SNP
MYH3	4621	hgsc.bcm.edu	37	17	10558267	10558267	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	4	149	0	0.021978	0	.	.	none	MYH3,colon,carcinoma,+2,1	MYH3	227	1	NM_002470	exon3	c.T115C	p.F39L	CCACGAAGCAATA	.	scavenged	Atlas-SNP
POLR2D	5433	hgsc.bcm.edu	37	2	128608184	128608184	+	Silent	SNP	C	C	T	rs11556864	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	312	161	261	0	0.516026	0	C|0.907;T|0.093	0.093	strong	.	POLR2D	13	.	NM_004805	exon3	c.G330A	p.E110E	CTTGGACTCCTCA	.	PASS	Atlas-SNP
ZNF440	126070	hgsc.bcm.edu	37	19	11941221	11941221	+	Missense_Mutation	SNP	T	T	A	rs424132	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	69	138	0	0.522727	0	T|0.703;A|0.297	0.297	strong	.	ZNF440	56	.	NM_152357	exon2	c.T127A	p.L43I	ACCTCTTTAGGTA	.	PASS	Atlas-SNP
SEC22C	9117	hgsc.bcm.edu	37	3	42610515	42610515	+	Silent	SNP	G	G	A	rs2271187	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	189	193	1	1	0.00518135	G|0.738;A|0.262	0.262	strong	.	SEC22C	27	.	NM_001201584	exon2	c.C24T	p.C8C	TACCACGCAGGCA	.	PASS	Atlas-SNP
AMPD2	271	hgsc.bcm.edu	37	1	110171333	110171333	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	3	123	0	0.0194805	0	.	.	none	AMPD2_ENST00000393689,colon,carcinoma,+2,2	AMPD2	75	2	NM_004037	exon12	c.C1638T	p.R546R	CGGGCGCTCGAGG	.	scavenged	Atlas-SNP
ICT1	3396	hgsc.bcm.edu	37	17	73016621	73016621	+	Silent	SNP	C	C	T	rs1044228	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	77	133	0	0.57037	0	C|0.689;T|0.311	0.311	strong	.	ICT1	17	.	NM_001545	exon5	c.C405T	p.L135L	GATCCTCACCTCT	.	PASS	Atlas-SNP
C19orf45	374877	hgsc.bcm.edu	37	19	7573297	7573297	+	Missense_Mutation	SNP	T	T	C	rs608144	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	62	133	0	0.5	0	T|0.671;C|0.329	0.329	strong	.	C19orf45	36	.	NM_198534	exon9	c.T1499C	p.L500P	TGTACCTGTGCCC	.	PASS	Atlas-SNP
UNC5C	8633	hgsc.bcm.edu	37	4	96256616	96256616	+	Silent	SNP	A	A	G	rs4699423	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	298	147	287	1	0.493289	0.00348432	A|0.582;G|0.418	0.418	strong	.	UNC5C	141	.	NM_003728	exon2	c.T291C	p.S97S	CCATTCACTATTA	.	PASS	Atlas-SNP
LBR	3930	hgsc.bcm.edu	37	1	225600169	225600169	+	Silent	SNP	C	C	T	rs112582692	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	437	209	376	0	0.478261	0	C|0.965;T|0.035	0.035	strong	.	LBR	54	.	NM_194442	exon8	c.G1071A	p.S357S	GGCAGGCGACAGG	.	PASS	Atlas-SNP
PPFIBP1	8496	hgsc.bcm.edu	37	12	27788021	27788021	+	Silent	SNP	G	G	A	rs2075378	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	50	103	0	0.471698	0	G|0.671;A|0.329	0.329	strong	.	PPFIBP1	153	.	NM_003622	exon4	c.G243A	p.T81T	AGAAACGCTTGTT	.	PASS	Atlas-SNP
CASS4	57091	hgsc.bcm.edu	37	20	55033713	55033713	+	Silent	SNP	G	G	A	rs3746626	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	54	84	0	0.457627	0	G|0.575;A|0.425	0.425	strong	.	CASS4	121	.	NM_020356	exon6	c.G2271A	p.T757T	GCTCACGTACCCC	.	PASS	Atlas-SNP
DBNDD1	79007	hgsc.bcm.edu	37	16	90075226	90075226	+	Silent	SNP	C	C	T	rs4362387	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	31	49	0	0.516667	0	C|0.947;T|0.053	0.053	strong	.	DBNDD1	9	.	NM_024043	exon3	c.G345A	p.S115S	GTCGTCCGAGTCA	.	PASS	Atlas-SNP
CYTB	0	hgsc.bcm.edu	37	MT	14996	14996	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	28	27	7	0	0.964286	0	.	.	none	.	.	.	.	ENST00000361789	exon1	c.G250A	p.A84T	CTTCACGCCAATG	.	PASS	Atlas-SNP
RHBDF1	64285	hgsc.bcm.edu	37	16	111247	111247	+	Silent	SNP	C	C	T	rs79691782	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	10	5	6	0	0.5	0	C|0.961;T|0.039	0.039	strong	.	RHBDF1	54	.	NM_022450	exon11	c.G1428A	p.S476S	GCAGGGCGAAAAC	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13701525	13701525	+	Silent	SNP	T	T	C	rs3734111	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	86	94	0	1	0	T|0.537;C|0.463	0.463	strong	.	DNAH5	868	.	NM_001369	exon77	c.A13359G	p.T4453T	ACCCAGTGTACTA	.	PASS	Atlas-SNP
SNAPC3	6619	hgsc.bcm.edu	37	9	15453156	15453156	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	215	91	222	0	0.423256	0	.	.	none	.	SNAPC3	28	.	NM_001039697	exon7	c.C933T	p.Y311Y	CTTATACTGTCAT	.	PASS	Atlas-SNP
PCDHGA10	56106	hgsc.bcm.edu	37	5	140794750	140794750	+	Missense_Mutation	SNP	G	G	A	rs201831693	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	69	145	0	0.492857	0	G|0.999;A|0.001	0.001	weak	.	PCDHGA10	114	.	NM_032090	exon1	c.G2008A	p.D670N	GTGGCCGACAGCA	.	PASS	Atlas-SNP
SUCO	51430	hgsc.bcm.edu	37	1	172579244	172579244	+	Nonsense_Mutation	SNP	C	C	T	rs151013343	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	2	167	0	0.0135135	0	C|1.000;T|0.000	0.000	weak	C1orf9_ENST00000367723,caecum,carcinoma,-1,2	.	.	2	NM_014283	exon24	c.C3610T	p.R1204X	TTAAAACGAAGAC	.	scavenged	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	37	1	240371112	240371112	+	Silent	SNP	G	G	T	rs71646889	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	20	66	0	0.253165	0	A|0.000;G|0.879;T|0.121	0.121	strong	FMN2,NS,carcinoma,0,4	FMN2	451	4	NM_020066	exon5	c.G3000T	p.P1000P	CCCTCCGCCCCCA	.	PASS	Atlas-SNP
RNF112	7732	hgsc.bcm.edu	37	17	19319374	19319374	+	Silent	SNP	T	T	C	rs76138388	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	23	43	0	0.511111	0	T|0.829;C|0.171	0.171	strong	RNF112,NS,haematopoietic_neoplasm,0,1	RNF112	37	1	NM_007148	exon14	c.T1782C	p.A594A	GGCCGCTGTGGTT	.	PASS	Atlas-SNP
C1orf105	92346	hgsc.bcm.edu	37	1	172431333	172431333	+	Missense_Mutation	SNP	A	A	G	rs16844498	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	265	119	245	1	0.449057	0.00408163	A|0.949;G|0.051	0.051	strong	.	C1orf105	24	.	NM_139240	exon5	c.A289G	p.M97V	AGAACAATGAAAA	.	PASS	Atlas-SNP
AFAP1L1	134265	hgsc.bcm.edu	37	5	148687152	148687152	+	Silent	SNP	G	G	A	rs17854053	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	47	84	0	0.479592	0	G|0.954;A|0.046	0.046	strong	.	AFAP1L1	86	.	NM_001146337	exon7	c.G723A	p.T241T	GCTGACGGTCATC	.	PASS	Atlas-SNP
MAGEB18	286514	hgsc.bcm.edu	37	X	26157792	26157792	+	Silent	SNP	C	C	T	rs5944318	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	101	101	0	0.980583	0	C|0.368;T|0.632	0.632	strong	.	MAGEB18	67	.	NM_173699	exon2	c.C690T	p.A230A	ATATGCCGATAGG	.	PASS	Atlas-SNP
ASPA	443	hgsc.bcm.edu	37	17	3397702	3397702	+	Silent	SNP	C	C	T	rs12948217	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	57	121	0	0.5	0	C|0.732;T|0.268	0.268	strong	.	ASPA	37	.	NM_000049	exon5	c.C693T	p.Y231Y	TGATTACCCCCGG	.	PASS	Atlas-SNP
ZNF804B	219578	hgsc.bcm.edu	37	7	88964510	88964510	+	Silent	SNP	T	T	C	rs62469518	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	141	129	0	0.992958	0	T|0.939;C|0.061	0.061	strong	.	ZNF804B	322	.	NM_181646	exon4	c.T2214C	p.N738N	AGGTAATTTGCTC	.	PASS	Atlas-SNP
MGAM	8972	hgsc.bcm.edu	37	7	141759676	141759676	+	Silent	SNP	T	T	C	rs62477620	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	267	261	265	0	0.977528	0	T|0.812;C|0.188	0.188	strong	.	MGAM	767	.	NM_004668	exon33	c.T3969C	p.N1323N	TGGCAATGAGACA	.	PASS	Atlas-SNP
APPL1	26060	hgsc.bcm.edu	37	3	57269608	57269608	+	Silent	SNP	A	A	G	rs11544592	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	243	136	235	0	0.559671	0	A|0.987;G|0.013	0.013	strong	.	APPL1	59	.	NM_012096	exon2	c.A69G	p.L23L	TTTACTAGGTGTA	.	PASS	Atlas-SNP
CARKD	55739	hgsc.bcm.edu	37	13	111290630	111290630	+	Missense_Mutation	SNP	T	T	C	rs41275126	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	68	152	0	0.412121	0	T|0.892;C|0.108	0.108	strong	.	CARKD	36	.	NM_018210	exon10	c.T935C	p.I312T	CTGAGATTGAAAC	.	PASS	Atlas-SNP
AMZ2	51321	hgsc.bcm.edu	37	17	66253095	66253095	+	Silent	SNP	T	T	A	rs7105	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	38	103	0	0.44186	0	T|0.663;A|0.337	0.337	strong	.	AMZ2	15	.	NM_001033572	exon8	c.T1068A	p.A356A	CCTGGCTGTTCTC	.	PASS	Atlas-SNP
RBMXL1	494115	hgsc.bcm.edu	37	1	89448539	89448539	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	296	9	237	5	0.0304054	0.021097	.	.	none	CCBL2,NS,carcinoma,-1,1	.	.	1	NM_001162536	exon3	c.G971C	p.R324P	CTGTCTCGACTTC	.	scavenged	Atlas-SNP
OR11H6	122748	hgsc.bcm.edu	37	14	20692353	20692353	+	Missense_Mutation	SNP	T	T	C	rs146076639	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	56	150	0	0.538462	0	T|0.998;C|0.002	0.002	strong	.	OR11H6	60	.	NM_001004480	exon1	c.T485C	p.L162P	TAATTCTGGTCTG	.	PASS	Atlas-SNP
RREB1	6239	hgsc.bcm.edu	37	6	7246998	7246998	+	Missense_Mutation	SNP	G	G	A	rs2281833	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	7	3	16	0	0.428571	0	G|0.815;A|0.185	0.185	strong	RREB1_ENST00000379938,NS,carcinoma,0,4	RREB1	242	4	NM_001003699	exon12	c.G4315A	p.G1439R	GGCGCCGGGGGCG	.	scavenged	Atlas-SNP
SYTL2	54843	hgsc.bcm.edu	37	11	85435730	85435730	+	Silent	SNP	C	C	T	rs550404	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	170	157	0	0.988372	0	C|0.366;T|0.634	0.634	strong	.	SYTL2	231	.	NM_206927	exon1	c.G1770A	p.P590P	TATTAACGGAGCC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	181	180	162	0	0.994475	0	T|0.549;C|0.451	0.451	strong	.	GPR139	75	.	NM_001002911	exon2	c.A789G	p.V263V	GATGTGTACCAGC	.	PASS	Atlas-SNP
SSTR5	6755	hgsc.bcm.edu	37	16	1129501	1129501	+	Silent	SNP	C	C	T	rs34037914	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	45	73	0	0.542169	0	C|0.957;T|0.043	0.043	strong	.	SSTR5	36	.	NM_001172560	exon2	c.C633T	p.F211F	CTTCTTCGCGCCG	.	PASS	Atlas-SNP
ULK4	54986	hgsc.bcm.edu	37	3	41756986	41756986	+	Missense_Mutation	SNP	A	A	T	rs61744385	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	42	79	0	0.424242	0	A|0.770;T|0.230	0.230	strong	.	ULK4	150	.	NM_017886	exon24	c.T2530A	p.L844M	GACACAACTTCAG	.	PASS	Atlas-SNP
PIP5K1C	23396	hgsc.bcm.edu	37	19	3644220	3644220	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	42	69	0	0.608696	0	.	.	none	.	PIP5K1C	63	.	NM_001195733	exon12	c.C1375T	p.R459C	CGCCGCGCCCCTT	.	PASS	Atlas-SNP
SPEG	10290	hgsc.bcm.edu	37	2	220355529	220355529	+	Missense_Mutation	SNP	A	A	G	rs12464085	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	49	100	0	0.485149	0	A|0.627;G|0.373	0.373	strong	.	SPEG	272	.	NM_005876	exon38	c.A9236G	p.H3079R	ACGGCCACCACGT	.	PASS	Atlas-SNP
SORBS1	10580	hgsc.bcm.edu	37	10	97174352	97174352	+	Missense_Mutation	SNP	T	T	C	rs2281939	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	60	111	1	0.909091	0.00900901	T|0.860;C|0.140	0.140	strong	SORBS1_ENST00000371247,NS,carcinoma,+2,2	SORBS1	185	2	NM_001034955	exon7	c.A709G	p.T237A	GTGGCGTCTGGCT	.	PASS	Atlas-SNP
ARHGEF40	55701	hgsc.bcm.edu	37	14	21550499	21550499	+	Silent	SNP	G	G	T	rs61746329	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	42	73	0	0.47191	0	G|0.943;T|0.057	0.057	strong	.	ARHGEF40	84	.	NM_018071	exon15	c.G3348T	p.T1116T	GCTGACGCCTGAA	.	PASS	Atlas-SNP
OR52N2	390077	hgsc.bcm.edu	37	11	5842356	5842356	+	Missense_Mutation	SNP	A	A	G	rs8181512	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	281	131	256	0	0.466192	0	A|0.522;G|0.478	0.478	strong	.	OR52N2	58	.	NM_001005174	exon1	c.A791G	p.H264R	TCACTCATCGTTT	.	PASS	Atlas-SNP
KLK13	26085	hgsc.bcm.edu	37	19	51563265	51563265	+	Missense_Mutation	SNP	G	G	A	rs34089525	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	46	64	0	0.554217	0	G|0.977;A|0.023	0.023	strong	.	KLK13	40	.	NM_015596	exon3	c.C325T	p.H109Y	CAGGGTGGGGGAT	.	PASS	Atlas-SNP
LYST	1130	hgsc.bcm.edu	37	1	235907279	235907279	+	Silent	SNP	A	A	G	rs201045270	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	196	78	182	0	0.397959	0	.	.	weak	.	LYST	370	.	NM_000081	exon30	c.T8151C	p.I2717I	ACTTACAATAGAT	.	PASS	Atlas-SNP
ADAMTS13	11093	hgsc.bcm.edu	37	9	136310908	136310908	+	Missense_Mutation	SNP	C	C	T	rs685523	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	68	120	0	0.566667	0	T|0.098;G|0.006	0.098	strong	.	ADAMTS13	113	.	NM_139027	exon21	c.C2699T	p.A900V	CCCCTGCGGCAGG	.	PASS	Atlas-SNP
OR2T35	403244	hgsc.bcm.edu	37	1	248801897	248801897	+	Silent	SNP	G	G	A	rs79303917	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	427	257	235	0	0.601874	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
VAMP5	10791	hgsc.bcm.edu	37	2	85818886	85818886	+	Silent	SNP	C	C	T	rs14976	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	215	106	192	0	0.493023	0	C|0.797;T|0.203	0.203	strong	.	VAMP5	13	.	NM_006634	exon2	c.C42T	p.N14N	GGCGAACGAGGTG	.	PASS	Atlas-SNP
LRRC37A2	474170	hgsc.bcm.edu	37	17	44626866	44626866	+	Missense_Mutation	SNP	T	T	C	rs62073248		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	45	101	0	0.221675	0	.	.	weak	LRRC37A2,NS,carcinoid-endocrine_tumour,0,1	LRRC37A2	37	1	NM_001006607	exon9	c.T4361C	p.L1454P	CTGACCTGTCCCC	.	scavenged	Atlas-SNP
IFIH1	64135	hgsc.bcm.edu	37	2	163124637	163124637	+	Missense_Mutation	SNP	T	T	C	rs35667974	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	226	103	183	0	0.455752	0	T|0.991;C|0.009	0.009	strong	.	IFIH1	102	.	NM_022168	exon14	c.A2767G	p.I923V	TCTCAATTACATG	.	PASS	Atlas-SNP
RBMXL3	139804	hgsc.bcm.edu	37	X	114426385	114426385	+	Missense_Mutation	SNP	G	G	A	rs80194951	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	215	198	131	0	0.92093	0	G|0.929;A|0.071	0.071	strong	.	RBMXL3	83	.	NM_001145346	exon1	c.G2381A	p.R794H	GAGGCCGCTCACC	.	PASS	Atlas-SNP
CRYM	1428	hgsc.bcm.edu	37	16	21272648	21272648	+	Silent	SNP	A	A	G	rs144588424	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	81	144	0	0.490909	0	A|0.996;G|0.004	0.004	strong	.	CRYM	13	.	NM_001888	exon9	c.T807C	p.F269F	CTCAGCAAAGATC	.	PASS	Atlas-SNP
C2CD3	26005	hgsc.bcm.edu	37	11	73825503	73825503	+	Silent	SNP	T	T	C	rs10898957	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	279	278	250	0	0.996416	0	T|0.841;C|0.159	0.159	strong	.	C2CD3	288	.	NM_015531	exon10	c.A1656G	p.P552P	ACTATCTGGAGGA	.	PASS	Atlas-SNP
WDR81	124997	hgsc.bcm.edu	37	17	1640793	1640793	+	Silent	SNP	C	C	T	rs8077638	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	86	171	0	0.450262	0	C|0.789;T|0.211	0.211	strong	WDR81_ENST00000437219,colon,carcinoma,0,6	WDR81	180	6	NM_001163809	exon10	c.C5640T	p.S1880S	CGGCAGCGAGGTG	.	PASS	Atlas-SNP
OBP2A	29991	hgsc.bcm.edu	37	9	138439809	138439809	+	Missense_Mutation	SNP	T	T	C	rs72766544	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	54	62	0	0.574468	0	T|0.804;C|0.196	0.196	strong	.	OBP2A	21	.	NM_014582	exon4	c.T370C	p.Y124H	CTGCGCTACATGG	.	PASS	Atlas-SNP
MST1	4485	hgsc.bcm.edu	37	3	49721532	49721532	+	Missense_Mutation	SNP	G	G	A	rs3197999	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	379	170	369	0	0.448549	0	G|0.749;A|0.251	0.251	strong	MST1,NS,carcinoma,0,1	MST1	84	1	NM_020998	exon18	c.C2107T	p.R703C	GCCAGCGGGACCT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	173	171	0	0.977401	0	G|0.528;A|0.472	0.472	strong	.	FAT2	465	.	NM_001447	exon1	c.C1720T	p.R574C	CTTGGCGGATAGA	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155241572	155241572	+	Missense_Mutation	SNP	G	G	A	rs11935573	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	229	116	197	0	0.50655	0	G|0.746;A|0.254	0.254	strong	DCHS2,NS,carcinoma,0,2	DCHS2	594	2	NM_017639	exon14	c.C3614T	p.S1205L	TTTCCTGAGAGGA	.	PASS	Atlas-SNP
BTNL2	56244	hgsc.bcm.edu	37	6	32370835	32370835	+	Missense_Mutation	SNP	T	T	C	rs2076523	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	195	94	176	0	0.482051	0	T|0.648;C|0.352	0.352	strong	.	BTNL2	50	.	NM_019602	exon3	c.A586G	p.K196E	CATCTTTATCTTG	.	PASS	Atlas-SNP
ZNF773	374928	hgsc.bcm.edu	37	19	58017754	58017754	+	Silent	SNP	A	A	G	rs61737910	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	53	85	0	0.481818	0	A|0.834;G|0.166	0.166	strong	.	ZNF773	62	.	NM_198542	exon4	c.A291G	p.A97A	TGAGGCAGCTGCT	.	PASS	Atlas-SNP
ANKRD12	23253	hgsc.bcm.edu	37	18	9255982	9255982	+	Missense_Mutation	SNP	A	A	G	rs4798791	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	55	65	0	0.611111	0	A|0.446;G|0.554	0.554	strong	.	ANKRD12	167	.	NM_015208	exon9	c.A2717G	p.K906R	GAGAAAAGATGGA	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40399383	40399383	+	Silent	SNP	T	T	C	rs138090709	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	249	43	200	1	0.172691	0.005	T|1.000;C|0.000	0.000	weak	FCGBP,NS,carcinoma,-2,2	FCGBP	416	2	NM_003890	exon13	c.A6312G	p.G2104G	GGGTGGTCCGTGG	.	scavenged	Atlas-SNP
THBS4	7060	hgsc.bcm.edu	37	5	79374957	79374957	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	229	125	207	0	0.545852	0	.	.	none	.	THBS4	82	.	NM_003248	exon19	c.C2387T	p.A796V	ACTATGCAGGCTT	.	PASS	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	37	22	29886413	29886413	+	Silent	SNP	A	A	G	rs165625	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	96	100	0	0.969697	0	A|0.186;G|0.814	0.814	strong	.	NEFH	178	.	NM_021076	exon4	c.A2784G	p.V928V	AGAGGTAGCCAAG	.	PASS	Atlas-SNP
MSGN1	343930	hgsc.bcm.edu	37	2	17998095	17998095	+	Missense_Mutation	SNP	C	C	T	rs35858730	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	130	108	0	0.984848	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
NXPE1	120400	hgsc.bcm.edu	37	11	114401247	114401247	+	Silent	SNP	A	A	G	rs7941796	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	170	90	176	0	0.529412	0	A|0.758;G|0.242	0.242	strong	FAM55A,NS,neuroblastoma,-1,1	NXPE1	8	1	NM_152315	exon3	c.T57C	p.N19N	GGTGCCATTGTTG	.	PASS	Atlas-SNP
MRPL14	64928	hgsc.bcm.edu	37	6	44081718	44081718	+	Silent	SNP	G	G	A	rs6883	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	137	106	0	1	0	G|0.365;A|0.635	0.635	strong	.	MRPL14	15	.	NM_032111	exon3	c.C300T	p.F100F	GGAGTCGAATCTG	.	PASS	Atlas-SNP
GGT1	2678	hgsc.bcm.edu	37	22	25023893	25023893	+	Missense_Mutation	SNP	G	G	A	rs201313233	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	472	7	464	0	0.0148305	0	G|0.983;A|0.017	0.017	strong	GGT1,scalp,carcinoma,0,10	GGT1	68	10	NM_013430	exon13	c.G1283A	p.S428N	CTCCCAGCATCAC	.	scavenged	Atlas-SNP
LILRB4	11006	hgsc.bcm.edu	37	19	55178162	55178162	+	Missense_Mutation	SNP	A	A	G	rs11574576	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	59	112	0	0.412587	0	A|0.646;C|0.000;G|0.354	0.354	strong	.	LILRB4	86	.	NM_006847	exon10	c.A1003G	p.N335D	GTGAAGAACACAC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	219	100	220	0	0.456621	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
LAPTM5	7805	hgsc.bcm.edu	37	1	31215364	31215364	+	Silent	SNP	T	T	C	rs1050663	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	130	81	0	1	0	T|0.442;G|0.000;C|0.558	0.558	strong	LAPTM5,NS,carcinoma,0,1	LAPTM5	30	1	NM_006762	exon2	c.A120G	p.S40S	CTCTACTGAGTGC	.	PASS	Atlas-SNP
DNMBP	23268	hgsc.bcm.edu	37	10	101715899	101715899	+	Silent	SNP	G	G	A	rs2862923	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	93	140	1	0.911765	0.00714286	G|0.534;A|0.466	0.466	strong	.	DNMBP	173	.	NM_015221	exon4	c.C1332T	p.P444P	AAGGTCGGGGTAC	.	PASS	Atlas-SNP
TOLLIP	54472	hgsc.bcm.edu	37	11	1309956	1309956	+	Silent	SNP	C	C	T	rs3750920	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	52	133	1	0.40625	0.0075188	C|0.625;T|0.375	0.375	strong	TOLLIP,NS,carcinoma,0,1	TOLLIP	25	1	NM_019009	exon4	c.G417A	p.P139P	GGACTCCGGGATG	.	scavenged	Atlas-SNP
LILRB1	10859	hgsc.bcm.edu	37	19	55145454	55145454	+	Missense_Mutation	SNP	G	G	A	rs1138736	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	101	208	0	0.564246	0	G|0.895;A|0.105	0.105	strong	.	LILRB1	140	.	NM_001081637	exon9	c.G1345A	p.G449R	CCCACCGGGTCGG	.	PASS	Atlas-SNP
PDZRN4	29951	hgsc.bcm.edu	37	12	41946539	41946539	+	Missense_Mutation	SNP	G	G	A	rs285584	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	45	76	0	0.473684	0	G|0.821;A|0.179	0.179	strong	.	PDZRN4	346	.	NM_001164595	exon6	c.G1285A	p.G429S	GACACCGGCATTT	.	PASS	Atlas-SNP
CACNA2D4	93589	hgsc.bcm.edu	37	12	1965211	1965211	+	Missense_Mutation	SNP	G	G	A	rs369720566		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	52	84	0	0.5	0	.	.	weak	.	CACNA2D4	220	.	NM_172364	exon22	c.C2119T	p.R707C	GGAAGCGGATCAT	.	PASS	Atlas-SNP
LONP1	9361	hgsc.bcm.edu	37	19	5711930	5711930	+	Missense_Mutation	SNP	C	C	T	rs11085147	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	54	56	0	0.613636	0	C|0.947;T|0.053	0.053	strong	.	LONP1	66	.	NM_004793	exon4	c.T722A	p.M241K	TTGCCCCGCTTTG	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144995736	144995736	+	Silent	SNP	G	G	A	rs11777402	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	74	120	0	0.524823	0	G|0.681;A|0.319	0.319	strong	.	PLEC	1144	.	NM_201380	exon32	c.C8664T	p.N2888N	AGCCTCGTTGACG	.	PASS	Atlas-SNP
ARHGEF37	389337	hgsc.bcm.edu	37	5	149008467	149008467	+	Missense_Mutation	SNP	C	C	A	rs3733662	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	34	95	0	0.453333	0	C|0.839;A|0.161	0.161	strong	.	ARHGEF37	45	.	NM_001001669	exon12	c.C1756A	p.P586T	AAAGACCCCCGAT	.	PASS	Atlas-SNP
MED13L	23389	hgsc.bcm.edu	37	12	116446355	116446355	+	Silent	SNP	A	A	G	rs61748071	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	242	127	226	0	0.524793	0	A|0.996;G|0.004	0.004	strong	.	MED13L	193	.	NM_015335	exon10	c.T1863C	p.I621I	GGGCCTAATCCCA	.	PASS	Atlas-SNP
JAK1	3716	hgsc.bcm.edu	37	1	65310489	65310489	+	Silent	SNP	T	T	C	rs2230588	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	73	136	0	0.503448	0	T|0.670;C|0.330	0.330	strong	.	JAK1	209	.	NM_002227	exon16	c.A2199G	p.P733P	GATGAATGGGCCA	.	PASS	Atlas-SNP
ANKDD1A	348094	hgsc.bcm.edu	37	15	65235776	65235776	+	Missense_Mutation	SNP	A	A	G	rs34988193	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	70	140	0	0.44586	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
LPO	4025	hgsc.bcm.edu	37	17	56332327	56332327	+	Missense_Mutation	SNP	G	G	A	rs2301870	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	56	84	0	0.455285	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
ZBBX	79740	hgsc.bcm.edu	37	3	167023738	167023738	+	Missense_Mutation	SNP	G	G	C	rs13096767	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	54	143	0	0.406015	0	G|0.651;C|0.349	0.349	strong	ZBBX_ENST00000455345,NS,carcinoma,0,2	ZBBX	299	2	NM_024687	exon17	c.C1418G	p.A473G	GTTTCTGCTGTTA	.	PASS	Atlas-SNP
LILRA6	79168	hgsc.bcm.edu	37	19	54745659	54745659	+	Missense_Mutation	SNP	G	G	C	rs200657736	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	652	89	675	1	0.136503	0.00148148	G|0.999;C|0.001	0.001	weak	LILRA6,NS,carcinoma,0,2	LILRA6	75	2	NM_024318	exon4	c.C451G	p.H151D	AATGGTGATATCC	.	scavenged	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9056930	9056930	+	Silent	SNP	T	T	G	rs918535	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	160	115	0	0.993789	0	T|0.739;G|0.261	0.261	strong	.	MUC16	4315	.	NM_024690	exon3	c.A30516C	p.T10172T	CATGTTTGTCTTC	.	PASS	Atlas-SNP
KIAA0753	9851	hgsc.bcm.edu	37	17	6531648	6531648	+	Silent	SNP	A	A	G	rs2072149	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	311	169	285	1	0.543408	0.00350877	A|0.332;G|0.668	0.668	strong	.	KIAA0753	63	.	NM_014804	exon3	c.T507C	p.S169S	GGCACCAGAGCTG	.	PASS	Atlas-SNP
ANKRD53	79998	hgsc.bcm.edu	37	2	71211815	71211815	+	Silent	SNP	G	G	A	rs3796098	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	207	59	117	0	0.285024	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
PKD1L1	168507	hgsc.bcm.edu	37	7	47879049	47879049	+	Missense_Mutation	SNP	G	G	A	rs76100363	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	55	113	1	0.410448	0.00884956	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	.	scavenged	Atlas-SNP
JMJD4	65094	hgsc.bcm.edu	37	1	227920357	227920357	+	Silent	SNP	C	C	T	rs4837	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	25	41	0	0.531915	0	C|0.892;T|0.108	0.108	strong	.	JMJD4	28	.	NM_023007	exon6	c.G1128A	p.S376S	GATGCCCGAGCAG	.	PASS	Atlas-SNP
CALCOCO2	10241	hgsc.bcm.edu	37	17	46929908	46929908	+	Missense_Mutation	SNP	T	T	C	rs2303015	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	277	130	294	0	0.469314	0	T|0.868;G|0.001	.	strong	.	CALCOCO2	29	.	NM_001261390	exon9	c.T815C	p.V272A	AGCTTGTTCAGGG	.	PASS	Atlas-SNP
SGSM1	129049	hgsc.bcm.edu	37	22	25270455	25270455	+	Silent	SNP	G	G	C	rs9624633	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	77	127	0	0.557971	0	G|0.883;C|0.117	0.117	strong	.	SGSM1	150	.	NM_133454	exon13	c.G1365C	p.R455R	AGGCCGGTCCATG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	67	60	0	1	0	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	.	PASS	Atlas-SNP
TRIM38	10475	hgsc.bcm.edu	37	6	25967068	25967068	+	Silent	SNP	C	C	T	rs2009610	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	63	126	0	0.5	0	C|0.856;T|0.144	0.144	strong	.	TRIM38	50	.	NM_006355	exon3	c.C318T	p.D106D	CGAAGACGAGGGG	.	PASS	Atlas-SNP
TERT	7015	hgsc.bcm.edu	37	5	1253918	1253918	+	Silent	SNP	C	C	T	rs35033501	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	64	116	0	0.507937	0	C|0.985;T|0.015	0.015	strong	.	TERT	2594	.	NM_198253	exon16	c.G3324A	p.P1108P	CGTCCCCGGGAGC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505822	195505822	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	5	90	1	0.0462963	0.0111111	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C12629A	p.P4210H	GTGACAGGAAGAG	.	scavenged	Atlas-SNP
BAI3	577	hgsc.bcm.edu	37	6	69703767	69703767	+	Silent	SNP	C	C	G	rs144610317	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	67	102	0	0.5	0	C|0.993;G|0.007	0.007	strong	.	BAI3	451	.	NM_001704	exon11	c.C1842G	p.G614G	TGCAGGCGATCTT	.	PASS	Atlas-SNP
CSPG4	1464	hgsc.bcm.edu	37	15	75981507	75981507	+	Silent	SNP	A	A	G	rs12900539	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	58	64	0	1	0	A|0.591;G|0.409	0.409	strong	.	CSPG4	175	.	NM_001897	exon3	c.T1899C	p.G633G	TGCAGGACCACCG	.	PASS	Atlas-SNP
SLC30A9	10463	hgsc.bcm.edu	37	4	41992677	41992677	+	Silent	SNP	C	C	G	rs2581434	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	138	150	1	1	0.00666667	C|0.328;G|0.672	0.672	strong	.	SLC30A9	58	.	NM_006345	exon1	c.C9G	p.P3P	GTTACCCGGCTTG	.	PASS	Atlas-SNP
ASIP	434	hgsc.bcm.edu	37	20	32856838	32856838	+	Silent	SNP	C	C	A	rs36093428	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	48	53	0	0.705882	0	C|0.994;A|0.006	0.006	strong	.	ASIP	6	.	NM_001672	exon3	c.C264A	p.P88P	GACCCCCCTATCT	.	PASS	Atlas-SNP
RAI1	10743	hgsc.bcm.edu	37	17	17696755	17696755	+	Missense_Mutation	SNP	C	C	A	rs11649804	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	66	115	0	0.492537	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
DNAH5	1767	hgsc.bcm.edu	37	5	13882841	13882841	+	Silent	SNP	A	A	G	rs10057007	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	78	122	0	0.496815	0	A|0.744;G|0.256	0.256	strong	.	DNAH5	868	.	NM_001369	exon21	c.T3258C	p.L1086L	ACCTTGAAGTTCA	.	PASS	Atlas-SNP
RUVBL2	10856	hgsc.bcm.edu	37	19	49513273	49513273	+	Silent	SNP	C	C	T	rs1062708	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	93	94	0	0.96875	0	C|0.579;T|0.421	0.421	strong	.	RUVBL2	31	.	NM_006666	exon8	c.C613T	p.L205L	TCCAAGCTGGGCC	.	PASS	Atlas-SNP
KDM4C	23081	hgsc.bcm.edu	37	9	7170006	7170006	+	Missense_Mutation	SNP	G	G	A	rs7022348	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	69	146	0	0.496403	0	G|0.846;A|0.154	0.154	strong	.	KDM4C	186	.	NM_001146694	exon21	c.G3110A	p.S1037N	AAAAAAGCCAATG	.	PASS	Atlas-SNP
OR5H15	403274	hgsc.bcm.edu	37	3	97887970	97887970	+	Missense_Mutation	SNP	C	C	T	rs72933946	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	433	6	480	2	0.0138568	0.00416667	C|0.965;A|0.035	.	alt	OR5H15,NS,carcinoma,-2,1	OR5H15	70	1	NM_001005515	exon1	c.C427T	p.R143W	TGCATCCGGCTAT	.	scavenged	Atlas-SNP
DIP2B	57609	hgsc.bcm.edu	37	12	51089734	51089734	+	Silent	SNP	T	T	A	rs11169524	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	61	99	0	0.5	0	T|0.672;A|0.328	0.328	strong	.	DIP2B	167	.	NM_173602	exon16	c.T1917A	p.T639T	TGTGACTGATGGA	.	PASS	Atlas-SNP
ADGB	79747	hgsc.bcm.edu	37	6	146977963	146977963	+	Silent	SNP	A	A	C	rs79354452	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	183	95	182	0	0.519126	0	A|0.992;C|0.008	0.008	strong	.	ADGB	93	.	NM_024694	exon5	c.A459C	p.G153G	TGGAGGAATTTTG	.	PASS	Atlas-SNP
OR1N2	138882	hgsc.bcm.edu	37	9	125315778	125315778	+	Silent	SNP	G	G	C	rs1411271	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	202	91	141	0	0.450495	0	G|0.468;C|0.532	0.532	strong	.	OR1N2	51	.	NM_001004457	exon1	c.G330C	p.S110S	CATCTCGTATTCT	.	PASS	Atlas-SNP
SLC46A3	283537	hgsc.bcm.edu	37	13	29275670	29275670	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	215	4	219	0	0.0186047	0	.	.	none	SLC46A3_ENST00000380814,NS,carcinoma,0,2	SLC46A3	86	2	NM_181785	exon6	c.A1350G	p.I450M	TTCTTGTATAAGA	.	scavenged	Atlas-SNP
SECISBP2L	9728	hgsc.bcm.edu	37	15	49325289	49325289	+	Silent	SNP	A	A	C	rs11638215	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	147	147	0	0.993243	0	A|0.519;C|0.481	0.481	strong	.	SECISBP2L	118	.	NM_001193489	exon4	c.T537G	p.L179L	TTGTAAAAGCTGT	.	PASS	Atlas-SNP
GOLGB1	2804	hgsc.bcm.edu	37	3	121414217	121414217	+	Missense_Mutation	SNP	C	C	A	rs35674179	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	175	94	164	0	0.537143	0	C|0.878;A|0.122	0.122	strong	.	GOLGB1	319	.	NM_001256486	exon13	c.G5153T	p.C1718F	TCCATACACTCTT	.	PASS	Atlas-SNP
HR	55806	hgsc.bcm.edu	37	8	21982997	21982997	+	Missense_Mutation	SNP	A	A	G	rs56140348	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	34	49	0	0.507463	0	A|0.809;G|0.191	0.191	strong	.	HR	71	.	NM_018411	exon5	c.T1577C	p.L526P	TGCTGCAGCTCCC	.	PASS	Atlas-SNP
C16orf96	342346	hgsc.bcm.edu	37	16	4625470	4625470	+	Missense_Mutation	SNP	C	C	G	rs77379438	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	43	22	36	0	0.511628	0	C|0.880;G|0.120	0.120	strong	C16orf96,NS,carcinoma,0,1	C16orf96	28	1	NM_001145011	exon5	c.C989G	p.P330R	CTGCACCTGGGAC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	226	226	154	1	1	0.00649351	A|0.534;G|0.466	0.466	strong	.	FAT2	465	.	NM_001447	exon1	c.T2057C	p.F686S	CCAATAAAGTGGA	.	PASS	Atlas-SNP
GTDC2	84892	hgsc.bcm.edu	37	3	43121559	43121559	+	Silent	SNP	C	C	T	rs604033	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	175	115	0	0.988701	0	C|0.197;T|0.803	0.803	strong	.	.	.	.	NM_032806	exon2	c.G1365A	p.P455P	GAGGGACGGGATG	.	PASS	Atlas-SNP
CEP70	80321	hgsc.bcm.edu	37	3	138289163	138289163	+	Silent	SNP	T	T	C	rs1673608	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	221	220	213	0	0.995475	0	T|0.549;C|0.451	0.451	strong	.	CEP70	51	.	NM_024491	exon6	c.A462G	p.L154L	TACCTGTAAAGTT	.	PASS	Atlas-SNP
GPC1	2817	hgsc.bcm.edu	37	2	241405479	241405479	+	Silent	SNP	C	C	T	rs1126920	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	79	146	0	0.503185	0	C|0.902;T|0.098	0.098	strong	.	GPC1	32	.	NM_002081	exon9	c.C1449T	p.D483D	AGGTGACGACGGC	.	PASS	Atlas-SNP
NPY	4852	hgsc.bcm.edu	37	7	24324879	24324879	+	Missense_Mutation	SNP	T	T	C	rs16139	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	22	65	0	0.30137	0	T|0.976;C|0.024	0.024	strong	.	NPY	25	.	NM_000905	exon2	c.T20C	p.L7P	AGCGACTGGGGCT	.	PASS	Atlas-SNP
HLA-DPB1	3115	hgsc.bcm.edu	37	6	33048663	33048663	+	Missense_Mutation	SNP	G	G	A	rs1042153	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	42	19	27	0	0.452381	0	G|0.755;A|0.245	0.245	strong	HLA-DPB1,NS,lymphoid_neoplasm,+2,1	HLA-DPB1	28	1	NM_002121	exon2	c.G315A	p.M105I	CAGGATGTGCAGA	.	scavenged	Atlas-SNP
SRPRB	58477	hgsc.bcm.edu	37	3	133524717	133524717	+	Missense_Mutation	SNP	G	G	C	rs1107413	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	54	130	0	0.391304	0	G|0.795;C|0.205	0.205	strong	.	SRPRB	28	.	NM_021203	exon2	c.G25C	p.V9L	CGCCGGGTGGCAG	.	PASS	Atlas-SNP
ZNRF4	148066	hgsc.bcm.edu	37	19	5455800	5455800	+	Missense_Mutation	SNP	G	G	A	rs2240745	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	38	37	35	0	0.973684	0	G|0.920;A|0.080	0.080	strong	.	ZNRF4	59	.	NM_181710	exon1	c.G298A	p.V100I	GCAGTGGTACGGG	.	PASS	Atlas-SNP
SPATA20	64847	hgsc.bcm.edu	37	17	48628092	48628092	+	Silent	SNP	A	A	G	rs1132414	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	48	89	0	0.428571	0	A|0.652;G|0.348	0.348	strong	.	SPATA20	59	.	NM_022827	exon11	c.A1197G	p.E399E	CGCAGAAGATGCA	.	PASS	Atlas-SNP
CHAC1	79094	hgsc.bcm.edu	37	15	41245676	41245676	+	Silent	SNP	G	G	A	rs11557249	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	5	119	0	0.0877193	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
OR10AD1	121275	hgsc.bcm.edu	37	12	48596241	48596241	+	Missense_Mutation	SNP	A	A	G	rs11168459	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	51	108	0	0.46789	0	A|0.772;G|0.228	0.228	strong	OR10AD1,NS,carcinoma,0,1	OR10AD1	24	1	NM_001004134	exon1	c.T835C	p.Y279H	TGGTGTACAGGAG	.	PASS	Atlas-SNP
IRF1	3659	hgsc.bcm.edu	37	5	131822055	131822055	+	Silent	SNP	T	T	C	rs9282762	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	41	17	36	0	0.414634	0	T|0.623;C|0.377	0.377	strong	.	IRF1	26	.	NM_002198	exon7	c.A555G	p.P185P	AGCACATGGCGAC	.	PASS	Atlas-SNP
NFE2L1	4779	hgsc.bcm.edu	37	17	46136133	46136133	+	Silent	SNP	G	G	C	rs2229369	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	67	126	0	0.462069	0	G|0.914;C|0.086	0.086	strong	.	NFE2L1	60	.	NM_003204	exon6	c.G1449C	p.S483S	AGACTCGAGCCAT	.	PASS	Atlas-SNP
HPS6	79803	hgsc.bcm.edu	37	10	103825747	103825747	+	Silent	SNP	G	G	A	rs3737243	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	14	12	22	0	0.857143	0	G|0.929;A|0.071	0.071	strong	.	HPS6	38	.	NM_024747	exon1	c.G516A	p.G172G	CAGCGGGGAAGCT	.	PASS	Atlas-SNP
C2orf71	388939	hgsc.bcm.edu	37	2	29294629	29294629	+	Silent	SNP	C	C	T	rs34253433	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	71	124	0	0.470199	0	C|0.821;T|0.179	0.179	strong	.	C2orf71	146	.	NM_001029883	exon1	c.G2499A	p.P833P	CATAGGCGGTGGA	.	PASS	Atlas-SNP
MYH8	4626	hgsc.bcm.edu	37	17	10296486	10296486	+	Silent	SNP	G	G	A	rs33969260	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	237	237	272	0	1	0	G|0.826;A|0.174	0.174	strong	.	MYH8	346	.	NM_002472	exon36	c.C5208T	p.D1736D	GGAAACGTCATTT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9066259	9066259	+	Missense_Mutation	SNP	T	T	C	rs17000770	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	149	123	1	0.993333	0.00813008	T|0.643;C|0.357	0.357	strong	MUC16_ENST00000397910,NS,carcinoma,0,3	MUC16	4315	3	NM_024690	exon3	c.A21187G	p.T7063A	TCTGAGTCAAAGT	.	PASS	Atlas-SNP
KRTAP5-5	439915	hgsc.bcm.edu	37	11	1651120	1651120	+	Missense_Mutation	SNP	G	G	T	rs66665994	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	62	89	0	0.953846	0	G|0.527;T|0.473	0.473	strong	KRTAP5-5,NS,carcinoma,+1,15	KRTAP5-5	86	15	NM_001001480	exon1	c.G50T	p.R17L	GAGGCCGTGGCTC	.	scavenged	Atlas-SNP
SERPINA5	5104	hgsc.bcm.edu	37	14	95053890	95053890	+	Missense_Mutation	SNP	G	G	A	rs6115	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	71	62	0	1	0	G|0.318;A|0.682	0.682	strong	.	SERPINA5	69	.	NM_000624	exon3	c.G191A	p.S64N	GCCAGAGCATCTT	.	PASS	Atlas-SNP
FAM179A	165186	hgsc.bcm.edu	37	2	29259543	29259543	+	Missense_Mutation	SNP	T	T	C	rs72788155	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	76	159	0	0.503311	0	T|0.988;C|0.012	0.012	strong	.	FAM179A	106	.	NM_199280	exon18	c.T2555C	p.V852A	TCACTGTTGCAGA	.	PASS	Atlas-SNP
FOXD4	2298	hgsc.bcm.edu	37	9	117696	117696	+	Missense_Mutation	SNP	G	G	A	rs9406415	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	217	85	187	0	0.391705	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
LIMA1	51474	hgsc.bcm.edu	37	12	50571069	50571069	+	Silent	SNP	G	G	A	rs35414607	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	620	304	590	0	0.490323	0	G|0.986;A|0.014	0.014	strong	.	LIMA1	67	.	NM_001113546	exon11	c.C2061T	p.S687S	TTCATCGGAGTCT	.	PASS	Atlas-SNP
MRGPRE	116534	hgsc.bcm.edu	37	11	3249984	3249984	+	Missense_Mutation	SNP	C	C	T	rs12295710	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	27	51	0	0.490909	0	C|0.601;T|0.399	0.399	strong	MRGPRE,colon,carcinoma,+2,1	MRGPRE	35	1	NM_001039165	exon2	c.G46A	p.G16S	GGGCGCCGTTGGC	.	PASS	Atlas-SNP
CAP2	10486	hgsc.bcm.edu	37	6	17543302	17543302	+	Silent	SNP	A	A	G	rs9256	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	84	164	0	0.482759	0	A|0.360;G|0.640	0.640	strong	.	CAP2	61	.	NM_006366	exon11	c.A1137G	p.K379K	CTGTAAAAAACTC	.	PASS	Atlas-SNP
PLBD1	79887	hgsc.bcm.edu	37	12	14664595	14664595	+	Silent	SNP	A	A	G	rs10846013	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	52	107	0	0.448276	0	A|0.734;G|0.266	0.266	strong	.	PLBD1	36	.	NM_024829	exon7	c.T895C	p.L299L	GCAGCAATATCAA	.	PASS	Atlas-SNP
RSU1	6251	hgsc.bcm.edu	37	10	16794623	16794623	+	Silent	SNP	C	C	T	rs10445	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	40	51	0	0.526316	0	C|0.887;T|0.113	0.113	strong	.	RSU1	31	.	NM_012425	exon7	c.G513A	p.S171S	AGGCAGCGAGATC	.	PASS	Atlas-SNP
PRMT2	3275	hgsc.bcm.edu	37	21	48068518	48068518	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	62	131	0	0.446043	0	.	.	none	PRMT2,NS,NS,0,1	PRMT2	48	1	NM_001242864	exon5	c.C476T	p.A159V	ACTATGCGCGGCC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	51	71	0	0.46789	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	44	80	0	0.40367	0	T|0.893;C|0.107	0.107	strong	.	DOM3Z	20	.	NM_005510	exon4	c.A744G	p.P248P	GCAGGTTGGGGGC	.	PASS	Atlas-SNP
SNX19	399979	hgsc.bcm.edu	37	11	130784647	130784647	+	Missense_Mutation	SNP	G	G	C	rs1050081	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	44	65	0	0.53012	0	G|0.838;C|0.162	0.162	strong	.	SNX19	84	.	NM_014758	exon1	c.C1188G	p.D396E	AATCCTGTCAGAG	.	PASS	Atlas-SNP
MTHFR	4524	hgsc.bcm.edu	37	1	11854476	11854476	+	Missense_Mutation	SNP	T	T	G	rs1801131	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	51	103	0	0.46789	0	T|0.722;G|0.238	0.238	strong	.	MTHFR	65	.	NM_005957	exon8	c.A1286C	p.E429A	ACACTTTCTTCAC	.	PASS	Atlas-SNP
VPS54	51542	hgsc.bcm.edu	37	2	64124722	64124722	+	Missense_Mutation	SNP	C	C	A	rs11558741	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	32	40	0	0.351648	0	T|0.031;G|0.176	.	strong	.	VPS54	57	.	NM_016516	exon22	c.G2736T	p.M912I	AAATAACATCTGA	.	PASS	Atlas-SNP
ADAMTSL1	92949	hgsc.bcm.edu	37	9	18681821	18681821	+	Silent	SNP	A	A	G	rs13293151	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	58	94	0	0.508772	0	A|0.691;G|0.309	0.309	strong	.	ADAMTSL1	306	.	NM_052866	exon12	c.A1353G	p.T451T	AGTGACATGTGGC	.	PASS	Atlas-SNP
KIF12	113220	hgsc.bcm.edu	37	9	116856481	116856481	+	Missense_Mutation	SNP	C	C	A	rs35719524	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	33	71	0	0.39759	0	C|0.851;A|0.149	0.149	strong	.	KIF12	35	.	NM_138424	exon10	c.G879T	p.M293I	CTCTAGCATGAAC	.	PASS	Atlas-SNP
BBS12	166379	hgsc.bcm.edu	37	4	123664457	123664457	+	Silent	SNP	C	C	T	rs13135445	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	65	191	0	0.433333	0	C|0.818;T|0.182	0.182	strong	.	BBS12	63	.	NM_001178007	exon3	c.C1410T	p.C470C	GGTCTGCGTGACC	.	PASS	Atlas-SNP
TRPV4	59341	hgsc.bcm.edu	37	12	110240838	110240838	+	Silent	SNP	T	T	G	rs3825394	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	38	83	0	0.376238	0	T|0.359;G|0.641	0.641	strong	.	TRPV4	88	.	NM_001177433	exon3	c.A670C	p.R224R	ACTCCCTCATGTT	.	PASS	Atlas-SNP
SLC39A11	201266	hgsc.bcm.edu	37	17	70645032	70645032	+	Missense_Mutation	SNP	G	G	A	rs61736066	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	35	48	0	0.538462	0	G|0.911;A|0.089	0.089	strong	.	SLC39A11	32	.	NM_001159770	exon9	c.C860T	p.A287V	GGCTCAGCCAGCA	.	PASS	Atlas-SNP
C1orf87	127795	hgsc.bcm.edu	37	1	60503762	60503762	+	Silent	SNP	T	T	C	rs17560663	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	33	54	0	0.458333	0	T|0.897;C|0.103	0.103	strong	.	C1orf87	55	.	NM_152377	exon6	c.A765G	p.L255L	CCAGAGTAGCTTT	.	PASS	Atlas-SNP
PTPRQ	374462	hgsc.bcm.edu	37	12	80936026	80936026	+	Missense_Mutation	SNP	A	A	G	rs17713202	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	74	111	0	0.503401	0	A|0.871;G|0.129	0.129	strong	.	PTPRQ	119	.	NM_001145026	exon19	c.A3088G	p.N1030D	TCTGATAATTACA	.	PASS	Atlas-SNP
LALBA	3906	hgsc.bcm.edu	37	12	48961801	48961801	+	Splice_Site	SNP	C	C	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	53	88	0	0.486239	0	.	.	none	.	LALBA	9	.	NM_002289	exon5	c.369-1G>T	.	GCCAACCTGATAA	.	PASS	Atlas-SNP
HIST1H1C	3006	hgsc.bcm.edu	37	6	26056072	26056072	+	Silent	SNP	G	G	C	rs8384	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	61	166	0	0.435714	0	G|0.834;C|0.166	0.166	strong	.	HIST1H1C	80	.	NM_005319	exon1	c.C585G	p.P195P	GGCCTTGGGCTTC	.	PASS	Atlas-SNP
ARID1B	57492	hgsc.bcm.edu	37	6	157405930	157405930	+	Silent	SNP	G	G	A	rs3734441	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	108	104	0	0.990826	0	G|0.515;A|0.485	0.485	strong	ARID1B_ENST00000346085,NS,carcinoma,0,2	ARID1B	320	2	NM_020732	exon6	c.G2172A	p.A724A	ACATGCGTCCCCT	.	PASS	Atlas-SNP
ADAMTS7	11173	hgsc.bcm.edu	37	15	79083120	79083120	+	Missense_Mutation	SNP	G	G	A	rs61732944	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	125	142	0	1	0	G|0.438;A|0.562	0.562	strong	.	ADAMTS7	142	.	NM_014272	exon6	c.C920T	p.T307M	TGGTGCGTGATCT	.	PASS	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	37	1	22158157	22158157	+	Silent	SNP	A	A	G	rs2229488	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	265	135	219	0	0.509434	0	A|0.904;G|0.096	0.096	strong	.	HSPG2	311	.	NM_005529	exon82	c.T11340C	p.N3780N	GGTCCCATTGACC	.	PASS	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	37	18	6943264	6943264	+	Silent	SNP	G	G	A	rs2016639	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	250	112	187	0	0.448	0	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
GUSB	2990	hgsc.bcm.edu	37	7	65425894	65425894	+	Missense_Mutation	SNP	A	A	G	rs9530	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	94	148	0	0.502674	0	G|0.522;N|0.001	0.522	strong	.	GUSB	52	.	NM_000181	exon12	c.T1946C	p.L649P	GTAAACAGGCTGT	.	PASS	Atlas-SNP
ADPRHL1	113622	hgsc.bcm.edu	37	13	114083316	114083316	+	Silent	SNP	C	C	T	rs9635114	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	22	109	1	0.297297	0.00917431	C|0.972;T|0.028	0.028	strong	ADPRHL1,NS,carcinoma,-1,1	ADPRHL1	30	1	NM_138430	exon4	c.G597A	p.A199A	AGGCACCGCCCGC	.	scavenged	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134736052	134736052	+	Missense_Mutation	SNP	G	G	T	rs4880287	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	102	82	0	0.990291	0	G|0.640;T|0.360	0.360	strong	.	TTC40	100	.	NM_001200049	exon12	c.C1417A	p.R473S	ACAGACGCAGCCG	.	PASS	Atlas-SNP
C17orf67	339210	hgsc.bcm.edu	37	17	54872439	54872439	+	Missense_Mutation	SNP	T	T	C	rs72837329	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	41	78	0	0.488095	0	T|0.870;C|0.130	0.130	strong	.	C17orf67	13	.	NM_001085430	exon7	c.A259G	p.I87V	GATGAATCCTGTT	.	PASS	Atlas-SNP
FAM118A	55007	hgsc.bcm.edu	37	22	45723807	45723807	+	Missense_Mutation	SNP	G	G	C	rs11556482	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	95	149	0	0.508021	0	G|0.539;C|0.461	0.461	strong	.	FAM118A	32	.	NM_017911	exon4	c.G385C	p.V129L	AGTCCTGTGGTGC	.	PASS	Atlas-SNP
OR2T6	254879	hgsc.bcm.edu	37	1	248551203	248551203	+	Silent	SNP	T	T	C	rs6700947	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	64	94	0	0.556522	0	T|0.722;C|0.278	0.278	strong	.	OR2T6	101	.	NM_001005471	exon1	c.T294C	p.T98T	CTGCACTGCTCAG	.	PASS	Atlas-SNP
OVGP1	5016	hgsc.bcm.edu	37	1	111957570	111957570	+	Missense_Mutation	SNP	G	G	C	rs45455292	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	36	157	0	0.235294	0	G|0.853;C|0.147	0.147	strong	.	OVGP1	177	.	NM_002557	exon11	c.C1553G	p.T518S	CCAGGGGTCACAG	.	PASS	Atlas-SNP
DIP2A	23181	hgsc.bcm.edu	37	21	47970581	47970581	+	Silent	SNP	G	G	A	rs2255397	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	98	122	0	0.52973	0	G|0.766;A|0.234	0.234	strong	.	DIP2A	332	.	NM_015151	exon23	c.G2763A	p.T921T	AGGGACGCTGCAC	.	PASS	Atlas-SNP
SLC38A10	124565	hgsc.bcm.edu	37	17	79255998	79255998	+	Silent	SNP	G	G	A	rs10871494	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	90	160	0	0.545455	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
TTN	7273	hgsc.bcm.edu	37	2	179579093	179579093	+	Missense_Mutation	SNP	T	T	C	rs12693164	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	285	127	200	0	0.445614	0	T|0.765;C|0.235	0.235	strong	TTN_ENST00000342992,colon,carcinoma,0,1	TTN	18412	1	NM_001267550	exon91	c.A26408G	p.N8803S	CCAGCATTGGCTG	.	PASS	Atlas-SNP
RBP5	83758	hgsc.bcm.edu	37	12	7277236	7277236	+	Missense_Mutation	SNP	T	T	A	rs2290237	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	23	57	0	0.38983	0	T|0.686;A|0.314	0.314	strong	.	RBP5	20	.	NM_031491	exon3	c.A343T	p.M115L	ACAGCATCTCTCC	.	PASS	Atlas-SNP
RBAK-LOC389458	0	hgsc.bcm.edu	37	7	5096958	5096958	+	Silent	SNP	T	T	C	rs11975068	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	96	140	0	0.513369	0	T|0.756;C|0.244	0.244	strong	RBAK_ENST00000396912,NS,carcinoma,0,1	.	.	1	NM_001204513	exon3	c.T48C	p.D16D	TGTGGATTTCACC	.	PASS	Atlas-SNP
OR8G2	26492	hgsc.bcm.edu	37	11	124096122	124096122	+	Missense_Mutation	SNP	G	G	A	rs7946182	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	208	93	223	0	0.447115	0	G|0.653;A|0.347	0.347	strong	.	.	.	.	NM_001007249	exon1	c.G725A	p.R242H	GCATTCGCTCCAC	.	PASS	Atlas-SNP
BTBD10	84280	hgsc.bcm.edu	37	11	13443250	13443250	+	Silent	SNP	C	C	T	rs3789325	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	71	131	0	0.486301	0	C|0.866;T|0.134	0.134	strong	.	BTBD10	43	.	NM_032320	exon3	c.G237A	p.T79T	AGACTCCGTTCTT	.	PASS	Atlas-SNP
PRSS12	8492	hgsc.bcm.edu	37	4	119237348	119237348	+	Silent	SNP	T	T	C	rs2292597	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	29	86	0	0.439394	0	T|0.467;C|0.533	0.533	strong	PRSS12,NS,carcinoma,0,1	PRSS12	71	1	NM_003619	exon6	c.A1281G	p.Q427Q	TCCCAATTGTCGA	.	PASS	Atlas-SNP
PPP1R15A	23645	hgsc.bcm.edu	37	19	49379182	49379182	+	Silent	SNP	G	G	C	rs527	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	87	85	0	1	0	G|0.646;C|0.354	0.354	strong	.	PPP1R15A	48	.	NM_014330	exon3	c.G1977C	p.S659S	CCGCTCGTCTGCT	.	PASS	Atlas-SNP
FANCD2	2177	hgsc.bcm.edu	37	3	10138069	10138069	+	Silent	SNP	T	T	G	rs2272125	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	57	73	0	0.548077	0	T|0.743;G|0.257	0.257	strong	.	FANCD2	253	.	NM_001018115	exon42	c.T4098G	p.L1366L	GGAACTTTTAGTT	.	PASS	Atlas-SNP
CTTNBP2NL	55917	hgsc.bcm.edu	37	1	112991698	112991698	+	Silent	SNP	T	T	C	rs2256883	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	78	111	0	0.481481	0	T|0.457;C|0.543	0.543	strong	CTTNBP2NL,NS,carcinoma,0,1	CTTNBP2NL	65	1	NM_018704	exon4	c.T234C	p.N78N	CACAAATCCACTC	.	PASS	Atlas-SNP
ABCC2	1244	hgsc.bcm.edu	37	10	101604207	101604207	+	Silent	SNP	C	C	T	rs3740066	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	23	22	57	1	0.956522	0.0175439	C|0.678;T|0.322	0.322	strong	ABCC2,NS,carcinoma,0,1	ABCC2	160	1	NM_000392	exon28	c.C3972T	p.I1324I	TGACATCGGTAGC	.	scavenged	Atlas-SNP
KIAA0195	9772	hgsc.bcm.edu	37	17	73493874	73493874	+	Silent	SNP	G	G	C	rs12949173	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	51	97	0	0.481132	0	G|0.863;C|0.137	0.137	strong	.	KIAA0195	102	.	NM_014738	exon27	c.G3420C	p.L1140L	TCTGCTGGGGAAG	.	PASS	Atlas-SNP
GPRC5A	9052	hgsc.bcm.edu	37	12	13061294	13061294	+	Silent	SNP	C	C	T	rs2075288	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	64	110	0	0.481203	0	C|0.726;T|0.274	0.274	strong	.	GPRC5A	38	.	NM_003979	exon2	c.C111T	p.A37A	CACAGCCGGGGTT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	220	96	198	0	0.436364	0	C|0.286;N|0.000	0.286	strong	.	ANKUB1	27	.	NM_001144960	exon5	c.A1156G	p.S386G	TGCTGCTTGCAGT	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31323202	31323202	+	Missense_Mutation	SNP	T	T	C	rs41545916	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	55	128	0	0.307263	0	.	.	weak	.	HLA-B	54	.	NM_005514	exon4	c.A787G	p.R263G	AGGTTCTATCTCC	.	PASS	Atlas-SNP
KRT86	3892	hgsc.bcm.edu	37	12	52699033	52699033	+	Missense_Mutation	SNP	G	G	A	rs61914259	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	10	146	2	0.0613497	0.0136986	G|0.695;A|0.305	0.305	strong	KRT86,NS,carcinoma,0,1	KRT86	33	1	NM_002284	exon5	c.G745A	p.V249I	ATCCGCGTTCTCC	.	scavenged	Atlas-SNP
ANKRD30A	91074	hgsc.bcm.edu	37	10	37438725	37438725	+	Missense_Mutation	SNP	C	C	G	rs200260827	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	238	33	263	1	0.138655	0.00380228	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	.	scavenged	Atlas-SNP
DACT1	51339	hgsc.bcm.edu	37	14	59113430	59113430	+	Missense_Mutation	SNP	G	G	A	rs698025	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	34	15	39	0	0.441176	0	G|0.747;T|0.005	.	strong	.	DACT1	119	.	NM_016651	exon4	c.G2089A	p.G697S	CGGCGCGGTCGCC	.	PASS	Atlas-SNP
TAPBPL	55080	hgsc.bcm.edu	37	12	6562836	6562836	+	Silent	SNP	G	G	A	rs2041388	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	41	95	0	0.41	0	G|0.800;A|0.200	0.200	strong	.	TAPBPL	21	.	NM_018009	exon3	c.G519A	p.P173P	GCACCCGACGCTG	.	PASS	Atlas-SNP
SNX19	399979	hgsc.bcm.edu	37	11	130785304	130785304	+	Silent	SNP	T	T	C	rs3751034	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	25	41	0	0.446429	0	T|0.843;C|0.157	0.157	strong	.	SNX19	84	.	NM_014758	exon1	c.A531G	p.A177A	CTTCCCTGCAGTG	.	PASS	Atlas-SNP
ZNF395	55893	hgsc.bcm.edu	37	8	28206275	28206275	+	Silent	SNP	G	G	C	rs1046511	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	58	112	0	0.479339	0	G|0.706;C|0.294	0.294	strong	.	ZNF395	54	.	NM_018660	exon10	c.C1503G	p.A501A	CCGGCAGGCCGTG	.	PASS	Atlas-SNP
OR2A14	135941	hgsc.bcm.edu	37	7	143826603	143826603	+	Missense_Mutation	SNP	G	G	T	rs2961160	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	252	122	233	0	0.484127	0	G|0.367;T|0.633	0.633	strong	OR2A14,NS,carcinoma,+1,1	OR2A14	66	1	NM_001001659	exon1	c.G398T	p.S133I	ACAATAGCCTCAT	.	PASS	Atlas-SNP
OR10G4	390264	hgsc.bcm.edu	37	11	123886902	123886902	+	Silent	SNP	A	A	G	rs144455396	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	510	243	403	1	0.476471	0.00248139	A|0.998;G|0.002	0.002	strong	.	OR10G4	77	.	NM_001004462	exon1	c.A621G	p.S207S	GGCCTCAGGCTGC	.	PASS	Atlas-SNP
PHKG1	5260	hgsc.bcm.edu	37	7	56149410	56149410	+	Silent	SNP	G	G	A	rs12538444	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	33	63	0	0.417722	0	G|0.840;A|0.160	0.160	strong	.	PHKG1	38	.	NM_001258459	exon10	c.C927T	p.Y309Y	CGCTGTGTAGCGG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	162	159	1	0.981818	0.00628931	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
VARS2	57176	hgsc.bcm.edu	37	6	30882803	30882803	+	Missense_Mutation	SNP	G	G	A	rs6926723	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	29	32	0	0.568627	0	G|0.931;A|0.069	0.069	strong	.	VARS2	60	.	NM_001167734	exon2	c.G280A	p.G94R	ATAGCAGGGGAGA	.	PASS	Atlas-SNP
LPAR2	9170	hgsc.bcm.edu	37	19	19737686	19737686	+	Silent	SNP	C	C	T	rs33982830	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	17	10	11	0	0.588235	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	.	scavenged	Atlas-SNP
OR7A5	26659	hgsc.bcm.edu	37	19	14938421	14938421	+	Silent	SNP	C	C	G	rs62122652	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	50	70	0	0.617284	0	C|0.965;G|0.035	0.035	strong	.	OR7A5	43	.	NM_017506	exon1	c.G633C	p.L211L	CCCAGTCAGGGGA	.	PASS	Atlas-SNP
OR10AG1	282770	hgsc.bcm.edu	37	11	55735848	55735848	+	Missense_Mutation	SNP	A	A	G	rs75026138	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	44	168	0	0.29932	0	A|0.950;G|0.050	0.050	strong	.	OR10AG1	100	.	NM_001005491	exon1	c.T92C	p.M31T	TTGCACATCAGGA	.	PASS	Atlas-SNP
ZSCAN5A	79149	hgsc.bcm.edu	37	19	56733425	56733425	+	Missense_Mutation	SNP	C	C	A	rs34187696	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	58	113	0	0.42963	0	C|0.792;A|0.208	0.208	strong	ZSCAN5A,NS,carcinoma,0,1	ZSCAN5A	118	1	NM_024303	exon5	c.G1010T	p.G337V	GCAGGGCCTGGGG	.	PASS	Atlas-SNP
TNFRSF10D	8793	hgsc.bcm.edu	37	8	23002086	23002086	+	Silent	SNP	G	G	A	rs117862321	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	83	148	0	0.477012	0	G|0.995;A|0.005	0.005	strong	.	TNFRSF10D	21	.	NM_003840	exon7	c.C831T	p.N277N	GGTCTCGTTGCGG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	140	137	1	0.972222	0.00729927	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	.	PASS	Atlas-SNP
IQCG	84223	hgsc.bcm.edu	37	3	197659160	197659160	+	Missense_Mutation	SNP	C	C	G	rs67877771	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	72	128	0	0.455696	0	C|0.746;G|0.254	0.254	strong	IQCG,rectum,carcinoma,0,1	IQCG	44	1	NM_032263	exon6	c.G529C	p.D177H	TCACATCGCTGAA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	61	111	0	0.476562	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
CEP192	55125	hgsc.bcm.edu	37	18	13015389	13015389	+	Missense_Mutation	SNP	C	C	G	rs117292623	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	59	79	0	0.536364	0	C|0.997;G|0.003	0.003	strong	CEP192_ENST00000506447,colon,carcinoma,+2,1	CEP192	340	1	NM_032142	exon6	c.C582G	p.H194Q	AAGCCACACTAGC	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31323143	31323143	+	Silent	SNP	T	T	C	rs41546016		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	178	43	107	0	0.241573	0	.	.	weak	.	HLA-B	54	.	NM_005514	exon4	c.A846G	p.T282T	ATGGCATGTGTAT	.	PASS	Atlas-SNP
PAPL	0	hgsc.bcm.edu	37	19	39590955	39590955	+	Silent	SNP	G	G	A	rs8110736	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	53	107	0	0.441667	0	G|0.352;A|0.648	0.648	strong	.	.	.	.	NM_001004318	exon5	c.G594A	p.P198P	CCTGCCGTACATG	.	PASS	Atlas-SNP
SCML4	256380	hgsc.bcm.edu	37	6	108029109	108029109	+	Silent	SNP	T	T	C	rs3734754	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	50	96	0	0.413223	0	T|0.784;C|0.216	0.216	strong	SCML4_ENST00000369020,colon,carcinoma,0,1	SCML4	65	1	NM_198081	exon7	c.A1080G	p.P360P	AGCCTGTGGGTCG	.	PASS	Atlas-SNP
WDR11	55717	hgsc.bcm.edu	37	10	122610983	122610983	+	Silent	SNP	G	G	T	rs35692153	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	44	101	0	0.385965	0	G|0.952;T|0.048	0.048	strong	.	WDR11	95	.	NM_018117	exon1	c.G51T	p.G17G	CACGGGGGCCCTC	.	PASS	Atlas-SNP
OPRD1	4985	hgsc.bcm.edu	37	1	29189597	29189597	+	Silent	SNP	C	C	T	rs2234918	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	67	88	0	0.957143	0	C|0.504;T|0.496	0.496	strong	OPRD1,rectum,carcinoma,0,1	OPRD1	36	1	NM_000911	exon3	c.C921T	p.G307G	GCTGGGCTACGCC	.	PASS	Atlas-SNP
HYOU1	10525	hgsc.bcm.edu	37	11	118922200	118922200	+	Silent	SNP	G	G	A	rs1804690	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	85	143	0	0.521472	0	G|0.870;A|0.130	0.130	strong	.	HYOU1	88	.	NM_006389	exon13	c.C1476T	p.N492N	GTGGAAGTTGAAA	.	PASS	Atlas-SNP
TMEM63C	57156	hgsc.bcm.edu	37	14	77703057	77703057	+	Silent	SNP	A	A	G	rs403291	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	129	139	0	0.992308	0	A|0.231;G|0.769	0.769	strong	.	TMEM63C	77	.	NM_020431	exon9	c.A633G	p.A211A	GTTTGCACCCAGG	.	PASS	Atlas-SNP
PZP	5858	hgsc.bcm.edu	37	12	9317885	9317885	+	Silent	SNP	G	G	A	rs72656611	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	124	130	0	1	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
FBN3	84467	hgsc.bcm.edu	37	19	8161450	8161450	+	Missense_Mutation	SNP	C	C	T	rs3829817	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	58	47	0	1	0	C|0.810;T|0.190	0.190	strong	.	FBN3	300	.	NM_032447	exon43	c.G5417A	p.R1806Q	TCATTCCGTCCTG	.	PASS	Atlas-SNP
SLCO2A1	6578	hgsc.bcm.edu	37	3	133670073	133670073	+	Silent	SNP	T	T	C	rs6767412	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	59	78	1	0.483607	0.0128205	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	.	scavenged	Atlas-SNP
NMT1	4836	hgsc.bcm.edu	37	17	43176804	43176804	+	Silent	SNP	C	C	T	rs2239923	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	331	143	239	1	0.432024	0.0041841	C|0.780;T|0.220	0.220	strong	.	NMT1	31	.	NM_021079	exon8	c.C916T	p.L306L	CGGAAGCTGATTG	.	PASS	Atlas-SNP
PRRC2C	23215	hgsc.bcm.edu	37	1	171556165	171556165	+	Silent	SNP	G	G	C	rs235501	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	225	97	216	0	0.431111	0	G|0.203;C|0.797	0.797	strong	.	.	.	.	NM_015172	exon31	c.G7767C	p.S2589S	AGCATCGCAGCTT	.	PASS	Atlas-SNP
SLC38A8	146167	hgsc.bcm.edu	37	16	84067004	84067004	+	Silent	SNP	C	C	T	rs57576928	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	319	155	255	0	0.485893	0	C|0.927;T|0.073	0.073	strong	.	SLC38A8	60	.	NM_001080442	exon3	c.G459A	p.L153L	CAGGGGCAGGGTG	.	PASS	Atlas-SNP
IL10RA	3587	hgsc.bcm.edu	37	11	117864062	117864062	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	52	121	0	0.509804	0	.	.	none	.	IL10RA	46	.	NM_001558	exon4	c.A474G	p.E158E	ATATGAAAGCATC	.	PASS	Atlas-SNP
OR4A5	81318	hgsc.bcm.edu	37	11	51411460	51411460	+	Silent	SNP	G	G	A	rs34285763	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	39	104	0	0.47561	0	G|0.897;A|0.103	0.103	strong	OR4A5,NS,carcinoma,-1,1	OR4A5	116	1	NM_001005272	exon1	c.C936T	p.S312S	GAGGACGGACACT	.	PASS	Atlas-SNP
DOK7	285489	hgsc.bcm.edu	37	4	3494600	3494600	+	Missense_Mutation	SNP	A	A	G	rs6811423	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	59	128	2	0.495798	0.015625	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
KRT39	390792	hgsc.bcm.edu	37	17	39123013	39123013	+	Silent	SNP	G	G	A	rs17645930	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	308	163	297	1	0.529221	0.003367	G|0.868;A|0.132	0.132	strong	.	KRT39	53	.	NM_213656	exon1	c.C96T	p.N32N	GCAGCCGTTGTTA	.	PASS	Atlas-SNP
PROM1	8842	hgsc.bcm.edu	37	4	16020162	16020162	+	Silent	SNP	C	C	T	rs2286455	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	237	108	208	0	0.455696	0	C|0.873;T|0.127	0.127	strong	.	PROM1	91	.	NM_006017	exon8	c.G786A	p.A262A	CTTGATCGCTATG	.	PASS	Atlas-SNP
FLI1	2313	hgsc.bcm.edu	37	11	128675292	128675292	+	Silent	SNP	T	T	A	rs7113191	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	67	102	0	0.489051	0	T|0.855;A|0.145	0.145	strong	.	FLI1	72	.	NM_002017	exon6	c.T687A	p.A229A	AGGAGCTTGGGGC	.	PASS	Atlas-SNP
FCAMR	83953	hgsc.bcm.edu	37	1	207134226	207134226	+	Missense_Mutation	SNP	C	C	T	rs3813954	bycluster;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	237	110	216	0	0.464135	0	C|0.991;T|0.009	0.009	strong	.	FCAMR	125	.	NM_001170631	exon6	c.G995A	p.S332N	ACCGAGCTTCTGG	.	PASS	Atlas-SNP
C9orf78	51759	hgsc.bcm.edu	37	9	132597021	132597021	+	Silent	SNP	C	C	T	rs3814547	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	59	127	0	0.483607	0	C|0.765;T|0.235	0.235	strong	C9orf78,NS,carcinoma,0,1	C9orf78	26	1	NM_016520	exon2	c.G108A	p.E36E	CTGTACCTCTCTG	.	PASS	Atlas-SNP
MADCAM1	8174	hgsc.bcm.edu	37	19	504830	504830	+	Silent	SNP	C	C	G	rs7246543	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	92	180	0	0.534884	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
FAM83B	222584	hgsc.bcm.edu	37	6	54805688	54805688	+	Missense_Mutation	SNP	A	A	C	rs239798	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	40	90	0	0.481928	0	A|0.690;C|0.310	0.310	strong	FAM83B,NS,carcinoma,0,1	FAM83B	186	1	NM_001010872	exon5	c.A1919C	p.K640T	TATATAAAACCTT	.	PASS	Atlas-SNP
CERS4	79603	hgsc.bcm.edu	37	19	8326866	8326866	+	Missense_Mutation	SNP	C	C	T	rs17160348	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	44	88	0	0.594595	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
A4GALT	53947	hgsc.bcm.edu	37	22	43088971	43088971	+	Silent	SNP	C	C	T	rs9623659	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	51	91	0	0.504951	0	C|0.610;T|0.390	0.390	strong	.	A4GALT	35	.	NM_017436	exon3	c.G987A	p.T329T	CCTGGACGTGGCC	.	PASS	Atlas-SNP
CCDC129	223075	hgsc.bcm.edu	37	7	31682601	31682601	+	Silent	SNP	T	T	C	rs38396	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	84	114	0	0.506024	0	T|0.862;C|0.138	0.138	strong	.	CCDC129	127	.	NM_001257968	exon11	c.T1695C	p.H565H	CAGCCATCTGTGG	.	PASS	Atlas-SNP
SECISBP2L	9728	hgsc.bcm.edu	37	15	49285001	49285001	+	Missense_Mutation	SNP	G	G	C	rs34895054	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	207	98	200	1	0.47343	0.005	G|0.812;C|0.188	0.188	strong	SECISBP2L,NS,carcinoma,0,1	SECISBP2L	118	1	NM_001193489	exon18	c.C2746G	p.P916A	CAATTGGGGGTGT	.	scavenged	Atlas-SNP
TRDN	10345	hgsc.bcm.edu	37	6	123699042	123699042	+	Silent	SNP	T	T	C	rs6901953	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	9	6	10	0	0.666667	0	T|0.711;C|0.289	0.289	strong	.	TRDN	88	.	NM_001251987	exon17	c.A1191G	p.K397K	TTCCTGTTCTGAA	.	PASS	Atlas-SNP
SMYD4	114826	hgsc.bcm.edu	37	17	1703543	1703543	+	Missense_Mutation	SNP	G	G	C	rs3809875	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	208	95	219	0	0.456731	0	G|0.688;C|0.312	0.312	strong	.	SMYD4	50	.	NM_052928	exon5	c.C1145G	p.P382R	CTTTCAGGTAAAC	.	PASS	Atlas-SNP
CDHR3	222256	hgsc.bcm.edu	37	7	105621474	105621474	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	72	160	0	0.402235	0	.	.	none	.	CDHR3	153	.	NM_152750	exon3	c.C310T	p.Q104X	GATTTGCAGATTT	.	PASS	Atlas-SNP
RNF123	63891	hgsc.bcm.edu	37	3	49742584	49742584	+	Silent	SNP	G	G	A	rs34539806	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	96	142	0	0.592593	0	G|0.990;A|0.010	0.010	strong	.	RNF123	100	.	NM_022064	exon23	c.G2127A	p.T709T	CCGCACGCTGAGC	.	PASS	Atlas-SNP
CERS4	79603	hgsc.bcm.edu	37	19	8321937	8321937	+	Silent	SNP	C	C	T	rs1127912	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	79	154	0	0.407216	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
FREM1	158326	hgsc.bcm.edu	37	9	14776027	14776027	+	Silent	SNP	C	C	T	rs2131880	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	78	100	0	0.530612	0	C|0.882;T|0.118	0.118	strong	.	FREM1	261	.	NM_144966	exon26	c.G4617A	p.A1539A	GTTCTCCGCAGGT	.	PASS	Atlas-SNP
SVEP1	79987	hgsc.bcm.edu	37	9	113233720	113233720	+	Silent	SNP	G	G	A	rs10980402	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	247	125	230	0	0.506073	0	G|0.798;A|0.202	0.202	strong	.	SVEP1	326	.	NM_153366	exon16	c.C2922T	p.A974A	GCTGTCGGCTATA	.	PASS	Atlas-SNP
SULT1A2	6799	hgsc.bcm.edu	37	16	28603721	28603721	+	Missense_Mutation	SNP	C	C	T	rs45583638	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	240	10	197	0	0.0416667	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	.	scavenged	Atlas-SNP
ASIC4	55515	hgsc.bcm.edu	37	2	220399951	220399951	+	Silent	SNP	A	A	G	rs2276643	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	36	56	0	0.473684	0	A|0.731;G|0.268	0.268	strong	.	.	.	.	NM_182847	exon5	c.A1458G	p.T486T	CCTGACACGCTAT	.	PASS	Atlas-SNP
LRP2	4036	hgsc.bcm.edu	37	2	170002322	170002322	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	40	64	0	0.57971	0	.	.	none	LRP2,right_lower_lobe,carcinoma,+1,1	LRP2	751	1	NM_004525	exon70	c.C12923T	p.T4308M	ACCAGCGTTTTCT	.	PASS	Atlas-SNP
GORAB	92344	hgsc.bcm.edu	37	1	170521376	170521376	+	Missense_Mutation	SNP	G	G	A	rs913257	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	74	143	0	0.480519	0	G|0.448;A|0.552	0.552	strong	.	GORAB	41	.	NM_152281	exon5	c.G958A	p.E320K	CTACACGAACAAG	.	PASS	Atlas-SNP
UTP23	84294	hgsc.bcm.edu	37	8	117783975	117783975	+	Missense_Mutation	SNP	C	C	T	rs16888728	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	36	89	0	0.395604	0	C|0.812;N|0.001;T|0.186	0.186	strong	UTP23,NS,carcinoma,0,1	UTP23	38	1	NM_032334	exon3	c.C644T	p.P215L	AGGCACCGGACAC	.	PASS	Atlas-SNP
LOXL4	84171	hgsc.bcm.edu	37	10	100013438	100013438	+	Silent	SNP	C	C	T	rs17524355	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	5	83	0	0.102041	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
PARP4	143	hgsc.bcm.edu	37	13	25023936	25023936	+	Missense_Mutation	SNP	C	C	T	rs9581043	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	251	250	302	0	0.996016	0	C|0.848;T|0.152	0.152	strong	.	PARP4	142	.	NM_006437	exon25	c.G3034A	p.V1012I	TTAAGACGTGACG	.	PASS	Atlas-SNP
KRTAP5-2	440021	hgsc.bcm.edu	37	11	1619202	1619202	+	Silent	SNP	G	G	A	rs61869706	byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	24	84	0	0.333333	0	G|0.780;A|0.220	0.220	strong	KRTAP5-2,colon,carcinoma,-1,1	KRTAP5-2	38	1	NM_001004325	exon1	c.C279T	p.G93G	CTTGGAGCCCCCA	.	PASS	Atlas-SNP
PTPRH	5794	hgsc.bcm.edu	37	19	55710074	55710074	+	Missense_Mutation	SNP	G	G	A	rs16986309	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	107	120	0	0.990741	0	G|0.884;A|0.116	0.116	strong	.	PTPRH	139	.	NM_002842	exon8	c.C1627T	p.L543F	CGGTGAGGTGGTA	.	PASS	Atlas-SNP
C17orf74	201243	hgsc.bcm.edu	37	17	7329134	7329134	+	Missense_Mutation	SNP	G	G	A	rs72842820	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	270	137	259	0	0.507407	0	G|0.872;A|0.128	0.128	strong	.	C17orf74	56	.	NM_175734	exon1	c.G127A	p.V43M	ATCAACGTGGCAA	.	PASS	Atlas-SNP
GBP3	2635	hgsc.bcm.edu	37	1	89478868	89478868	+	Missense_Mutation	SNP	G	G	A	rs113490655	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	208	118	200	0	0.567308	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
TPO	7173	hgsc.bcm.edu	37	2	1520676	1520676	+	Missense_Mutation	SNP	T	T	C	rs1126799	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	32	79	0	0.516129	0	A|0.003;C|0.612	0.612	strong	TPO,NS,carcinoma,0,1	TPO	224	1	NM_001206744	exon15	c.T2540C	p.V847A	CTCGGGTGACTTG	.	PASS	Atlas-SNP
HSPB2	3316	hgsc.bcm.edu	37	11	111784229	111784229	+	Silent	SNP	C	C	T	rs4252588	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	33	57	0	0.568965	0	C|0.914;T|0.086	0.086	strong	.	HSPB2	20	.	NM_001541	exon2	c.C159T	p.A53A	TCGGGCCGCCCCA	.	PASS	Atlas-SNP
TTC18	118491	hgsc.bcm.edu	37	10	75053071	75053071	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	5	104	0	0.0442478	0	.	.	none	.	TTC18	106	.	NM_145170	exon17	c.G1930A	p.E644K	CTGCTTCAAATGC	.	PASS	Atlas-SNP
EIF3F	8665	hgsc.bcm.edu	37	11	8009241	8009241	+	Silent	SNP	C	C	T	rs12421289	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	109	100	0	0.981982	0	C|0.889;T|0.111	0.111	strong	.	EIF3F	23	.	NM_003754	exon1	c.C342T	p.A114A	TGCTGCCCGAGTT	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144994888	144994888	+	Missense_Mutation	SNP	G	G	A	rs35858667	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	23	34	0	0.479167	0	G|0.944;A|0.056	0.056	strong	.	PLEC	1144	.	NM_201380	exon32	c.C9512T	p.A3171V	TGCCCCGCCTCCT	.	PASS	Atlas-SNP
MTO1	25821	hgsc.bcm.edu	37	6	74190448	74190448	+	Silent	SNP	T	T	C	rs2036039	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	85	215	0	0.442708	0	T|0.668;G|0.032;C|0.170;N|0.000;A|0.130	0.170	strong	MTO1,NS,carcinoma,0,1	MTO1	59	1	NM_133645	exon8	c.T1255C	p.L419L	CCTTCCTTGGAGA	.	PASS	Atlas-SNP
MICALCL	84953	hgsc.bcm.edu	37	11	12379949	12379949	+	Missense_Mutation	SNP	C	C	T	rs34898047	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	31	78	0	0.407895	0	C|0.986;T|0.014	0.014	strong	.	MICALCL	59	.	NM_032867	exon9	c.C2011T	p.R671C	GAACAACGCATCA	.	PASS	Atlas-SNP
HIPK2	28996	hgsc.bcm.edu	37	7	139415775	139415775	+	Silent	SNP	G	G	C	rs7456421	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	252	136	250	1	0.539683	0.004	G|0.630;C|0.370	0.370	strong	.	HIPK2	192	.	NM_022740	exon2	c.C1059G	p.V353V	CTTGGAGACGTGG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	70	130	0	0.542636	0	C|0.743;G|0.257	0.257	strong	.	SMG6	97	.	NM_017575	exon2	c.G872C	p.R291P	TTCAGTCGTGGCC	.	PASS	Atlas-SNP
C6orf201	404220	hgsc.bcm.edu	37	6	4122249	4122249	+	Missense_Mutation	SNP	C	C	A	rs643232	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	234	234	208	0	1	0	C|0.679;A|0.321	0.321	strong	.	C6orf201	17	.	NM_001085401	exon4	c.C351A	p.N117K	GAGAAACCTGCCA	.	PASS	Atlas-SNP
KIAA1551	55196	hgsc.bcm.edu	37	12	32137447	32137447	+	Silent	SNP	C	C	T	rs3759300	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	64	109	0	0.5	0	C|0.883;T|0.117	0.117	strong	.	.	.	.	NM_018169	exon4	c.C3558T	p.P1186P	AGTACCCCAGTGT	.	PASS	Atlas-SNP
TTC3	7267	hgsc.bcm.edu	37	21	38568308	38568308	+	Silent	SNP	C	C	T	rs6579	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	119	101	0	0.983471	0	C|0.476;T|0.524	0.524	strong	TTC3,NS,carcinoma,+1,1	TTC3	182	1	NM_001001894	exon42	c.C5550T	p.H1850H	TGAGCACCTGTCA	.	PASS	Atlas-SNP
ROCK1	6093	hgsc.bcm.edu	37	18	18534948	18534948	+	Missense_Mutation	SNP	G	G	C	rs2847092	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	280	35	249	1	0.125	0.00401606	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
PDE4DIP	9659	hgsc.bcm.edu	37	1	144875979	144875979	+	Silent	SNP	G	G	C	rs71664005	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	35	120	0	0.257353	0	G|0.216;C|0.784	0.784	strong	.	PDE4DIP	817	.	NM_014644	exon29	c.C4701G	p.L1567L	TTACCTGAGGGCC	.	PASS	Atlas-SNP
COL15A1	1306	hgsc.bcm.edu	37	9	101778272	101778272	+	Missense_Mutation	SNP	A	A	C	rs35250850	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	48	76	0	0.475248	0	A|0.927;C|0.073	0.073	strong	.	COL15A1	211	.	NM_001855	exon11	c.A1518C	p.E506D	TGATGAAGAAGAC	.	PASS	Atlas-SNP
PCDHGB1	56104	hgsc.bcm.edu	37	5	140731408	140731408	+	Silent	SNP	A	A	G	rs3749777	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	40	14	62	0	0.35	0	A|0.882;G|0.118	0.118	strong	.	PCDHGB1	198	.	NM_018922	exon1	c.A1581G	p.T527T	GCTCACACTGCAG	.	PASS	Atlas-SNP
PLXNB3	5365	hgsc.bcm.edu	37	X	153042419	153042419	+	Silent	SNP	G	G	A	rs34966902	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	235	139	94	0	0.591489	0	G|0.439;A|0.561	0.561	strong	.	PLXNB3	208	.	NM_001163257	exon30	c.G4980A	p.R1660R	CCAGAGGTGCCCC	.	PASS	Atlas-SNP
CR1	1378	hgsc.bcm.edu	37	1	207787796	207787796	+	Missense_Mutation	SNP	T	T	C	rs61822976	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	260	16	225	1	0.0615385	0.00444444	.	.	weak	CR1_ENST00000367049,NS,carcinoma,0,4	CR1	354	4	NM_000651	exon40	c.T6623C	p.M2208T	CTGGAATGAAAGC	.	scavenged	Atlas-SNP
LPCAT1	79888	hgsc.bcm.edu	37	5	1494909	1494909	+	Silent	SNP	C	C	T	rs3733796	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	47	83	0	0.505376	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
METTL22	79091	hgsc.bcm.edu	37	16	8729124	8729124	+	Missense_Mutation	SNP	G	G	A	rs2302607	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	26	53	0	0.464286	0	G|0.793;A|0.207	0.207	strong	.	METTL22	23	.	NM_024109	exon5	c.G655A	p.A219T	GGGCTCGCTAGCA	.	PASS	Atlas-SNP
OR10A4	283297	hgsc.bcm.edu	37	11	6898495	6898495	+	Missense_Mutation	SNP	T	T	C	rs2595453	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	221	115	219	0	0.520362	0	T|0.965;C|0.035	0.035	strong	.	OR10A4	65	.	NM_207186	exon1	c.T617C	p.L206P	CTGTCCTATTCAT	.	PASS	Atlas-SNP
DNAJC21	134218	hgsc.bcm.edu	37	5	34954079	34954079	+	Silent	SNP	C	C	G	rs17244979	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	239	102	247	0	0.426778	0	C|0.946;G|0.054	0.054	strong	.	DNAJC21	54	.	NM_194283	exon12	c.C1542G	p.V514V	ACCTGTCAGAGTA	.	PASS	Atlas-SNP
KIF18B	146909	hgsc.bcm.edu	37	17	43011908	43011908	+	Silent	SNP	G	G	A	rs755547	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	62	107	0	0.504065	0	G|0.873;T|0.001	.	strong	KIF18B,NS,carcinoma,0,2	KIF18B	63	2	NM_001264573	exon5	c.C654T	p.N218N	AGTCGCGTTGGCA	.	PASS	Atlas-SNP
C18orf21	83608	hgsc.bcm.edu	37	18	33557466	33557466	+	Missense_Mutation	SNP	A	A	G	rs2276314	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	45	82	0	0.478723	0	A|0.742;G|0.258	0.258	strong	.	C18orf21	15	.	NM_031446	exon4	c.A394G	p.T132A	ACTCCTACAAGTA	.	PASS	Atlas-SNP
SPEG	10290	hgsc.bcm.edu	37	2	220342004	220342004	+	Silent	SNP	G	G	A	rs45519033	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	26	39	0	0.553191	0	G|0.945;A|0.055	0.055	strong	.	SPEG	272	.	NM_005876	exon20	c.G4566A	p.E1522E	GGACGAGGTGCTG	.	PASS	Atlas-SNP
OLR1	4973	hgsc.bcm.edu	37	12	10313448	10313448	+	Missense_Mutation	SNP	C	C	G	rs11053646	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	87	142	0	0.520958	0	C|0.862;G|0.138	0.138	strong	.	OLR1	29	.	NM_001172633	exon4	c.G501C	p.K167N	TTGGCTCTTTTCC	.	PASS	Atlas-SNP
NAGS	162417	hgsc.bcm.edu	37	17	42084067	42084067	+	Silent	SNP	T	T	C	rs55708447	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	36	91	0	0.45	0	T|0.864;C|0.136	0.136	strong	.	NAGS	25	.	NM_153006	exon4	c.T1086C	p.F362F	GCTCTTTAGCAAC	.	PASS	Atlas-SNP
PRRC2C	23215	hgsc.bcm.edu	37	1	171511039	171511039	+	Silent	SNP	C	C	G	rs1687064	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	48	84	0	0.494845	0	C|0.195;G|0.805	0.805	strong	BAT2D1_ENST00000392078,NS,carcinoma,+1,3	.	.	3	NM_015172	exon16	c.C4428G	p.S1476S	TATTTCCGGGAAT	.	PASS	Atlas-SNP
UBP1	7342	hgsc.bcm.edu	37	3	33467112	33467112	+	Missense_Mutation	SNP	G	G	A	rs61751640	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	35	80	0	0.406977	0	G|0.994;A|0.006	0.006	strong	.	UBP1	42	.	NM_001128160	exon2	c.C235T	p.H79Y	CATCATGCAGTTT	.	PASS	Atlas-SNP
ADAM28	10863	hgsc.bcm.edu	37	8	24167750	24167750	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	62	128	0	0.504065	0	.	.	none	.	ADAM28	100	.	NM_014265	exon4	c.T302G	p.I101S	CACAAATTATGGT	.	PASS	Atlas-SNP
CLEC3A	10143	hgsc.bcm.edu	37	16	78064351	78064351	+	Silent	SNP	C	C	G	rs2293776	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	81	96	0	1	0	C|0.771;G|0.229	0.229	strong	.	CLEC3A	39	.	NM_005752	exon3	c.C234G	p.L78L	CTGTCTCCGAGGC	.	PASS	Atlas-SNP
TRIM64B	642446	hgsc.bcm.edu	37	11	89608899	89608899	+	Missense_Mutation	SNP	T	T	G	rs77843834	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	41	128	0	0.372727	0	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
ZNF516	9658	hgsc.bcm.edu	37	18	74092242	74092242	+	Missense_Mutation	SNP	A	A	G	rs117566743	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	41	78	2	0.5125	0.025641	A|0.989;G|0.011	0.011	strong	ZNF516,NS,carcinoma,0,1	ZNF516	102	1	NM_014643	exon4	c.T1828C	p.C610R	AGCAGCAGCGGCG	.	scavenged	Atlas-SNP
KIF27	55582	hgsc.bcm.edu	37	9	86465131	86465131	+	Missense_Mutation	SNP	T	T	C	rs74425200		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	616	282	584	1	0.457792	0.00171233	.	.	weak	.	KIF27	103	.	NM_017576	exon16	c.A3439G	p.M1147V	GAACCATATTATC	.	PASS	Atlas-SNP
TSPAN14	81619	hgsc.bcm.edu	37	10	82269158	82269158	+	Silent	SNP	C	C	T	rs145582053	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	70	145	0	0.526316	0	C|0.999;T|0.001	0.001	strong	.	TSPAN14	29	.	NM_030927	exon5	c.C381T	p.F127F	GTTCTTCGAGAGC	.	PASS	Atlas-SNP
SFT2D1	113402	hgsc.bcm.edu	37	6	166739646	166739646	+	Missense_Mutation	SNP	T	T	C	rs11551053	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	92	185	0	0.505495	0	T|0.932;C|0.068	0.068	strong	SFT2D1,colon,carcinoma,+1,2	SFT2D1	12	2	NM_145169	exon5	c.A325G	p.I109V	TAAATATGAAACA	.	PASS	Atlas-SNP
ATP6V0A1	535	hgsc.bcm.edu	37	17	40632729	40632729	+	Silent	SNP	C	C	T	rs41283429	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	50	63	0	0.50505	0	C|0.969;T|0.031	0.031	strong	.	ATP6V0A1	67	.	NM_001130020	exon8	c.C699T	p.G233G	CCAAGGCGATCAG	.	PASS	Atlas-SNP
ZNF292	23036	hgsc.bcm.edu	37	6	87967636	87967636	+	Missense_Mutation	SNP	A	A	G	rs6941356	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	223	110	213	0	0.493274	0	A|0.927;G|0.073	0.073	strong	.	ZNF292	479	.	NM_015021	exon8	c.A4289G	p.N1430S	CCACAAATGCAGT	.	PASS	Atlas-SNP
KRTAP5-5	439915	hgsc.bcm.edu	37	11	1651643	1651643	+	Silent	SNP	C	C	T	rs4752771	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	36	70	0	0.507042	0	C|0.691;T|0.309	0.309	strong	KRTAP5-5,NS,carcinoma,0,1	KRTAP5-5	86	1	NM_001001480	exon1	c.C573T	p.P191P	TAAGCCCTACTGC	.	PASS	Atlas-SNP
C6orf201	404220	hgsc.bcm.edu	37	6	4087934	4087934	+	Missense_Mutation	SNP	G	G	C	rs619483	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	79	92	0	0.9875	0	G|0.746;C|0.254	0.254	strong	.	C6orf201	17	.	NM_001085401	exon2	c.G59C	p.R20P	ATTCCCGCAAGAG	.	PASS	Atlas-SNP
PIGN	23556	hgsc.bcm.edu	37	18	59814268	59814268	+	Silent	SNP	G	G	A	rs9320000	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	253	121	262	0	0.478261	0	G|0.397;A|0.603	0.603	strong	.	PIGN	62	.	NM_176787	exon9	c.C741T	p.H247H	ATAGAAGTGGTTA	.	PASS	Atlas-SNP
ACOT4	122970	hgsc.bcm.edu	37	14	74061968	74061968	+	Silent	SNP	T	T	C	rs2010070	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	69	152	0	0.5	0	T|0.172;C|0.828	0.828	strong	.	ACOT4	25	.	NM_152331	exon3	c.T876C	p.I292I	GGACATTGTGGAT	.	PASS	Atlas-SNP
GPSM3	63940	hgsc.bcm.edu	37	6	32159956	32159956	+	Silent	SNP	T	T	C	rs3134605	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	35	68	0	0.448718	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
GAS8	2622	hgsc.bcm.edu	37	16	90106746	90106746	+	Silent	SNP	C	C	T	rs61734731	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	23	36	0	0.589744	0	C|0.963;T|0.037	0.037	strong	GAS8,NS,carcinoma,0,1	GAS8	29	1	NM_001481	exon9	c.C1050T	p.T350T	GTTCACCGCAGCC	.	PASS	Atlas-SNP
TYRP1	7306	hgsc.bcm.edu	37	9	12694255	12694255	+	Silent	SNP	C	C	A	rs34509359	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	66	103	0	0.532258	0	C|0.959;A|0.041	0.041	strong	.	TYRP1	60	.	NM_000550	exon2	c.C259A	p.R87R	GATGATCGGGAGG	.	PASS	Atlas-SNP
XRRA1	143570	hgsc.bcm.edu	37	11	74563077	74563077	+	Silent	SNP	G	G	A	rs2304683	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	70	131	0	0.542636	0	G|0.689;A|0.311	0.311	strong	.	XRRA1	46	.	NM_182969	exon13	c.C1197T	p.C399C	GAACTCGCAGAGA	.	PASS	Atlas-SNP
GLB1L2	89944	hgsc.bcm.edu	37	11	134226278	134226278	+	Silent	SNP	C	C	T	rs3802928	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	38	72	0	0.487179	0	C|0.888;T|0.112	0.112	strong	GLB1L2,NS,carcinoma,0,1	GLB1L2	79	1	NM_138342	exon6	c.C642T	p.Y214Y	GCCCTACGTCAAG	.	PASS	Atlas-SNP
LPCAT2	54947	hgsc.bcm.edu	37	16	55562359	55562359	+	Missense_Mutation	SNP	G	G	A	rs61739979	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	349	151	287	0	0.432665	0	G|0.994;A|0.006	0.006	strong	.	LPCAT2	35	.	NM_017839	exon3	c.G382A	p.V128I	GTTGCTGTAAAAG	.	PASS	Atlas-SNP
HLA-DPB1	3115	hgsc.bcm.edu	37	6	33052743	33052743	+	Silent	SNP	T	T	C	rs1126541	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	290	87	391	0	0.3	0	T|0.706;C|0.294	0.294	strong	.	HLA-DPB1	28	.	NM_002121	exon3	c.T381C	p.N127N	GGTGAATGTTTCC	.	PASS	Atlas-SNP
HTR6	3362	hgsc.bcm.edu	37	1	19992513	19992513	+	Silent	SNP	C	C	T	rs1805054	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	48	91	0	0.631579	0	C|0.839;T|0.161	0.161	strong	.	HTR6	38	.	NM_000871	exon1	c.C267T	p.Y89Y	GCTGTACGGGCGC	.	PASS	Atlas-SNP
WNT9A	7483	hgsc.bcm.edu	37	1	228113073	228113073	+	Silent	SNP	C	C	G	rs8192628	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	26	82	0	0.464286	0	G|0.005;C|0.995	0.005	strong	.	WNT9A	39	.	NM_003395	exon2	c.G243C	p.T81T	CACCAGCGTCTCT	.	PASS	Atlas-SNP
IKBKAP	8518	hgsc.bcm.edu	37	9	111679872	111679872	+	Silent	SNP	G	G	A	rs12340246	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	72	155	1	0.496552	0.00645161	G|0.952;A|0.048	0.048	strong	IKBKAP,NS,carcinoma,0,1	IKBKAP	122	1	NM_003640	exon9	c.C819T	p.L273L	ATGAAGGAGTCCA	.	scavenged	Atlas-SNP
ZNF441	126068	hgsc.bcm.edu	37	19	11891003	11891003	+	Missense_Mutation	SNP	G	G	A	rs799193	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	119	137	1	0.991667	0.00729927	G|0.136;A|0.864	0.864	strong	.	ZNF441	123	.	NM_152355	exon4	c.G364A	p.V122I	TGCTACGTTAGAG	.	PASS	Atlas-SNP
KLHDC7A	127707	hgsc.bcm.edu	37	1	18807755	18807755	+	Missense_Mutation	SNP	G	G	A	rs34976233	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	68	111	0	0.492754	0	G|0.895;A|0.105	0.105	strong	.	KLHDC7A	60	.	NM_152375	exon1	c.G280A	p.G94S	CCACAGGGCTGCA	.	PASS	Atlas-SNP
SERPINA5	5104	hgsc.bcm.edu	37	14	95058462	95058462	+	Silent	SNP	A	A	C	rs6116	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	133	135	0	0.992537	0	A|0.635;C|0.365	0.365	strong	.	SERPINA5	69	.	NM_000624	exon6	c.A1107C	p.I369I	GACAATATTCACT	.	PASS	Atlas-SNP
CDCA2	157313	hgsc.bcm.edu	37	8	25364960	25364960	+	Silent	SNP	A	A	G	rs6990278	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	36	66	0	0.537313	0	A|0.800;G|0.200	0.200	strong	.	CDCA2	78	.	NM_152562	exon15	c.A2778G	p.T926T	ATGTACATTTGAC	.	PASS	Atlas-SNP
SLC9C1	285335	hgsc.bcm.edu	37	3	111901099	111901099	+	Missense_Mutation	SNP	T	T	C	rs74840030	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	62	157	0	0.373494	0	T|0.962;C|0.038	0.038	strong	.	.	.	.	NM_183061	exon21	c.A2530G	p.M844V	TGGCCATGATTAA	.	PASS	Atlas-SNP
ASB6	140459	hgsc.bcm.edu	37	9	132400480	132400480	+	Silent	SNP	G	G	A	rs3739851	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	46	19	34	0	0.413043	0	G|0.503;A|0.497	0.497	strong	.	ASB6	31	.	NM_017873	exon6	c.C855T	p.A285A	GTAGGCGGCTCCG	.	PASS	Atlas-SNP
T	6862	hgsc.bcm.edu	37	6	166572045	166572045	+	Missense_Mutation	SNP	C	C	T	rs3127328	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	17	9	27	0	0.529412	0	C|0.877;T|0.123	0.123	strong	.	T	77	.	NM_003181	exon9	c.G1066A	p.G356S	CGGCGCCGTTGCT	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954504	30954504	+	Missense_Mutation	SNP	G	G	C	rs200661879	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	18	73	0	0.113924	0	.	.	weak	.	MUC21	98	.	NM_001010909	exon2	c.G552C	p.E184D	CTCTGAGTCCAGC	.	PASS	Atlas-SNP
EPRS	2058	hgsc.bcm.edu	37	1	220156704	220156704	+	Missense_Mutation	SNP	T	T	C	rs5030752	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	234	106	210	0	0.452991	0	T|0.929;C|0.071	0.071	strong	EPRS,NS,carcinoma,0,1	EPRS	140	1	NM_004446	exon22	c.A3127G	p.I1043V	CACTTATGTCATG	.	PASS	Atlas-SNP
GPER	2852	hgsc.bcm.edu	37	7	1132260	1132260	+	Missense_Mutation	SNP	G	G	A	rs150960969	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	34	75	0	0.478873	0	G|0.999;A|0.001	0.001	strong	.	GPER	25	.	NM_001505	exon2	c.G896A	p.R299H	CTTTCCGCCATGC	.	PASS	Atlas-SNP
YTHDC2	64848	hgsc.bcm.edu	37	5	112899702	112899702	+	Silent	SNP	A	A	G	rs6886628	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	301	299	229	0	0.993355	0	A|0.681;G|0.319	0.319	strong	.	YTHDC2	118	.	NM_022828	exon20	c.A2589G	p.T863T	TTGCACACTAGCT	.	PASS	Atlas-SNP
SLC11A2	4891	hgsc.bcm.edu	37	12	51386066	51386066	+	Silent	SNP	A	A	G	rs1048230	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	44	109	0	0.478261	0	A|0.856;G|0.144	0.144	strong	.	SLC11A2	51	.	NM_001174125	exon13	c.T1341C	p.I447I	GATGGCAATAGAG	.	PASS	Atlas-SNP
CCDC63	160762	hgsc.bcm.edu	37	12	111342558	111342558	+	Silent	SNP	G	G	T	rs34300256	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	57	82	0	0.982759	0	G|0.810;T|0.190	0.190	strong	.	CCDC63	89	.	NM_152591	exon11	c.G1509T	p.V503V	CCCAGTGCTGGGG	.	PASS	Atlas-SNP
USP44	84101	hgsc.bcm.edu	37	12	95927762	95927762	+	Missense_Mutation	SNP	T	T	C	rs3812813	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	273	271	250	0	0.992674	0	T|0.338;C|0.662	0.662	strong	.	USP44	83	.	NM_032147	exon2	c.A271G	p.T91A	CAGTTGTGTTATC	.	PASS	Atlas-SNP
CHRNA4	1137	hgsc.bcm.edu	37	20	61981134	61981134	+	Silent	SNP	G	G	A	rs1044396	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	33	24	49	0	0.727273	0	G|0.625;A|0.375	0.375	strong	.	CHRNA4	98	.	NM_000744	exon5	c.C1629T	p.S543S	CGTGGCGCTCGGG	.	PASS	Atlas-SNP
HIST1H3C	8352	hgsc.bcm.edu	37	6	26045929	26045929	+	Silent	SNP	T	T	C	rs3752416	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	80	83	0	1	0	T|0.301;C|0.699	0.699	strong	.	HIST1H3C	34	.	NM_003531	exon1	c.T291C	p.C97C	GGCTTGTGAGGCC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	154	128	0	0.993548	0	G|0.505;A|0.495	0.495	strong	.	SLC3A1	62	.	NM_000341	exon10	c.G1854A	p.M618I	TAAAATGAGAATA	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324641	31324641	+	Missense_Mutation	SNP	T	T	A	rs1050518	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	70	84	0	0.457516	0	T|0.909;A|0.091	0.091	strong	.	HLA-B	54	.	NM_005514	exon2	c.A167T	p.Q56L	ACGAACTGGGTGT	.	PASS	Atlas-SNP
SIGLEC10	89790	hgsc.bcm.edu	37	19	51919240	51919240	+	Silent	SNP	C	C	T	rs79484306	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	210	47	111	0	0.22381	0	C|0.910;T|0.090	0.090	strong	SIGLEC12_ENST00000439889,NS,carcinoma,-2,2	SIGLEC10	112	2	NM_001171157	exon5	c.G936A	p.G312G	CTTCACCCCGGGC	.	PASS	Atlas-SNP
TBC1D17	79735	hgsc.bcm.edu	37	19	50381802	50381802	+	Silent	SNP	T	T	C	rs373760628		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	48	88	0	0.475248	0	.	.	weak	TBC1D17,NS,carcinoma,+2,1	TBC1D17	39	1	NM_024682	exon3	c.T168C	p.D56D	TGGAGATTCCACC	.	PASS	Atlas-SNP
SLC5A11	115584	hgsc.bcm.edu	37	16	24918048	24918048	+	Missense_Mutation	SNP	C	C	T	rs17772929	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	37	81	1	0.4625	0.0123457	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	.	scavenged	Atlas-SNP
CACNA1S	779	hgsc.bcm.edu	37	1	201012484	201012484	+	Missense_Mutation	SNP	C	C	T	rs13374149	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	180	89	166	0	0.494444	0	C|0.890;T|0.110	0.110	strong	.	CACNA1S	249	.	NM_000069	exon40	c.G4973A	p.R1658H	TTGGCACGAGCCA	.	PASS	Atlas-SNP
SGSM1	129049	hgsc.bcm.edu	37	22	25264353	25264353	+	Silent	SNP	C	C	T	rs61744681	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	64	114	0	0.463768	0	C|0.993;T|0.007	0.007	strong	.	SGSM1	150	.	NM_001098497	exon11	c.C1005T	p.G335G	CAGCGGCGGGACA	.	PASS	Atlas-SNP
SPTBN1	6711	hgsc.bcm.edu	37	2	54858511	54858511	+	Silent	SNP	C	C	T	rs1052788	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	62	113	0	0.48062	0	C|0.759;T|0.241	0.241	strong	SPTBN1,NS,carcinoma,0,1	SPTBN1	378	1	NM_003128	exon16	c.C3327T	p.N1109N	CAAGAACGAGATC	.	PASS	Atlas-SNP
CCDC66	285331	hgsc.bcm.edu	37	3	56653424	56653424	+	Missense_Mutation	SNP	A	A	T	rs61747991	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	235	125	187	0	0.531915	0	A|0.952;T|0.048	0.048	strong	.	CCDC66	145	.	NM_001141947	exon16	c.A2504T	p.E835V	AAACAGAATTATC	.	PASS	Atlas-SNP
PNP	4860	hgsc.bcm.edu	37	14	20940626	20940626	+	Silent	SNP	C	C	T	rs1130650	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	71	107	0	0.546154	0	C|0.786;T|0.214	0.214	strong	PNP,NS,carcinoma,+2,2	PNP	21	2	NM_000270	exon2	c.C171T	p.P57P	CTTTCCCCGAAGT	.	PASS	Atlas-SNP
ECE2	9718	hgsc.bcm.edu	37	3	183976108	183976108	+	Silent	SNP	T	T	C	rs902415	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	125	118	0	0.984252	0	T|0.697;C|0.303	0.303	strong	.	ECE2	303	.	NM_032331	exon3	c.T513C	p.F171F	CCGGTTTATCTCA	.	PASS	Atlas-SNP
KANSL1	284058	hgsc.bcm.edu	37	17	44110532	44110532	+	Silent	SNP	G	G	A	rs36076725	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	230	106	219	0	0.46087	0	A|0.143;C|0.000;G|0.856;T|0.000	0.143	strong	.	.	.	.	NM_001193466	exon13	c.C2751T	p.F917F	GGCGGCGAAGGCT	.	PASS	Atlas-SNP
ARVCF	421	hgsc.bcm.edu	37	22	19969587	19969587	+	Silent	SNP	G	G	A	rs372955497		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	55	88	0	0.466102	0	.	.	weak	.	ARVCF	54	.	NM_001670	exon4	c.C238T	p.L80L	TGGCCAGTGAGGC	.	PASS	Atlas-SNP
FAM108A1	81926	hgsc.bcm.edu	37	19	1881348	1881348	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	9	81	0	0.145161	0	.	.	none	FAM108A1,NS,carcinoma,+1,1	FAM108A1	29	1	NM_031213	exon2	c.G218A	p.R73H	TCGGCACGCTCCG	.	scavenged	Atlas-SNP
B3GNT9	84752	hgsc.bcm.edu	37	16	67183867	67183867	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	25	16	25	0	0.64	0	.	.	none	B3GNT9,NS,carcinoma,-1,1	B3GNT9	25	1	NM_033309	exon2	c.G522A	p.A174A	GGTTCGCGCGCCC	.	scavenged	Atlas-SNP
RALGPS2	55103	hgsc.bcm.edu	37	1	178854330	178854330	+	Missense_Mutation	SNP	C	C	T	rs61758794	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	38	71	0	0.457831	0	C|0.993;T|0.007	0.007	strong	.	RALGPS2	69	.	NM_152663	exon12	c.C1024T	p.H342Y	AAGTGCCATAGTT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9006749	9006749	+	Missense_Mutation	SNP	C	C	T	rs75444444	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	79	171	0	0.526667	0	C|0.824;T|0.176	0.176	strong	.	MUC16	4315	.	NM_024690	exon44	c.G39499A	p.V13167M	ATGGCACCAGGAG	.	PASS	Atlas-SNP
CDHR3	222256	hgsc.bcm.edu	37	7	105658451	105658451	+	Missense_Mutation	SNP	G	G	A	rs6967330	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	29	45	0	0.557692	0	G|0.826;A|0.174	0.174	strong	.	CDHR3	153	.	NM_152750	exon12	c.G1586A	p.C529Y	TGGACTGTGAAAC	.	PASS	Atlas-SNP
RADIL	55698	hgsc.bcm.edu	37	7	4874420	4874420	+	Missense_Mutation	SNP	G	G	C	rs2292498	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	47	77	0	0.534091	0	G|0.754;C|0.246	0.246	strong	.	RADIL	110	.	NM_018059	exon4	c.C1234G	p.H412D	CCAGGTGGGGCTC	.	PASS	Atlas-SNP
DYNC1H1	1778	hgsc.bcm.edu	37	14	102463407	102463407	+	Silent	SNP	A	A	G	rs12893215	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	76	168	0	0.431818	0	A|0.836;G|0.164	0.164	strong	DYNC1H1,NS,carcinoma,0,1	DYNC1H1	395	1	NM_001376	exon16	c.A3600G	p.Q1200Q	AAAGCAAAGGTTC	.	PASS	Atlas-SNP
AVPI1	60370	hgsc.bcm.edu	37	10	99439673	99439673	+	Splice_Site	SNP	C	C	G	rs3818780	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	25	24	47	0	0.96	0	C|0.822;G|0.178	0.178	strong	.	AVPI1	16	.	.	.	.	.	GATGCTCTGAGGA	.	PASS	Atlas-SNP
RSPH4A	345895	hgsc.bcm.edu	37	6	116950734	116950734	+	Missense_Mutation	SNP	G	G	A	rs6927567	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	29	81	0	0.358025	0	G|0.812;A|0.188	0.188	strong	.	RSPH4A	54	.	NM_001010892	exon4	c.G1667A	p.R556H	AGGGTCGCTGTAA	.	PASS	Atlas-SNP
IGSF3	3321	hgsc.bcm.edu	37	1	117142707	117142707	+	Missense_Mutation	SNP	G	G	A	rs201515387	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	9	57	0	0.0762712	0	G|0.995;A|0.005	0.005	strong	IGSF3_ENST00000369483,NS,carcinoma,0,2	IGSF3	294	2	NM_001542	exon8	c.C1945T	p.R649C	TTAGGCGGACGTT	.	scavenged	Atlas-SNP
CLEC16A	23274	hgsc.bcm.edu	37	16	11056378	11056378	+	Silent	SNP	C	C	T	rs16957839	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	84	189	1	0.444444	0.00529101	C|0.873;T|0.127	0.127	strong	CLEC16A,NS,carcinoma,0,1	CLEC16A	101	1	NM_015226	exon3	c.C276T	p.Y92Y	CCGTTACGTGTGC	.	scavenged	Atlas-SNP
FRAS1	80144	hgsc.bcm.edu	37	4	79443837	79443837	+	Missense_Mutation	SNP	A	A	T	rs931605	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	42	87	0	0.368421	0	A|0.897;T|0.103	0.103	strong	.	FRAS1	779	.	NM_025074	exon69	c.A10683T	p.E3561D	CCCAGAAGTGAAA	.	PASS	Atlas-SNP
TRPM1	4308	hgsc.bcm.edu	37	15	31329944	31329944	+	Silent	SNP	G	G	A	rs12911350	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	95	177	0	0.424107	0	G|0.909;A|0.091	0.091	strong	.	TRPM1	183	.	NM_001252020	exon19	c.C2592T	p.N864N	GGGCGCGTTATAG	.	PASS	Atlas-SNP
BRCA2	675	hgsc.bcm.edu	37	13	32906480	32906480	+	Missense_Mutation	SNP	A	A	C	rs766173	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	81	171	0	0.852632	0	C|0.046;A|0.954	0.046	strong	.	BRCA2	812	.	NM_000059	exon10	c.A865C	p.N289H	ATGCCAAATGTCC	.	PASS	Atlas-SNP
COL5A1	1289	hgsc.bcm.edu	37	9	137711997	137711997	+	Silent	SNP	G	G	C	rs2228560	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	68	90	0	0.544	0	A|0.009;C|0.408;G|0.583	0.408	strong	.	COL5A1	323	.	NM_000093	exon58	c.G4482C	p.P1494P	TCCTCCGGGTGAA	.	PASS	Atlas-SNP
GABRA5	2558	hgsc.bcm.edu	37	15	27188459	27188459	+	Silent	SNP	C	C	T	rs140685	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	69	93	0	0.469388	0	C|0.544;T|0.456	0.456	strong	.	GABRA5	127	.	NM_001165037	exon10	c.C975T	p.A325A	CATAGCCGTGTGC	.	PASS	Atlas-SNP
DPP8	54878	hgsc.bcm.edu	37	15	65790319	65790319	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	59	140	0	0.433824	0	.	.	none	.	DPP8	78	.	NM_197960	exon6	c.A646G	p.M216V	GATCCATCCGTAT	.	PASS	Atlas-SNP
CNTLN	54875	hgsc.bcm.edu	37	9	17135115	17135115	+	Silent	SNP	C	C	T	rs41306071	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	44	60	0	0.611111	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
ZNF721	170960	hgsc.bcm.edu	37	4	466365	466365	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	282	4	230	0	0.0141844	0	.	.	none	ZNF721_ENST00000511833,NS,carcinoma,0,1	ZNF721	205	1	NM_133474	exon2	c.C33G	p.I11M	CTCACCTAGGGAG	.	scavenged	Atlas-SNP
ADAM22	53616	hgsc.bcm.edu	37	7	87754915	87754915	+	Missense_Mutation	SNP	G	G	A	rs17255978	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	72	135	0	0.473684	0	G|0.933;A|0.067	0.067	strong	.	ADAM22	280	.	NM_021722	exon8	c.G619A	p.V207I	CAGCAAGTAAACA	.	PASS	Atlas-SNP
CDH23	64072	hgsc.bcm.edu	37	10	73550117	73550117	+	Missense_Mutation	SNP	C	C	G	rs11592462	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	50	108	0	0.42735	0	C|0.672;G|0.328	0.328	strong	.	CDH23	365	.	NM_022124	exon44	c.C5996G	p.T1999S	TGGTGACCTACCA	.	PASS	Atlas-SNP
TSHZ1	10194	hgsc.bcm.edu	37	18	72999359	72999359	+	Missense_Mutation	SNP	T	T	C	rs55679337	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	46	72	0	0.438095	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
MINK1	50488	hgsc.bcm.edu	37	17	4794407	4794407	+	Missense_Mutation	SNP	G	G	C	rs200592676	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	55	106	0	0.37931	0	G|0.995;C|0.005	0.005	weak	.	MINK1	110	.	NM_170663	exon15	c.G1728C	p.E576D	CCAGGAGGGACCG	.	PASS	Atlas-SNP
ENDOV	284131	hgsc.bcm.edu	37	17	78395734	78395734	+	Missense_Mutation	SNP	G	G	A	rs34933300	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	22	40	0	0.468085	0	G|0.855;A|0.145	0.145	strong	.	ENDOV	26	.	NM_173627	exon3	c.G335A	p.R112Q	AGCTGCGGGAGAA	.	PASS	Atlas-SNP
HIF3A	64344	hgsc.bcm.edu	37	19	46823702	46823702	+	Missense_Mutation	SNP	A	A	G	rs3764609	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	19	48	0	0.422222	0	A|0.820;G|0.180	0.180	strong	HIF3A_ENST00000377670,brain,glioma,0,2	HIF3A	154	2	NM_152795	exon9	c.A1028G	p.Q343R	CCAGCCAGGTGGA	.	PASS	Atlas-SNP
CA2	760	hgsc.bcm.edu	37	8	86389403	86389403	+	Silent	SNP	T	T	C	rs703	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	207	207	168	1	1	0.00595238	T|0.376;C|0.624	0.624	strong	.	CA2	28	.	NM_000067	exon6	c.T562C	p.L188L	GAATCCTTGGATT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	51	91	0	0.439655	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
EXOC3L4	91828	hgsc.bcm.edu	37	14	103566785	103566785	+	Missense_Mutation	SNP	C	C	T	rs2297067	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	112	161	0	0.530806	0	C|0.804;T|0.196	0.196	strong	EXOC3L4,NS,carcinoma,0,1	EXOC3L4	35	1	NM_001077594	exon1	c.C229T	p.R77W	CTGTTCCGGCGAA	.	PASS	Atlas-SNP
LEPROTL1	23484	hgsc.bcm.edu	37	8	29961951	29961951	+	Silent	SNP	C	C	T	rs11557703	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	240	131	265	0	0.545833	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
SNRNP200	23020	hgsc.bcm.edu	37	2	96944553	96944553	+	Silent	SNP	G	G	A	rs772175	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	235	233	203	0	0.991489	0	G|0.733;A|0.267	0.267	strong	.	SNRNP200	195	.	NM_014014	exon37	c.C5317T	p.L1773L	CCTGCAGGTTGTA	.	PASS	Atlas-SNP
FZD10	11211	hgsc.bcm.edu	37	12	130649134	130649134	+	Silent	SNP	C	C	T	rs61751357	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	34	60	0	0.435897	0	C|0.956;T|0.044	0.044	strong	.	FZD10	95	.	NM_007197	exon1	c.C1647T	p.S549S	GGCCAGCGTGATC	.	PASS	Atlas-SNP
CEP112	201134	hgsc.bcm.edu	37	17	64023642	64023642	+	Silent	SNP	A	A	G	rs11079628	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	101	184	0	0.926606	0	A|0.561;G|0.439	0.439	strong	.	CEP112	192	.	NM_001199165	exon16	c.T1633C	p.L545L	GTTTTAAATGACT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	30	53	0	0.526316	0	G|0.466;A|0.534	0.534	strong	.	.	.	.	NM_175882	exon1	c.G908A	p.R303H	TGTGCCGCCTGTC	.	PASS	Atlas-SNP
MBLAC2	153364	hgsc.bcm.edu	37	5	89769999	89769999	+	Silent	SNP	G	G	A	rs2115501	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	60	103	0	0.540541	0	G|0.911;A|0.089	0.089	strong	.	MBLAC2	9	.	NM_203406	exon1	c.C111T	p.G37G	CTCGGAGCCGCGC	.	PASS	Atlas-SNP
IRX3	79191	hgsc.bcm.edu	37	16	54318172	54318172	+	Missense_Mutation	SNP	C	C	A	rs1126960	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	36	70	0	0.45	0	T|0.000;G|0.000;C|0.792;A|0.208	0.208	strong	.	IRX3	25	.	NM_024336	exon3	c.G1437T	p.Q479H	CACGGGCTGGAAA	.	PASS	Atlas-SNP
GPR39	2863	hgsc.bcm.edu	37	2	133174764	133174764	+	Missense_Mutation	SNP	C	C	T	rs2241764	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	252	120	175	0	0.47619	0	C|0.618;T|0.381	0.381	strong	.	GPR39	60	.	NM_001508	exon1	c.C149T	p.A50V	ACAGCGCCACCAT	.	PASS	Atlas-SNP
ZNF471	57573	hgsc.bcm.edu	37	19	57036012	57036012	+	Missense_Mutation	SNP	G	G	T	rs11667052	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	18	47	0	0.382979	0	G|0.792;T|0.208	0.208	strong	.	ZNF471	99	.	NM_020813	exon5	c.G576T	p.M192I	TTCTATGGTAATA	.	PASS	Atlas-SNP
NACA	4666	hgsc.bcm.edu	37	12	57114435	57114435	+	Silent	SNP	C	C	T	rs376706368		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	46	23	38	0	0.5	0	.	.	weak	.	NACA	131	.	NM_001113203	exon3	c.G879A	p.A293A	GGGACCCGCAGTC	.	PASS	Atlas-SNP
ARHGAP30	257106	hgsc.bcm.edu	37	1	161017556	161017556	+	Silent	SNP	C	C	T	rs2774279	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	41	104	0	0.405941	0	C|0.752;T|0.248	0.248	strong	.	ARHGAP30	105	.	NM_001025598	exon12	c.G3255A	p.R1085R	ATATGACCTGCGC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	75	121	0	0.490196	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
PDGFC	56034	hgsc.bcm.edu	37	4	157684248	157684248	+	Silent	SNP	T	T	C	rs3815861	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	56	75	1	0.523364	0.0133333	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
TG	7038	hgsc.bcm.edu	37	8	134125682	134125682	+	Missense_Mutation	SNP	G	G	A	rs1133076	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	32	32	34	0	1	0	G|0.442;A|0.558	0.558	strong	.	TG	416	.	NM_003235	exon44	c.G7589A	p.R2530Q	AAAGTCGAGGCCG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179582537	179582537	+	Missense_Mutation	SNP	G	G	T	rs2627043	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	31	67	0	0.449275	0	G|0.606;T|0.394	0.394	strong	TTN_ENST00000356127,NS,carcinoma,+1,2	TTN	18412	2	NM_001267550	exon87	c.C25064A	p.A8355E	TTGCGCGCTGTAA	.	PASS	Atlas-SNP
DFNB31	25861	hgsc.bcm.edu	37	9	117169033	117169033	+	Missense_Mutation	SNP	A	A	G	rs942519	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	93	70	0	0.989362	0	A|0.511;G|0.489	0.489	strong	.	DFNB31	100	.	NM_001173425	exon9	c.T1838C	p.M613T	GAAGGCATGGAGG	.	PASS	Atlas-SNP
NSUN4	387338	hgsc.bcm.edu	37	1	46827456	46827456	+	Missense_Mutation	SNP	A	A	G	rs9865	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	369	203	337	0	0.550135	0	A|0.862;G|0.138	0.138	strong	.	NSUN4	26	.	NM_199044	exon6	c.A1093G	p.I365V	CTGGTAATACCAA	.	PASS	Atlas-SNP
RFPL2	10739	hgsc.bcm.edu	37	22	32589090	32589090	+	Missense_Mutation	SNP	C	C	T	rs8135276	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	209	105	228	0	0.502392	0	C|0.875;T|0.125	0.125	strong	.	RFPL2	81	.	NM_001098527	exon4	c.G355A	p.A119T	AGACGGCGCATCC	.	PASS	Atlas-SNP
CACNA1B	774	hgsc.bcm.edu	37	9	140773504	140773504	+	Splice_Site	SNP	A	A	C	rs77221813	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	9	85	8	0.0882353	0.0941176	.	.	weak	CACNA1B,colon,carcinoma,0,1	CACNA1B	266	1	NM_001243812	exon2	c.285-2A>C	.	TCACGCACTCCAT	.	scavenged	Atlas-SNP
CNN2	1265	hgsc.bcm.edu	37	19	1036468	1036468	+	Silent	SNP	A	A	G	rs1064411	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	69	134	0	0.448052	0	A|0.837;G|0.163	0.163	strong	.	CNN2	26	.	NM_004368	exon6	c.A561G	p.R187R	CACGAGAAGGCAT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	352	99	220	0	0.28125	0	C|0.255;G|0.745	0.745	strong	.	FIGLA	23	.	NM_001004311	exon3	c.G422C	p.S141T	TCAGAACTGTTGT	.	PASS	Atlas-SNP
SPARCL1	8404	hgsc.bcm.edu	37	4	88416188	88416188	+	Missense_Mutation	SNP	G	G	T	rs13051	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	323	153	273	0	0.473684	0	G|0.474;T|0.526	0.526	strong	SPARCL1,NS,carcinoma,0,1	SPARCL1	59	1	NM_004684	exon3	c.C146A	p.A49D	TCTTCAGCTTCAG	.	PASS	Atlas-SNP
SART3	9733	hgsc.bcm.edu	37	12	108941679	108941679	+	Silent	SNP	G	G	A	rs12579216	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	62	48	0	1	0	G|0.913;A|0.087	0.087	strong	SART3,NS,carcinoma,0,1	SART3	64	1	NM_014706	exon3	c.C528T	p.A176A	CTTCACGGCTTTC	.	PASS	Atlas-SNP
TNRC6A	27327	hgsc.bcm.edu	37	16	24788645	24788645	+	Missense_Mutation	SNP	T	T	A	rs11639856	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	22	60	0	0.5	0	T|0.853;A|0.147	0.147	strong	.	TNRC6A	171	.	NM_014494	exon5	c.T555A	p.N185K	ACAAAATAACGGA	.	PASS	Atlas-SNP
VWA5B2	90113	hgsc.bcm.edu	37	3	183951135	183951135	+	Silent	SNP	C	C	T	rs729377	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	13	12	5	0	0.923077	0	C|0.708;T|0.292	0.292	strong	.	VWA5B2	47	.	NM_138345	exon3	c.C480T	p.A160A	GCTGGCCCCGCCA	.	PASS	Atlas-SNP
DLK1	8788	hgsc.bcm.edu	37	14	101200860	101200860	+	Missense_Mutation	SNP	G	G	A	rs1058009	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	36	46	0	0.654545	0	G|0.948;A|0.052	0.052	strong	.	DLK1	57	.	NM_003836	exon5	c.G779A	p.S260N	TGCCCAGCGGCTA	.	PASS	Atlas-SNP
UGT2B28	54490	hgsc.bcm.edu	37	4	70152499	70152499	+	Silent	SNP	T	T	A	rs41292341	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	49	51	0	0.494949	0	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	.	PASS	Atlas-SNP
ALOX15B	247	hgsc.bcm.edu	37	17	7950377	7950377	+	Silent	SNP	C	C	T	rs11541083	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	79	78	0	0.975309	0	C|0.735;T|0.265	0.265	strong	.	ALOX15B	66	.	NM_001141	exon10	c.C1440T	p.I480I	GCAGATCTGGGGT	.	PASS	Atlas-SNP
SSFA2	6744	hgsc.bcm.edu	37	2	182792984	182792984	+	Missense_Mutation	SNP	T	T	A	rs2303554	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	210	113	200	0	0.538095	0	T|0.933;A|0.067	0.067	strong	.	SSFA2	130	.	NM_001130445	exon17	c.T3772A	p.Y1258N	CAAGATTATCATT	.	PASS	Atlas-SNP
ANO10	55129	hgsc.bcm.edu	37	3	43602803	43602803	+	Missense_Mutation	SNP	C	C	T	rs3772165	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	241	111	189	0	0.460581	0	C|0.413;T|0.587	0.587	strong	.	ANO10	70	.	NM_018075	exon9	c.G1385A	p.R462Q	TTCACCCGCACAC	.	PASS	Atlas-SNP
ANKRD18B	441459	hgsc.bcm.edu	37	9	33568687	33568687	+	Silent	SNP	T	T	A	rs7032174	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	27	61	0	0.529412	0	T|0.868;A|0.132	0.132	strong	.	ANKRD18B	46	.	NM_001244752	exon15	c.T2784A	p.A928A	AATAGCTGTGATC	.	PASS	Atlas-SNP
FAM217A	222826	hgsc.bcm.edu	37	6	4069685	4069685	+	Missense_Mutation	SNP	C	C	T	rs639905	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	145	169	0	0.97973	0	C|0.732;T|0.268	0.268	strong	.	.	.	.	NM_173563	exon7	c.G772A	p.A258T	CTAGAGCACTGAA	.	PASS	Atlas-SNP
TAS2R31	259290	hgsc.bcm.edu	37	12	11183832	11183832	+	Missense_Mutation	SNP	G	G	A	rs10845295	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	278	136	271	26	0.489209	0.095941	G|0.581;A|0.419	0.419	strong	TAS2R31,NS,carcinoma,+2,1	TAS2R31	24	1	NM_176885	exon1	c.C103T	p.R35W	TGACCCGCTCAAT	.	scavenged	Atlas-SNP
CAMK2B	816	hgsc.bcm.edu	37	7	44259706	44259706	+	Silent	SNP	G	G	A	rs1065359	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	32	17	33	0	0.53125	0	G|0.654;A|0.346	0.346	strong	.	CAMK2B	56	.	NM_001220	exon23	c.C1956T	p.N652N	GTGCACGTTCTGC	.	PASS	Atlas-SNP
KIAA1109	84162	hgsc.bcm.edu	37	4	123229132	123229132	+	Silent	SNP	C	C	T	rs7688384	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	84	191	1	0.461538	0.0052356	C|0.717;T|0.283	0.283	strong	KIAA1109,NS,carcinoma,0,1	KIAA1109	424	1	NM_015312	exon56	c.C9870T	p.A3290A	TAAGGCCGCCTAT	.	scavenged	Atlas-SNP
RTKN2	219790	hgsc.bcm.edu	37	10	63977980	63977980	+	Missense_Mutation	SNP	C	C	T	rs61850830	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	19	44	0	0.395833	0	C|0.913;T|0.087	0.087	strong	.	RTKN2	68	.	NM_145307	exon8	c.G862A	p.A288T	CAAATGCATCCTC	.	PASS	Atlas-SNP
CLHC1	130162	hgsc.bcm.edu	37	2	55404794	55404794	+	Missense_Mutation	SNP	G	G	A	rs14026	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	90	161	0	0.47619	0	G|0.503;A|0.497	0.497	strong	.	.	.	.	NM_152385	exon12	c.C1508T	p.A503V	ATGTCTGCAGAGA	.	PASS	Atlas-SNP
FLT4	2324	hgsc.bcm.edu	37	5	180057293	180057293	+	Missense_Mutation	SNP	T	T	C	rs34221241	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	77	128	0	0.527397	0	T|0.929;C|0.071	0.071	strong	.	FLT4	356	.	NM_182925	exon4	c.A445G	p.N149D	TCCTGTTGACCAA	.	PASS	Atlas-SNP
LILRB4	11006	hgsc.bcm.edu	37	19	55179364	55179364	+	Missense_Mutation	SNP	A	A	G	rs1048801	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	261	116	219	1	0.444444	0.00456621	A|0.608;G|0.392	0.392	strong	LILRB4,NS,carcinoma,-1,1	LILRB4	86	1	NM_006847	exon12	c.A1241G	p.Q414R	ACGCCCAGCTGCA	.	scavenged	Atlas-SNP
UCK2	7371	hgsc.bcm.edu	37	1	165865478	165865478	+	Silent	SNP	G	G	A	rs11553301	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	68	149	0	0.444444	0	G|0.887;A|0.113	0.113	strong	.	UCK2	31	.	NM_012474	exon4	c.G408A	p.G136G	TGAAGGGATCCTG	.	PASS	Atlas-SNP
BCAM	4059	hgsc.bcm.edu	37	19	45316807	45316807	+	Silent	SNP	C	C	T	rs3810140	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	57	85	0	0.57	0	C|0.946;T|0.054	0.054	strong	BCAM,NS,carcinoma,0,1	BCAM	53	1	NM_001013257	exon6	c.C714T	p.A238A	CTGCGCCGCCCAC	.	PASS	Atlas-SNP
SETD2	29072	hgsc.bcm.edu	37	3	47125385	47125385	+	Missense_Mutation	SNP	G	G	A	rs4082155	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	312	146	342	1	0.467949	0.00292398	G|0.524;A|0.476	0.476	strong	SETD2_ENST00000409792,NS,carcinoma,0,2	SETD2	721	2	NM_014159	exon12	c.C5885T	p.P1962L	TCTTTGGGCTCTA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	62	107	0	1	0	T|0.464;C|0.536	0.536	strong	.	SPTBN5	171	.	NM_016642	exon51	c.A8480G	p.Q2827R	ACATCTTGGGCAA	.	PASS	Atlas-SNP
DENND1A	57706	hgsc.bcm.edu	37	9	126520068	126520068	+	Silent	SNP	T	T	C	rs9785285	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	45	116	0	0.420561	0	T|0.658;C|0.342	0.342	strong	.	DENND1A	112	.	NM_024820	exon5	c.A216G	p.T72T	CACGAATGTGAAG	.	PASS	Atlas-SNP
CYP4A22	284541	hgsc.bcm.edu	37	1	47611598	47611598	+	Missense_Mutation	SNP	T	T	C	rs2405599	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	231	109	216	0	0.471861	0	T|0.740;C|0.260	0.260	strong	.	CYP4A22	60	.	NM_001010969	exon10	c.T1283C	p.L428P	CCAACCTAGAGGT	.	PASS	Atlas-SNP
KIAA0141	9812	hgsc.bcm.edu	37	5	141309265	141309265	+	Silent	SNP	C	C	T	rs10078802	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	83	132	0	0.509202	0	C|0.934;T|0.066	0.066	strong	.	KIAA0141	44	.	NM_001142603	exon5	c.C531T	p.N177N	ACACAACTCTTTG	.	PASS	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	37	1	240371085	240371085	+	Silent	SNP	A	A	T	rs71646826	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	12	67	0	0.153846	0	A|0.836;T|0.164	0.164	strong	FMN2,NS,carcinoma,+1,1	FMN2	451	1	NM_020066	exon5	c.A2973T	p.P991P	TCCCCCACTTCCC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	66	166	0	0.5	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
OR51B6	390058	hgsc.bcm.edu	37	11	5372881	5372881	+	Silent	SNP	G	G	A	rs77135024	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	262	128	280	0	0.48855	0	G|0.877;A|0.123	0.123	strong	OR51B6,NS,carcinoma,+1,1	OR51B6	53	1	NM_001004750	exon1	c.G144A	p.R48R	CATCAGGAATGAT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	21	40	0	0.403846	0	A|0.802;T|0.198	0.198	strong	.	CDCA2	78	.	NM_152562	exon15	c.A2652T	p.R884S	GAGGAGAAATAGT	.	PASS	Atlas-SNP
CBFA2T2	9139	hgsc.bcm.edu	37	20	32210968	32210968	+	Silent	SNP	G	G	A	rs368919989		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	67	111	0	0.482014	0	.	.	weak	.	CBFA2T2	93	.	NM_005093	exon6	c.G585A	p.A195A	TCGGGCGGCCAAG	.	PASS	Atlas-SNP
GUCY2D	3000	hgsc.bcm.edu	37	17	7907189	7907189	+	Silent	SNP	C	C	T	rs3829789	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	43	85	0	0.505882	0	C|0.893;T|0.107	0.107	strong	.	GUCY2D	82	.	NM_000180	exon3	c.C741T	p.H247H	GATGCACTCGGTG	.	PASS	Atlas-SNP
DNAH1	25981	hgsc.bcm.edu	37	3	52430526	52430526	+	Missense_Mutation	SNP	G	G	A	rs12163565	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	53	99	1	0.420635	0.010101	G|0.840;A|0.160	0.160	strong	DNAH1_ENST00000420323,rectum,carcinoma,0,2	DNAH1	534	2	NM_015512	exon71	c.G11402A	p.G3801D	GCCTTGGTGAAGA	.	scavenged	Atlas-SNP
SPATA9	83890	hgsc.bcm.edu	37	5	94994339	94994339	+	Silent	SNP	A	A	G	rs10705	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	77	151	0	0.5	0	A|0.846;G|0.154	0.154	strong	.	SPATA9	17	.	NM_031952	exon5	c.T753C	p.N251N	TTGCTCATTCATT	.	PASS	Atlas-SNP
LRRN2	10446	hgsc.bcm.edu	37	1	204588140	204588140	+	Silent	SNP	G	G	A	rs3747630	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	61	115	0	0.476562	0	G|0.800;A|0.200	0.200	strong	.	LRRN2	81	.	NM_006338	exon3	c.C981T	p.H327H	GCGGGGGTGGATG	.	PASS	Atlas-SNP
FN3KRP	79672	hgsc.bcm.edu	37	17	80684784	80684784	+	Missense_Mutation	SNP	G	G	A	rs142718764	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	56	114	1	0.528302	0.00877193	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	.	scavenged	Atlas-SNP
ESRRA	2101	hgsc.bcm.edu	37	11	64083273	64083273	+	Silent	SNP	C	C	T	rs41294422	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	23	56	0	0.343284	0	C|0.991;T|0.009	0.009	strong	.	ESRRA	56	.	NM_004451	exon7	c.C1107T	p.P369P	TGGCCCCGGAGGG	.	PASS	Atlas-SNP
PTPRB	5787	hgsc.bcm.edu	37	12	70989977	70989977	+	Silent	SNP	T	T	C	rs11178317	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	82	137	0	0.493976	0	C|0.170;N|0.000	0.170	strong	.	PTPRB	676	.	NM_001109754	exon5	c.A1110G	p.Q370Q	TATCTTTTGGTTA	.	PASS	Atlas-SNP
WDR87	83889	hgsc.bcm.edu	37	19	38378107	38378107	+	Silent	SNP	G	G	A	rs60704260	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	336	165	340	0	0.491071	0	G|0.650;A|0.350	0.350	strong	WDR87,NS,carcinoma,0,1	WDR87	191	1	NM_031951	exon6	c.C6087T	p.S2029S	AATTTCGCTTTCC	.	PASS	Atlas-SNP
PINK1	65018	hgsc.bcm.edu	37	1	20960385	20960385	+	Missense_Mutation	SNP	A	A	T	rs148871409	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	22	7	46	0	0.318182	0	A|0.976;T|0.024	0.024	strong	.	PINK1	37	.	NM_032409	exon1	c.A344T	p.Q115L	AAAAACAGGCGGA	.	PASS	Atlas-SNP
ELMSAN1	91748	hgsc.bcm.edu	37	14	74205878	74205878	+	Silent	SNP	C	C	T	rs17782128	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	55	125	0	0.491071	0	C|0.861;T|0.139	0.139	strong	C14orf43,bladder,carcinoma,-1,1	.	.	1	NM_194278	exon2	c.G834A	p.P278P	TTGCTGCGGCATG	.	PASS	Atlas-SNP
RBL2	5934	hgsc.bcm.edu	37	16	53481010	53481010	+	Missense_Mutation	SNP	A	A	G	rs17800727	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	85	126	0	0.977012	0	A|0.828;G|0.172	0.172	strong	.	RBL2	115	.	NM_005611	exon4	c.A629G	p.Y210C	TTATATATGCAAA	.	PASS	Atlas-SNP
KIAA1671	85379	hgsc.bcm.edu	37	22	25573431	25573431	+	Silent	SNP	G	G	A	rs12168578	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	251	118	192	0	0.47012	0	G|0.899;A|0.101	0.101	strong	.	KIAA1671	28	.	NM_001145206	exon7	c.G5016A	p.E1672E	GTCCGAGAGCAGA	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179393111	179393111	+	Missense_Mutation	SNP	A	A	G	rs16866378	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	70	138	0	0.4375	0	A|0.906;G|0.094	0.094	strong	.	TTN	18412	.	NM_001267550	exon361	c.T107267C	p.V35756A	GAGTATACATTTC	.	PASS	Atlas-SNP
DSG4	147409	hgsc.bcm.edu	37	18	28993183	28993183	+	Silent	SNP	A	A	G	rs12960081	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	199	169	0	0.995	0	A|0.591;G|0.409	0.409	strong	.	DSG4	343	.	NM_001134453	exon15	c.A2805G	p.P935P	TGATCCATGTGTG	.	PASS	Atlas-SNP
CC2D1A	54862	hgsc.bcm.edu	37	19	14030689	14030689	+	Silent	SNP	T	T	C	rs10410239	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	287	146	232	0	0.508711	0	T|0.665;C|0.335	0.335	strong	.	CC2D1A	67	.	NM_017721	exon12	c.T1281C	p.G427G	GGTGGGTGTCCTG	.	PASS	Atlas-SNP
COMMD2	51122	hgsc.bcm.edu	37	3	149468530	149468530	+	Missense_Mutation	SNP	T	T	G	rs9843784	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	246	119	281	0	0.48374	0	T|0.704;G|0.296	0.296	strong	.	COMMD2	21	.	NM_016094	exon4	c.A337C	p.I113L	TCAGAATCGTTCT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179404628	179404628	+	Missense_Mutation	SNP	T	T	A	rs72648270	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	196	94	168	0	0.479592	0	T|0.955;A|0.045	0.045	strong	.	TTN	18412	.	NM_001267550	exon352	c.A98164T	p.I32722F	GTCTGATGACGCC	.	PASS	Atlas-SNP
HRH1	3269	hgsc.bcm.edu	37	3	11301791	11301791	+	Silent	SNP	A	A	G	rs2067468	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	52	83	0	0.495238	0	A|0.971;G|0.029	0.029	strong	.	HRH1	58	.	NM_000861	exon3	c.A1068G	p.Q356Q	TAGCCAATCCTTC	.	PASS	Atlas-SNP
RYR3	6263	hgsc.bcm.edu	37	15	33842400	33842400	+	Silent	SNP	A	A	T	rs41279202	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	48	94	0	0.505263	0	A|0.970;T|0.030	0.030	strong	.	RYR3	760	.	NM_001243996	exon10	c.A855T	p.R285R	TTTCCGACTCCGG	.	PASS	Atlas-SNP
LYRM2	57226	hgsc.bcm.edu	37	6	90347516	90347516	+	Missense_Mutation	SNP	T	T	A	rs151021837	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	318	161	257	0	0.506289	0	T|0.994;A|0.006	0.006	strong	.	LYRM2	6	.	NM_020466	exon2	c.A131T	p.Y44F	TTCAGGTATTTGC	.	PASS	Atlas-SNP
ANKUB1	389161	hgsc.bcm.edu	37	3	149488442	149488442	+	Silent	SNP	A	A	G	rs7630153	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	22	65	0	0.431373	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
IRS2	8660	hgsc.bcm.edu	37	13	110435231	110435231	+	Missense_Mutation	SNP	C	C	T	rs1805097	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	12	8	15	0	0.666667	0	C|0.663;T|0.337	0.337	strong	.	IRS2	44	.	NM_003749	exon1	c.G3170A	p.G1057D	GCGGCGCCCGGGC	.	PASS	Atlas-SNP
PHYH	5264	hgsc.bcm.edu	37	10	13330402	13330402	+	Silent	SNP	T	T	C	rs473407	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	38	85	0	0.463415	0	T|0.728;C|0.272	0.272	strong	.	PHYH	50	.	NM_006214	exon6	c.A636G	p.T212T	CTTGTGTGTGCCT	.	PASS	Atlas-SNP
RAP1GAP2	23108	hgsc.bcm.edu	37	17	2883588	2883588	+	Missense_Mutation	SNP	C	C	A	rs17762452	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	95	156	0	0.516304	0	C|0.737;A|0.263	0.263	strong	.	RAP1GAP2	90	.	NM_015085	exon9	c.C604A	p.L202M	TCCAAACTGAAGA	.	PASS	Atlas-SNP
SGMS1	259230	hgsc.bcm.edu	37	10	52103707	52103707	+	Silent	SNP	A	A	G	rs10763354	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	111	152	0	0.973684	0	A|0.473;G|0.527	0.527	strong	.	SGMS1	40	.	NM_147156	exon7	c.T168C	p.N56N	CTGCCCATTGTCA	.	PASS	Atlas-SNP
TPSD1	23430	hgsc.bcm.edu	37	16	1306971	1306971	+	Missense_Mutation	SNP	A	A	G	rs72775466	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	467	94	287	2	0.201285	0.00696864	.	.	strong	TPSD1,NS,NS,0,1	TPSD1	47	1	NM_012217	exon3	c.A428G	p.H143R	CCAGCCACATCCA	.	scavenged	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30955202	30955202	+	Missense_Mutation	SNP	C	C	T	rs2429294	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	37	119	0	0.246667	0	C|0.901;T|0.099	0.099	strong	.	MUC21	98	.	NM_001010909	exon2	c.C1250T	p.A417V	GTGGGGCCAGCAC	.	PASS	Atlas-SNP
DNA2	1763	hgsc.bcm.edu	37	10	70191631	70191631	+	Silent	SNP	C	C	T	rs61855090	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	57	113	0	0.53271	0	C|0.972;T|0.028	0.028	strong	.	DNA2	76	.	NM_001080449	exon13	c.G1971A	p.T657T	ACATATCGTAGTT	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62193445	62193445	+	Missense_Mutation	SNP	G	G	A	rs3810481	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	52	76	0	0.52	0	G|0.836;A|0.164	0.164	strong	.	.	.	.	NM_001037335	exon11	c.C6509T	p.T2170M	ATGACCGTGAAAG	.	PASS	Atlas-SNP
OR8J1	219477	hgsc.bcm.edu	37	11	56127829	56127829	+	Missense_Mutation	SNP	G	G	T	rs7927015	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	96	180	0	0.502618	0	G|0.947;T|0.053	0.053	strong	OR8J1,NS,carcinoma,+1,1	OR8J1	87	1	NM_001005205	exon1	c.G107T	p.G36V	TCTATGGGCTGAC	.	PASS	Atlas-SNP
SON	6651	hgsc.bcm.edu	37	21	34924243	34924243	+	Silent	SNP	T	T	C	rs16990760	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	344	172	265	0	0.5	0	T|0.786;C|0.214	0.214	strong	SON_ENST00000300278,NS,adenoma,0,2	SON	343	2	NM_032195	exon3	c.T2706C	p.D902D	CCAAGATTCTGCT	.	PASS	Atlas-SNP
TSHR	7253	hgsc.bcm.edu	37	14	81562998	81562998	+	Silent	SNP	T	T	C	rs2075179	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	85	166	0	0.480226	0	T|0.711;C|0.289	0.289	strong	TSHR_ENST00000554435,NS,carcinoma,+2,3	TSHR	462	3	NM_000369	exon7	c.T561C	p.N187N	CAACAATGGCTTT	.	PASS	Atlas-SNP
SSMEM1	0	hgsc.bcm.edu	37	7	129855837	129855837	+	Missense_Mutation	SNP	C	C	T	rs4728190	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	232	118	196	0	0.508621	0	C|0.758;T|0.242	0.242	strong	.	.	.	.	NM_145268	exon3	c.C262T	p.R88W	TGTAAGCGGCAAA	.	PASS	Atlas-SNP
SBNO1	55206	hgsc.bcm.edu	37	12	123780521	123780521	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	272	3	286	0	0.0110294	0	.	.	none	SBNO1,NS,carcinoma,-1,2	SBNO1	138	2	NM_001167856	exon31	c.G4116A	p.A1372A	TTGGACCGCAAGC	.	scavenged	Atlas-SNP
BYSL	705	hgsc.bcm.edu	37	6	41900375	41900375	+	Silent	SNP	C	C	G	rs149587548	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	47	80	0	0.479592	0	C|0.998;G|0.002	0.002	strong	.	BYSL	17	.	NM_004053	exon7	c.C1245G	p.P415P	ATCGCCCGAAATC	.	PASS	Atlas-SNP
ZNF527	84503	hgsc.bcm.edu	37	19	37879589	37879589	+	Missense_Mutation	SNP	A	A	G	rs4452075	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	180	94	143	0	0.522222	0	A|0.698;G|0.302	0.302	strong	.	ZNF527	78	.	NM_032453	exon5	c.A638G	p.H213R	GACTCCATGCTGA	.	PASS	Atlas-SNP
C7orf63	79846	hgsc.bcm.edu	37	7	89906609	89906609	+	Silent	SNP	C	C	T	rs3761805	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	76	123	0	0.490323	0	C|0.602;T|0.398	0.398	strong	C7orf63_ENST00000389297,colon,carcinoma,+2,2	C7orf63	158	2	NM_001039706	exon11	c.C1116T	p.N372N	ATTCAACGTAATT	.	PASS	Atlas-SNP
OTOGL	283310	hgsc.bcm.edu	37	12	80747209	80747209	+	Missense_Mutation	SNP	C	C	G	rs7312569	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	57	121	0	0.419118	0	C|0.844;G|0.156	0.156	strong	.	OTOGL	235	.	NM_173591	exon45	c.C5485G	p.L1829V	TTGAATCTAAGAG	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954309	30954309	+	Silent	SNP	A	A	T	rs150035336		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	15	107	0	0.0903614	0	.	.	weak	.	MUC21	98	.	NM_001010909	exon2	c.A357T	p.T119T	CAGCACAGCCACC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	60	146	0	0.560748	0	C|0.471;T|0.529	0.529	strong	.	PCDHA5	361	.	NM_018908	exon1	c.C2072T	p.A691V	AGGCTGCCCTGGT	.	PASS	Atlas-SNP
FOXD4L1	200350	hgsc.bcm.edu	37	2	114257266	114257266	+	Missense_Mutation	SNP	C	C	T	rs142136016	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	496	96	360	1	0.193548	0.00277778	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
KBTBD12	166348	hgsc.bcm.edu	37	3	127642814	127642814	+	Missense_Mutation	SNP	G	G	C	rs61268888	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	246	121	222	0	0.49187	0	G|0.846;C|0.154	0.154	strong	.	KBTBD12	41	.	NM_207335	exon1	c.G910C	p.V304L	GATCCTGTATCAC	.	PASS	Atlas-SNP
PLEKHG7	440107	hgsc.bcm.edu	37	12	93139348	93139348	+	Missense_Mutation	SNP	A	A	G	rs17790310	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	55	90	0	0.528846	0	A|0.966;G|0.034	0.034	strong	.	PLEKHG7	38	.	NM_001004330	exon5	c.A296G	p.D99G	GAGATGACTTTGG	.	PASS	Atlas-SNP
CCR4	1233	hgsc.bcm.edu	37	3	32995928	32995928	+	Silent	SNP	C	C	T	rs2228428	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	77	175	0	0.416216	0	C|0.799;T|0.201	0.201	strong	.	CCR4	36	.	NM_005508	exon2	c.C1014T	p.Y338Y	AATTTACTCTGCT	.	PASS	Atlas-SNP
ST6GAL2	84620	hgsc.bcm.edu	37	2	107459974	107459974	+	Missense_Mutation	SNP	C	C	T	rs3796110	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	61	76	0	0.488	0	C|0.893;T|0.107	0.107	strong	ST6GAL2,NS,carcinoma,+1,1	ST6GAL2	159	1	NM_032528	exon2	c.G460A	p.G154R	GCTCCCCGGGGGA	.	PASS	Atlas-SNP
MICAL3	57553	hgsc.bcm.edu	37	22	18300879	18300879	+	Silent	SNP	G	G	A	rs11704809	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	37	107	0	0.420455	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	86	68	0	0.977273	0	G|0.696;A|0.304	0.304	strong	.	SAG	77	.	NM_000541	exon16	c.G1207A	p.V403I	AATGACGTTGATG	.	PASS	Atlas-SNP
MUT	4594	hgsc.bcm.edu	37	6	49415448	49415448	+	Missense_Mutation	SNP	C	C	T	rs2229385	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	257	120	292	0	0.466926	0	C|0.898;T|0.102	0.102	strong	.	MUT	70	.	NM_000255	exon8	c.G1495A	p.A499T	CTACAGCGTCTTC	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954777	30954777	+	Silent	SNP	C	C	T	rs77386732	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	41	124	0	0.246988	0	C|0.903;T|0.097	0.097	strong	.	MUC21	98	.	NM_001010909	exon2	c.C825T	p.S275S	TGAGTCCAGCACA	.	PASS	Atlas-SNP
ZZEF1	23140	hgsc.bcm.edu	37	17	3979982	3979982	+	Silent	SNP	G	G	A	rs8065185	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	36	58	0	0.486486	0	G|0.844;A|0.156	0.156	strong	.	ZZEF1	195	.	NM_015113	exon21	c.C3183T	p.L1061L	TTCTGTGAGGACG	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954573	30954573	+	Silent	SNP	C	C	T	rs372719488		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	10	94	0	0.0724638	0	.	.	weak	MUC21,NS,malignant_melanoma,+1,2	MUC21	98	2	NM_001010909	exon2	c.C621T	p.A207A	TGGGGCCAGCACA	.	scavenged	Atlas-SNP
DDX20	11218	hgsc.bcm.edu	37	1	112309331	112309331	+	Missense_Mutation	SNP	T	T	C	rs85276	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	113	194	0	0.565	0	A|0.004;C|0.196	0.196	strong	.	DDX20	50	.	NM_007204	exon11	c.T2285C	p.I762T	GGGAAATACGTCT	.	PASS	Atlas-SNP
RDH5	5959	hgsc.bcm.edu	37	12	56117700	56117700	+	Silent	SNP	C	C	G	rs13193	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	20	44	0	0.444444	0	C|0.876;G|0.124	0.124	strong	RDH5,NS,carcinoma,0,1	RDH5	25	1	NM_001199771	exon4	c.C600G	p.V200V	ACGAGTCTCCATC	.	PASS	Atlas-SNP
MSGN1	343930	hgsc.bcm.edu	37	2	17998025	17998025	+	Missense_Mutation	SNP	A	A	T	rs34069439	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	81	77	0	0.910112	0	A|0.586;T|0.414	0.414	strong	.	MSGN1	39	.	NM_001105569	exon1	c.A240T	p.E80D	CAGCGAAGGCTGC	.	PASS	Atlas-SNP
PELP1	27043	hgsc.bcm.edu	37	17	4576620	4576620	+	Silent	SNP	C	C	T	rs55677157	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	85	126	0	0.502959	0	C|0.892;T|0.108	0.108	strong	.	PELP1	102	.	NM_014389	exon15	c.G1770A	p.P590P	AGGAGACGGGGCC	.	PASS	Atlas-SNP
FANCA	2175	hgsc.bcm.edu	37	16	89857935	89857935	+	Missense_Mutation	SNP	G	G	A	rs11646374	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	38	56	0	0.542857	0	G|0.932;A|0.068	0.068	strong	.	FANCA	99	.	NM_000135	exon14	c.C1235T	p.A412V	AAACGCGCCACCC	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144991176	144991176	+	Silent	SNP	T	T	C	rs6558405	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	39	73	0	0.4875	0	T|0.548;C|0.452	0.452	strong	.	PLEC	1144	.	NM_201380	exon32	c.A13224G	p.S4408S	GGGGTCTGACCAG	.	PASS	Atlas-SNP
PLIN1	5346	hgsc.bcm.edu	37	15	90210257	90210257	+	Silent	SNP	G	G	A	rs2304796	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	195	190	160	0	0.974359	0	G|0.730;A|0.270	0.270	strong	.	PLIN1	36	.	NM_001145311	exon8	c.C1119T	p.V373V	TGAGGAGACAGCA	.	PASS	Atlas-SNP
HEXB	3074	hgsc.bcm.edu	37	5	73992881	73992881	+	Missense_Mutation	SNP	A	A	G	rs10805890	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	43	94	0	0.505882	0	A|0.860;G|0.140	0.140	strong	.	HEXB	34	.	NM_000521	exon5	c.A619G	p.I207V	ATTTTGATTGATA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	131	121	0	0.984962	0	G|0.496;A|0.504	0.504	strong	.	ZDHHC6	32	.	NM_022494	exon5	c.C618T	p.T206T	AAACAAGGTGGTA	.	PASS	Atlas-SNP
LRP2	4036	hgsc.bcm.edu	37	2	170175334	170175334	+	Missense_Mutation	SNP	T	T	C	rs2229263	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	92	135	0	0.560976	0	T|0.548;G|0.057	.	strong	.	LRP2	751	.	NM_004525	exon3	c.A248G	p.N83S	CAGGAGTTGGGGA	.	PASS	Atlas-SNP
WDR81	124997	hgsc.bcm.edu	37	17	1637458	1637458	+	Silent	SNP	G	G	A	rs8065251	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	28	16	32	1	0.571429	0.03125	G|0.782;A|0.218	0.218	strong	WDR81_ENST00000437219,NS,carcinoma,0,3	WDR81	180	3	NM_001163809	exon7	c.G5127A	p.P1709P	GGCCCCGCAGCAC	.	scavenged	Atlas-SNP
FAM35A	54537	hgsc.bcm.edu	37	10	88930249	88930249	+	Missense_Mutation	SNP	A	A	T	rs11202365	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	52	109	1	0.962963	0.00917431	A|0.698;T|0.302	0.302	strong	.	FAM35A	48	.	NM_019054	exon5	c.A1648T	p.S550C	GTAGTTAGTGAAG	.	PASS	Atlas-SNP
LMF2	91289	hgsc.bcm.edu	37	22	50943232	50943232	+	Missense_Mutation	SNP	G	G	A	rs8136495	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	51	44	0	1	0	A|0.183;C|0.000;G|0.816;T|0.000	0.183	strong	.	LMF2	40	.	NM_033200	exon10	c.C1436T	p.T479M	CTCACCGTCCAGT	.	PASS	Atlas-SNP
LILRB3	11025	hgsc.bcm.edu	37	19	54725907	54725907	+	Missense_Mutation	SNP	G	G	C	rs55662384	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	81	130	0	0.361607	0	G|0.994;C|0.006	0.006	strong	.	LILRB3	67	.	NM_006864	exon4	c.C451G	p.H151D	AATGGTGATATCC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	234	234	261	2	1	0.00766284	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
WDR31	114987	hgsc.bcm.edu	37	9	116082647	116082647	+	Missense_Mutation	SNP	C	C	G	rs41307479	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	64	139	0	0.397516	0	C|0.850;G|0.150	0.150	strong	.	WDR31	23	.	NM_001012361	exon9	c.G770C	p.C257S	GCTTCACAGCCTT	.	PASS	Atlas-SNP
TAF15	8148	hgsc.bcm.edu	37	17	34171827	34171827	+	Silent	SNP	C	C	T	rs4251786	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	46	21	54	0	0.456522	0	C|0.917;T|0.083	0.083	strong	.	TAF15	46	.	NM_139215	exon15	c.C1524T	p.Y508Y	AGGTTACGGAGGA	.	PASS	Atlas-SNP
EMID1	129080	hgsc.bcm.edu	37	22	29630337	29630337	+	Missense_Mutation	SNP	G	G	A	rs3950176	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	87	103	1	0.988636	0.00970874	G|0.849;A|0.151	0.151	strong	.	EMID1	33	.	NM_133455	exon12	c.G1073A	p.R358Q	GGCAGCGGGTAAG	.	PASS	Atlas-SNP
OR8J1	219477	hgsc.bcm.edu	37	11	56128406	56128406	+	Missense_Mutation	SNP	A	A	G	rs62001032	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	76	111	0	0.542857	0	A|0.949;G|0.051	0.051	strong	.	OR8J1	87	.	NM_001005205	exon1	c.A684G	p.I228M	AAAAATATGTTCA	.	PASS	Atlas-SNP
SAGE1	55511	hgsc.bcm.edu	37	X	134991078	134991078	+	Silent	SNP	A	A	G	rs5974570	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	14	117	0	0.0903226	0	A|0.806;G|0.194	0.194	strong	.	SAGE1	160	.	NM_018666	exon13	c.A1497G	p.Q499Q	ACCCCAAACTGAT	.	PASS	Atlas-SNP
FAM161A	84140	hgsc.bcm.edu	37	2	62069358	62069358	+	Missense_Mutation	SNP	T	T	C	rs11125895	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	210	207	162	0	0.985714	0	T|0.833;C|0.167	0.167	strong	.	FAM161A	200	.	NM_032180	exon2	c.A321G	p.I107M	AGTTTCTATGTGG	.	PASS	Atlas-SNP
TFB2M	64216	hgsc.bcm.edu	37	1	246714587	246714587	+	Silent	SNP	G	G	A	rs10754526	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	138	182	0	0.992806	0	G|0.554;A|0.446	0.446	strong	.	TFB2M	46	.	NM_022366	exon5	c.C723T	p.P241P	ATTTCCGGGATCT	.	PASS	Atlas-SNP
SMARCA4	6597	hgsc.bcm.edu	37	19	11098596	11098596	+	Missense_Mutation	SNP	T	T	C	rs140192268	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	68	164	0	0.441558	0	T|0.992;C|0.008	0.008	strong	.	SMARCA4	502	.	NM_003072	exon6	c.T1114C	p.Y372H	CGCGAGTACAGGT	.	PASS	Atlas-SNP
C19orf45	374877	hgsc.bcm.edu	37	19	7569282	7569282	+	Missense_Mutation	SNP	A	A	G	rs484870	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	59	95	0	0.584158	0	A|0.620;G|0.380	0.380	strong	.	C19orf45	36	.	NM_198534	exon4	c.A767G	p.D256G	CCCAGGATCTGCC	.	PASS	Atlas-SNP
OTOP2	92736	hgsc.bcm.edu	37	17	72927123	72927123	+	Missense_Mutation	SNP	G	G	T	rs6501741	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	141	122	0	0.979167	0	A|0.001;G|0.477;T|0.523	0.523	strong	.	OTOP2	81	.	NM_178160	exon6	c.G1393T	p.G465W	AACCCCGGGCTGG	.	PASS	Atlas-SNP
PCNT	5116	hgsc.bcm.edu	37	21	47805773	47805773	+	Silent	SNP	T	T	C	rs61735805	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	49	128	0	0.415254	0	T|0.972;C|0.028	0.028	strong	.	PCNT	283	.	NM_006031	exon17	c.T3339C	p.S1113S	CTTAAGTCACGAG	.	PASS	Atlas-SNP
ZFAT	57623	hgsc.bcm.edu	37	8	135649848	135649848	+	Missense_Mutation	SNP	G	G	A	rs12541381	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	49	110	0	0.494949	0	G|0.770;A|0.230	0.230	strong	.	ZFAT	265	.	NM_001174157	exon3	c.C304T	p.P102S	CCAGCGGGCTGTC	.	PASS	Atlas-SNP
C8orf44	56260	hgsc.bcm.edu	37	8	67592152	67592152	+	Missense_Mutation	SNP	T	T	C	rs1057463	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	33	64	0	0.458333	0	T|0.781;C|0.219	0.219	strong	.	C8orf44	18	.	NM_019607	exon3	c.T443C	p.F148S	AAGGCTTCTGGAG	.	PASS	Atlas-SNP
LCN10	414332	hgsc.bcm.edu	37	9	139634495	139634495	+	Nonsense_Mutation	SNP	G	G	A	rs9886752	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	47	76	0	0.451923	0	G|0.818;A|0.182	0.182	strong	.	LCN10	21	.	NM_001001712	exon5	c.C481T	p.Q161X	CATTCTGCCTATC	.	PASS	Atlas-SNP
AKAP6	9472	hgsc.bcm.edu	37	14	33293122	33293122	+	Missense_Mutation	SNP	A	A	G	rs1051695	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	25	58	0	0.342466	0	A|0.327;G|0.673	0.673	strong	.	AKAP6	308	.	NM_004274	exon13	c.A6103G	p.N2035D	ATCAGCAACATTT	.	PASS	Atlas-SNP
APOBR	55911	hgsc.bcm.edu	37	16	28507644	28507644	+	Missense_Mutation	SNP	C	C	G	rs180743	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	17	38	0	0.472222	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
LHFPL1	340596	hgsc.bcm.edu	37	X	111914244	111914244	+	Silent	SNP	A	A	G	rs7064462	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	73	43	0	0.973333	0	A|0.714;0|0.003	.	strong	.	LHFPL1	28	.	NM_178175	exon2	c.T375C	p.F125F	TCCAACAAACTGC	.	PASS	Atlas-SNP
OR8J3	81168	hgsc.bcm.edu	37	11	55904331	55904331	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	218	4	197	0	0.0183486	0	.	.	none	OR8J3,right_upper_lobe,carcinoma,0,1	OR8J3	112	1	NM_001004064	exon1	c.G864A	p.L288L	GTAGATCAAGGGA	.	scavenged	Atlas-SNP
CNTN3	5067	hgsc.bcm.edu	37	3	74334458	74334458	+	Missense_Mutation	SNP	G	G	A	rs141921900	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	61	96	0	0.539823	0	G|0.995;A|0.005	0.005	strong	CNTN3,NS,lymphoid_neoplasm,+1,1	CNTN3	174	1	NM_020872	exon19	c.C2702T	p.T901M	TTACGCGTTTTCT	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17083872	17083872	+	Missense_Mutation	SNP	G	G	A	rs61635893	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	352	62	412	5	0.176136	0.0121359	.	.	weak	Q13209_HUMAN,NS,carcinoma,0,1	.	.	1	NM_001271733	exon15	c.C1925T	p.P642L	GCAAGTGGGCCCC	.	scavenged	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25033200	25033200	+	Silent	SNP	T	T	A	rs1130941	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	282	281	283	0	0.996454	0	T|0.879;A|0.121	0.121	strong	.	PARP4	142	.	NM_006437	exon20	c.A2406T	p.T802T	TTCATGTGTATCA	.	PASS	Atlas-SNP
RAPSN	5913	hgsc.bcm.edu	37	11	47469439	47469439	+	Silent	SNP	A	A	G	rs7111873	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	27	37	0	0.45	0	A|0.390;G|0.610	0.610	strong	.	RAPSN	27	.	NM_032645	exon2	c.T456C	p.Y152Y	GTGGGCATAGCGC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	60	101	0	0.526316	0	G|0.806;T|0.194	0.194	strong	.	NAV2	255	.	NM_001244963	exon14	c.G3123T	p.E1041D	TGACGAGTCCGAC	.	PASS	Atlas-SNP
PTPN13	5783	hgsc.bcm.edu	37	4	87690998	87690998	+	Missense_Mutation	SNP	A	A	G	rs2230600	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	122	133	0	0.983871	0	A|0.797;G|0.203	0.203	strong	PTPN13,NS,carcinoma,+1,2	PTPN13	203	2	NM_080685	exon29	c.A4581G	p.I1527M	TCTTATACCGGAG	.	PASS	Atlas-SNP
COX3	5742	hgsc.bcm.edu	37	MT	9698	9698	+	Silent	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	18	18	7	0	1	0	.	.	none	.	.	.	.	ENST00000362079	exon1	c.T492C	p.L164L	ACTGCTTATTACA	.	PASS	Atlas-SNP
EVC	2121	hgsc.bcm.edu	37	4	5749904	5749904	+	Silent	SNP	T	T	C	rs4688963	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	68	88	0	0.576271	0	T|0.559;C|0.441	0.441	strong	.	EVC	90	.	NM_153717	exon8	c.T969C	p.N323N	GGCAAATATCCAG	.	PASS	Atlas-SNP
SLCO1B3	28234	hgsc.bcm.edu	37	12	21011480	21011480	+	Missense_Mutation	SNP	T	T	G	rs4149117	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	163	127	0	0.993902	0	G|0.702;N|0.000	0.702	strong	.	SLCO1B3	151	.	NM_019844	exon5	c.T334G	p.S112A	TTGACATCTTTAC	.	PASS	Atlas-SNP
EGFL6	25975	hgsc.bcm.edu	37	X	13635937	13635937	+	Silent	SNP	C	C	T	rs5978653	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	6	97	0	0.0458015	0	C|0.938;T|0.062	0.062	strong	.	EGFL6	111	.	NM_001167890	exon8	c.C867T	p.S289S	AAACAGCATGAAA	.	PASS	Atlas-SNP
EHBP1L1	254102	hgsc.bcm.edu	37	11	65349037	65349037	+	Silent	SNP	G	G	A	rs74684453	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	89	186	0	0.481081	0	G|0.989;A|0.011	0.011	strong	.	EHBP1L1	64	.	NM_001099409	exon9	c.G894A	p.T298T	GGACACGGCCCCC	.	PASS	Atlas-SNP
ITGAL	3683	hgsc.bcm.edu	37	16	30507879	30507879	+	Silent	SNP	C	C	T	rs147713219		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	2	127	0	0.0227273	0	C|1.000;T|0.000	0.000	weak	ITGAL,rectum,carcinoma,0,1	ITGAL	149	1	NM_002209	exon15	c.C1824T	p.I608I	GATGATCGTGCTG	.	scavenged	Atlas-SNP
KANSL1	284058	hgsc.bcm.edu	37	17	44110541	44110541	+	Silent	SNP	G	G	A	rs35833914	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	231	109	226	1	0.471861	0.00442478	A|0.144;C|0.000;G|0.856;T|0.000	0.144	strong	.	.	.	.	NM_001193466	exon13	c.C2742T	p.D914D	GGCTGCGTCGGAT	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31237802	31237802	+	Missense_Mutation	SNP	A	A	G	rs1050147	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	77	292	0	1	0	A|0.257;G|0.743	0.743	strong	.	HLA-C	92	.	NM_002117	exon5	c.T956C	p.V319A	AGGACAACCAGGA	.	PASS	Atlas-SNP
ARFGAP3	26286	hgsc.bcm.edu	37	22	43203137	43203137	+	Silent	SNP	C	C	T	rs738535	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	67	60	0	1	0	C|0.641;T|0.359	0.359	strong	.	ARFGAP3	48	.	NM_014570	exon14	c.G1353A	p.S451S	ACTTGCCGACAGC	.	PASS	Atlas-SNP
RASA2	5922	hgsc.bcm.edu	37	3	141327474	141327474	+	Silent	SNP	G	G	A	rs295323	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	243	119	208	0	0.489712	0	G|0.523;A|0.477	0.477	strong	RASA2_ENST00000286364,NS,carcinoma,0,1	RASA2	169	1	NM_006506	exon21	c.G2160A	p.L720L	GTATCTGAACGGA	.	PASS	Atlas-SNP
AKAP17A	8227	hgsc.bcm.edu	37	X	1719897	1719897	+	Missense_Mutation	SNP	C	C	G	rs28661622	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	17	17	24	0	1	0	C|0.459;G|0.541	0.541	strong	.	AKAP17A	46	.	NM_005088	exon5	c.C1498G	p.P500A	GAGAGCCCGGCCC	.	PASS	Atlas-SNP
LSM14A	26065	hgsc.bcm.edu	37	19	34706531	34706531	+	Missense_Mutation	SNP	A	A	G	rs73929373	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	49	120	0	0.404959	0	A|0.908;G|0.092	0.092	strong	.	LSM14A	44	.	NM_001114093	exon6	c.A746G	p.N249S	CAGAAAATGAGCA	.	PASS	Atlas-SNP
MORC4	79710	hgsc.bcm.edu	37	X	106200202	106200202	+	Missense_Mutation	SNP	G	G	A	rs6622126	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	10	141	0	0.0641026	0	0|0.012;A|0.648	0.648	strong	.	MORC4	155	.	NM_001085354	exon12	c.C1418T	p.T473I	TCATCAGTGAGTT	.	PASS	Atlas-SNP
VWA3B	200403	hgsc.bcm.edu	37	2	98853173	98853173	+	Missense_Mutation	SNP	G	G	A	rs11889349	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	87	74	0	1	0	G|0.380;A|0.620	0.620	strong	.	VWA3B	138	.	NM_144992	exon19	c.G2653A	p.V885M	CATGTCGTGTCTA	.	PASS	Atlas-SNP
ERAP2	64167	hgsc.bcm.edu	37	5	96245439	96245439	+	Silent	SNP	C	C	T	rs1056893	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	96	159	0	0.502618	0	C|0.452;T|0.548	0.548	strong	.	ERAP2	77	.	NM_001130140	exon15	c.C2325T	p.S775S	CTTCTCCCAGTGG	.	PASS	Atlas-SNP
PRPF4B	8899	hgsc.bcm.edu	37	6	4044214	4044214	+	Silent	SNP	A	A	G	rs35085092	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	199	105	183	0	0.527638	0	A|0.925;G|0.075	0.075	strong	.	PRPF4B	140	.	NM_003913	exon6	c.A1818G	p.S606S	GGCCTCAGTGAAA	.	PASS	Atlas-SNP
PKP4	8502	hgsc.bcm.edu	37	2	159517926	159517926	+	Silent	SNP	C	C	T	rs112890651	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	28	37	0	0.509091	0	C|0.990;T|0.010	0.010	strong	.	PKP4	133	.	NM_001005476	exon13	c.C2175T	p.I725I	TGTGATCCACACG	.	PASS	Atlas-SNP
CUX1	1523	hgsc.bcm.edu	37	7	101844851	101844851	+	Silent	SNP	A	A	G	rs60987662	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	82	118	0	0.493976	0	A|0.627;G|0.373	0.373	strong	.	CUX1	253	.	NM_001202543	exon18	c.A2307G	p.P769P	CTACCCACCTCTC	.	PASS	Atlas-SNP
SPPL2C	162540	hgsc.bcm.edu	37	17	43923654	43923654	+	Missense_Mutation	SNP	G	G	C	rs12185233	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	59	103	0	0.433824	0	G|0.509;C|0.491	0.491	strong	IMP5,NS,carcinoma,0,1	.	.	1	NM_175882	exon1	c.G1382C	p.R461P	GTTGCCGCTTTGA	.	PASS	Atlas-SNP
SYCE1	93426	hgsc.bcm.edu	37	10	135370639	135370639	+	Missense_Mutation	SNP	C	C	A	rs8181357	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	234	68	171	0	0.290598	0	C|0.892;A|0.108	0.108	strong	SYCE1_ENST00000343131,NS,carcinoma,0,2	SYCE1	81	2	NM_001143763	exon7	c.G396T	p.E132D	CTTGCACTCCTGC	.	PASS	Atlas-SNP
TECPR1	25851	hgsc.bcm.edu	37	7	97852399	97852399	+	Missense_Mutation	SNP	G	G	A	rs11762014	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	59	99	0	0.495798	0	G|0.777;A|0.223	0.223	strong	TECPR1,NS,carcinoma,0,1	TECPR1	77	1	NM_015395	exon21	c.C2831T	p.P944L	GCACCCGGGCTCT	.	PASS	Atlas-SNP
FAM26D	221301	hgsc.bcm.edu	37	6	116875493	116875493	+	Silent	SNP	T	T	C	rs9387420	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	51	52	0	1	0	C|0.205;N|0.000	0.205	strong	.	FAM26D	29	.	NM_001256887	exon3	c.T108C	p.L36L	AGCTCTTCTGCAC	.	PASS	Atlas-SNP
ITPR3	3710	hgsc.bcm.edu	37	6	33648144	33648144	+	Silent	SNP	C	C	T	rs11967839	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	46	60	0	0.469388	0	C|0.890;T|0.110	0.110	strong	.	ITPR3	409	.	NM_002224	exon32	c.C4263T	p.Y1421Y	CTGCTACGTGGAC	.	PASS	Atlas-SNP
RGS10	6001	hgsc.bcm.edu	37	10	121275099	121275099	+	Silent	SNP	G	G	A	rs11550215	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	261	129	250	0	0.494253	0	G|0.951;A|0.049	0.049	strong	.	RGS10	14	.	NM_001005339	exon4	c.C321T	p.N107N	CTCCACGTTGACC	.	PASS	Atlas-SNP
PLXND1	23129	hgsc.bcm.edu	37	3	129281718	129281718	+	Silent	SNP	C	C	T	rs2285359	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	55	87	0	0.5	0	C|0.966;T|0.034	0.034	strong	PLXND1,NS,carcinoma,0,1	PLXND1	149	1	NM_015103	exon27	c.G4737A	p.T1579T	TGTCAGCGTGTCG	.	PASS	Atlas-SNP
PPAPDC1A	196051	hgsc.bcm.edu	37	10	122216862	122216862	+	Silent	SNP	C	C	T	rs67319648	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	45	69	0	0.463918	0	C|0.781;T|0.219	0.219	strong	PPAPDC1A,NS,carcinoma,0,1	PPAPDC1A	48	1	NM_001030059	exon1	c.C45T	p.F15F	GCTCTTCGGAGTC	.	PASS	Atlas-SNP
AGBL4	84871	hgsc.bcm.edu	37	1	49511424	49511424	+	Silent	SNP	A	A	G	rs3934240	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	175	82	134	0	0.468571	0	A|0.796;G|0.204	0.204	strong	AGBL4,NS,carcinoma,0,1	AGBL4	54	1	NM_032785	exon5	c.T426C	p.H142H	CTTCCTATGGTCC	.	PASS	Atlas-SNP
PCDHA4	56144	hgsc.bcm.edu	37	5	140187322	140187322	+	Missense_Mutation	SNP	C	C	T	rs3822346	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	68	140	0	0.419753	0	C|0.417;T|0.583	0.583	strong	.	PCDHA4	419	.	NM_031500	exon1	c.C550T	p.P184S	AAACCACCTGATG	.	PASS	Atlas-SNP
ADCK1	57143	hgsc.bcm.edu	37	14	78390880	78390880	+	Silent	SNP	T	T	C	rs2302944	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	35	13	34	0	0.371429	0	T|0.791;C|0.209	0.209	strong	.	ADCK1	81	.	NM_020421	exon8	c.T939C	p.N313N	CGGCAATGTACTG	.	PASS	Atlas-SNP
OR1S1	219959	hgsc.bcm.edu	37	11	57982896	57982896	+	Missense_Mutation	SNP	G	G	T	rs2903566	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	66	119	0	0.455172	0	G|0.565;T|0.435	0.435	strong	.	OR1S1	139	.	NM_001004458	exon1	c.G680T	p.S227I	CACTCAGCTTCTT	.	PASS	Atlas-SNP
MS4A6A	64231	hgsc.bcm.edu	37	11	59940599	59940599	+	Missense_Mutation	SNP	T	T	A	rs7232	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	43	43	57	0	1	0	T|0.641;A|0.359	0.359	strong	.	MS4A6A	85	.	NM_001247999	exon7	c.A637T	p.T213S	AGAGAGTTCCCTG	.	PASS	Atlas-SNP
C1orf174	339448	hgsc.bcm.edu	37	1	3807388	3807388	+	Silent	SNP	G	G	A	rs4131373	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	58	81	0	0.456693	0	G|0.835;A|0.165	0.165	strong	.	C1orf174	20	.	NM_207356	exon3	c.C363T	p.L121L	GCCACCGAGAGGA	.	PASS	Atlas-SNP
DNAH3	55567	hgsc.bcm.edu	37	16	20975522	20975522	+	Silent	SNP	A	A	G	rs3826156	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	55	64	0	1	0	A|0.925;G|0.075	0.075	strong	.	DNAH3	1142	.	NM_017539	exon53	c.T9684C	p.S3228S	CTTGGCACTTTCC	.	PASS	Atlas-SNP
ZNF860	344787	hgsc.bcm.edu	37	3	32032397	32032397	+	Missense_Mutation	SNP	G	G	T	rs4955216	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	54	94	0	0.461538	0	G|0.644;T|0.356	0.356	strong	.	ZNF860	96	.	NM_001137674	exon2	c.G1826T	p.R609L	CACATCGCATTAG	.	PASS	Atlas-SNP
ACOX1	51	hgsc.bcm.edu	37	17	73969835	73969835	+	Missense_Mutation	SNP	C	C	T	rs3744032	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	45	110	0	0.436893	0	C|0.940;T|0.060	0.060	strong	.	ACOX1	85	.	NM_007292	exon3	c.G301A	p.G101S	TGAGGCCCACAGG	.	PASS	Atlas-SNP
ZHX3	23051	hgsc.bcm.edu	37	20	39832628	39832628	+	Missense_Mutation	SNP	T	T	C	rs17265513	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	66	121	0	0.564103	0	T|0.891;C|0.109	0.109	strong	.	ZHX3	78	.	NM_015035	exon3	c.A929G	p.N310S	GCTGCATTGTACG	.	PASS	Atlas-SNP
TMEM5	10329	hgsc.bcm.edu	37	12	64173807	64173807	+	Missense_Mutation	SNP	G	G	A	rs61935924	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	26	33	0	0.481481	0	G|0.927;A|0.073	0.073	strong	.	TMEM5	35	.	NM_014254	exon1	c.G67A	p.A23T	CTCTACGCTGCCT	.	PASS	Atlas-SNP
SNX29	92017	hgsc.bcm.edu	37	16	12142470	12142470	+	Silent	SNP	C	C	T	rs36013478	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	46	82	0	0.464646	0	C|0.983;T|0.017	0.017	strong	.	SNX29	60	.	NM_032167	exon7	c.C741T	p.V247V	GAATGTCAGTGCT	.	PASS	Atlas-SNP
SYNE3	161176	hgsc.bcm.edu	37	14	95918625	95918625	+	Silent	SNP	T	T	C	rs4905318	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	57	131	0	0.53271	0	T|0.562;C|0.438	0.438	strong	.	SYNE3	130	.	NM_152592	exon6	c.A1233G	p.P411P	AGAGAGTGGCTTC	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	37	16	72992630	72992630	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	53	8	36	0	0.150943	0	.	.	none	.	ZFHX3	404	.	NM_006885	exon2	c.C1415A	p.A472E	TCCTCCGCCTCTT	.	PASS	Atlas-SNP
SULF2	55959	hgsc.bcm.edu	37	20	46385955	46385955	+	Silent	SNP	C	C	T	rs61730618	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	37	61	0	0.406593	0	C|0.982;T|0.018	0.018	strong	.	SULF2	131	.	NM_001161841	exon2	c.G153A	p.T51T	GTCGTCCGTCAGC	.	PASS	Atlas-SNP
PTPN3	5774	hgsc.bcm.edu	37	9	112145799	112145799	+	Silent	SNP	G	G	A	rs2304742	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	85	105	0	0.555556	0	G|0.959;A|0.041	0.041	strong	.	PTPN3	106	.	NM_002829	exon23	c.C2286T	p.P762P	GACGTCGGGGGGA	.	PASS	Atlas-SNP
DAOA	267012	hgsc.bcm.edu	37	13	106119446	106119446	+	Missense_Mutation	SNP	G	G	A	rs2391191	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	31	61	0	0.449275	0	G|0.570;A|0.430	0.430	strong	.	DAOA	26	.	NM_172370	exon2	c.G89A	p.R30K	TTCAAAGGAGCAT	.	PASS	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	37	10	129904474	129904474	+	Missense_Mutation	SNP	G	G	A	rs61738284	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	435	186	347	1	0.427586	0.00288184	G|0.915;A|0.085	0.085	strong	.	MKI67	363	.	NM_002417	exon13	c.C5630T	p.P1877L	CTCTTGGGCCGTT	.	PASS	Atlas-SNP
PPP2R1B	5519	hgsc.bcm.edu	37	11	111608216	111608216	+	Missense_Mutation	SNP	T	T	A	rs61756429	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	55	101	0	0.436508	0	T|0.992;A|0.008	0.008	strong	.	PPP2R1B	44	.	NM_181699	exon15	c.A1867T	p.N623Y	AGTGGTTCTTGTC	.	PASS	Atlas-SNP
PXMP2	5827	hgsc.bcm.edu	37	12	133272470	133272470	+	Silent	SNP	G	G	T	rs74727297	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	46	98	0	0.433962	0	G|0.928;T|0.072	0.072	strong	.	PXMP2	15	.	NM_018663	exon3	c.G237T	p.G79G	CCTCAGGTTCTTC	.	PASS	Atlas-SNP
GTF2IRD2B	389524	hgsc.bcm.edu	37	7	74563753	74563753	+	Silent	SNP	G	G	A	rs2529319		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	907	176	688	2	0.194046	0.00290698	.	.	weak	GTF2IRD2B,NS,carcinoma,0,1	GTF2IRD2B	30	1	NM_001003795	exon16	c.G1500A	p.S500S	AGGCTCGTCAGAC	.	scavenged	Atlas-SNP
EMR3	84658	hgsc.bcm.edu	37	19	14769339	14769339	+	Missense_Mutation	SNP	C	C	G	rs4606855	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	92	102	0	0.989247	0	C|0.200;G|0.800	0.800	strong	.	EMR3	99	.	NM_032571	exon5	c.G379C	p.E127Q	TGCCCTCGGTTGT	.	PASS	Atlas-SNP
MGLL	11343	hgsc.bcm.edu	37	3	127413881	127413881	+	Silent	SNP	T	T	C	rs4881	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	309	150	275	0	0.485437	0	T|0.903;C|0.097	0.097	strong	.	MGLL	19	.	NM_007283	exon7	c.A753G	p.L251L	GTCACATAGGCGA	.	PASS	Atlas-SNP
KNSTRN	90417	hgsc.bcm.edu	37	15	40685406	40685406	+	Missense_Mutation	SNP	A	A	T	rs8036457	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	10	286	0	0.0591716	0	A|0.876;T|0.124	0.124	strong	.	.	.	.	NM_001142761	exon9	c.A835T	p.N279Y	TGGATGAATCATG	.	PASS	Atlas-SNP
OPRK1	4986	hgsc.bcm.edu	37	8	54142157	54142157	+	Silent	SNP	T	T	C	rs702764	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	76	129	0	0.466258	0	T|0.752;C|0.248	0.248	strong	.	OPRK1	90	.	NM_000912	exon4	c.A843G	p.A281A	GAAGACTGCCACC	.	PASS	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	37	6	152457795	152457795	+	Silent	SNP	C	C	T	rs118187988	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	51	65	0	0.51	0	C|0.998;T|0.002	0.002	strong	.	SYNE1	3227	.	NM_182961	exon141	c.G25617A	p.E8539E	CCACTCCTCCAGC	.	PASS	Atlas-SNP
GALNT15	117248	hgsc.bcm.edu	37	3	16217110	16217110	+	Missense_Mutation	SNP	C	C	T	rs11715981	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	48	70	0	0.545455	0	C|0.967;T|0.033	0.033	strong	.	.	.	.	NM_054110	exon1	c.C452T	p.P151L	TGACCCCGTTCAG	.	PASS	Atlas-SNP
CD109	135228	hgsc.bcm.edu	37	6	74497009	74497009	+	Missense_Mutation	SNP	A	A	G	rs2351528	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	33	83	0	0.434211	0	A|0.597;G|0.403	0.403	strong	CD109,caecum,carcinoma,0,1	CD109	170	1	NM_133493	exon21	c.A2390G	p.N797S	CTTCAAATGAAAT	.	PASS	Atlas-SNP
PALM2-AKAP2	445815	hgsc.bcm.edu	37	9	112900785	112900785	+	Silent	SNP	A	A	G	rs3739456	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	36	51	0	0.473684	0	A|0.728;G|0.272	0.272	strong	PALM2-AKAP2,NS,carcinoma,0,2	PALM2-AKAP2	117	2	NM_007203	exon8	c.A2961G	p.S987S	CCCATCACTGCCC	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324078	31324078	+	Missense_Mutation	SNP	G	G	T	rs1050368	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	261	67	57	0	0.256705	0	T|0.053;G|0.947	0.053	strong	.	HLA-B	54	.	NM_005514	exon3	c.C485A	p.T162K	GCCGCCGTGTCCG	.	PASS	Atlas-SNP
POLR2B	5431	hgsc.bcm.edu	37	4	57881715	57881715	+	Silent	SNP	G	G	A	rs1713982	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	33	100	0	0.471429	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
METTL7B	196410	hgsc.bcm.edu	37	12	56077740	56077740	+	Silent	SNP	C	C	T	rs11615467	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	67	102	0	0.51938	0	C|0.959;T|0.041	0.041	strong	.	METTL7B	35	.	NM_152637	exon2	c.C642T	p.N214N	TGAGAACGCCCAG	.	PASS	Atlas-SNP
SYTL2	54843	hgsc.bcm.edu	37	11	85456703	85456703	+	Silent	SNP	T	T	C	rs647912	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	97	103	0	1	0	T|0.426;C|0.574	0.574	strong	.	SYTL2	231	.	NM_032943	exon4	c.A366G	p.E122E	TGCATCTTCTTCT	.	PASS	Atlas-SNP
CSF2RA	1438	hgsc.bcm.edu	37	X	1422868	1422868	+	Silent	SNP	G	G	A	rs28460440	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	496	490	981	0	0.987903	0	G|0.633;A|0.367	0.367	strong	.	CSF2RA	153	.	NM_001161530	exon10	c.G1101A	p.V367V	AATCGTGGGAACC	.	PASS	Atlas-SNP
ZNF229	7772	hgsc.bcm.edu	37	19	44933706	44933706	+	Missense_Mutation	SNP	C	C	T	rs57014690	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	75	90	1	0.590551	0.0111111	C|0.848;T|0.152	0.152	strong	ZNF229,tonsil,carcinoma,0,1	ZNF229	123	1	NM_014518	exon6	c.G1250A	p.S417N	ACTGAGCTGTAAC	.	scavenged	Atlas-SNP
RBBP8NL	140893	hgsc.bcm.edu	37	20	60989187	60989187	+	Missense_Mutation	SNP	G	G	T	rs45514096	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	24	39	0	0.615385	0	G|0.989;T|0.011	0.011	strong	.	.	.	.	NM_080833	exon10	c.C1220A	p.A407D	GCTGCGGCCAGAG	.	PASS	Atlas-SNP
HS3ST5	222537	hgsc.bcm.edu	37	6	114378970	114378970	+	Silent	SNP	C	C	T	rs2282237	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	251	120	262	0	0.478088	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
KIAA1549L	25758	hgsc.bcm.edu	37	11	33604960	33604960	+	Silent	SNP	C	C	T	rs2273115	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	37	18	34	0	0.486486	0	C|0.781;T|0.218	0.218	strong	.	.	.	.	NM_012194	exon10	c.C3588T	p.I1196I	GGTCATCATCATC	.	PASS	Atlas-SNP
CLEC9A	283420	hgsc.bcm.edu	37	12	10217412	10217412	+	Missense_Mutation	SNP	C	C	T	rs147713876	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	71	119	0	0.510791	0	C|1.000;T|0.000	0.000	strong	.	CLEC9A	41	.	NM_207345	exon8	c.C553T	p.R185C	AGCGGACGCTGGC	.	PASS	Atlas-SNP
SI	6476	hgsc.bcm.edu	37	3	164764719	164764719	+	Silent	SNP	C	C	A	rs9838509	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	254	108	243	0	0.425197	0	C|0.416;A|0.584	0.584	strong	SI,NS,carcinoma,0,1	SI	500	1	NM_001041	exon16	c.G1797T	p.A599A	CCAATGCGCAGCA	.	PASS	Atlas-SNP
TET2	54790	hgsc.bcm.edu	37	4	106156187	106156187	+	Missense_Mutation	SNP	C	C	T	rs17253672	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	74	146	0	0.465409	0	C|0.964;T|0.036	0.036	strong	.	TET2	1762	.	NM_001127208	exon3	c.C1088T	p.P363L	AAGCTCCTGGTGG	.	PASS	Atlas-SNP
MSH6	2956	hgsc.bcm.edu	37	2	48018081	48018081	+	Silent	SNP	A	A	G	rs1800932	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	69	154	0	0.428571	0	A|0.864;G|0.136	0.136	strong	.	MSH6	341	.	NM_000179	exon2	c.A276G	p.P92P	CTCACCAGGAGAT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	58	115	0	0.58	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
NBPF3	84224	hgsc.bcm.edu	37	1	21795388	21795388	+	Missense_Mutation	SNP	A	A	G	rs1827293	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	78	140	0	0.464286	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
TMCC3	57458	hgsc.bcm.edu	37	12	94976159	94976159	+	Silent	SNP	T	T	C	rs3747551	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	93	75	0	0.989362	0	T|0.673;C|0.327	0.327	strong	.	TMCC3	63	.	NM_020698	exon2	c.A234G	p.V78V	CTCTGTTACCTTT	.	PASS	Atlas-SNP
TMC2	117532	hgsc.bcm.edu	37	20	2591232	2591232	+	Silent	SNP	C	C	T	rs6050576	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	57	123	0	0.387755	0	C|0.710;T|0.290	0.290	strong	.	TMC2	121	.	NM_080751	exon12	c.C1581T	p.D527D	GGATGACGTCCAC	.	PASS	Atlas-SNP
TCEB2	6923	hgsc.bcm.edu	37	16	2821573	2821573	+	Missense_Mutation	SNP	C	C	T	rs8017	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	140	134	1	0.992908	0.00746269	C|0.568;T|0.432	0.432	strong	.	TCEB2	6	.	NM_207013	exon5	c.G386A	p.S129N	TTTCTGCTCTTGG	.	PASS	Atlas-SNP
MSLN	10232	hgsc.bcm.edu	37	16	814942	814942	+	Missense_Mutation	SNP	G	G	A	rs34695957	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	74	122	0	0.521127	0	G|0.937;A|0.063	0.063	strong	.	MSLN	109	.	NM_005823	exon8	c.G416A	p.R139H	GCACCCGTTTCTT	.	PASS	Atlas-SNP
OR2AG2	338755	hgsc.bcm.edu	37	11	6790028	6790028	+	Missense_Mutation	SNP	C	C	G	rs10839616	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	65	141	0	0.492424	0	C|0.737;G|0.263	0.263	strong	OR2AG2,right_upper_lobe,carcinoma,-1,1	OR2AG2	55	1	NM_001004490	exon1	c.G161C	p.R54P	TGGAGCCGGGCTT	.	PASS	Atlas-SNP
PLIN1	5346	hgsc.bcm.edu	37	15	90210263	90210263	+	Silent	SNP	A	A	G	rs2304795	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	201	166	1	0.990148	0.0060241	A|0.623;G|0.377	0.377	strong	.	PLIN1	36	.	NM_001145311	exon8	c.T1113C	p.P371P	GACAGCAGGGGCT	.	PASS	Atlas-SNP
PRDM2	7799	hgsc.bcm.edu	37	1	14106330	14106330	+	Silent	SNP	C	C	T	rs61747664	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	75	128	0	0.454545	0	C|0.983;T|0.017	0.017	strong	.	PRDM2	147	.	NM_015866	exon8	c.C2040T	p.H680H	TTTCCACAAAGAG	.	PASS	Atlas-SNP
GRHL3	57822	hgsc.bcm.edu	37	1	24671418	24671418	+	Missense_Mutation	SNP	A	A	G	rs116396279	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	333	159	283	1	0.477477	0.00353357	A|0.971;G|0.029	0.029	strong	.	GRHL3	69	.	NM_021180	exon12	c.A1466G	p.N489S	GCTCCAACAGGTA	.	PASS	Atlas-SNP
PM20D1	148811	hgsc.bcm.edu	37	1	205814485	205814485	+	Missense_Mutation	SNP	G	G	A	rs1104899	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	116	94	0	1	0	G|0.759;A|0.241	0.241	strong	.	PM20D1	56	.	NM_152491	exon3	c.C457T	p.R153W	TGCCCCGACCATA	.	PASS	Atlas-SNP
OR51B6	390058	hgsc.bcm.edu	37	11	5373497	5373497	+	Missense_Mutation	SNP	G	G	C	rs7106330	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	303	144	271	0	0.475248	0	G|0.883;C|0.117	0.117	strong	.	OR51B6	53	.	NM_001004750	exon1	c.G760C	p.V254L	ACTGTAGTTTGTC	.	PASS	Atlas-SNP
EFCAB4B	84766	hgsc.bcm.edu	37	12	3782647	3782647	+	Missense_Mutation	SNP	A	A	T	rs36030417	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	175	72	124	0	0.411429	0	A|0.861;T|0.139	0.139	strong	.	EFCAB4B	100	.	NM_001144958	exon7	c.T636A	p.H212Q	CTCCTCATGGGCT	.	PASS	Atlas-SNP
HYLS1	219844	hgsc.bcm.edu	37	11	125769354	125769354	+	Missense_Mutation	SNP	T	T	C	rs667782	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	55	74	0	0.539216	0	T|0.719;C|0.281	0.281	strong	.	HYLS1	25	.	NM_001134793	exon3	c.T91C	p.C31R	CACATCTGTGCAG	.	PASS	Atlas-SNP
ETAA1	54465	hgsc.bcm.edu	37	2	67631831	67631831	+	Missense_Mutation	SNP	G	G	A	rs61740794	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	212	72	141	2	0.339623	0.0141844	G|0.590;A|0.410	0.410	strong	ETAA1,NS,carcinoma,0,1	ETAA1	88	1	NM_019002	exon5	c.G2017A	p.E673K	AATTCCGAACATG	.	scavenged	Atlas-SNP
ZNF658	26149	hgsc.bcm.edu	37	9	40773337	40773337	+	Silent	SNP	C	C	T	rs78487056	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	170	67	152	0	0.394118	0	C|0.824;T|0.176	0.176	strong	ZNF658,NS,carcinoma,0,1	ZNF658	100	1	NM_033160	exon5	c.G1938A	p.K646K	ATGTGCCTTGAGA	.	scavenged	Atlas-SNP
ZNF845	91664	hgsc.bcm.edu	37	19	53856702	53856702	+	Missense_Mutation	SNP	G	G	A	rs200114728		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	4	80	0	0.0412371	0	.	.	weak	ZNF845,NS,carcinoma,0,6	ZNF845	101	6	NM_138374	exon4	c.G2774A	p.R925H	CCTTCCGTCACAA	.	scavenged	Atlas-SNP
ITGA9	3680	hgsc.bcm.edu	37	3	37550109	37550109	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	80	144	0	0.5	0	.	.	none	.	ITGA9	98	.	NM_002207	exon8	c.A888G	p.S296S	AGCATCAGGTAAA	.	PASS	Atlas-SNP
DISC1	27185	hgsc.bcm.edu	37	1	231954145	231954145	+	Silent	SNP	G	G	A	rs12133766	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	66	137	0	0.564103	0	G|0.955;A|0.045	0.045	strong	.	DISC1	207	.	NM_001164537	exon10	c.G1959A	p.L653L	AGGGCTGGAGGGA	.	PASS	Atlas-SNP
IGSF22	283284	hgsc.bcm.edu	37	11	18735570	18735570	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	250	16	227	0	0.064	0	.	.	none	.	IGSF22	211	.	NM_173588	exon14	c.T1924C	p.Y642H	CCTTGTACCATGT	.	PASS	Atlas-SNP
SMCHD1	23347	hgsc.bcm.edu	37	18	2656248	2656248	+	Silent	SNP	G	G	C	rs2430853	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	15	40	0	0.416667	0	G|0.461;C|0.539	0.539	strong	.	SMCHD1	88	.	NM_015295	exon1	c.G174C	p.A58A	TCGCGCGTGTGTG	.	PASS	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	37	8	110492352	110492352	+	Missense_Mutation	SNP	C	C	T	rs117952538	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	56	141	0	0.459016	0	C|0.992;T|0.008	0.008	strong	PKHD1L1,NS,carcinoma,-1,1	PKHD1L1	522	1	NM_177531	exon55	c.C9311T	p.T3104I	ATGCTACCTACAT	.	PASS	Atlas-SNP
DNA2	1763	hgsc.bcm.edu	37	10	70227964	70227964	+	Silent	SNP	C	C	T	rs10998205	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	71	105	0	0.572581	0	C|0.901;T|0.099	0.099	strong	.	DNA2	76	.	NM_001080449	exon3	c.G357A	p.L119L	TGGATACAGAATC	.	PASS	Atlas-SNP
SHMT1	6470	hgsc.bcm.edu	37	17	18232096	18232096	+	Missense_Mutation	SNP	G	G	A	rs1979277	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	37	61	0	0.578125	0	G|0.719;A|0.281	0.281	strong	SHMT1,colon,carcinoma,0,1	SHMT1	36	1	NM_004169	exon12	c.C1420T	p.L474F	GGAAGAGAGAGGC	.	PASS	Atlas-SNP
CYP2D6	1565	hgsc.bcm.edu	37	22	42523558	42523558	+	Missense_Mutation	SNP	T	T	C	rs202102799	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	323	7	172	0	0.0216718	0	T|0.999;C|0.001	0.001	weak	CYP2D6_ENST00000360608,NS,carcinoma,0,2	CYP2D6	104	2	NM_000106	exon7	c.A1064G	p.Y355C	GTGGTGTAGGGCA	.	scavenged	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56196451	56196451	+	Silent	SNP	C	C	T	rs7236563	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	99	107	1	1	0.00934579	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
HLA-C	3107	hgsc.bcm.edu	37	6	31238983	31238983	+	Silent	SNP	G	G	T	rs2308585	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	48	291	0	0.296296	0	G|0.514;C|0.486	.	strong	HLA-C_ENST00000383329,NS,carcinoma,0,2	HLA-C	92	2	NM_002117	exon3	c.C486A	p.T162T	AGCCGCGGTGTCC	.	PASS	Atlas-SNP
NPSR1	387129	hgsc.bcm.edu	37	7	34818113	34818113	+	Missense_Mutation	SNP	A	A	T	rs324981	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	66	118	0	0.554622	0	A|0.515;T|0.485	0.485	strong	.	NPSR1	134	.	NM_207172	exon3	c.A320T	p.N107I	ATATTAATTGGCG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	40	91	0	0.37037	0	C|0.773;A|0.227	0.227	strong	.	DNHD1	198	.	NM_144666	exon14	c.C2536A	p.L846M	GTCGAGCTGGAGG	.	PASS	Atlas-SNP
MLXIPL	51085	hgsc.bcm.edu	37	7	73020439	73020439	+	Silent	SNP	C	C	T	rs12539160	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	37	53	0	0.560606	0	C|0.973;T|0.027	0.027	strong	.	MLXIPL	54	.	NM_032954	exon6	c.G621A	p.A207A	GCCTTCCGCCTAG	.	PASS	Atlas-SNP
ZSWIM2	151112	hgsc.bcm.edu	37	2	187692908	187692908	+	Silent	SNP	T	T	G	rs17852916	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	245	107	257	0	0.436735	0	T|0.838;G|0.162	0.162	strong	.	ZSWIM2	119	.	NM_182521	exon9	c.A1705C	p.R569R	TTGATCTCTTGTT	.	PASS	Atlas-SNP
PSG2	5670	hgsc.bcm.edu	37	19	43575905	43575905	+	Missense_Mutation	SNP	C	C	T	rs77035666	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	79	139	0	0.470238	0	C|0.904;T|0.096	0.096	strong	PSG2,NS,carcinoma,0,1	PSG2	84	1	NM_031246	exon4	c.G911A	p.R304H	GAGTTACGAACAG	.	PASS	Atlas-SNP
TMEM123	114908	hgsc.bcm.edu	37	11	102272277	102272277	+	Silent	SNP	G	G	T	rs12275185	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	30	70	0	0.394737	0	G|0.948;T|0.052	0.052	strong	.	TMEM123	16	.	NM_052932	exon4	c.C595A	p.R199R	TGGTTCGATACCG	.	PASS	Atlas-SNP
DNAH2	146754	hgsc.bcm.edu	37	17	7669761	7669761	+	Missense_Mutation	SNP	G	G	A	rs35788701	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	23	45	0	0.511111	0	G|0.986;A|0.014	0.014	strong	.	DNAH2	498	.	NM_020877	exon21	c.G3637A	p.E1213K	AAGATCGAGCAGC	.	PASS	Atlas-SNP
DHDDS	79947	hgsc.bcm.edu	37	1	26786627	26786627	+	Missense_Mutation	SNP	G	G	A	rs3816539	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	60	113	0	0.451128	0	G|0.637;A|0.363	0.363	strong	DHDDS,NS,carcinoma,0,2	DHDDS	33	2	NM_024887	exon8	c.G757A	p.V253M	CATAGCGTGCTTC	.	PASS	Atlas-SNP
CACNA2D4	93589	hgsc.bcm.edu	37	12	1989018	1989018	+	Silent	SNP	T	T	C	rs60945277	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	54	83	0	0.55102	0	T|0.817;C|0.183	0.183	strong	CACNA2D4_ENST00000382722,NS,carcinoma,0,2	CACNA2D4	220	2	NM_172364	exon14	c.A1515G	p.T505T	GAGCAGTGTCAGG	.	PASS	Atlas-SNP
NPC1	4864	hgsc.bcm.edu	37	18	21140432	21140432	+	Missense_Mutation	SNP	T	T	C	rs1805081	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	126	93	0	0.992126	0	T|0.733;C|0.267	0.267	strong	.	NPC1	114	.	NM_000271	exon6	c.A644G	p.H215R	ATCCCATGGACTG	.	PASS	Atlas-SNP
LMBR1L	55716	hgsc.bcm.edu	37	12	49495321	49495321	+	Silent	SNP	C	C	A	rs35541634	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	44	115	0	0.427184	0	C|0.963;A|0.037	0.037	strong	.	LMBR1L	61	.	NM_018113	exon12	c.G942T	p.V314V	AATGAGCACAGAC	.	PASS	Atlas-SNP
IQCG	84223	hgsc.bcm.edu	37	3	197665599	197665599	+	Missense_Mutation	SNP	G	G	T	rs9880989	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	343	154	316	1	0.44898	0.00316456	G|0.736;T|0.264	0.264	strong	.	IQCG	44	.	NM_032263	exon5	c.C335A	p.A112D	GTTGAGGCCATTG	.	PASS	Atlas-SNP
PLK2	10769	hgsc.bcm.edu	37	5	57755703	57755703	+	Silent	SNP	C	C	T	rs3211270	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	43	110	0	0.488636	0	C|0.661;T|0.339	0.339	strong	.	PLK2	71	.	NM_006622	exon1	c.G84A	p.A28A	CGAGTCCGCTCCG	.	PASS	Atlas-SNP
SLC29A4	222962	hgsc.bcm.edu	37	7	5327564	5327564	+	Silent	SNP	G	G	A	rs77039967		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	266	131	228	0	0.492481	0	.	.	weak	.	SLC29A4	52	.	NM_153247	exon2	c.G117A	p.A39A	GGAGGCGGCTCAG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	20	15	27	0	0.75	0	G|0.699;A|0.301	0.301	strong	.	THAP8	11	.	NM_152658	exon3	c.C565T	p.R189W	GGCACCGTTGCAG	.	PASS	Atlas-SNP
CADPS	8618	hgsc.bcm.edu	37	3	62543123	62543123	+	Silent	SNP	T	T	C	rs4396888	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	63	135	0	0.456522	0	T|0.951;C|0.049	0.049	strong	.	CADPS	387	.	NM_003716	exon10	c.A1710G	p.L570L	CAATTGTAGAAGT	.	PASS	Atlas-SNP
LDLRAP1	26119	hgsc.bcm.edu	37	1	25889632	25889632	+	Missense_Mutation	SNP	T	T	C	rs6687605	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	76	118	0	0.987013	0	T|0.532;C|0.468	0.468	strong	.	LDLRAP1	28	.	NM_015627	exon6	c.T604C	p.S202P	ACCCCCTCCTTGA	.	PASS	Atlas-SNP
UBASH3A	53347	hgsc.bcm.edu	37	21	43824136	43824136	+	Missense_Mutation	SNP	C	C	T	rs2277800	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	64	135	0	0.503937	0	C|0.948;T|0.052	0.052	strong	.	UBASH3A	72	.	NM_018961	exon1	c.C82T	p.L28F	GAGCCCCTCCTGG	.	PASS	Atlas-SNP
FDFT1	2222	hgsc.bcm.edu	37	8	11666337	11666337	+	Missense_Mutation	SNP	A	A	G	rs4731	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	71	120	0	0.470199	0	A|0.942;G|0.058;T|0.000	0.058	strong	.	FDFT1	25	.	NM_004462	exon2	c.A134G	p.K45R	GCTACAAGTATCT	.	PASS	Atlas-SNP
KRTAP10-4	386672	hgsc.bcm.edu	37	21	45993727	45993727	+	Missense_Mutation	SNP	A	A	C	rs76503724		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	24	106	0	0.375	0	.	.	weak	KRTAP10-4,NS,carcinoma,0,1	KRTAP10-4	44	1	NM_198687	exon1	c.A92C	p.D31A	TGGACGACTGCCC	.	PASS	Atlas-SNP
SLC39A2	29986	hgsc.bcm.edu	37	14	21469151	21469151	+	Missense_Mutation	SNP	T	T	C	rs2234636	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	50	128	0	0.454545	0	T|0.702;C|0.298	0.298	strong	.	SLC39A2	31	.	NM_014579	exon4	c.T343C	p.F115L	TTCTTTTTTGTCT	.	PASS	Atlas-SNP
CEP89	84902	hgsc.bcm.edu	37	19	33370084	33370084	+	Missense_Mutation	SNP	T	T	A	rs745960	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	68	76	0	1	0	T|0.761;A|0.239	0.239	strong	.	CEP89	82	.	NM_032816	exon19	c.A2336T	p.H779L	GGGGCATGAGACT	.	PASS	Atlas-SNP
GAL3ST3	89792	hgsc.bcm.edu	37	11	65810612	65810612	+	Missense_Mutation	SNP	G	G	T	rs35285455	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	38	32	0	0.76	0	G|0.983;T|0.017	0.017	strong	GAL3ST3,rectum,carcinoma,0,3	GAL3ST3	40	3	NM_033036	exon3	c.C662A	p.A221D	TAGGCGGCGTCGT	.	PASS	Atlas-SNP
PRPF8	10594	hgsc.bcm.edu	37	17	1585130	1585130	+	Silent	SNP	A	A	G	rs11559305	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	68	126	0	0.576271	0	G|0.263;N|0.000	0.263	strong	.	PRPF8	169	.	NM_006445	exon5	c.T637C	p.L213L	CCCTCAACGGCTG	.	PASS	Atlas-SNP
USP51	158880	hgsc.bcm.edu	37	X	55514818	55514818	+	Silent	SNP	C	C	T	rs3126255	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	106	103	0	0.929825	0	C|0.528;T|0.472	0.472	strong	.	USP51	71	.	NM_201286	exon2	c.G555A	p.E185E	CTCGACCTCCAGC	.	PASS	Atlas-SNP
EML2	24139	hgsc.bcm.edu	37	19	46133256	46133256	+	Missense_Mutation	SNP	G	G	A	rs7252175	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	38	93	0	0.387755	0	G|0.857;A|0.143	0.143	strong	EML2,colon,carcinoma,+2,1	EML2	64	1	NM_001193268	exon10	c.C1162T	p.L388F	CCGAGAGCATGTG	.	PASS	Atlas-SNP
NOP56	10528	hgsc.bcm.edu	37	20	2638882	2638882	+	Missense_Mutation	SNP	T	T	C	rs5856	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	54	108	0	0.568421	0	T|0.673;C|0.327	0.327	strong	.	NOP56	73	.	NM_006392	exon12	c.T1727C	p.V576A	AGGCGGTTGGCAA	.	PASS	Atlas-SNP
UPK2	7379	hgsc.bcm.edu	37	11	118828942	118828942	+	Silent	SNP	A	A	G	rs623500	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	34	80	0	0.447368	0	A|0.788;G|0.212	0.212	strong	.	UPK2	12	.	NM_006760	exon5	c.A554G	p.X185X	GCAAGTAAGGAGG	.	PASS	Atlas-SNP
HLTF	6596	hgsc.bcm.edu	37	3	148757864	148757864	+	Missense_Mutation	SNP	C	C	T	rs2229361	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	43	67	0	0.472527	0	C|0.976;T|0.024	0.024	strong	.	HLTF	87	.	NM_139048	exon21	c.G2456A	p.R819H	CTGTCACGTGCTA	.	PASS	Atlas-SNP
TNS1	7145	hgsc.bcm.edu	37	2	218674697	218674697	+	Missense_Mutation	SNP	C	C	T	rs918949	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	128	103	0	1	0	C|0.354;T|0.646	0.646	strong	.	TNS1	251	.	NM_022648	exon30	c.G4810A	p.V1604I	AGTTGACGAAGAG	.	PASS	Atlas-SNP
TRAPPC11	60684	hgsc.bcm.edu	37	4	184600571	184600571	+	Silent	SNP	C	C	A	rs62357990	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	30	53	0	0.344828	0	C|0.939;A|0.061	0.061	strong	.	.	.	.	NM_021942	exon9	c.C897A	p.I299I	ACACATCGACTTG	.	PASS	Atlas-SNP
CDH3	1001	hgsc.bcm.edu	37	16	68719113	68719113	+	Missense_Mutation	SNP	G	G	A	rs34494880	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	38	63	0	0.469136	0	G|0.953;A|0.047	0.047	strong	.	CDH3	68	.	NM_001793	exon11	c.G1430A	p.R477H	GCTACCGCATCCT	.	PASS	Atlas-SNP
ZBTB4	57659	hgsc.bcm.edu	37	17	7366619	7366619	+	Missense_Mutation	SNP	T	T	C	rs34914463	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	34	102	0	0.453333	0	T|0.942;C|0.058	0.058	strong	.	ZBTB4	163	.	NM_001128833	exon4	c.A1682G	p.N561S	CGTGGATTCCGGC	.	PASS	Atlas-SNP
PHF15	23338	hgsc.bcm.edu	37	5	133887780	133887780	+	Silent	SNP	G	G	A	rs12163993	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	334	162	280	1	0.48503	0.00357143	G|0.879;A|0.121	0.121	strong	.	PHF15	60	.	NM_015288	exon4	c.G192A	p.P64P	GATCCCGGACTCA	.	PASS	Atlas-SNP
ATP13A5	344905	hgsc.bcm.edu	37	3	193080414	193080414	+	Missense_Mutation	SNP	C	C	G	rs6797429	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	183	183	124	0	1	0	C|0.453;G|0.547	0.547	strong	.	ATP13A5	171	.	NM_198505	exon4	c.G397C	p.E133Q	GCACTTCCATGCA	.	PASS	Atlas-SNP
FRG1	2483	hgsc.bcm.edu	37	4	190878646	190878646	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	305	11	278	0	0.0360656	0	.	.	none	FRG1,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1	FRG1	76	1	NM_004477	exon6	c.G526T	p.E176X	GAAGAAGAAATGA	.	scavenged	Atlas-SNP
ZBTB1	22890	hgsc.bcm.edu	37	14	64988830	64988830	+	Missense_Mutation	SNP	C	C	A	rs45512391	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	84	223	0	0.449198	0	C|0.929;A|0.071	0.071	strong	.	ZBTB1	93	.	NM_014950	exon2	c.C608A	p.T203N	TATCTACTCCAAA	.	PASS	Atlas-SNP
APPL2	55198	hgsc.bcm.edu	37	12	105600935	105600935	+	Silent	SNP	G	G	A	rs2293643	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	28	77	0	0.474576	0	G|0.836;A|0.164	0.164	strong	.	APPL2	69	.	NM_001251904	exon8	c.C543T	p.H181H	GGAGAGGTGCTGC	.	PASS	Atlas-SNP
KRT81	3887	hgsc.bcm.edu	37	12	52681925	52681925	+	Missense_Mutation	SNP	A	A	C	rs6580873	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	85	161	0	0.502959	0	A|0.101;C|0.899	0.899	strong	.	KRT81	46	.	NM_002281	exon5	c.T743G	p.L248R	AGAATGAGGATCT	.	PASS	Atlas-SNP
SV2C	22987	hgsc.bcm.edu	37	5	75427935	75427935	+	Silent	SNP	G	G	A	rs10070440	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	121	99	1	1	0.010101	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	.	scavenged	Atlas-SNP
OR2T6	254879	hgsc.bcm.edu	37	1	248551636	248551636	+	Missense_Mutation	SNP	T	T	G	rs954475	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	269	148	224	0	0.550186	0	T|0.707;G|0.293	0.293	strong	.	OR2T6	101	.	NM_001005471	exon1	c.T727G	p.S243A	TGCTCTTCACACA	.	PASS	Atlas-SNP
CACNA1C	775	hgsc.bcm.edu	37	12	2694638	2694638	+	Silent	SNP	C	C	T	rs215976	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	52	84	1	0.626506	0.0119048	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	.	scavenged	Atlas-SNP
EML2	24139	hgsc.bcm.edu	37	19	46141845	46141845	+	Missense_Mutation	SNP	T	T	C	rs12151009	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	29	54	0	0.453125	0	T|0.908;C|0.092	0.092	strong	.	EML2	64	.	NM_001193268	exon6	c.A700G	p.M234V	GGATCATCATGGG	.	PASS	Atlas-SNP
RAG1	5896	hgsc.bcm.edu	37	11	36597734	36597734	+	Silent	SNP	A	A	G	rs1980131	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	42	73	0	0.518519	0	A|0.928;G|0.072	0.072	strong	.	RAG1	151	.	NM_000448	exon2	c.A2880G	p.A960A	ATGGGCAAGTGAG	.	PASS	Atlas-SNP
TUBGCP6	85378	hgsc.bcm.edu	37	22	50682865	50682865	+	Silent	SNP	G	G	A	rs5771270	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	40	56	0	0.449438	0	G|0.710;A|0.290	0.290	strong	TUBGCP6,NS,carcinoma,0,1	TUBGCP6	132	1	NM_020461	exon1	c.C24T	p.F8F	GTCGTCGAACAGC	.	PASS	Atlas-SNP
RFK	55312	hgsc.bcm.edu	37	9	79003516	79003516	+	Silent	SNP	C	C	G	rs10781358	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	73	121	0	0.521429	0	C|0.834;G|0.166	0.166	strong	.	RFK	13	.	NM_018339	exon3	c.G291C	p.V97V	AATGGCCACATTG	.	PASS	Atlas-SNP
SIRPA	140885	hgsc.bcm.edu	37	20	1895965	1895965	+	Missense_Mutation	SNP	C	C	A	rs17855614	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	58	296	19	0.983051	0.0641892	.	.	weak	SIRPA,brain,glioma,0,4	SIRPA	83	4	NM_001040022	exon3	c.C300A	p.N100K	GAGAAACAACATG	.	scavenged	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201183363	201183363	+	Silent	SNP	C	C	T	rs2282415	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	46	23	49	0	0.5	0	C|0.687;T|0.313	0.313	strong	.	IGFN1	220	.	NM_001164586	exon13	c.C8787T	p.A2929A	GGAGGCCGCCACA	.	PASS	Atlas-SNP
TXLNB	167838	hgsc.bcm.edu	37	6	139563914	139563914	+	Missense_Mutation	SNP	C	C	G	rs9495391	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	121	134	0	1	0	C|0.511;G|0.489	0.489	strong	TXLNB,caecum,carcinoma,+2,2	TXLNB	96	2	NM_153235	exon10	c.G1804C	p.A602P	AGGACGCCTGATC	.	PASS	Atlas-SNP
MRTO4	51154	hgsc.bcm.edu	37	1	19584004	19584004	+	Silent	SNP	G	G	A	rs1042380	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	28	41	0	0.491228	0	G|0.711;A|0.289	0.289	strong	.	MRTO4	17	.	NM_016183	exon5	c.G330A	p.E110E	AAAGGAGGAGGTG	.	PASS	Atlas-SNP
CHST13	166012	hgsc.bcm.edu	37	3	126260791	126260791	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	5	5	4	0	1	0	.	.	none	.	CHST13	21	.	NM_152889	exon3	c.C396T	p.R132R	AGCCCGCGGCGAC	.	PASS	Atlas-SNP
PCDHGA9	56107	hgsc.bcm.edu	37	5	140784820	140784820	+	Silent	SNP	C	C	T	rs78501291	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	278	128	228	0	0.460432	0	C|0.968;T|0.032	0.032	strong	.	PCDHGA9	110	.	NM_032089	exon1	c.C2301T	p.H767H	GAGTCACCTGATC	.	PASS	Atlas-SNP
RIN2	54453	hgsc.bcm.edu	37	20	19951534	19951534	+	Missense_Mutation	SNP	T	T	A	rs3803981	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	70	126	0	0.443038	0	T|0.818;A|0.182	0.182	strong	RIN2_ENST00000255006,NS,carcinoma,0,3	RIN2	126	3	NM_001242581	exon7	c.T736A	p.S246T	GCCAAGTCGGAGG	.	PASS	Atlas-SNP
CCDC157	550631	hgsc.bcm.edu	37	22	30762139	30762139	+	Silent	SNP	C	C	T	rs41281641	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	48	51	0	0.475248	0	C|0.931;T|0.069	0.069	strong	.	CCDC157	86	.	NM_001017437	exon3	c.C150T	p.L50L	TGACCTCGACATG	.	PASS	Atlas-SNP
ADRA1B	147	hgsc.bcm.edu	37	5	159344461	159344461	+	Silent	SNP	G	G	A	rs3729604	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	82	113	0	0.58156	0	G|0.806;A|0.194	0.194	strong	ADRA1B,NS,carcinoma,0,1	ADRA1B	39	1	NM_000679	exon1	c.G549A	p.G183G	CCTTGGGTGGAAG	.	PASS	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	37	6	38851669	38851669	+	Silent	SNP	C	C	T	rs4714192	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	24	77	0	0.444444	0	C|0.782;T|0.218	0.218	strong	DNAH8_ENST00000359357,NS,carcinoma,0,1	DNAH8	1239	1	NM_001206927	exon56	c.C8154T	p.Y2718Y	AAGCTACGTGGAT	.	PASS	Atlas-SNP
TBX21	30009	hgsc.bcm.edu	37	17	45811210	45811210	+	Silent	SNP	A	A	G	rs2074190	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	27	63	1	0.442623	0.015873	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	.	scavenged	Atlas-SNP
FCHO1	23149	hgsc.bcm.edu	37	19	17885880	17885880	+	Silent	SNP	C	C	T	rs2287855	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	58	99	0	0.47541	0	C|0.894;T|0.106	0.106	strong	.	FCHO1	69	.	NM_001161358	exon13	c.C936T	p.P312P	GGAGCCCGATTCA	.	PASS	Atlas-SNP
SV2B	9899	hgsc.bcm.edu	37	15	91827271	91827271	+	Missense_Mutation	SNP	A	A	G	rs117361551	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	178	96	141	0	0.539326	0	A|0.990;G|0.010	0.010	strong	.	SV2B	98	.	NM_014848	exon12	c.A1528G	p.I510V	AAGTTCATCAACT	.	PASS	Atlas-SNP
CCDC153	283152	hgsc.bcm.edu	37	11	119063908	119063908	+	Missense_Mutation	SNP	C	C	T	rs2301574	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	22	48	0	0.349206	0	C|0.728;T|0.272	0.272	strong	CCDC153,NS,carcinoma,0,1	CCDC153	19	1	NM_001145018	exon5	c.G302A	p.R101H	TTGCTGCGGGTTT	.	PASS	Atlas-SNP
WDR20	91833	hgsc.bcm.edu	37	14	102675350	102675350	+	Silent	SNP	G	G	C	rs6575900	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	75	125	0	0.487013	0	G|0.664;C|0.336	0.336	strong	.	WDR20	35	.	NM_001242417	exon4	c.G936C	p.G312G	AGGTGGGGAGGAC	.	PASS	Atlas-SNP
IL17RE	132014	hgsc.bcm.edu	37	3	9956279	9956279	+	Missense_Mutation	SNP	G	G	A	rs455863	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	48	117	0	0.396694	0	A|0.424;C|0.006	0.424	strong	IL17RE,NS,haematopoietic_neoplasm,+1,1	IL17RE	62	1	NM_001193380	exon14	c.G1417A	p.G473R	GTGTCCGGATGGT	.	PASS	Atlas-SNP
TNIP1	10318	hgsc.bcm.edu	37	5	150425467	150425467	+	Silent	SNP	G	G	A	rs2233299	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	20	53	0	0.425532	0	G|0.803;A|0.197	0.197	strong	.	TNIP1	51	.	NM_001252385	exon9	c.C891T	p.G297G	GGCTGCGCCCAAG	.	PASS	Atlas-SNP
FUT1	2523	hgsc.bcm.edu	37	19	49254114	49254114	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	2	64	0	0.027027	0	.	.	none	FUT1,NS,carcinoma,0,1	FUT1	44	1	NM_000148	exon4	c.G425T	p.R142L	AGCTCCCGCCACG	.	scavenged	Atlas-SNP
SULT1A1	6817	hgsc.bcm.edu	37	16	28617552	28617552	+	Silent	SNP	C	C	G	rs35906658	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	47	155	0	0.246073	0	C|0.646;G|0.354	0.354	strong	.	SULT1A1	53	.	NM_177534	exon6	c.G600C	p.P200P	CCTTTTCGGGTTC	.	PASS	Atlas-SNP
WRN	7486	hgsc.bcm.edu	37	8	30973957	30973957	+	Silent	SNP	G	G	T	rs1800392	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	62	132	0	0.407895	0	G|0.509;T|0.491	0.491	strong	.	WRN	116	.	NM_000553	exon20	c.G2361T	p.L787L	GAAACTGAATCTA	.	PASS	Atlas-SNP
OR6C1	390321	hgsc.bcm.edu	37	12	55715048	55715048	+	Missense_Mutation	SNP	C	C	T	rs7132600	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	373	186	326	0	0.49866	0	C|0.842;T|0.158	0.158	strong	.	OR6C1	58	.	NM_001005182	exon1	c.C665T	p.T222I	TCAGAACAATTTT	.	PASS	Atlas-SNP
DIDO1	11083	hgsc.bcm.edu	37	20	61528271	61528271	+	Missense_Mutation	SNP	C	C	T	rs1883847	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	77	159	0	0.416216	0	C|0.752;T|0.248	0.248	strong	DIDO1,NS,carcinoma,0,1	DIDO1	321	1	NM_080797	exon7	c.G1666A	p.A556T	CCACCGCGGAGCC	.	PASS	Atlas-SNP
OR8H1	219469	hgsc.bcm.edu	37	11	56058474	56058474	+	Missense_Mutation	SNP	T	T	A	rs17540861	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	41	80	0	0.5125	0	T|0.950;A|0.050	0.050	strong	.	OR8H1	89	.	NM_001005199	exon1	c.A65T	p.E22V	TGGACCTCTTCAG	.	PASS	Atlas-SNP
PTPN21	11099	hgsc.bcm.edu	37	14	88935925	88935925	+	Silent	SNP	A	A	G	rs2297129	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	88	183	0	0.475676	0	A|0.610;G|0.390	0.390	strong	.	PTPN21	113	.	NM_007039	exon17	c.T3153C	p.T1051T	TTGCCCAGTAAGG	.	PASS	Atlas-SNP
SLC12A5	57468	hgsc.bcm.edu	37	20	44680493	44680493	+	Silent	SNP	G	G	A	rs17344810	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	25	48	0	0.438596	0	G|0.909;A|0.091	0.091	strong	.	SLC12A5	181	.	NM_001134771	exon18	c.G2430A	p.T810T	TCAGACGTGGAGG	.	PASS	Atlas-SNP
EPHB1	2047	hgsc.bcm.edu	37	3	134898742	134898742	+	Silent	SNP	C	C	T	rs1042787	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	292	137	229	0	0.469178	0	C|0.508;T|0.492	0.492	strong	.	EPHB1	519	.	NM_004441	exon10	c.C1800T	p.Y600Y	CACTTACGAGGAT	.	PASS	Atlas-SNP
VANGL1	81839	hgsc.bcm.edu	37	1	116206423	116206423	+	Missense_Mutation	SNP	G	G	A	rs4839469	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	242	232	181	0	0.958678	0	A|0.122;C|0.001;G|0.877;N|0.000	0.122	strong	.	VANGL1	65	.	NM_138959	exon4	c.G346A	p.A116T	ACCGTCGCCTCTT	.	PASS	Atlas-SNP
BRD2	6046	hgsc.bcm.edu	37	6	32944094	32944094	+	Silent	SNP	G	G	C	rs15912	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	35	54	0	0.522388	0	G|0.946;C|0.054	0.054	strong	.	BRD2	70	.	NM_005104	exon6	c.G678C	p.L226L	AGCCCTGTATACT	.	PASS	Atlas-SNP
NLRP4	147945	hgsc.bcm.edu	37	19	56369314	56369314	+	Silent	SNP	G	G	A	rs16986718	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	184	174	0	0.983957	0	G|0.718;A|0.281	0.281	strong	NLRP4_ENST00000301295,colon,carcinoma,0,1	NLRP4	331	1	NM_134444	exon3	c.G555A	p.T185T	GTACACGTTCTAT	.	PASS	Atlas-SNP
COPE	11316	hgsc.bcm.edu	37	19	19023853	19023853	+	Silent	SNP	T	T	C	rs3177137	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	21	66	0	0.42	0	T|0.586;C|0.414	0.414	strong	COPE,NS,adenoma,0,1	COPE	26	1	NM_007263	exon2	c.A129G	p.L43L	GCTTGATAGCTGT	.	PASS	Atlas-SNP
DDX11	1663	hgsc.bcm.edu	37	12	31253995	31253995	+	Silent	SNP	C	C	T	rs1046456	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	47	92	0	0.47	0	C|0.466;T|0.534	0.534	strong	.	DDX11	188	.	NM_030653	exon20	c.C1983T	p.L661L	GCCCCTCGTCATC	.	PASS	Atlas-SNP
TPSAB1	7177	hgsc.bcm.edu	37	16	1291160	1291160	+	Missense_Mutation	SNP	G	G	T	rs141519544	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	11	98	0	0.144737	0	G|0.658;T|0.342	0.342	strong	TPSAB1,NS,lymphoid_neoplasm,0,2	TPSAB1	24	2	NM_003294	exon3	c.G68T	p.G23V	CCCCAGGCCAGGC	.	scavenged	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179398509	179398509	+	Missense_Mutation	SNP	C	C	A	rs3731752	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	71	133	0	0.467105	0	C|0.922;A|0.078	0.078	strong	.	TTN	18412	.	NM_001267550	exon358	c.G102833T	p.G34278V	GTTACTCCAAACC	.	PASS	Atlas-SNP
NEK2	4751	hgsc.bcm.edu	37	1	211848807	211848807	+	Silent	SNP	A	A	C	rs55635245	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	53	96	0	0.456897	0	A|0.959;C|0.041	0.041	strong	.	NEK2	49	.	NM_002497	exon1	c.T15G	p.A5A	GTCCTCAGCCCGG	.	PASS	Atlas-SNP
PDGFRA	5156	hgsc.bcm.edu	37	4	55143577	55143577	+	Silent	SNP	G	G	A	rs10028020	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	267	117	252	0	0.438202	0	A|0.170;C|0.000;G|0.830	0.170	strong	.	PDGFRA	1583	.	NM_006206	exon13	c.G1809A	p.A603A	TGGAGCGTTTGGG	.	PASS	Atlas-SNP
OR5A1	219982	hgsc.bcm.edu	37	11	59211421	59211421	+	Silent	SNP	C	C	T	rs17591107	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	310	146	289	1	0.470968	0.00346021	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	.	PASS	Atlas-SNP
EPHA8	2046	hgsc.bcm.edu	37	1	22923873	22923873	+	Missense_Mutation	SNP	G	G	C	rs999765	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	238	120	205	1	0.504202	0.00487805	G|0.893;C|0.107	0.107	strong	.	EPHA8	221	.	NM_020526	exon10	c.G1834C	p.E612Q	TATGCGGAACCCC	.	PASS	Atlas-SNP
COL6A6	131873	hgsc.bcm.edu	37	3	130380710	130380710	+	Silent	SNP	C	C	T	rs201325545	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	58	113	0	0.411348	0	C|0.996;T|0.004	0.004	strong	.	COL6A6	497	.	NM_001102608	exon34	c.C6060T	p.F2020F	CGACTTCCTACCC	.	PASS	Atlas-SNP
EPHA6	285220	hgsc.bcm.edu	37	3	97194242	97194242	+	Silent	SNP	C	C	T	rs16838751	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	54	72	0	0.477876	0	C|0.804;T|0.196	0.196	strong	.	EPHA6	439	.	NM_001080448	exon8	c.C1941T	p.T647T	AGCCACCGCCGCT	.	PASS	Atlas-SNP
TAOK2	9344	hgsc.bcm.edu	37	16	29989416	29989416	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	4	137	0	0.028169	0	.	.	none	TAOK2_ENST00000308893,NS,carcinoma,0,2	TAOK2	142	2	NM_004783	exon3	c.G139A	p.D47N	GCCCGGGATGTCC	.	scavenged	Atlas-SNP
HELZ	9931	hgsc.bcm.edu	37	17	65104666	65104666	+	Silent	SNP	T	T	G	rs11657929	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	53	84	0	0.981481	0	T|0.382;G|0.618	0.618	strong	.	HELZ	160	.	NM_014877	exon30	c.A4666C	p.R1556R	CTGCCCTCACTGG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9075346	9075346	+	Missense_Mutation	SNP	T	T	A	rs2591592	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	256	255	295	1	0.996094	0.00338983	T|0.558;A|0.442	0.442	strong	.	MUC16	4315	.	NM_024690	exon3	c.A12100T	p.I4034F	AGATAATACTTGT	.	PASS	Atlas-SNP
STEAP1B	256227	hgsc.bcm.edu	37	7	22532986	22532986	+	Missense_Mutation	SNP	C	C	A	rs16881812	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	222	91	230	1	0.40991	0.00434783	C|0.933;A|0.067	0.067	strong	STEAP1B,NS,carcinoma,0,2	STEAP1B	22	2	NM_001164460	exon3	c.G554T	p.R185M	GATCGCCTCATTG	.	scavenged	Atlas-SNP
BBS12	166379	hgsc.bcm.edu	37	4	123664919	123664919	+	Silent	SNP	A	A	G	rs13102440	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	37	77	0	0.402174	0	A|0.856;G|0.144	0.144	strong	.	BBS12	63	.	NM_001178007	exon3	c.A1872G	p.Q624Q	TCTGCAAAATGCC	.	PASS	Atlas-SNP
MANBA	4126	hgsc.bcm.edu	37	4	103555992	103555992	+	Silent	SNP	A	A	G	rs2272697	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	171	170	140	0	0.994152	0	A|0.447;G|0.553	0.553	strong	MANBA,NS,carcinoma,0,2	MANBA	78	2	NM_005908	exon16	c.T2368C	p.L790L	AGGACAAGAAGTG	.	PASS	Atlas-SNP
MICA	100507436	hgsc.bcm.edu	37	6	31382893	31382893	+	Missense_Mutation	SNP	A	A	G	rs41545814	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	53	100	0	0.434426	0	A|0.976;G|0.024	0.024	strong	.	MICA	21	.	NM_000247	exon7	c.A1129G	p.T377A	GGGTCCACTGGCT	.	PASS	Atlas-SNP
HIST1H4B	8366	hgsc.bcm.edu	37	6	26027433	26027433	+	Silent	SNP	G	G	A	rs3752419	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	42	78	0	0.567568	0	G|0.628;A|0.372	0.372	strong	.	HIST1H4B	27	.	NM_003544	exon1	c.C48T	p.A16A	ACGCTTGGCACCT	.	PASS	Atlas-SNP
PCDHGA4	56111	hgsc.bcm.edu	37	5	140735215	140735215	+	Missense_Mutation	SNP	G	G	A	rs11575949	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	47	78	0	0.484536	0	G|0.880;A|0.120	0.120	strong	.	PCDHGA4	150	.	NM_018917	exon1	c.G448A	p.A150T	CCTGGGGCAAGAT	.	PASS	Atlas-SNP
CEP57	9702	hgsc.bcm.edu	37	11	95546138	95546138	+	Missense_Mutation	SNP	G	G	A	rs140149031		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	171	2	176	0	0.0116959	0	G|1.000;A|0.000	0.000	weak	CEP57,NS,carcinoma,+1,1	CEP57	40	1	NM_001243777	exon3	c.G245A	p.R82H	TTCGACGCTTGGA	.	scavenged	Atlas-SNP
SERPINA5	5104	hgsc.bcm.edu	37	14	95054176	95054176	+	Silent	SNP	T	T	C	rs6112	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	221	205	1	0.986607	0.00487805	T|0.312;C|0.688	0.688	strong	.	SERPINA5	69	.	NM_000624	exon3	c.T477C	p.P159P	TTTCCCTACCAAC	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1267502	1267502	+	Missense_Mutation	SNP	C	C	T	rs141653894	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	238	119	228	0	0.5	0	C|0.962;T|0.038	0.038	strong	MUC5AC,mouth,carcinoma,-1,1	MUC5B	473	1	NM_002458	exon31	c.C9392T	p.T3131M	CGGGGACGACCTG	.	PASS	Atlas-SNP
DGKE	8526	hgsc.bcm.edu	37	17	54940127	54940127	+	Missense_Mutation	SNP	A	A	G	rs61751972	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	24	57	0	0.545455	0	A|0.998;G|0.002	0.002	strong	.	DGKE	47	.	NM_003647	exon12	c.A1679G	p.Q560R	CGGATCAAGAAGA	.	PASS	Atlas-SNP
MEP1A	4224	hgsc.bcm.edu	37	6	46793175	46793175	+	Silent	SNP	G	G	A	rs6920863	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	234	111	199	0	0.474359	0	G|0.598;A|0.402	0.402	strong	.	MEP1A	93	.	NM_005588	exon8	c.G723A	p.Q241Q	CGGACAGCGCCTG	.	PASS	Atlas-SNP
RALGAPB	57148	hgsc.bcm.edu	37	20	37203571	37203571	+	Silent	SNP	A	A	G	rs143567036	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	57	155	0	0.395833	0	A|0.999;G|0.001	0.001	strong	.	RALGAPB	134	.	NM_020336	exon30	c.A4446G	p.S1482S	TACTTCACTTTTC	.	PASS	Atlas-SNP
ACIN1	22985	hgsc.bcm.edu	37	14	23549785	23549785	+	Missense_Mutation	SNP	T	T	C	rs3811182	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	323	322	293	0	0.996904	0	T|0.512;C|0.488	0.488	strong	.	ACIN1	147	.	NM_001164814	exon6	c.A933G	p.I311M	TCTAGGTATCTCT	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81248716	81248716	+	Missense_Mutation	SNP	C	C	T	rs12933806	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	133	135	0	1	0	C|0.780;T|0.220	0.220	strong	.	PKD1L2	361	.	NM_001076780	exon3	c.G547A	p.V183I	CGTAGACGGCATC	.	PASS	Atlas-SNP
BRWD1	54014	hgsc.bcm.edu	37	21	40670460	40670460	+	Missense_Mutation	SNP	G	G	C	rs2056844	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	297	141	306	1	0.474747	0.00326797	G|0.542;C|0.458	0.458	strong	.	BRWD1	325	.	NM_001007246	exon5	c.C247G	p.Q83E	TGCGCTGGCAGAT	.	PASS	Atlas-SNP
OR2T12	127064	hgsc.bcm.edu	37	1	248458760	248458760	+	Missense_Mutation	SNP	C	C	A	rs12135684	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	342	146	343	0	0.426901	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
MUC21	394263	hgsc.bcm.edu	37	6	30954347	30954347	+	Missense_Mutation	SNP	C	C	T	rs144625089	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	10	84	0	0.0704225	0	C|0.999;T|0.001	0.001	weak	MUC21,colon,carcinoma,0,2	MUC21	98	2	NM_001010909	exon2	c.C395T	p.A132V	GTGGGGCCAGCAC	.	PASS	Atlas-SNP
POLQ	10721	hgsc.bcm.edu	37	3	121252048	121252048	+	Missense_Mutation	SNP	T	T	G	rs73179915	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	65	149	0	0.467626	0	T|0.999;G|0.001	0.001	strong	.	POLQ	273	.	NM_199420	exon6	c.A749C	p.D250A	GCTAGATCTGCCT	.	PASS	Atlas-SNP
CHRNG	1146	hgsc.bcm.edu	37	2	233410294	233410294	+	Silent	SNP	C	C	T	rs2099489	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	42	60	0	0.512195	0	C|0.836;T|0.164	0.164	strong	.	CHRNG	54	.	NM_005199	exon12	c.C1422T	p.R474R	GGACCGCGTCTGC	.	PASS	Atlas-SNP
BMP3	651	hgsc.bcm.edu	37	4	81967240	81967240	+	Missense_Mutation	SNP	C	C	T	rs34505126	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	40	51	0	0.454545	0	C|0.975;T|0.025	0.025	strong	.	BMP3	59	.	NM_001201	exon2	c.C665T	p.T222M	ACATTACGTCCAA	.	PASS	Atlas-SNP
NOL10	79954	hgsc.bcm.edu	37	2	10712278	10712278	+	Silent	SNP	C	C	T	rs3732114	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	307	155	296	0	0.504886	0	C|0.730;T|0.270	0.270	strong	.	NOL10	22	.	NM_024894	exon21	c.G1986A	p.L662L	TCGATGCAGTTTC	.	PASS	Atlas-SNP
OR51B4	79339	hgsc.bcm.edu	37	11	5322520	5322520	+	Silent	SNP	G	G	A	rs12283334	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	42	80	0	0.494118	0	G|0.775;A|0.225	0.225	strong	.	OR51B4	64	.	NM_033179	exon1	c.C657T	p.L219L	TGTCTTGAGGATT	.	PASS	Atlas-SNP
OR6C74	254783	hgsc.bcm.edu	37	12	55641920	55641920	+	Silent	SNP	G	G	A	rs73322883	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	55	106	0	0.419847	0	G|0.949;A|0.051	0.051	strong	.	OR6C74	52	.	NM_001005490	exon1	c.G849A	p.L283L	CATGTTGAATCCC	.	PASS	Atlas-SNP
APOBR	55911	hgsc.bcm.edu	37	16	28508447	28508447	+	Silent	SNP	A	A	G	rs40831	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	29	15	19	0	0.517241	0	A|0.584;G|0.416	0.416	strong	.	APOBR	89	.	NM_018690	exon2	c.A2085G	p.A695A	AGAGGCATCTGTC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	141	126	0	1	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
MAN2A1	4124	hgsc.bcm.edu	37	5	109117171	109117171	+	Silent	SNP	A	A	G	rs13189822	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	47	73	0	0.494737	0	A|0.799;G|0.201	0.201	strong	.	MAN2A1	136	.	NM_002372	exon9	c.A1449G	p.Q483Q	GGGCCAATCGATG	.	PASS	Atlas-SNP
IRX4	50805	hgsc.bcm.edu	37	5	1880891	1880891	+	Missense_Mutation	SNP	C	C	T	rs2232376	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	44	68	1	0.556962	0.0147059	T|0.195;G|0.006	0.195	strong	IRX4,colon,carcinoma,0,1	IRX4	45	1	NM_016358	exon3	c.G355A	p.A119T	CGGCAGCGGCTGG	.	scavenged	Atlas-SNP
HECW1	23072	hgsc.bcm.edu	37	7	43547692	43547692	+	Silent	SNP	G	G	A	rs17172219	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	66	108	0	0.568965	0	G|0.995;A|0.005	0.005	strong	.	HECW1	540	.	NM_015052	exon23	c.G3828A	p.Q1276Q	GCTCCAGCGAAAC	.	PASS	Atlas-SNP
GAB2	9846	hgsc.bcm.edu	37	11	77930345	77930345	+	Silent	SNP	T	T	C	rs2450122	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	40	77	0	0.454545	0	T|0.789;C|0.211	0.211	strong	.	GAB2	63	.	NM_080491	exon10	c.A2004G	p.S668S	AGGCTCTGAGGAC	.	PASS	Atlas-SNP
RANBP9	10048	hgsc.bcm.edu	37	6	13711279	13711279	+	Silent	SNP	A	A	G	rs6905991	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	80	106	1	0.57554	0.00943396	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	.	scavenged	Atlas-SNP
ZSWIM2	151112	hgsc.bcm.edu	37	2	187697883	187697883	+	Missense_Mutation	SNP	A	A	G	rs10164815	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	359	183	328	0	0.509749	0	A|0.809;G|0.191	0.191	strong	ZSWIM2,NS,carcinoma,-1,1	ZSWIM2	119	1	NM_182521	exon7	c.T905C	p.I302T	TCTTCAATCTCAT	.	PASS	Atlas-SNP
ABTB1	80325	hgsc.bcm.edu	37	3	127395817	127395817	+	Silent	SNP	G	G	A	rs35834653	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	64	119	0	0.463768	0	G|0.962;A|0.038	0.038	strong	.	ABTB1	36	.	NM_172027	exon7	c.G534A	p.L178L	CCGCCTGGACATT	.	PASS	Atlas-SNP
C6orf165	154313	hgsc.bcm.edu	37	6	88126423	88126423	+	Missense_Mutation	SNP	G	G	C	rs16879281	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	46	79	0	0.547619	0	G|0.903;C|0.097	0.097	strong	.	C6orf165	116	.	NM_001031743	exon6	c.G509C	p.G170A	AGCTTGGGACATT	.	PASS	Atlas-SNP
AGAP2	116986	hgsc.bcm.edu	37	12	58126234	58126234	+	Silent	SNP	C	C	A	rs17852479	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	70	62	0	0.786517	0	A|0.274;C|0.726;G|0.000	0.274	strong	AGAP2_ENST00000547588,NS,carcinoma,0,2	AGAP2	167	2	NM_001122772	exon7	c.G1746T	p.L582L	GCTGGGCAGGGAC	.	PASS	Atlas-SNP
DSP	1832	hgsc.bcm.edu	37	6	7577260	7577260	+	Silent	SNP	C	C	T	rs2064217	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	83	209	0	0.471591	0	C|0.737;T|0.263	0.263	strong	DSP,NS,carcinoma,0,1	DSP	306	1	NM_004415	exon20	c.C2862T	p.C954C	ACTTTGCGCCAAT	.	PASS	Atlas-SNP
BLM	641	hgsc.bcm.edu	37	15	91341535	91341535	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	48	152	0	0.350365	0	.	.	none	.	BLM	122	.	NM_000057	exon17	c.T3326A	p.F1109Y	GAAGATTTACTAT	.	PASS	Atlas-SNP
HDAC6	10013	hgsc.bcm.edu	37	X	48681187	48681187	+	Missense_Mutation	SNP	G	G	A	rs61735967	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	120	85	0	0.96	0	G|0.983;A|0.017	0.017	strong	.	HDAC6	111	.	NM_006044	exon24	c.G2495A	p.R832H	ACTGGCGCAGCTT	.	PASS	Atlas-SNP
PTPRQ	374462	hgsc.bcm.edu	37	12	80878310	80878310	+	Missense_Mutation	SNP	C	C	G	rs61729287	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	30	71	0	0.375	0	C|0.987;G|0.013	0.013	strong	.	PTPRQ	119	.	NM_001145026	exon6	c.C769G	p.Q257E	ATTAACCAATACC	.	PASS	Atlas-SNP
ACOT13	55856	hgsc.bcm.edu	37	6	24698215	24698215	+	Silent	SNP	G	G	A	rs7765904	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	79	132	0	0.617188	0	G|0.812;A|0.188	0.188	strong	.	ACOT13	12	.	NM_018473	exon2	c.G186A	p.T62T	AGCCACGTTAGTA	.	PASS	Atlas-SNP
COG4	25839	hgsc.bcm.edu	37	16	70546234	70546234	+	Silent	SNP	G	G	A	rs3762171	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	242	111	211	0	0.458678	0	G|0.578;A|0.422	0.422	strong	.	COG4	64	.	NM_015386	exon5	c.C646T	p.L216L	GGGGCAGATCACC	.	PASS	Atlas-SNP
DACT2	168002	hgsc.bcm.edu	37	6	168709385	168709385	+	Missense_Mutation	SNP	T	T	C	rs6925614	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	33	12	34	0	0.363636	0	T|0.628;C|0.372	0.372	strong	DACT2_ENST00000366795,NS,carcinoma,-1,1	DACT2	46	1	NM_214462	exon4	c.A1052G	p.E351G	TCTCCCTCGCTAC	.	PASS	Atlas-SNP
CCDC132	55610	hgsc.bcm.edu	37	7	92900576	92900576	+	Splice_Site	SNP	T	T	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	43	101	0	0.387387	0	.	.	none	.	CCDC132	136	.	NM_017667	exon10	c.702+2T>G	.	TTGAGGTAAGAAG	.	PASS	Atlas-SNP
EPG5	57724	hgsc.bcm.edu	37	18	43481075	43481075	+	Missense_Mutation	SNP	G	G	A	rs1893523	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	46	22	44	0	0.478261	0	G|0.748;A|0.252	0.252	strong	EPG5,NS,carcinoma,-1,1	EPG5	199	1	NM_020964	exon26	c.C4532T	p.A1511V	TGCAGAGCAAGGG	.	PASS	Atlas-SNP
CASC5	57082	hgsc.bcm.edu	37	15	40898643	40898643	+	Missense_Mutation	SNP	G	G	C	rs7177192	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	92	232	0	1	0	G|0.308;C|0.692	0.692	strong	CASC5,NS,carcinoma,0,1	CASC5	269	1	NM_144508	exon4	c.G128C	p.R43T	ATGAAAGAGTTCA	.	PASS	Atlas-SNP
NFATC1	4772	hgsc.bcm.edu	37	18	77170477	77170477	+	Missense_Mutation	SNP	C	C	A	rs1051978	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	39	56	0	0.527027	0	C|0.931;A|0.069	0.069	strong	.	NFATC1	105	.	NM_172390	exon2	c.C202A	p.P68T	CCGGCCCCGTGCC	.	PASS	Atlas-SNP
SLC52A3	113278	hgsc.bcm.edu	37	20	746098	746098	+	Silent	SNP	G	G	A	rs3746808	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	89	95	0	1	0	G|0.754;A|0.246	0.246	strong	.	.	.	.	NM_033409	exon2	c.C321T	p.A107A	CAAGAAGGCGATG	.	PASS	Atlas-SNP
ANO4	121601	hgsc.bcm.edu	37	12	101520689	101520689	+	Silent	SNP	A	A	G	rs1055734	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	279	121	270	2	0.433692	0.00740741	A|0.860;G|0.140	0.140	strong	ANO4,NS,carcinoma,+1,1	ANO4	183	1	NM_178826	exon26	c.A2604G	p.S868S	CATTTCATATCTG	.	scavenged	Atlas-SNP
CACNA1H	8912	hgsc.bcm.edu	37	16	1252259	1252259	+	Silent	SNP	A	A	G	rs9934839	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	17	55	0	0.377778	0	A|0.594;G|0.406	0.406	strong	.	CACNA1H	317	.	NM_021098	exon9	c.A1809G	p.R603R	CCTCAGACTGGCC	.	PASS	Atlas-SNP
HMCN1	83872	hgsc.bcm.edu	37	1	186120800	186120800	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	339	5	303	0	0.0147493	0	.	.	none	HMCN1,NS,malignant_melanoma,0,1	HMCN1	797	1	NM_031935	exon95	c.A14821G	p.I4941V	AAGGAAATAGGAG	.	scavenged	Atlas-SNP
TTC38	55020	hgsc.bcm.edu	37	22	46669924	46669924	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	56	86	0	0.482759	0	.	.	none	.	TTC38	40	.	NM_017931	exon4	c.G323A	p.R108Q	CAAGGCGGGAGCA	.	PASS	Atlas-SNP
COX11	1353	hgsc.bcm.edu	37	17	53042208	53042208	+	Silent	SNP	A	A	G	rs145197312	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	41	75	0	0.476744	0	A|0.998;G|0.002	0.002	strong	.	COX11	16	.	NM_001162861	exon2	c.T372C	p.T124T	AAGTCCAGTAGTC	.	PASS	Atlas-SNP
ZNF548	147694	hgsc.bcm.edu	37	19	57909827	57909827	+	Missense_Mutation	SNP	G	G	T	rs17856896	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	52	77	0	0.514852	0	G|0.913;T|0.087	0.087	strong	.	ZNF548	64	.	NM_001172773	exon4	c.G208T	p.A70S	GAGGAGGCACCTT	.	PASS	Atlas-SNP
CNGB3	54714	hgsc.bcm.edu	37	8	87588248	87588248	+	Silent	SNP	T	T	C	rs3735970	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	253	120	296	0	0.474308	0	T|0.918;C|0.082	0.082	strong	.	CNGB3	176	.	NM_019098	exon18	c.A2214G	p.E738E	TTTATCTTCATTT	.	PASS	Atlas-SNP
DAGLA	747	hgsc.bcm.edu	37	11	61487690	61487690	+	Silent	SNP	G	G	A	rs198430	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	110	56	0	0.982143	0	G|0.742;A|0.258	0.258	strong	DAGLA,NS,carcinoma,0,1	DAGLA	109	1	NM_006133	exon2	c.G63A	p.P21P	CCTACCGGCCATC	.	PASS	Atlas-SNP
OR6C3	254786	hgsc.bcm.edu	37	12	55725690	55725690	+	Missense_Mutation	SNP	C	C	T	rs4318060	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	60	121	0	0.508475	0	C|0.845;T|0.155	0.155	strong	.	OR6C3	36	.	NM_054104	exon1	c.C206T	p.S69L	AAATCTCATTTAC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	50	75	0	0.595238	0	G|0.760;A|0.240	0.240	strong	.	CIT	535	.	NM_001206999	exon32	c.C4077T	p.S1359S	GATGGCGGACATG	.	PASS	Atlas-SNP
ATHL1	80162	hgsc.bcm.edu	37	11	290891	290891	+	Silent	SNP	T	T	C	rs72636977	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	170	96	147	0	0.564706	0	T|0.894;C|0.106	0.106	strong	ATHL1_ENST00000409548,NS,carcinoma,0,2	ATHL1	88	2	NM_025092	exon4	c.T684C	p.Y228Y	TCTGTATACGGCT	.	PASS	Atlas-SNP
ZNF618	114991	hgsc.bcm.edu	37	9	116770776	116770776	+	Silent	SNP	C	C	T	rs3748183	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	111	109	0	0.982301	0	C|0.649;T|0.351	0.351	strong	.	ZNF618	184	.	NM_133374	exon8	c.C600T	p.V200V	AGGTGTCGTGGCC	.	PASS	Atlas-SNP
TMCC3	57458	hgsc.bcm.edu	37	12	94976084	94976084	+	Silent	SNP	T	T	C	rs3747552	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	141	106	0	1	0	T|0.335;C|0.665	0.665	strong	.	TMCC3	63	.	NM_020698	exon2	c.A309G	p.A103A	CTTGTCTGCGTTG	.	PASS	Atlas-SNP
OR5H1	26341	hgsc.bcm.edu	37	3	97851900	97851900	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	551	24	406	0	0.0435572	0	.	.	none	OR5H1,NS,carcinoma,0,1	OR5H1	71	1	NM_001005338	exon1	c.A359G	p.Y120C	TGGCATATGATCG	.	scavenged	Atlas-SNP
C16orf3	750	hgsc.bcm.edu	37	16	90095597	90095597	+	Missense_Mutation	SNP	T	T	C	rs61118444	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	6	86	0	0.0740741	0	T|0.361;C|0.639	0.639	strong	.	C16orf3	14	.	NM_001214	exon1	c.A154G	p.I52V	AGGCTATGGGGCA	.	PASS	Atlas-SNP
COL4A1	1282	hgsc.bcm.edu	37	13	110813709	110813709	+	Silent	SNP	G	G	A	rs1133219	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	27	50	0	0.369863	0	G|0.664;A|0.336	0.336	strong	.	COL4A1	372	.	NM_001845	exon49	c.C4470T	p.A1490A	GCTGCCGGCCGTG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	39	86	0	0.565217	0	C|0.671;A|0.329	0.329	strong	.	KLHDC7A	60	.	NM_152375	exon1	c.C478A	p.R160S	TTCCCCCGCTTGG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9060059	9060059	+	Missense_Mutation	SNP	A	A	C	rs12977368	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	180	180	161	0	1	0	A|0.794;C|0.206	0.206	strong	.	MUC16	4315	.	NM_024690	exon3	c.T27387G	p.D9129E	TGGCACATCTCCA	.	PASS	Atlas-SNP
LMO7	4008	hgsc.bcm.edu	37	13	76370783	76370783	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	35	61	0	0.448718	0	.	.	none	LMO7_ENST00000357063,NS,carcinoma,0,2	LMO7	334	2	NM_005358	exon7	c.A516G	p.T172T	GATAACATTGTAC	.	PASS	Atlas-SNP
MAP9	79884	hgsc.bcm.edu	37	4	156289917	156289917	+	Missense_Mutation	SNP	G	G	A	rs3733391	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	497	226	491	1	0.454728	0.00203666	G|0.847;A|0.153	0.153	strong	MAP9,NS,carcinoma,+1,2	MAP9	79	2	NM_001039580	exon5	c.C529T	p.R177W	TTGGCCGAGGTGA	.	PASS	Atlas-SNP
KRT74	121391	hgsc.bcm.edu	37	12	52966390	52966390	+	Missense_Mutation	SNP	A	A	T	rs11170176	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	223	118	202	0	0.529148	0	A|0.812;T|0.188	0.188	strong	.	KRT74	67	.	NM_175053	exon2	c.T533A	p.L178Q	AGGTCCAGCTGCT	.	PASS	Atlas-SNP
MLLT4	4301	hgsc.bcm.edu	37	6	168317816	168317816	+	Silent	SNP	A	A	C	rs6906754	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	198	93	155	0	0.469697	0	A|0.869;C|0.131	0.131	strong	.	MLLT4	351	.	NM_001040000	exon19	c.A2592C	p.P864P	CATTCCAAATATA	.	PASS	Atlas-SNP
ZSCAN25	221785	hgsc.bcm.edu	37	7	99217424	99217424	+	Silent	SNP	G	G	A	rs10282706	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	47	71	0	0.51087	0	G|0.735;A|0.265	0.265	strong	.	.	.	.	NM_145115	exon4	c.G195A	p.E65E	CCAGGAGCTCTGT	.	PASS	Atlas-SNP
OR5F1	338674	hgsc.bcm.edu	37	11	55761786	55761786	+	Missense_Mutation	SNP	A	A	C	rs61888467	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	220	80	230	0	0.363636	0	A|0.961;C|0.039	0.039	strong	.	OR5F1	116	.	NM_003697	exon1	c.T316G	p.S106A	CCAGGGAGATAAA	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	37	MT	14037	14037	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	28	27	11	0	0.964286	0	.	.	none	.	.	.	.	ENST00000361567	exon1	c.A1701G	p.S567S	AATTTCACAGCAC	.	PASS	Atlas-SNP
BRICD5	283870	hgsc.bcm.edu	37	16	2260567	2260567	+	Missense_Mutation	SNP	C	C	T	rs26857	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	42	60	0	0.428571	0	C|0.523;T|0.477	0.477	strong	C16orf79,NS,lymphoid_neoplasm,0,1	.	.	1	NM_182563	exon2	c.G136A	p.V46I	CCACAACCCCCAC	.	PASS	Atlas-SNP
FMO3	2328	hgsc.bcm.edu	37	1	171083174	171083174	+	Silent	SNP	C	C	T	rs909530	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	192	154	0	1	0	C|0.665;T|0.335	0.335	strong	FMO3,NS,carcinoma,0,1	FMO3	73	1	NM_006894	exon7	c.C855T	p.N285N	ATTTAACGATGAG	.	PASS	Atlas-SNP
OR2AG1	144125	hgsc.bcm.edu	37	11	6806496	6806496	+	Silent	SNP	T	T	C	rs41533944	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	110	162	0	0.55	0	T|0.789;C|0.211	0.211	strong	OR2AG1,NS,carcinoma,+1,1	OR2AG1	57	1	NM_001004489	exon1	c.T228C	p.V76V	ATCTGTTGTCACT	.	PASS	Atlas-SNP
GAA	2548	hgsc.bcm.edu	37	17	78078656	78078656	+	Missense_Mutation	SNP	G	G	A	rs1800299	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	72	132	0	0.590164	0	G|0.979;A|0.021	0.021	strong	.	GAA	66	.	NM_001079803	exon3	c.G271A	p.D91N	CGCTTCGATTGCG	.	PASS	Atlas-SNP
ANLN	54443	hgsc.bcm.edu	37	7	36459076	36459076	+	Silent	SNP	G	G	A	rs17213431	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	46	55	0	0.554217	0	G|0.916;A|0.084	0.084	strong	.	ANLN	101	.	NM_018685	exon10	c.G1857A	p.V619V	TGGTGTGGTAAGT	.	PASS	Atlas-SNP
SCARA3	51435	hgsc.bcm.edu	37	8	27516323	27516323	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	54	86	0	0.457627	0	.	.	none	.	SCARA3	93	.	NM_182826	exon5	c.G636A	p.E212E	CCAGGAGTGCTAC	.	PASS	Atlas-SNP
DNAI2	64446	hgsc.bcm.edu	37	17	72301432	72301432	+	Silent	SNP	A	A	G	rs8073660	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	140	105	0	1	0	A|0.535;G|0.465	0.465	strong	.	DNAI2	102	.	NM_001172810	exon9	c.A1062G	p.E354E	AGCTGAAAAGATT	.	PASS	Atlas-SNP
COL6A1	1291	hgsc.bcm.edu	37	21	47423507	47423507	+	Silent	SNP	G	G	A	rs71336107	alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	48	95	0	0.494845	0	ATC|0.500;GTT|0.500	.	alt	COL6A1,NS,carcinoma,0,2	COL6A1	101	2	NM_001848	exon35	c.G2667A	p.A889A	GCGGGCGTCGCTG	.	PASS	Atlas-SNP
MTRR	4552	hgsc.bcm.edu	37	5	7892933	7892933	+	Silent	SNP	A	A	G	rs35890938	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	93	158	0	0.5	0	A|0.981;G|0.019	0.019	strong	.	MTRR	74	.	NM_024010	exon11	c.A1545G	p.V515V	GGGAGTATGTACA	.	PASS	Atlas-SNP
SLC7A7	9056	hgsc.bcm.edu	37	14	23248112	23248112	+	Silent	SNP	A	A	G	rs1805061	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	70	146	0	0.469799	0	A|0.800;G|0.200	0.200	strong	.	SLC7A7	36	.	NM_001126105	exon5	c.T660C	p.G220G	TGATGAACCCTCA	.	PASS	Atlas-SNP
COX3	5742	hgsc.bcm.edu	37	MT	9716	9716	+	Silent	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	19	19	7	0	1	0	.	.	none	.	.	.	.	ENST00000362079	exon1	c.T510C	p.G170G	ACTGGGTCTCTAT	.	PASS	Atlas-SNP
HIF1A	3091	hgsc.bcm.edu	37	14	62194239	62194239	+	Silent	SNP	G	G	A	rs17099141	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	50	113	0	0.416667	0	G|0.967;A|0.033	0.033	strong	HIF1A,brain,glioma,+2,27	HIF1A	120	27	NM_001243084	exon6	c.G711A	p.K237K	GTATAAGAAACCA	.	PASS	Atlas-SNP
DOLPP1	57171	hgsc.bcm.edu	37	9	131848488	131848488	+	Missense_Mutation	SNP	G	G	A	rs149976737	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	34	88	0	0.4	0	G|0.999;A|0.001	0.001	strong	.	DOLPP1	17	.	NM_020438	exon6	c.G532A	p.A178T	GCCATCGCCTGGT	.	PASS	Atlas-SNP
RYR1	6261	hgsc.bcm.edu	37	19	38956803	38956803	+	Silent	SNP	G	G	A	rs2228069	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	82	72	0	1	0	A|0.594;C|0.000;G|0.406	0.594	strong	.	RYR1	708	.	NM_001042723	exon24	c.G2943A	p.T981T	GCAGACGACACTG	.	PASS	Atlas-SNP
COPS2	9318	hgsc.bcm.edu	37	15	49429410	49429410	+	Silent	SNP	A	A	G	rs17473148	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	46	27	42	0	0.586957	0	A|0.868;G|0.132	0.132	strong	.	COPS2	41	.	NM_001143887	exon6	c.T498C	p.Y166Y	TTCTAAATATAAT	.	PASS	Atlas-SNP
SCN7A	6332	hgsc.bcm.edu	37	2	167313451	167313451	+	Missense_Mutation	SNP	T	T	C	rs11888208	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	96	226	0	0.5	0	T|0.896;C|0.104	0.104	strong	.	SCN7A	410	.	NM_002976	exon10	c.A1219G	p.I407V	TAGATATTTCACC	.	PASS	Atlas-SNP
NSF	4905	hgsc.bcm.edu	37	17	44828931	44828931	+	Silent	SNP	G	G	A	rs199533	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	73	145	0	0.51773	0	G|0.874;A|0.126	0.126	strong	.	NSF	27	.	NM_006178	exon19	c.G2106A	p.K702K	GAAGAAGGTCTGG	.	PASS	Atlas-SNP
ATP6	0	hgsc.bcm.edu	37	MT	9055	9055	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	21	21	5	0	1	0	.	.	none	.	.	.	.	ENST00000361899	exon1	c.G529A	p.A177T	GGAAGCGCCACCC	.	PASS	Atlas-SNP
TRAK2	66008	hgsc.bcm.edu	37	2	202252478	202252478	+	Silent	SNP	A	A	G	rs35620793	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	206	97	173	0	0.470874	0	A|0.959;G|0.041	0.041	strong	.	TRAK2	62	.	NM_015049	exon13	c.T1644C	p.S548S	AAGGCAACTGGCA	.	PASS	Atlas-SNP
IGSF10	285313	hgsc.bcm.edu	37	3	151155248	151155248	+	Silent	SNP	A	A	C	rs16863390	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	79	168	0	0.541096	0	A|0.969;C|0.031	0.031	strong	.	IGSF10	279	.	NM_178822	exon6	c.T7101G	p.P2367P	TATTTCAGGTGGT	.	PASS	Atlas-SNP
TCN1	6947	hgsc.bcm.edu	37	11	59623378	59623378	+	Missense_Mutation	SNP	C	C	A	rs34324219	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	53	128	0	0.477477	0	C|0.914;A|0.086	0.086	strong	TCN1,lymph_node,lymphoid_neoplasm,0,2	TCN1	64	2	NM_001062	exon6	c.G901T	p.D301Y	TAATATCCAAGAA	.	PASS	Atlas-SNP
IL17RA	23765	hgsc.bcm.edu	37	22	17589246	17589246	+	Silent	SNP	G	G	A	rs879576	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	71	111	0	0.581967	0	G|0.856;A|0.144	0.144	strong	.	IL17RA	62	.	NM_014339	exon13	c.G1137A	p.K379K	CAGGAAGGTCTGG	.	PASS	Atlas-SNP
TPSAB1	7177	hgsc.bcm.edu	37	16	1291622	1291622	+	Missense_Mutation	SNP	A	A	G	rs1800992		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	560	156	426	1	0.278571	0.00234742	G|1.000;|0.000	1.000	weak	.	TPSAB1	24	.	NM_003294	exon4	c.A421G	p.T141A	ACGGTCACCCTGC	.	PASS	Atlas-SNP
ITIH4	3700	hgsc.bcm.edu	37	3	52864584	52864584	+	Silent	SNP	A	A	G	rs2071042	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	59	90	0	0.483607	0	A|0.509;G|0.491	0.491	strong	.	ITIH4	74	.	NM_001166449	exon1	c.T75C	p.T25T	AGTAGTAGTCTGG	.	PASS	Atlas-SNP
CAMK1G	57172	hgsc.bcm.edu	37	1	209785206	209785206	+	Missense_Mutation	SNP	G	G	A	rs11119315	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	36	50	0	0.455696	0	G|0.792;A|0.208	0.208	strong	.	CAMK1G	49	.	NM_020439	exon11	c.G985A	p.V329I	CCGGGCGTCCGCC	.	PASS	Atlas-SNP
ZNF251	90987	hgsc.bcm.edu	37	8	145979138	145979138	+	Silent	SNP	C	C	T	rs35571769	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	39	58	0	0.52	0	C|0.961;T|0.039	0.039	strong	.	ZNF251	80	.	NM_138367	exon4	c.G207A	p.Q69Q	CTTCCCCTGCTCC	.	PASS	Atlas-SNP
RB1	5925	hgsc.bcm.edu	37	13	49039405	49039405	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	7	131	0	0.0875	0	.	.	none	.	RB1	1068	.	NM_000321	exon23	c.T2390A	p.L797X	CACCCTTACGGAT	.	PASS	Atlas-SNP
SMC5	23137	hgsc.bcm.edu	37	9	72933774	72933774	+	Missense_Mutation	SNP	A	A	G	rs11142365	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	50	160	0	0.362319	0	A|0.888;G|0.112	0.112	strong	.	SMC5	96	.	NM_015110	exon15	c.A2045G	p.H682R	GCAAACATCTGGA	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239585	31239585	+	Missense_Mutation	SNP	C	C	T	rs1050437	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	42	101	0	0.552632	0	C|0.826;T|0.174	0.174	strong	.	HLA-C	92	.	NM_002117	exon2	c.G134A	p.R45H	ATGAAGCGGGGCT	.	PASS	Atlas-SNP
PLCG2	5336	hgsc.bcm.edu	37	16	81929488	81929488	+	Silent	SNP	C	C	T	rs1143688	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	63	129	0	0.516393	0	C|0.594;N|0.000	.	strong	.	PLCG2	276	.	NM_002661	exon13	c.C1149T	p.D383D	GTTTGACGACGTC	.	PASS	Atlas-SNP
FHL5	9457	hgsc.bcm.edu	37	6	97058574	97058574	+	Missense_Mutation	SNP	G	G	A	rs2252816	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	242	106	226	0	0.438017	0	G|0.688;A|0.312	0.312	strong	.	FHL5	73	.	NM_020482	exon6	c.G631A	p.V211M	TTCTGCGTGGACT	.	PASS	Atlas-SNP
MYO15A	51168	hgsc.bcm.edu	37	17	18057167	18057167	+	Missense_Mutation	SNP	A	A	T	rs712270	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	267	115	228	0	0.430712	0	A|0.723;T|0.277	0.277	strong	MYO15A,NS,carcinoma,0,1	MYO15A	268	1	NM_016239	exon42	c.A8045T	p.Y2682F	ACTTCTACGGCTA	.	PASS	Atlas-SNP
ELL2	22936	hgsc.bcm.edu	37	5	95236459	95236459	+	Missense_Mutation	SNP	C	C	T	rs3815768	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	71	143	0	0.430303	0	C|0.695;T|0.305	0.305	strong	.	ELL2	63	.	NM_012081	exon7	c.G892A	p.A298T	TGCCTGCAGCATT	.	PASS	Atlas-SNP
RAI1	10743	hgsc.bcm.edu	37	17	17697099	17697099	+	Silent	SNP	G	G	A	rs11078398	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	38	65	0	0.426966	0	G|0.495;A|0.505	0.505	strong	.	RAI1	121	.	NM_030665	exon3	c.G837A	p.Q279Q	CCAGCAGCAGCAG	.	PASS	Atlas-SNP
NACA	4666	hgsc.bcm.edu	37	12	57106660	57106660	+	Silent	SNP	A	A	T	rs4788	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	181	90	153	0	0.497238	0	A|0.235;T|0.765	0.765	strong	.	NACA	131	.	NM_001113203	exon10	c.T2673A	p.I891I	CAATTCAATGTCC	.	PASS	Atlas-SNP
CAPN5	726	hgsc.bcm.edu	37	11	76826545	76826545	+	Silent	SNP	A	A	G	rs143460583	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	72	145	0	0.428571	0	A|0.997;G|0.003	0.003	strong	CAPN5,NS,carcinoma,0,1	CAPN5	67	1	NM_004055	exon6	c.A804G	p.L268L	CGGCCTACTGGCC	.	PASS	Atlas-SNP
COL3A1	1281	hgsc.bcm.edu	37	2	189855742	189855742	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	257	3	273	0	0.0116732	0	.	.	none	COL3A1,face,carcinoma,-1,1	COL3A1	292	1	NM_000090	exon11	c.C811T	p.R271X	GATGGACGAAATG	.	scavenged	Atlas-SNP
FOXP4	116113	hgsc.bcm.edu	37	6	41566580	41566580	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	3	149	0	0.0147783	0	.	.	none	FOXP4_ENST00000373060,colon,carcinoma,-1,2	FOXP4	83	2	NM_001012426	exon17	c.C1949T	p.P650L	GGCAGCCCGGGCC	.	scavenged	Atlas-SNP
FAM20A	54757	hgsc.bcm.edu	37	17	66533655	66533655	+	Missense_Mutation	SNP	A	A	G	rs2907373	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	106	101	1	1	0.00990099	A|0.254;G|0.746	0.746	strong	.	FAM20A	35	.	NM_017565	exon11	c.T1589C	p.L530S	GGGGCCAACTGTT	.	PASS	Atlas-SNP
BRCA1	672	hgsc.bcm.edu	37	17	41245466	41245466	+	Silent	SNP	G	G	A	rs1799949	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	271	131	285	0	0.483395	0	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
CEACAM18	729767	hgsc.bcm.edu	37	19	51984656	51984656	+	Missense_Mutation	SNP	G	G	A	rs62115071	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	44	118	0	0.44	0	G|0.862;A|0.138	0.138	strong	.	CEACAM18	96	.	NM_001080405	exon4	c.G593A	p.S198N	TGGGAAGCAATCT	.	PASS	Atlas-SNP
PCNT	5116	hgsc.bcm.edu	37	21	47847700	47847700	+	Silent	SNP	C	C	T	rs61735817	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	43	17	55	0	0.395349	0	C|0.958;T|0.042	0.042	strong	.	PCNT	283	.	NM_006031	exon34	c.C7485T	p.I2495I	GATCATCCGTGAG	.	PASS	Atlas-SNP
SLC17A3	10786	hgsc.bcm.edu	37	6	25849620	25849620	+	Silent	SNP	A	A	G	rs942379	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	39	85	0	0.4875	0	A|0.326;G|0.674	0.674	strong	.	SLC17A3	95	.	NM_001098486	exon11	c.T1344C	p.S448S	AAATCCACTGACA	.	PASS	Atlas-SNP
MMS22L	253714	hgsc.bcm.edu	37	6	97599674	97599674	+	Missense_Mutation	SNP	G	G	A	rs138146580	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	100	214	1	0.534759	0.0046729	G|0.987;A|0.013	0.013	strong	.	MMS22L	102	.	NM_198468	exon23	c.C3455T	p.P1152L	GAGGAAGGTTCTT	.	PASS	Atlas-SNP
CAPN9	10753	hgsc.bcm.edu	37	1	230923313	230923313	+	Missense_Mutation	SNP	C	C	T	rs12731961	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	66	138	0	0.515625	0	C|0.793;T|0.207	0.207	strong	.	CAPN9	116	.	NM_006615	exon13	c.C1564T	p.R522W	GAGCAGCGGTTTC	.	PASS	Atlas-SNP
LBX2	85474	hgsc.bcm.edu	37	2	74725178	74725178	+	Missense_Mutation	SNP	G	G	A	rs17009998	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	229	149	142	0	0.650655	0	G|0.774;A|0.226	0.226	strong	.	LBX2	13	.	NM_001009812	exon2	c.C461T	p.S154F	TCCGGGGACAACG	.	PASS	Atlas-SNP
KIAA0020	9933	hgsc.bcm.edu	37	9	2812282	2812282	+	Missense_Mutation	SNP	A	A	T	rs142216382	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	229	115	214	0	0.502183	0	A|0.999;T|0.001	0.001	strong	.	KIAA0020	56	.	NM_014878	exon14	c.T1350A	p.D450E	TGCAGGATCTCTG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	362	136	219	0	0.375691	0	C|0.770;A|0.001	.	strong	.	ANXA4	34	.	NM_001153	exon5	c.C260T	p.T87M	TGATGACGCCCAC	.	PASS	Atlas-SNP
TARS	6897	hgsc.bcm.edu	37	5	33461355	33461355	+	Silent	SNP	G	G	A	rs2270905	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	93	178	0	0.519553	0	G|0.816;A|0.184	0.184	strong	TARS,NS,carcinoma,+1,1	TARS	66	1	NM_001258438	exon14	c.G1605A	p.P535P	TCGCCCGGAAAAA	.	PASS	Atlas-SNP
LILRA6	79168	hgsc.bcm.edu	37	19	54744182	54744182	+	Missense_Mutation	SNP	A	A	T	rs374829481	alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	325	30	243	1	0.0923077	0.00411523	.	.	alt	LILRA6,nipple,malignant_melanoma,0,1	LILRA6	75	1	NM_024318	exon6	c.T1226A	p.F409Y	CTGGGGAAAGACA	.	scavenged	Atlas-SNP
DTHD1	401124	hgsc.bcm.edu	37	4	36340753	36340753	+	Missense_Mutation	SNP	G	G	A	rs9654132	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	60	120	0	0.454545	0	G|0.809;A|0.191	0.191	strong	DTHD1_ENST00000456874,NS,carcinoma,0,5	DTHD1	63	5	NM_001170700	exon8	c.G1985A	p.R662H	TCAACCGTCCACA	.	PASS	Atlas-SNP
NECAB3	63941	hgsc.bcm.edu	37	20	32248163	32248163	+	Silent	SNP	C	C	T	rs3746460	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	36	55	0	0.6	0	C|0.701;T|0.299	0.299	strong	.	NECAB3	27	.	NM_031232	exon6	c.G426A	p.T142T	GAAGCGCGTCACA	.	PASS	Atlas-SNP
PLEKHM1	9842	hgsc.bcm.edu	37	17	43545893	43545893	+	Silent	SNP	T	T	C	rs1879581	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	73	140	0	0.557252	0	T|0.863;C|0.137	0.137	strong	.	PLEKHM1	69	.	NM_014798	exon5	c.A990G	p.T330T	GATCTCTGTTTCT	.	PASS	Atlas-SNP
OR2AG2	338755	hgsc.bcm.edu	37	11	6789929	6789929	+	Missense_Mutation	SNP	C	C	A	rs11828782	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	212	90	167	0	0.424528	0	C|0.744;A|0.256	0.256	strong	OR2AG2,NS,carcinoma,0,1	OR2AG2	55	1	NM_001004490	exon1	c.G260T	p.R87L	TCTCTGCGCAGAA	.	PASS	Atlas-SNP
TPMT	7172	hgsc.bcm.edu	37	6	18130918	18130918	+	Missense_Mutation	SNP	T	T	C	rs1142345	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	254	254	259	0	1	0	T|0.956;C|0.044	0.044	strong	.	TPMT	17	.	NM_000367	exon9	c.A719G	p.Y240C	AGTAGATATAACT	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49425978	49425978	+	Silent	SNP	T	T	C	rs3741622	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	48	120	0	0.369231	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
PCDHA3	56145	hgsc.bcm.edu	37	5	140181892	140181892	+	Silent	SNP	T	T	C	rs3733707	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	68	102	0	0.489209	0	T|0.403;C|0.597	0.597	strong	PCDHA3_ENST00000522353,rectum,carcinoma,+2,2	PCDHA3	396	2	NM_031497	exon1	c.T1110C	p.A370A	CATCGCTCTGATC	.	PASS	Atlas-SNP
TPSD1	23430	hgsc.bcm.edu	37	16	1306973	1306973	+	Missense_Mutation	SNP	A	A	G	rs79313952	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	457	88	284	0	0.19256	0	A|0.652;G|0.348	0.348	strong	TPSD1,NS,NS,0,1	TPSD1	47	1	NM_012217	exon3	c.A430G	p.I144V	AGCCACATCCACA	.	PASS	Atlas-SNP
ZNF460	10794	hgsc.bcm.edu	37	19	57802806	57802806	+	Silent	SNP	C	C	T	rs2041109	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	31	66	0	0.469697	0	C|0.799;T|0.201	0.201	strong	.	ZNF460	59	.	NM_006635	exon3	c.C897T	p.N299N	GCATAACAAGAGC	.	PASS	Atlas-SNP
SLC22A18	5002	hgsc.bcm.edu	37	11	2943671	2943671	+	Missense_Mutation	SNP	G	G	C	rs1129782	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	63	112	0	0.492188	0	G|0.866;C|0.134	0.134	strong	.	SLC22A18	20	.	NM_002555	exon10	c.G972C	p.W324C	GGCCTGGATGTCC	.	PASS	Atlas-SNP
PMS2	5395	hgsc.bcm.edu	37	7	6026988	6026988	+	Missense_Mutation	SNP	G	G	A	rs1805321	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	75	92	0	1	0	G|0.639;A|0.361	0.361	strong	.	PMS2	88	.	NM_000535	exon11	c.C1408T	p.P470S	TCTGAGGTCTCAG	.	PASS	Atlas-SNP
KREMEN1	83999	hgsc.bcm.edu	37	22	29521353	29521353	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	67	116	0	0.458904	0	.	.	none	.	KREMEN1	46	.	NM_001039570	exon5	c.G580A	p.G194R	TGCTTCGGGGATC	.	PASS	Atlas-SNP
OR2M3	127062	hgsc.bcm.edu	37	1	248366792	248366792	+	Silent	SNP	T	T	C	rs12562957	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	369	166	294	0	0.449865	0	T|0.828;C|0.172	0.172	strong	.	OR2M3	116	.	NM_001004689	exon1	c.T423C	p.C141C	AATTTGTGGACTT	.	PASS	Atlas-SNP
CACNA2D3	55799	hgsc.bcm.edu	37	3	54880461	54880461	+	Silent	SNP	A	A	G	rs3773603	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	59	136	0	0.401361	0	A|0.825;G|0.175	0.175	strong	.	CACNA2D3	159	.	NM_018398	exon17	c.A1593G	p.G531G	TAATGGATATATC	.	PASS	Atlas-SNP
SLC6A15	55117	hgsc.bcm.edu	37	12	85277561	85277561	+	Missense_Mutation	SNP	T	T	A	rs17183577	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	181	88	177	0	0.486188	0	T|0.862;A|0.138	0.138	strong	.	SLC6A15	159	.	NM_018057	exon5	c.A833T	p.D278V	CAGAAATCTGTAA	.	PASS	Atlas-SNP
STPG1	90529	hgsc.bcm.edu	37	1	24706269	24706269	+	Silent	SNP	A	A	G	rs1064842	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	58	142	0	0.376623	0	A|0.589;G|0.411	0.411	strong	C1orf201_ENST00000374409,colon,carcinoma,0,2	.	.	2	NM_001199012	exon5	c.T336C	p.N112N	GTATGCATTCGCT	.	PASS	Atlas-SNP
RNF133	168433	hgsc.bcm.edu	37	7	122338970	122338970	+	Missense_Mutation	SNP	C	C	T	rs71574716	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	97	139	0	0.577381	0	C|0.972;T|0.028	0.028	strong	.	RNF133	41	.	NM_139175	exon1	c.G3A	p.M1I	TAGATGCATCTCT	.	PASS	Atlas-SNP
AASDH	132949	hgsc.bcm.edu	37	4	57237683	57237683	+	Silent	SNP	G	G	A	rs6554354	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	114	95	0	0.982759	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
OR2T2	401992	hgsc.bcm.edu	37	1	248616749	248616749	+	Silent	SNP	C	C	G	rs1770044	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	553	9	436	6	0.0162749	0.0137615	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
FAM135A	57579	hgsc.bcm.edu	37	6	71269459	71269459	+	Silent	SNP	C	C	T	rs16869371	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	71	105	1	0.986111	0.00952381	C|0.841;T|0.159	0.159	strong	.	FAM135A	181	.	NM_001162529	exon20	c.C4383T	p.P1461P	TCGACCCGTTCTG	.	PASS	Atlas-SNP
KNDC1	85442	hgsc.bcm.edu	37	10	135010568	135010568	+	Missense_Mutation	SNP	G	G	A	rs35152544	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	152	156	0	0.993464	0	G|0.933;A|0.067	0.067	strong	.	KNDC1	155	.	NM_152643	exon11	c.G1741A	p.G581S	GTGTGCGGCAGCT	.	PASS	Atlas-SNP
ZNF414	84330	hgsc.bcm.edu	37	19	8578118	8578118	+	Silent	SNP	A	A	G	rs1064009	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	32	16	28	0	0.5	0	A|0.795;G|0.205	0.205	strong	.	ZNF414	25	.	NM_032370	exon2	c.T111C	p.P37P	GGAGGAAGGGGCT	.	PASS	Atlas-SNP
DKKL1	27120	hgsc.bcm.edu	37	19	49869051	49869051	+	Missense_Mutation	SNP	T	T	G	rs2303759	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	42	89	0	0.446809	0	T|0.710;G|0.290	0.290	strong	.	DKKL1	23	.	NM_014419	exon4	c.T326G	p.M109R	CACAGATGACCGA	.	PASS	Atlas-SNP
LLGL2	3993	hgsc.bcm.edu	37	17	73570718	73570718	+	Missense_Mutation	SNP	C	C	G	rs1126939	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	63	107	0	0.512195	0	C|0.621;G|0.379	0.379	strong	.	LLGL2	155	.	NM_004524	exon24	c.C2981G	p.P994R	TCGAGCCGCCGTG	.	PASS	Atlas-SNP
TGM6	343641	hgsc.bcm.edu	37	20	2380323	2380323	+	Silent	SNP	G	G	A	rs6114033	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	221	214	261	1	0.968326	0.00383142	G|0.857;A|0.143	0.143	strong	TGM6,NS,carcinoma,0,1	TGM6	126	1	NM_198994	exon6	c.G789A	p.K263K	GCTCAAGGGCAGG	.	PASS	Atlas-SNP
CCBP2	1238	hgsc.bcm.edu	37	3	42907112	42907112	+	Missense_Mutation	SNP	A	A	C	rs2228468	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	186	169	0	0.984127	0	A|0.607;C|0.392;T|0.001	0.392	strong	CCBP2,caecum,carcinoma,0,1	CCBP2	49	1	NM_001296	exon3	c.A1118C	p.Y373S	AGAACTACCCTAA	.	PASS	Atlas-SNP
OR8B2	26595	hgsc.bcm.edu	37	11	124252718	124252718	+	Silent	SNP	G	G	A	rs886201	bycluster;byfrequency;bysubmitter;by2hit2allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	504	186	452	0	0.369048	0	G|0.836;A|0.164	0.164	strong	.	OR8B2	42	.	NM_001005468	exon1	c.C522T	p.I174I	ATGGTTGATGATA	.	PASS	Atlas-SNP
CSPG4	1464	hgsc.bcm.edu	37	15	75982085	75982085	+	Missense_Mutation	SNP	C	C	T	rs79463888	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	16	141	0	0.0788177	0	C|0.878;T|0.122	0.122	strong	CSPG4,NS,haematopoietic_neoplasm,0,1	CSPG4	175	1	NM_001897	exon3	c.G1321A	p.E441K	CCCCCTCGGCCAC	.	scavenged	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	37	22	38130459	38130459	+	Missense_Mutation	SNP	G	G	T	rs8140207	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	165	216	0	0.976331	0	G|0.726;T|0.274	0.274	strong	.	TRIOBP	262	.	NM_001039141	exon9	c.G4116T	p.E1372D	AGCAGAGCCCCCT	.	PASS	Atlas-SNP
ARHGAP44	9912	hgsc.bcm.edu	37	17	12862170	12862170	+	Silent	SNP	C	C	T	rs3213687	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	46	63	0	0.597403	0	C|0.926;T|0.074	0.074	strong	.	ARHGAP44	55	.	NM_014859	exon16	c.C1479T	p.S493S	CCTCAGCGTCGCC	.	PASS	Atlas-SNP
LTBP1	4052	hgsc.bcm.edu	37	2	33447202	33447202	+	Silent	SNP	C	C	T	rs2290448	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	156	159	0	0.993631	0	C|0.608;T|0.392	0.392	strong	.	LTBP1	317	.	NM_206943	exon9	c.C1860T	p.N620N	GGTTAACAACACC	.	PASS	Atlas-SNP
ND4	0	hgsc.bcm.edu	37	MT	11467	11467	+	Silent	SNP	A	A	G	rs369606982	alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	20	20	6	0	1	0	.	.	alt	.	.	.	.	ENST00000361381	exon1	c.A708G	p.L236L	ACTCTTAAAACTA	.	PASS	Atlas-SNP
SEPT12	124404	hgsc.bcm.edu	37	16	4837545	4837545	+	Silent	SNP	A	A	G	rs9673735	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	65	103	0	0.59633	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
SI	6476	hgsc.bcm.edu	37	3	164783165	164783165	+	Missense_Mutation	SNP	T	T	C	rs9283633	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	73	195	0	0.447853	0	T|0.416;C|0.584	0.584	strong	.	SI	500	.	NM_001041	exon7	c.A691G	p.T231A	GACGGGTTGAGAT	.	PASS	Atlas-SNP
UNC13A	23025	hgsc.bcm.edu	37	19	17728572	17728572	+	Silent	SNP	C	C	T	rs56174023	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	67	136	0	0.59292	0	C|0.861;T|0.139	0.139	strong	.	UNC13A	299	.	NM_001080421	exon39	c.G4497A	p.S1499S	GTAGAGCGACAGG	.	PASS	Atlas-SNP
TAS2R31	259290	hgsc.bcm.edu	37	12	11183108	11183108	+	Missense_Mutation	SNP	G	G	C	rs74807793	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	372	176	385	0	0.473118	0	.	.	weak	.	TAS2R31	24	.	NM_176885	exon1	c.C827G	p.P276R	ATGAATGGGTGGA	.	PASS	Atlas-SNP
SLC5A10	125206	hgsc.bcm.edu	37	17	18918396	18918396	+	Silent	SNP	G	G	C	rs2074279	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	258	131	198	0	0.507752	0	G|0.872;C|0.128	0.128	strong	.	SLC5A10	55	.	NM_152351	exon11	c.G1173C	p.A391A	GCTGGCGGCGCTC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	37	35	91	0	0.945946	0	A|0.002;C|0.320	0.320	strong	.	SORBS1	185	.	NM_001034955	exon24	c.A2493G	p.L831L	TTACTTTAGTGTC	.	PASS	Atlas-SNP
OAT	4942	hgsc.bcm.edu	37	10	126089434	126089434	+	Silent	SNP	G	G	A	rs11461	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	63	163	0	0.422819	0	G|0.648;A|0.352	0.352	strong	.	OAT	25	.	NM_000274	exon9	c.C1134T	p.N378N	AATAGCGTTTAAT	.	PASS	Atlas-SNP
ZSWIM2	151112	hgsc.bcm.edu	37	2	187693044	187693044	+	Silent	SNP	C	C	T	rs17852915	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	171	75	161	0	0.438596	0	C|0.809;T|0.191	0.191	strong	.	ZSWIM2	119	.	NM_182521	exon9	c.G1569A	p.V523V	GGGACACACAATA	.	PASS	Atlas-SNP
ZFC3H1	196441	hgsc.bcm.edu	37	12	72024662	72024662	+	Silent	SNP	C	C	G	rs186434284	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	75	145	0	0.457317	0	C|0.993;G|0.007	0.007	strong	.	ZFC3H1	172	.	NM_144982	exon17	c.G3543C	p.P1181P	CTGATCCGGTTCA	.	PASS	Atlas-SNP
SPRR3	6707	hgsc.bcm.edu	37	1	152975810	152975810	+	Missense_Mutation	SNP	G	G	A	rs72704847	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	65	109	0	0.422078	0	G|0.988;A|0.012	0.012	strong	.	SPRR3	45	.	NM_001097589	exon2	c.G314A	p.G105D	AGCCAGGCTACAC	.	PASS	Atlas-SNP
TXNDC15	79770	hgsc.bcm.edu	37	5	134223593	134223593	+	Silent	SNP	A	A	G	rs3733897	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	84	188	0	0.545455	0	A|0.872;G|0.128	0.128	strong	.	TXNDC15	37	.	NM_024715	exon2	c.A312G	p.K104K	GGACAAAGTGAGT	.	PASS	Atlas-SNP
GMEB2	26205	hgsc.bcm.edu	37	20	62221766	62221766	+	Silent	SNP	C	C	T	rs2297428	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	19	65	0	0.395833	0	C|0.763;T|0.237	0.237	strong	.	GMEB2	44	.	NM_012384	exon10	c.G1269A	p.P423P	GGAGGCCGGGGAG	.	PASS	Atlas-SNP
IL12RB1	3594	hgsc.bcm.edu	37	19	18191664	18191664	+	Silent	SNP	C	C	G	rs11086087	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	27	63	0	0.482143	0	G|0.108;C|0.892	0.108	strong	.	IL12RB1	92	.	NM_153701	exon4	c.G387C	p.V129V	CAGGGTCACCTCA	.	PASS	Atlas-SNP
ZZEF1	23140	hgsc.bcm.edu	37	17	3947533	3947533	+	Missense_Mutation	SNP	G	G	A	rs1006954	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	303	135	291	0	0.445545	0	G|0.875;A|0.125	0.125	strong	.	ZZEF1	195	.	NM_015113	exon38	c.C6151T	p.P2051S	CTGTAGGTGGGCT	.	PASS	Atlas-SNP
C12orf5	57103	hgsc.bcm.edu	37	12	4461485	4461485	+	Silent	SNP	G	G	A	rs7133330	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	53	24	86	0	0.45283	0	G|0.799;A|0.201	0.201	strong	.	C12orf5	28	.	NM_020375	exon6	c.G441A	p.A147A	AGAAGCGGATCAA	.	PASS	Atlas-SNP
MDM1	56890	hgsc.bcm.edu	37	12	68709892	68709892	+	Missense_Mutation	SNP	C	C	T	rs17224810	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	91	176	0	0.54491	0	C|0.857;T|0.143	0.143	strong	MDM1,caecum,carcinoma,+1,1	MDM1	74	1	NM_017440	exon8	c.G1147A	p.V383I	TACTAACGGTTCC	.	PASS	Atlas-SNP
WDR64	128025	hgsc.bcm.edu	37	1	241929542	241929542	+	Missense_Mutation	SNP	G	G	A	rs12095445	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	145	129	0	1	0	G|0.839;A|0.161	0.161	strong	WDR64_ENST00000366552,NS,carcinoma,+1,2	WDR64	234	2	NM_144625	exon15	c.G1940A	p.R647Q	TATTACGAGTGAA	.	PASS	Atlas-SNP
ITGA9	3680	hgsc.bcm.edu	37	3	37574951	37574951	+	Missense_Mutation	SNP	G	G	A	rs267561	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	85	52	0	0.988372	0	G|0.424;T|0.003	.	strong	.	ITGA9	98	.	NM_002207	exon14	c.G1520A	p.G507E	TTCCAGGAGAGAT	.	PASS	Atlas-SNP
MRPL22	29093	hgsc.bcm.edu	37	5	154346325	154346325	+	Silent	SNP	G	G	A	rs7965	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	70	127	0	0.47619	0	G|0.908;A|0.092	0.092	strong	.	MRPL22	18	.	NM_014180	exon7	c.G489A	p.K163K	GGAGAAGGTTTAT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	97	142	0	0.532967	0	C|0.747;T|0.253	0.253	strong	.	REV1	100	.	NM_001037872	exon5	c.G412A	p.V138M	TCTGCACACTGGA	.	PASS	Atlas-SNP
OTUD7A	161725	hgsc.bcm.edu	37	15	31793930	31793930	+	Silent	SNP	A	A	G	rs7164569	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	87	139	0	0.5	0	A|0.632;G|0.368	0.368	strong	.	OTUD7A	89	.	NM_130901	exon8	c.T1113C	p.L371L	GGACACAAGGGCA	.	PASS	Atlas-SNP
SPAG1	6674	hgsc.bcm.edu	37	8	101252680	101252680	+	Missense_Mutation	SNP	T	T	C	rs6511	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	28	44	0	0.56	0	T|0.369;C|0.631	0.631	strong	SPAG1,pharynx,carcinoma,-1,2	SPAG1	80	2	NM_003114	exon18	c.T2330C	p.M777T	TCTCCATGGGATG	.	PASS	Atlas-SNP
TENM2	57451	hgsc.bcm.edu	37	5	167689296	167689296	+	Silent	SNP	C	C	T	rs17632540	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	197	197	156	0	1	0	C|0.820;T|0.180	0.180	strong	.	.	.	.	NM_001122679	exon29	c.C7779T	p.N2593N	GAACAACGCCTAC	.	PASS	Atlas-SNP
PRIM1	5557	hgsc.bcm.edu	37	12	57133140	57133140	+	Silent	SNP	T	T	G	rs1131514	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	45	68	0	0.542169	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
CNTNAP4	85445	hgsc.bcm.edu	37	16	76587202	76587202	+	Missense_Mutation	SNP	T	T	G	rs7202925	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	95	184	0	0.450237	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
SLFN5	162394	hgsc.bcm.edu	37	17	33592725	33592725	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	170	2	134	0	0.0117647	0	.	.	none	SLFN5,colon,carcinoma,-1,1	SLFN5	92	1	NM_144975	exon5	c.G2494A	p.A832T	GGTGATGCGTCGG	.	scavenged	Atlas-SNP
SPTB	6710	hgsc.bcm.edu	37	14	65245956	65245956	+	Silent	SNP	C	C	T	rs1741488	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	69	158	0	0.43125	0	C|0.634;T|0.366	0.366	strong	.	SPTB	378	.	NM_001024858	exon21	c.G4482A	p.V1494V	CTCCTCCACCCAA	.	PASS	Atlas-SNP
PDCD6IP	10015	hgsc.bcm.edu	37	3	33877626	33877626	+	Missense_Mutation	SNP	G	G	A	rs3792594	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	222	113	205	0	0.509009	0	G|0.698;A|0.302	0.302	strong	.	PDCD6IP	62	.	NM_001162429	exon8	c.G940A	p.A314T	GCCCTTGCTGCAG	.	PASS	Atlas-SNP
IL24	11009	hgsc.bcm.edu	37	1	207076321	207076321	+	Missense_Mutation	SNP	T	T	G	rs150080259	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	72	115	0	0.470588	0	T|0.998;G|0.002	0.002	strong	.	IL24	20	.	NM_001185156	exon7	c.T541G	p.L181V	CTTTAGTTGGACG	.	PASS	Atlas-SNP
PCNX	22990	hgsc.bcm.edu	37	14	71500217	71500217	+	Silent	SNP	C	C	T	rs71425297	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	82	145	0	0.438503	0	C|0.992;T|0.008	0.008	strong	.	PCNX	198	.	NM_014982	exon17	c.C3630T	p.Y1210Y	GTCTTACCATCTC	.	PASS	Atlas-SNP
KCNJ18	100134444	hgsc.bcm.edu	37	17	21319185	21319185	+	Silent	SNP	T	T	A	rs149832249	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	212	23	180	0	0.108491	0	T|0.999;A|0.001	0.001	strong	.	.	.	.	NM_001194958	exon3	c.T531A	p.I177I	CATGATTGGTGCC	.	PASS	Atlas-SNP
DOCK6	57572	hgsc.bcm.edu	37	19	11319491	11319491	+	Silent	SNP	G	G	A	rs8409	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	33	55	0	0.5	0	G|0.533;A|0.467	0.467	strong	.	DOCK6	104	.	NM_020812	exon39	c.C4959T	p.N1653N	TAGCACGTTGGAT	.	PASS	Atlas-SNP
MID2	11043	hgsc.bcm.edu	37	X	107159291	107159291	+	Missense_Mutation	SNP	C	C	A	rs12849510	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	70	70	0	0.972222	0	C|0.965;A|0.035	0.035	strong	.	MID2	122	.	NM_012216	exon6	c.C1133A	p.A378D	ATGATGCCTTTGA	.	PASS	Atlas-SNP
LONRF3	79836	hgsc.bcm.edu	37	X	118108785	118108785	+	Silent	SNP	T	T	C	rs3813933	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	136	102	0	1	0	T|0.560;C|0.440	0.440	strong	.	LONRF3	138	.	NM_001031855	exon1	c.T42C	p.A14A	GCCCGCTGAGGTC	.	PASS	Atlas-SNP
MICALL1	85377	hgsc.bcm.edu	37	22	38323507	38323507	+	Missense_Mutation	SNP	G	G	T	rs9610875	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	45	63	0	0.6	0	G|0.829;T|0.171	0.171	strong	.	MICALL1	53	.	NM_033386	exon9	c.G1555T	p.A519S	GAGAGCGCCAGCC	.	PASS	Atlas-SNP
ACSM1	116285	hgsc.bcm.edu	37	16	20635418	20635418	+	Silent	SNP	C	C	T	rs3743690	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	74	88	0	0.548148	0	C|0.852;T|0.148	0.148	strong	.	ACSM1	118	.	NM_052956	exon12	c.G1647A	p.K549K	ACTCACCTTCCTT	.	PASS	Atlas-SNP
LRRC36	55282	hgsc.bcm.edu	37	16	67381383	67381383	+	Missense_Mutation	SNP	G	G	C	rs79636320	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	57	172	0	0.452381	0	G|0.945;C|0.055	0.055	strong	.	LRRC36	68	.	NM_001161575	exon1	c.G14C	p.R5P	GACCACGGTTTTT	.	PASS	Atlas-SNP
NPAP1	23742	hgsc.bcm.edu	37	15	24923283	24923283	+	Missense_Mutation	SNP	G	G	A	rs36032407	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	60	80	0	0.512821	0	G|0.972;A|0.028	0.028	strong	.	.	.	.	NM_018958	exon1	c.G2269A	p.A757T	GCACCAGCTACAG	.	PASS	Atlas-SNP
ELFN2	114794	hgsc.bcm.edu	37	22	37770630	37770630	+	Silent	SNP	G	G	A	rs2071856	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	285	140	244	0	0.491228	0	G|0.709;A|0.291	0.291	strong	ELFN2,NS,carcinoma,0,1	ELFN2	89	1	NM_052906	exon3	c.C945T	p.I315I	GTGTGGGATGATG	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	145001031	145001031	+	Missense_Mutation	SNP	T	T	C	rs55895668	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	54	73	0	0.453782	0	T|0.550;C|0.450	0.450	strong	PLEC_ENST00000436759,NS,carcinoma,0,2	PLEC	1144	2	NM_201380	exon30	c.A4376G	p.H1459R	CTGTAGTGCGTAC	.	PASS	Atlas-SNP
HIST1H4C	8364	hgsc.bcm.edu	37	6	26104280	26104280	+	Silent	SNP	T	T	C	rs2229768	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	43	90	0	0.434343	0	T|0.790;C|0.210	0.210	strong	.	HIST1H4C	14	.	NM_003542	exon1	c.T105C	p.I35I	GGCTATTCGCCGT	.	PASS	Atlas-SNP
ARID3B	10620	hgsc.bcm.edu	37	15	74836319	74836319	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	8	135	1	0.0479042	0.00740741	.	.	none	ARID3B,right_lower_lobe,carcinoma,0,1	ARID3B	35	1	NM_006465	exon2	c.A42G	p.Q14Q	GCAACAACAGAAG	.	scavenged	Atlas-SNP
DEGS2	123099	hgsc.bcm.edu	37	14	100615665	100615665	+	Silent	SNP	T	T	C	rs4905936	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	99	136	0	1	0	T|0.116;C|0.884	0.884	strong	.	DEGS2	25	.	NM_206918	exon2	c.A465G	p.T155T	GGCGGGTGTGCAG	.	PASS	Atlas-SNP
PHF12	57649	hgsc.bcm.edu	37	17	27277200	27277200	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	46	76	0	0.45098	0	.	.	none	.	PHF12	69	.	NM_020889	exon2	c.A131T	p.E44V	TCCTTCTCAGGCT	.	PASS	Atlas-SNP
FAM83F	113828	hgsc.bcm.edu	37	22	40417780	40417780	+	Silent	SNP	C	C	T	rs5995793	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	37	86	0	0.362745	0	C|0.719;T|0.281	0.281	strong	.	FAM83F	29	.	NM_138435	exon4	c.C1266T	p.N422N	CCGAAACGGCATG	.	PASS	Atlas-SNP
PTGFRN	5738	hgsc.bcm.edu	37	1	117529458	117529458	+	Missense_Mutation	SNP	G	G	A	rs10801922	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	29	68	0	0.408451	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
MUC21	394263	hgsc.bcm.edu	37	6	30954489	30954489	+	Silent	SNP	A	A	T	rs143989844	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	16	69	0	0.111888	0	A|0.999;T|0.001	0.001	weak	.	MUC21	98	.	NM_001010909	exon2	c.A537T	p.T179T	CAGCACAGCCACC	.	PASS	Atlas-SNP
CEP128	145508	hgsc.bcm.edu	37	14	81251255	81251255	+	Missense_Mutation	SNP	T	T	C	rs327463	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	318	318	257	0	1	0	T|0.657;C|0.343	0.343	strong	CEP128,NS,carcinoma,0,1	CEP128	146	1	NM_152446	exon14	c.A2195G	p.H732R	CTGATATGATTCT	.	PASS	Atlas-SNP
CCHCR1	54535	hgsc.bcm.edu	37	6	31122315	31122315	+	Missense_Mutation	SNP	G	G	C	rs130066	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	66	139	0	0.442953	0	G|0.595;C|0.405	0.405	strong	CCHCR1_ENST00000396268,colon,carcinoma,0,2	CCHCR1	68	2	NM_001105564	exon4	c.C759G	p.S253R	CCGCTGGCTCCCC	.	PASS	Atlas-SNP
ZC3H3	23144	hgsc.bcm.edu	37	8	144522388	144522388	+	Missense_Mutation	SNP	A	A	T	rs2272753	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	50	90	0	0.471698	0	A|0.879;T|0.121	0.121	strong	.	ZC3H3	75	.	NM_015117	exon11	c.T2638A	p.S880T	GGGATGAGGAGGA	.	PASS	Atlas-SNP
MRPL53	116540	hgsc.bcm.edu	37	2	74699778	74699778	+	Missense_Mutation	SNP	C	C	A	rs1047911	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	205	134	119	0	0.653659	0	C|0.587;A|0.413	0.413	strong	.	MRPL53	13	.	NM_053050	exon1	c.G10T	p.A4S	CCAAGGCAGCTGC	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239407	31239407	+	Missense_Mutation	SNP	G	G	T	rs17408553	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	96	171	0	0.516129	0	T|0.398;G|0.602	0.398	strong	.	HLA-C	92	.	NM_002117	exon2	c.C312A	p.N104K	GCGCAGGTTCCGC	.	PASS	Atlas-SNP
ABCC1	4363	hgsc.bcm.edu	37	16	16139714	16139714	+	Silent	SNP	T	T	C	rs35587	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	44	87	0	0.505747	0	T|0.576;C|0.424	0.424	strong	.	ABCC1	156	.	NM_004996	exon9	c.T1062C	p.N354N	CGTGAATGACACG	.	PASS	Atlas-SNP
CD2	914	hgsc.bcm.edu	37	1	117311147	117311147	+	Missense_Mutation	SNP	C	C	A	rs699738	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	77	139	0	0.484277	0	C|0.731;A|0.269	0.269	strong	CD2,NS,carcinoma,0,1	CD2	43	1	NM_001767	exon5	c.C798A	p.H266Q	GCCCCACCAAATT	.	PASS	Atlas-SNP
OR5AS1	219447	hgsc.bcm.edu	37	11	55798237	55798237	+	Silent	SNP	C	C	T	rs17528782	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	250	116	245	0	0.464	0	C|0.948;T|0.052	0.052	strong	OR5AS1,NS,carcinoma,-1,1	OR5AS1	121	1	NM_001001921	exon1	c.C343T	p.L115L	CTTATCCTGGCAG	.	PASS	Atlas-SNP
BRCA2	675	hgsc.bcm.edu	37	13	32910721	32910721	+	Silent	SNP	T	T	C	rs1801499	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	98	221	1	0.844828	0.00452489	T|0.956;C|0.044	0.044	strong	.	BRCA2	812	.	NM_000059	exon11	c.T2229C	p.H743H	ACAACATTCAAAA	.	PASS	Atlas-SNP
PI4KA	5297	hgsc.bcm.edu	37	22	21065645	21065645	+	Silent	SNP	A	A	G	rs444310	bycluster;by2hit2allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	56	546	2	1	0.003663	A|1.000;|0.000	.	weak	PI4KA_ENST00000255882,NS,carcinoma,0,1	PI4KA	313	1	NM_058004	exon51	c.T5907C	p.G1969G	GATATGACCCTTC	.	scavenged	Atlas-SNP
MAN2B1	4125	hgsc.bcm.edu	37	19	12772165	12772165	+	Missense_Mutation	SNP	G	G	A	rs1054487	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	97	177	0	0.485	0	T|0.000;G|0.602;A|0.398	0.398	strong	MAN2B1,NS,adenoma,0,1	MAN2B1	91	1	NM_001173498	exon7	c.C935T	p.T312I	ATCACAGTGTGGT	.	PASS	Atlas-SNP
ICOSLG	23308	hgsc.bcm.edu	37	21	45656774	45656774	+	Missense_Mutation	SNP	C	C	T	rs11558819	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	38	56	0	0.463415	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
PLXNA2	5362	hgsc.bcm.edu	37	1	208391254	208391254	+	Missense_Mutation	SNP	C	C	T	rs2782948	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	32	47	0	0.444444	0	C|0.660;T|0.340	0.340	strong	PLXNA2,NS,carcinoma,0,1	PLXNA2	178	1	NM_025179	exon2	c.G14A	p.R5Q	CAGGGCCGCCTCT	.	PASS	Atlas-SNP
CORO2B	10391	hgsc.bcm.edu	37	15	69011119	69011119	+	Silent	SNP	C	C	T	rs33913544	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	51	99	0	0.46789	0	C|0.820;T|0.180	0.180	strong	.	CORO2B	68	.	NM_006091	exon9	c.C1050T	p.I350I	CCTGATCGAGCCC	.	PASS	Atlas-SNP
SMCR8	140775	hgsc.bcm.edu	37	17	18220674	18220674	+	Missense_Mutation	SNP	C	C	T	rs8080966	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	38	90	0	0.452381	0	C|0.770;T|0.230	0.230	strong	.	SMCR8	62	.	NM_144775	exon1	c.C1571T	p.P524L	CCTGCCCCTCTGA	.	PASS	Atlas-SNP
FBXW10	10517	hgsc.bcm.edu	37	17	18681913	18681913	+	Missense_Mutation	SNP	G	G	A	rs77288131	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	114	178	0	0.508929	0	G|0.912;A|0.088	0.088	strong	.	FBXW10	82	.	NM_001267585	exon14	c.G2461A	p.A821T	GTTAGCGCCCTGC	.	PASS	Atlas-SNP
KRTAP5-8	57830	hgsc.bcm.edu	37	11	71249125	71249125	+	Silent	SNP	A	A	G	rs113379698	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	10	108	0	0.0980392	0	A|0.500;G|0.500	0.500	weak	KRTAP5-8,rectum,carcinoma,0,2	KRTAP5-8	28	2	NM_021046	exon1	c.A24G	p.G8G	CTCTGGAGGCTGT	.	PASS	Atlas-SNP
CDCP1	64866	hgsc.bcm.edu	37	3	45153708	45153708	+	Silent	SNP	G	G	A	rs35501071	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	62	117	0	0.455882	0	G|0.844;A|0.156	0.156	strong	CDCP1,colon,carcinoma,0,1	CDCP1	61	1	NM_178181	exon3	c.C522T	p.I174I	GGTTCCGATCCTG	.	PASS	Atlas-SNP
DSCAM	1826	hgsc.bcm.edu	37	21	41725630	41725630	+	Missense_Mutation	SNP	G	G	C	rs2297270	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	42	40	42	0	0.952381	0	G|0.854;C|0.146	0.146	strong	.	DSCAM	347	.	NM_001271534	exon5	c.C696G	p.D232E	GCGATGGTCAAAC	.	PASS	Atlas-SNP
MATN2	4147	hgsc.bcm.edu	37	8	99006748	99006748	+	Silent	SNP	C	C	T	rs11559201	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	53	124	0	0.5	0	C|0.872;T|0.128	0.128	strong	.	MATN2	165	.	NM_002380	exon7	c.C1122T	p.H374H	TCAGCACGAGTGT	.	PASS	Atlas-SNP
MICA	100507436	hgsc.bcm.edu	37	6	31378358	31378358	+	Missense_Mutation	SNP	T	T	G	rs1063630	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	215	91	185	0	0.423256	0	C|0.003;G|0.250;T|0.747	0.250	strong	.	MICA	21	.	NM_001177519	exon2	c.T109G	p.W37G	CTGTCCTGGGATG	.	PASS	Atlas-SNP
CPAMD8	27151	hgsc.bcm.edu	37	19	17108098	17108098	+	Silent	SNP	C	C	T	rs61745852	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	171	74	177	0	0.432749	0	C|0.838;T|0.162	0.162	strong	CPAMD8,colon,carcinoma,-2,1	CPAMD8	192	1	NM_015692	exon11	c.G1059A	p.A353A	GACGTCCGCTGGG	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49444545	49444545	+	Silent	SNP	G	G	A	rs2241726	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	13	32	0	0.433333	0	G|0.624;A|0.376	0.376	strong	MLL2,NS,carcinoma,0,1	MLL2	1173	1	NM_003482	exon11	c.C2826T	p.I942I	TGTGATGATGGGT	.	PASS	Atlas-SNP
PFKP	5214	hgsc.bcm.edu	37	10	3172121	3172121	+	Silent	SNP	C	C	T	rs1052333	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	50	87	1	0.543478	0.0114943	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	.	scavenged	Atlas-SNP
CD4	920	hgsc.bcm.edu	37	12	6926363	6926363	+	Silent	SNP	T	T	C	rs1055141	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	42	76	0	0.47191	0	T|0.328;C|0.672	0.672	strong	.	CD4	47	.	NM_000616	exon7	c.T1023C	p.S341S	GCTGAGTTTGAAA	.	PASS	Atlas-SNP
BAG3	9531	hgsc.bcm.edu	37	10	121429394	121429394	+	Missense_Mutation	SNP	G	G	T	rs35434411	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	66	80	0	0.573913	0	G|0.979;A|0.021	.	alt	.	BAG3	42	.	NM_004281	exon2	c.G212T	p.R71L	CTTCCCGGGAGGG	.	PASS	Atlas-SNP
OR8G2	26492	hgsc.bcm.edu	37	11	124095884	124095884	+	Missense_Mutation	SNP	A	A	G	rs2466614	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	222	101	183	0	0.454955	0	A|0.893;G|0.107	0.107	strong	.	.	.	.	NM_001007249	exon1	c.A487G	p.I163V	GTTTACATTTTAG	.	PASS	Atlas-SNP
SIRPG	55423	hgsc.bcm.edu	37	20	1617069	1617069	+	Silent	SNP	A	A	G	rs2277761	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	369	367	327	0	0.99458	0	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
SERPINB8	5271	hgsc.bcm.edu	37	18	61650865	61650865	+	Silent	SNP	G	G	A	rs11537989	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	48	115	0	0.403361	0	G|0.763;A|0.237	0.237	strong	.	SERPINB8	42	.	NM_001031848	exon5	c.G477A	p.L159L	AAAGCTGGTCCTT	.	PASS	Atlas-SNP
F13A1	2162	hgsc.bcm.edu	37	6	6318795	6318795	+	Missense_Mutation	SNP	C	C	A	rs5985	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	47	62	0	0.534091	0	C|0.805;A|0.195	0.195	strong	.	F13A1	135	.	NM_000129	exon2	c.G103T	p.V35L	GCACCACGCCCTG	.	PASS	Atlas-SNP
MOV10L1	54456	hgsc.bcm.edu	37	22	50528916	50528916	+	Silent	SNP	C	C	T	rs9617018	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	31	61	0	0.462687	0	C|0.844;T|0.156	0.156	strong	.	MOV10L1	238	.	NM_001164105	exon1	c.C12T	p.L4L	GTTCCTCCCTGTC	.	PASS	Atlas-SNP
LYZL1	84569	hgsc.bcm.edu	37	10	29578084	29578084	+	Missense_Mutation	SNP	A	A	G	rs2532753	bycluster;byhapmap	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	45	127	0	0.409091	0	A|1.000;|0.000	.	weak	.	LYZL1	25	.	NM_032517	exon1	c.A38G	p.K13R	CGACTAAGTGGAG	.	PASS	Atlas-SNP
PNPLA3	80339	hgsc.bcm.edu	37	22	44322970	44322970	+	Missense_Mutation	SNP	G	G	T	rs2076212	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	86	142	0	0.518072	0	G|0.867;T|0.132	0.132	strong	.	PNPLA3	53	.	NM_025225	exon2	c.G343T	p.G115C	AAAATAGGCATCT	.	PASS	Atlas-SNP
OTOF	9381	hgsc.bcm.edu	37	2	26699855	26699855	+	Silent	SNP	G	G	C	rs2272069	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	61	106	0	0.445255	0	G|0.597;C|0.403	0.403	strong	.	OTOF	524	.	NM_194248	exon22	c.C2580G	p.V860V	ATAGGCGACACGC	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092624	1092624	+	Silent	SNP	C	C	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	16	167	5	0.097561	0.0299401	.	.	none	MUC2_ENST00000441003,extremity,malignant_melanoma,+2,2	MUC2	614	2	NM_002457	exon30	c.C4443A	p.T1481T	TCCAACCACCACT	.	scavenged	Atlas-SNP
HELB	92797	hgsc.bcm.edu	37	12	66704098	66704098	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	45	70	0	0.483871	0	.	.	none	HELB,NS,carcinoma,-2,1	HELB	90	1	NM_033647	exon4	c.A1390G	p.M464V	TTGGAAATGATTT	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1104123	1104123	+	Silent	SNP	C	C	T	rs12270802	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	78	135	0	0.484472	0	C|0.894;T|0.106	0.106	strong	MUC2_ENST00000441003,NS,lymphoid_neoplasm,0,1	MUC2	614	1	NM_002457	exon50	c.C8302T	p.L2768L	GTGGTCCTGAGCT	.	PASS	Atlas-SNP
OR11H12	440153	hgsc.bcm.edu	37	14	19378395	19378395	+	Missense_Mutation	SNP	A	A	G	rs2259909	bycluster;byhapmap	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	791	259	608	3	0.327434	0.00493421	A|0.500;G|0.500	0.500	weak	OR11H12,NS,carcinoma,0,1	OR11H12	58	1	NM_001013354	exon1	c.A802G	p.S268G	TGCTATAGCTCTC	.	scavenged	Atlas-SNP
XDH	7498	hgsc.bcm.edu	37	2	31590917	31590917	+	Missense_Mutation	SNP	T	T	C	rs17011368	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	198	97	175	0	0.489899	0	T|0.942;C|0.058	0.058	strong	.	XDH	191	.	NM_000379	exon20	c.A2107G	p.I703V	TCTTTATAGCATC	.	PASS	Atlas-SNP
ZNF845	91664	hgsc.bcm.edu	37	19	53856730	53856730	+	Silent	SNP	G	G	A	rs201351032		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	4	70	0	0.0421053	0	.	.	weak	ZNF845,NS,carcinoma,0,5	ZNF845	101	5	NM_138374	exon4	c.G2802A	p.K934K	TCATAAGACAATT	.	scavenged	Atlas-SNP
CACNA1H	8912	hgsc.bcm.edu	37	16	1252441	1252441	+	Missense_Mutation	SNP	T	T	C	rs4984636	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	24	16	26	1	0.666667	0.0384615	T|0.874;C|0.126	0.126	strong	CACNA1H_ENST00000358590,rectum,carcinoma,0,2	CACNA1H	317	2	NM_021098	exon9	c.T1991C	p.V664A	ATGTGGTCGGGGA	.	scavenged	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	60	82	0	0.550459	0	C|0.558;N|0.000	0.558	strong	.	ZNF214	65	.	NM_013249	exon3	c.A197G	p.Y66C	TGCCAGTAGGAAA	.	PASS	Atlas-SNP
EMILIN3	90187	hgsc.bcm.edu	37	20	39990614	39990614	+	Missense_Mutation	SNP	C	C	T	rs2235592	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	37	73	0	0.402174	0	C|0.743;T|0.257	0.257	strong	.	EMILIN3	63	.	NM_052846	exon4	c.G1595A	p.S532N	ACGAGGCTGTCCA	.	PASS	Atlas-SNP
COL6A1	1291	hgsc.bcm.edu	37	21	47423636	47423636	+	Silent	SNP	C	C	T	rs1053320	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	197	95	146	1	0.482233	0.00684932	C|0.700;T|0.300	0.300	strong	COL6A1,NS,carcinoma,0,1	COL6A1	101	1	NM_001848	exon35	c.C2796T	p.S932S	CTCGTCCGGCGCT	.	scavenged	Atlas-SNP
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32489766	32489766	+	Missense_Mutation	SNP	A	A	T	rs41562819	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	24	17	13	0	0.708333	0	G|0.474;A|0.526	.	strong	HLA-DRB5,brain,glioma,0,2	HLA-DRB5	31	2	NM_002125	exon2	c.T286A	p.F96I	CCAGGAAGTCCTT	.	scavenged	Atlas-SNP
CCDC144NL	339184	hgsc.bcm.edu	37	17	20798992	20798992	+	Silent	SNP	C	C	T	rs8073465	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	76	183	0	0.469136	0	C|0.883;T|0.117	0.117	strong	.	CCDC144NL	34	.	NM_001004306	exon1	c.G342A	p.K114K	TTACCTCTTCTTC	.	PASS	Atlas-SNP
TRAPPC10	7109	hgsc.bcm.edu	37	21	45502758	45502758	+	Missense_Mutation	SNP	G	G	A	rs367993178		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	72	184	0	0.40678	0	.	.	weak	TRAPPC10,colon,carcinoma,0,1	TRAPPC10	109	1	NM_003274	exon14	c.G1813A	p.V605I	GGCGGCGTTTTGT	.	PASS	Atlas-SNP
COL9A3	1299	hgsc.bcm.edu	37	20	61463522	61463522	+	Missense_Mutation	SNP	C	C	A	rs751557	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	89	143	0	0.532934	0	T|0.003;G|0.006	.	strong	COL9A3,caecum,carcinoma,0,1	COL9A3	70	1	NM_001853	exon25	c.C1304A	p.A435E	GTGCCGCAGGCCC	.	PASS	Atlas-SNP
DNMBP	23268	hgsc.bcm.edu	37	10	101639796	101639796	+	Silent	SNP	G	G	A	rs2255901	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	143	268	0	0.928571	0	G|0.502;A|0.498	0.498	strong	DNMBP,NS,adenoma,0,1	DNMBP	173	1	NM_015221	exon16	c.C4320T	p.S1440S	GGAGGTGGAGTCT	.	PASS	Atlas-SNP
HIST1H1C	3006	hgsc.bcm.edu	37	6	26056549	26056549	+	Silent	SNP	A	A	G	rs10425	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	85	99	0	0.977012	0	A|0.253;G|0.747	0.747	strong	.	HIST1H1C	80	.	NM_005319	exon1	c.T108C	p.S36S	GGGACCAGACGCC	.	PASS	Atlas-SNP
ARL13A	392509	hgsc.bcm.edu	37	X	100243459	100243459	+	Missense_Mutation	SNP	G	G	T	rs3934462	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	183	147	0	0.994565	0	G|0.109;T|0.891	0.891	strong	.	ARL13A	7	.	NM_001162490	exon8	c.G837T	p.M279I	GAGAATGAGAGCT	.	PASS	Atlas-SNP
ZNF860	344787	hgsc.bcm.edu	37	3	32031643	32031643	+	Missense_Mutation	SNP	A	A	G	rs13065048	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	254	74	290	0	0.291339	0	A|0.615;G|0.385	0.385	strong	.	ZNF860	96	.	NM_001137674	exon2	c.A1072G	p.T358A	CACCTCACACAAC	.	PASS	Atlas-SNP
CTNNA1	1495	hgsc.bcm.edu	37	5	138266552	138266552	+	Silent	SNP	C	C	G	rs11552052	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	235	88	198	0	0.374468	0	C|0.983;G|0.017	0.017	strong	.	CTNNA1	114	.	NM_001903	exon16	c.C2226G	p.V742V	GGATGTCATCAGT	.	PASS	Atlas-SNP
OR51Q1	390061	hgsc.bcm.edu	37	11	5443700	5443700	+	Silent	SNP	C	C	T	rs2736588	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	102	175	0	0.534031	0	C|0.602;T|0.398	0.398	strong	.	OR51Q1	79	.	NM_001004757	exon1	c.C270T	p.N90N	GTTCAACGTTCGT	.	PASS	Atlas-SNP
HKDC1	80201	hgsc.bcm.edu	37	10	70992664	70992664	+	Missense_Mutation	SNP	C	C	T	rs874556	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	17	16	0	0.472222	0	C|0.493;T|0.507	0.507	strong	.	HKDC1	98	.	NM_025130	exon3	c.C371T	p.T124I	ACGGCACAGAGGT	.	PASS	Atlas-SNP
FMO3	2328	hgsc.bcm.edu	37	1	171083242	171083242	+	Missense_Mutation	SNP	A	A	G	rs2266780	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	205	97	158	0	0.473171	0	A|0.877;G|0.123	0.123	strong	.	FMO3	73	.	NM_006894	exon7	c.A923G	p.E308G	TCACAGAGACCTC	.	PASS	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	37	6	32025980	32025980	+	Silent	SNP	G	G	A	rs12196385	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	55	119	0	0.474138	0	G|0.900;A|0.100	0.100	strong	.	TNXB	553	.	NM_019105	exon22	c.C7680T	p.D2560D	CCGCCCGTCCCTG	.	PASS	Atlas-SNP
HIST3H3	8290	hgsc.bcm.edu	37	1	228612892	228612892	+	Silent	SNP	G	G	A	rs56336130	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	35	51	0	0.603448	0	G|0.942;A|0.058	0.058	strong	.	HIST3H3	20	.	NM_003493	exon1	c.C135T	p.G45G	CACCGTGCCGGGC	.	PASS	Atlas-SNP
RAB11FIP2	22841	hgsc.bcm.edu	37	10	119774598	119774598	+	Missense_Mutation	SNP	T	T	A	rs58533443	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	73	99	0	0.521429	0	T|0.967;A|0.033	0.033	strong	.	RAB11FIP2	39	.	NM_014904	exon4	c.A1289T	p.N430I	TCTTCATTGCTTG	.	PASS	Atlas-SNP
CCDC107	203260	hgsc.bcm.edu	37	9	35660901	35660901	+	Missense_Mutation	SNP	C	C	T	rs2275420	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	39	54	0	0.481481	0	C|0.831;T|0.169	0.169	strong	.	CCDC107	12	.	NM_174923	exon5	c.C569T	p.S190F	AAGTCTCTGAAAC	.	PASS	Atlas-SNP
C16orf3	750	hgsc.bcm.edu	37	16	90095596	90095596	+	Missense_Mutation	SNP	A	A	G	rs55742939	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	6	85	0	0.075	0	A|0.500;G|0.500	0.500	weak	.	C16orf3	14	.	NM_001214	exon1	c.T155C	p.I52T	CAGGCTATGGGGC	.	PASS	Atlas-SNP
ELSPBP1	64100	hgsc.bcm.edu	37	19	48525466	48525466	+	Missense_Mutation	SNP	C	C	T	rs35700000	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	202	108	183	0	0.534653	0	C|0.980;T|0.020	0.020	strong	.	ELSPBP1	29	.	NM_022142	exon6	c.C554T	p.P185L	ACTTTCCGTTCAA	.	PASS	Atlas-SNP
NID1	4811	hgsc.bcm.edu	37	1	236208773	236208773	+	Missense_Mutation	SNP	C	C	T	rs10733133	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	47	111	0	0.382114	0	C|0.469;N|0.000	.	strong	.	NID1	196	.	NM_002508	exon3	c.G736A	p.V246I	TTTCAACTGATTC	.	PASS	Atlas-SNP
SMCHD1	23347	hgsc.bcm.edu	37	18	2750477	2750477	+	Silent	SNP	A	A	G	rs2304859	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	106	163	1	0.990654	0.00613497	G|0.336;N|0.000	0.336	strong	SMCHD1,colon,carcinoma,+1,3	SMCHD1	88	3	NM_015295	exon32	c.A4137G	p.A1379A	AGATGCATCCTTC	.	PASS	Atlas-SNP
ZNF454	285676	hgsc.bcm.edu	37	5	178391902	178391902	+	Missense_Mutation	SNP	A	A	C	rs12719860	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	61	138	0	0.386076	0	A|0.334;C|0.666	0.666	strong	.	ZNF454	99	.	NM_001178089	exon5	c.A497C	p.D166A	ACAGTGATCAAAG	.	PASS	Atlas-SNP
HLA-DPA1	3113	hgsc.bcm.edu	37	6	33037557	33037557	+	Silent	SNP	C	C	T	rs1042177	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	67	193	0	0.387283	0	C|0.814;T|0.186	0.186	strong	.	HLA-DPA1	20	.	NM_033554	exon2	c.G207A	p.K69K	CTCCTTCTTGTCC	.	PASS	Atlas-SNP
DEF8	54849	hgsc.bcm.edu	37	16	90025640	90025640	+	Missense_Mutation	SNP	G	G	C	rs8166	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	31	13	36	0	0.419355	0	G|0.888;C|0.112	0.112	strong	.	DEF8	28	.	NM_001242822	exon6	c.G591C	p.M197I	TCAGATGTGAGCT	.	PASS	Atlas-SNP
HNF1A	6927	hgsc.bcm.edu	37	12	121437114	121437114	+	Silent	SNP	G	G	A	rs55834942	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	175	80	184	1	0.457143	0.00543478	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	.	scavenged	Atlas-SNP
PDPR	55066	hgsc.bcm.edu	37	16	70180088	70180088	+	Missense_Mutation	SNP	A	A	T	rs2287978	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	55	135	0	0.371622	0	A|0.750;T|0.250	0.250	weak	.	PDPR	66	.	NM_017990	exon16	c.A1919T	p.Y640F	TGTCCTATGCCCC	.	PASS	Atlas-SNP
RAB3IL1	5866	hgsc.bcm.edu	37	11	61669946	61669946	+	Missense_Mutation	SNP	G	G	A	rs3815045	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	40	59	0	0.47619	0	G|0.922;A|0.078	0.078	strong	.	RAB3IL1	39	.	NM_013401	exon8	c.C967T	p.H323Y	AGTAATGGCTTTT	.	PASS	Atlas-SNP
AKAP3	10566	hgsc.bcm.edu	37	12	4736569	4736569	+	Missense_Mutation	SNP	A	A	G	rs12366671	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	54	75	0	0.545455	0	A|0.899;G|0.101	0.101	strong	.	AKAP3	212	.	NM_006422	exon4	c.T1499C	p.I500T	TTGCCAATATCTT	.	PASS	Atlas-SNP
NFKBIZ	64332	hgsc.bcm.edu	37	3	101576175	101576175	+	Silent	SNP	T	T	C	rs14134	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	63	106	0	0.456522	0	T|0.427;C|0.573	0.573	strong	.	NFKBIZ	55	.	NM_031419	exon11	c.T1975C	p.L659L	GCCAGCTTGCAGT	.	PASS	Atlas-SNP
ZNF446	55663	hgsc.bcm.edu	37	19	58989495	58989495	+	Missense_Mutation	SNP	A	A	C	rs893185	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	53	123	0	0.5	0	T|0.002;G|0.001	.	strong	.	ZNF446	22	.	NM_017908	exon4	c.A574C	p.N192H	GAGGGGAACCATG	.	PASS	Atlas-SNP
B4GALNT2	124872	hgsc.bcm.edu	37	17	47210506	47210506	+	Missense_Mutation	SNP	C	C	A	rs7207403	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	35	33	28	0	0.942857	0	C|0.573;A|0.427	0.427	strong	.	B4GALNT2	67	.	NM_153446	exon1	c.C119A	p.A40D	TCGGGGCTCTCTG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	45	75	0	0.478723	0	G|0.830;T|0.170	0.170	strong	.	FREM1	261	.	NM_144966	exon15	c.C2408A	p.S803Y	GCATCAGAAATTA	.	PASS	Atlas-SNP
BAZ1A	11177	hgsc.bcm.edu	37	14	35242828	35242828	+	Silent	SNP	G	G	A	rs2275145	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	275	273	339	0	0.992727	0	G|0.500;A|0.500	0.500	strong	.	BAZ1A	128	.	NM_013448	exon20	c.C3102T	p.D1034D	TTCTACGTCTTCA	.	PASS	Atlas-SNP
OR5M3	219482	hgsc.bcm.edu	37	11	56237609	56237609	+	Missense_Mutation	SNP	A	A	G	rs200070203		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	9	146	0	0.105882	0	.	.	weak	.	OR5M3	103	.	NM_001004742	exon1	c.T365C	p.M122T	ATTGCCATGTATC	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1088815	1088815	+	Silent	SNP	A	A	G	rs7103978	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	59	97	0	0.5	0	A|0.939;G|0.061	0.061	strong	.	MUC2	614	.	NM_002457	exon26	c.A3600G	p.A1200A	TGGAGCATCGGTT	.	PASS	Atlas-SNP
LHCGR	3973	hgsc.bcm.edu	37	2	48915871	48915871	+	Silent	SNP	A	A	G	rs11125179	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	183	79	158	0	0.431694	0	A|0.453;G|0.547	0.547	strong	.	LHCGR	154	.	NM_000233	exon11	c.T1065C	p.D355D	CATAATATCTTCA	.	PASS	Atlas-SNP
MAGEC1	9947	hgsc.bcm.edu	37	X	140993926	140993926	+	Missense_Mutation	SNP	C	C	G	rs76335605	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	24	27	0	0.311688	0	C|0.996;G|0.003;T|0.001	0.003	strong	.	MAGEC1	317	.	NM_005462	exon4	c.C736G	p.L246V	ACTTTACTGAGTC	.	PASS	Atlas-SNP
ARHGEF40	55701	hgsc.bcm.edu	37	14	21553004	21553004	+	Silent	SNP	C	C	T	rs749731	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	72	166	0	0.461538	0	C|0.932;T|0.068	0.068	strong	.	ARHGEF40	84	.	NM_018071	exon18	c.C3882T	p.F1294F	TCTCTTCGAGCAT	.	PASS	Atlas-SNP
CAPN9	10753	hgsc.bcm.edu	37	1	230916260	230916260	+	Silent	SNP	C	C	T	rs28359687	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	50	72	0	0.515464	0	C|0.878;T|0.122	0.122	strong	.	CAPN9	116	.	NM_006615	exon11	c.C1287T	p.D429D	CAAAGACGAACAC	.	PASS	Atlas-SNP
WARS2	10352	hgsc.bcm.edu	37	1	119584949	119584949	+	Silent	SNP	G	G	A	rs33960696	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	204	97	190	0	0.47549	0	G|0.937;A|0.063	0.063	strong	.	WARS2	69	.	NM_015836	exon4	c.C453T	p.H151H	GCCATCGTGCTTC	.	PASS	Atlas-SNP
SLC41A3	54946	hgsc.bcm.edu	37	3	125726048	125726048	+	Silent	SNP	G	G	C	rs2279819	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	63	109	0	0.516393	0	G|0.309;C|0.691	0.691	strong	.	SLC41A3	80	.	NM_017836	exon11	c.C1275G	p.L425L	TTCTGCGAGGTAC	.	PASS	Atlas-SNP
DEGS2	123099	hgsc.bcm.edu	37	14	100625902	100625902	+	Missense_Mutation	SNP	C	C	T	rs7157599	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	10	10	13	0	1	0	C|0.235;T|0.765	0.765	strong	.	DEGS2	25	.	NM_206918	exon1	c.G23A	p.S8N	AAGTCGCTGCGGC	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	709001	709001	+	Missense_Mutation	SNP	C	C	A	rs4984906	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	137	108	0	0.971631	0	C|0.379;A|0.621	0.621	strong	.	WDR90	107	.	NM_145294	exon24	c.C3001A	p.P1001T	CTGGCCCCTACTG	.	PASS	Atlas-SNP
MICAL2	9645	hgsc.bcm.edu	37	11	12246233	12246233	+	Silent	SNP	G	G	C	rs3816921	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	183	88	142	0	0.480874	0	G|0.832;C|0.168	0.168	strong	.	MICAL2	114	.	NM_014632	exon13	c.G1554C	p.R518R	TATCCGGCCCAGC	.	PASS	Atlas-SNP
CATSPER3	347732	hgsc.bcm.edu	37	5	134332143	134332143	+	Missense_Mutation	SNP	G	G	A	rs114447625	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	54	107	0	0.477876	0	G|0.981;A|0.019	0.019	strong	.	CATSPER3	38	.	NM_178019	exon3	c.G433A	p.A145T	TATATCGCTGATG	.	PASS	Atlas-SNP
OR8H3	390152	hgsc.bcm.edu	37	11	55890571	55890571	+	Silent	SNP	C	C	T	rs61743017	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	265	113	282	0	0.426415	0	C|0.950;T|0.050	0.050	strong	.	OR8H3	92	.	NM_001005201	exon1	c.C723T	p.C241C	TACTTGCGTCTCT	.	PASS	Atlas-SNP
MCM7	4176	hgsc.bcm.edu	37	7	99696797	99696797	+	Missense_Mutation	SNP	T	T	C	rs2070215	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	75	135	0	0.506757	0	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	.	PASS	Atlas-SNP
SPATA31D1	389763	hgsc.bcm.edu	37	9	84607758	84607758	+	Silent	SNP	T	T	A	rs10867826	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	516	515	407	1	0.998062	0.002457	T|0.426;A|0.574	0.574	strong	.	.	.	.	NM_001001670	exon4	c.T2373A	p.T791T	GGAGACTTCTTCA	.	PASS	Atlas-SNP
MAPT	4137	hgsc.bcm.edu	37	17	44067400	44067400	+	Missense_Mutation	SNP	T	T	C	rs10445337	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	39	78	0	0.453488	0	T|0.856;C|0.144	0.144	strong	.	MAPT	135	.	NM_001123066	exon8	c.T1339C	p.S447P	GTCACTTCCCGAA	.	PASS	Atlas-SNP
TNRC6A	27327	hgsc.bcm.edu	37	16	24802325	24802325	+	Missense_Mutation	SNP	C	C	T	rs3803716	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	20	41	0	0.357143	0	C|0.850;T|0.150	0.150	strong	.	TNRC6A	171	.	NM_014494	exon6	c.C2362T	p.P788S	CCCAAACCTGCTC	.	PASS	Atlas-SNP
HNF4G	3174	hgsc.bcm.edu	37	8	76452313	76452313	+	Missense_Mutation	SNP	G	G	A	rs2943549	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	76	58	0	1	0	G|0.377;A|0.623	0.623	strong	.	HNF4G	111	.	NM_004133	exon1	c.G86A	p.S29N	ATTCAAGTGGTGA	.	PASS	Atlas-SNP
TMEM17	200728	hgsc.bcm.edu	37	2	62733201	62733201	+	Missense_Mutation	SNP	A	A	T	rs78110679	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	102	108	0	0.618182	0	A|0.925;T|0.075	0.075	strong	.	TMEM17	19	.	NM_198276	exon1	c.T64A	p.S22T	GATTGGAATCACT	.	PASS	Atlas-SNP
LYZL2	119180	hgsc.bcm.edu	37	10	30918549	30918549	+	Missense_Mutation	SNP	G	G	C	rs201069868	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	29	89	0	0.187097	0	G|0.894;C|0.106	0.106	strong	LYZL2,NS,adenoma,0,2	LYZL2	33	2	NM_183058	exon1	c.C86G	p.A29G	CCTGCCGCAGAGG	.	PASS	Atlas-SNP
LRRC33	375387	hgsc.bcm.edu	37	3	196388099	196388099	+	Missense_Mutation	SNP	G	G	C	rs62623661	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	239	129	200	0	0.539749	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
P2RX7	5027	hgsc.bcm.edu	37	12	121622304	121622304	+	Missense_Mutation	SNP	A	A	C	rs3751143	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	21	50	0	0.42	0	A|0.826;C|0.174	0.174	strong	.	P2RX7	53	.	NM_002562	exon13	c.A1487C	p.E496A	TGGAGGAGCTGTG	.	PASS	Atlas-SNP
TBL3	10607	hgsc.bcm.edu	37	16	2025411	2025411	+	Silent	SNP	G	G	C	rs12925447	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	60	85	0	0.454545	0	G|0.918;C|0.082	0.082	strong	.	TBL3	54	.	NM_006453	exon9	c.G777C	p.G259G	CCCAGGGCTGTAC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	279	116	239	0	0.415771	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
COL21A1	81578	hgsc.bcm.edu	37	6	55924962	55924962	+	Missense_Mutation	SNP	A	A	G	rs12209452	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	71	148	0	0.510791	0	A|0.970;G|0.030	0.030	strong	COL21A1_ENST00000244728,NS,carcinoma,0,2	COL21A1	201	2	NM_030820	exon28	c.T2462C	p.L821P	TGGGACAGGCAAT	.	PASS	Atlas-SNP
ODF3B	440836	hgsc.bcm.edu	37	22	50969647	50969647	+	Missense_Mutation	SNP	C	C	G	rs139023197	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	76	122	0	0.542857	0	C|0.969;G|0.031	0.031	strong	.	ODF3B	6	.	NM_001014440	exon4	c.G391C	p.G131R	GGACACCCCAGTT	.	PASS	Atlas-SNP
ZNF407	55628	hgsc.bcm.edu	37	18	72347482	72347482	+	Silent	SNP	T	T	C	rs12327359	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	137	88	0	1	0	T|0.567;C|0.433	0.433	strong	ZNF407,NS,carcinoma,0,1	ZNF407	231	1	NM_001146190	exon1	c.T4507C	p.L1503L	TTATTTTTACATA	.	PASS	Atlas-SNP
EVC2	132884	hgsc.bcm.edu	37	4	5570221	5570221	+	Silent	SNP	G	G	A	rs12511039	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	48	58	0	0.607595	0	G|0.656;A|0.344	0.344	strong	EVC2,NS,lymphoid_neoplasm,0,1	EVC2	202	1	NM_147127	exon20	c.C3507T	p.H1169H	AGCTGCGTGGTCC	.	PASS	Atlas-SNP
PTPRZ1	5803	hgsc.bcm.edu	37	7	121653177	121653177	+	Silent	SNP	A	A	G	rs61732006	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	247	99	219	0	0.40081	0	A|0.902;G|0.098	0.098	strong	.	PTPRZ1	605	.	NM_002851	exon12	c.A4077G	p.T1359T	TGATACATTTGTA	.	PASS	Atlas-SNP
FAM83B	222584	hgsc.bcm.edu	37	6	54806489	54806489	+	Missense_Mutation	SNP	C	C	A	rs9475077	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	56	113	0	0.455285	0	C|0.694;A|0.306	0.306	strong	.	FAM83B	186	.	NM_001010872	exon5	c.C2720A	p.T907N	TTGTTACCCCTGA	.	PASS	Atlas-SNP
ST6GALNAC1	55808	hgsc.bcm.edu	37	17	74625715	74625715	+	Silent	SNP	T	T	C	rs8081258	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	374	193	282	0	0.516043	0	T|0.901;C|0.099	0.099	strong	.	ST6GALNAC1	42	.	NM_018414	exon2	c.A210G	p.A70A	CCTCCTTGCCCTT	.	PASS	Atlas-SNP
GABRA4	2557	hgsc.bcm.edu	37	4	46995366	46995366	+	Missense_Mutation	SNP	G	G	T	rs2229940	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	204	95	158	0	0.465686	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
PRAMEF1	65121	hgsc.bcm.edu	37	1	12854401	12854401	+	Nonsense_Mutation	SNP	G	G	T	rs78584260	alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	579	44	478	22	0.0759931	0.0460251	G|0.500;C|0.500	.	alt	PRAMEF1,NS,carcinoma,0,2	PRAMEF1	78	2	NM_023013	exon3	c.G625T	p.E209X	ATTCAAGAGCTGG	.	scavenged	Atlas-SNP
ZNF419	79744	hgsc.bcm.edu	37	19	58003488	58003488	+	Silent	SNP	A	A	G	rs2074070	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	55	140	0	0.40146	0	A|0.647;G|0.353	0.353	strong	.	ZNF419	134	.	NM_001098491	exon4	c.A210G	p.A70A	ACTTGCATCTTCC	.	PASS	Atlas-SNP
FREM2	341640	hgsc.bcm.edu	37	13	39263023	39263023	+	Silent	SNP	C	C	T	rs12874397	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	44	55	0	0.916667	0	C|0.841;T|0.159	0.159	strong	.	FREM2	385	.	NM_207361	exon1	c.C1542T	p.A514A	GGCAGCCGGCCAG	.	PASS	Atlas-SNP
SERPINA1	5265	hgsc.bcm.edu	37	14	94849201	94849201	+	Missense_Mutation	SNP	C	C	T	rs709932	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	84	81	0	1	0	T|0.129;G|0.004	0.129	strong	.	SERPINA1	51	.	NM_001127701	exon4	c.G374A	p.R125H	AGGGTACGGAGGA	.	PASS	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	37	1	240341268	240341268	+	Silent	SNP	A	A	G	rs3765588	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	103	72	0	1	0	A|0.768;G|0.232	0.232	strong	.	FMN2	451	.	NM_020066	exon3	c.A1830G	p.S610S	ACACTCATTGGAC	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238930	31238930	+	Missense_Mutation	SNP	A	A	C	rs79636386	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	85	275	1	0.454545	0.00363636	T|0.001;C|0.301;A|0.698	0.301	weak	HLA-C_ENST00000383329,NS,carcinoma,0,2	HLA-C	92	2	NM_002117	exon3	c.T539G	p.L180R	GCTCTCAGCTGCT	.	PASS	Atlas-SNP
WWC1	23286	hgsc.bcm.edu	37	5	167850748	167850748	+	Silent	SNP	A	A	G	rs12054944	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	86	83	0	0.966292	0	A|0.448;G|0.552	0.552	strong	WWC1,NS,carcinoma,0,2	WWC1	98	2	NM_015238	exon11	c.A1485G	p.S495S	GCCCTCAGGCTGC	.	PASS	Atlas-SNP
OR12D2	26529	hgsc.bcm.edu	37	6	29364835	29364835	+	Missense_Mutation	SNP	T	T	G	rs2073153	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	295	121	252	0	0.410169	0	T|0.650;G|0.350	0.350	strong	.	OR12D2	42	.	NM_013936	exon1	c.T359G	p.L120R	TTGACCTCTCTGT	.	PASS	Atlas-SNP
KY	339855	hgsc.bcm.edu	37	3	134322814	134322814	+	Silent	SNP	G	G	C	rs2293294	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	116	79	0	1	0	G|0.694;C|0.306	0.306	strong	KY_ENST00000423778,NS,carcinoma,0,1	KY	92	1	NM_178554	exon11	c.C1593G	p.G531G	AAACTTGCCTGCA	.	PASS	Atlas-SNP
COL2A1	1280	hgsc.bcm.edu	37	12	48391416	48391416	+	Silent	SNP	G	G	T	rs3737548	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	58	83	0	0.604167	0	G|0.784;T|0.216	0.216	strong	.	COL2A1	368	.	NM_001844	exon7	c.C504A	p.G168G	AGGGGGGCCGGGA	.	PASS	Atlas-SNP
SPATS1	221409	hgsc.bcm.edu	37	6	44310854	44310854	+	Missense_Mutation	SNP	G	G	A	rs10948132	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	41	53	0	0.546667	0	G|0.713;A|0.286	0.286	strong	.	SPATS1	61	.	NM_145026	exon2	c.G22A	p.G8R	CTCACTGGAAACA	.	PASS	Atlas-SNP
TNR	7143	hgsc.bcm.edu	37	1	175335234	175335234	+	Silent	SNP	C	C	T	rs1385541	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	237	132	215	0	0.556962	0	C|0.809;T|0.191	0.191	strong	.	TNR	399	.	NM_003285	exon11	c.G2094A	p.S698S	GGTCTCCGAGGAG	.	PASS	Atlas-SNP
DNHD1	144132	hgsc.bcm.edu	37	11	6561270	6561270	+	Silent	SNP	A	A	G	rs10839577	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	51	86	0	0.51	0	A|0.739;G|0.261	0.261	strong	.	DNHD1	198	.	NM_144666	exon18	c.A3585G	p.Q1195Q	CCCCCAATGGGAG	.	PASS	Atlas-SNP
USP7	7874	hgsc.bcm.edu	37	16	9057083	9057083	+	Silent	SNP	G	G	A	rs374020920		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	15	11	12	0	0.733333	0	.	.	weak	.	USP7	116	.	NM_003470	exon1	c.C60T	p.P20P	GTCCTCGGGCTCG	.	PASS	Atlas-SNP
MCPH1	79648	hgsc.bcm.edu	37	8	6302671	6302671	+	Silent	SNP	C	C	T	rs2920676	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	47	83	0	0.465347	0	C|0.841;T|0.159	0.159	strong	.	MCPH1	65	.	NM_001172574	exon8	c.C1428T	p.F476F	CAATTTCACAGCA	.	PASS	Atlas-SNP
COL11A1	1301	hgsc.bcm.edu	37	1	103548497	103548497	+	Missense_Mutation	SNP	A	A	C	rs11164663	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	94	128	0	0.54023	0	A|0.918;C|0.082	0.082	strong	.	COL11A1	972	.	NM_001854	exon2	c.T138G	p.D46E	GTGAAAATCTAGT	.	PASS	Atlas-SNP
FGF13	2258	hgsc.bcm.edu	37	X	137715056	137715056	+	Silent	SNP	G	G	A	rs374129615		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	38	31	0	0.863636	0	.	.	weak	.	FGF13	135	.	NM_001139500	exon7	c.C723T	p.G241G	CAGCACGCCAGAG	.	PASS	Atlas-SNP
PPP1R15A	23645	hgsc.bcm.edu	37	19	49377086	49377086	+	Missense_Mutation	SNP	T	T	C	rs611251	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	42	72	0	0.636364	0	T|0.735;G|0.004	.	strong	.	PPP1R15A	48	.	NM_014330	exon2	c.T596C	p.V199A	AAGCTGTAAAGAA	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134736026	134736026	+	Silent	SNP	G	G	A	rs4880286	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	101	77	0	1	0	G|0.640;A|0.360	0.360	strong	.	TTC40	100	.	NM_001200049	exon12	c.C1443T	p.A481A	CTCAGGGGCCTGG	.	PASS	Atlas-SNP
VCAN	1462	hgsc.bcm.edu	37	5	82786194	82786194	+	Silent	SNP	T	T	C	rs12332199	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	93	89	0	1	0	T|0.613;C|0.387	0.387	strong	.	VCAN	498	.	NM_004385	exon3	c.T348C	p.T116T	CCTCACTGTGGTC	.	PASS	Atlas-SNP
KIAA0922	23240	hgsc.bcm.edu	37	4	154388363	154388363	+	Missense_Mutation	SNP	C	C	T	rs78441178	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	218	104	210	0	0.477064	0	.	.	weak	.	KIAA0922	214	.	NM_001131007	exon2	c.C125T	p.A42V	CTGCAGCGATTGA	.	PASS	Atlas-SNP
SALL4	57167	hgsc.bcm.edu	37	20	50407502	50407502	+	Missense_Mutation	SNP	A	A	C	rs6126344	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	28	57	0	0.482759	0	A|0.697;C|0.303	0.303	strong	.	SALL4	168	.	NM_020436	exon2	c.T1520G	p.L507R	GGCTGCAGGTCAC	.	PASS	Atlas-SNP
STARD3	10948	hgsc.bcm.edu	37	17	37815304	37815304	+	Missense_Mutation	SNP	G	G	C	rs11556624	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	198	88	217	0	0.444444	0	G|0.985;C|0.015	0.015	strong	.	STARD3	33	.	NM_006804	exon8	c.G647C	p.G216A	CTGCAGGGTCTGA	.	PASS	Atlas-SNP
FUCA1	2517	hgsc.bcm.edu	37	1	24180962	24180962	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	248	113	227	0	0.455645	0	.	.	none	.	FUCA1	24	.	NM_000147	exon5	c.A857G	p.Q286R	AAGCTCTGTGGCT	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324547	31324547	+	Missense_Mutation	SNP	G	G	C	rs1065386	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	69	74	0	0.475862	0	G|0.668;C|0.332	0.332	strong	HLA-B,NS,lymphoid_neoplasm,-2,2	HLA-B	54	2	NM_005514	exon2	c.C261G	p.N87K	CTGTGTGTTCCGG	.	PASS	Atlas-SNP
ATP5J2-PTCD1	100526740	hgsc.bcm.edu	37	7	99032458	99032458	+	Silent	SNP	C	C	T	rs940336	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	214	104	188	0	0.485981	0	C|0.928;T|0.072	0.072	strong	.	.	.	.	NM_001198879	exon3	c.G555A	p.P185P	CCAGTACGGGGTG	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144992103	144992103	+	Silent	SNP	T	T	C	rs6558406	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	77	101	0	0.478261	0	T|0.520;C|0.480	0.480	strong	PLEC_ENST00000436759,NS,carcinoma,0,3	PLEC	1144	3	NM_201380	exon32	c.A12297G	p.T4099T	AAAGGCTGTGCCG	.	PASS	Atlas-SNP
RSBN1	54665	hgsc.bcm.edu	37	1	114354942	114354942	+	Silent	SNP	T	T	G	rs3789604	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	17	8	13	0	0.470588	0	T|0.851;G|0.149	0.149	strong	RSBN1,rectum,carcinoma,0,2	RSBN1	71	2	NM_018364	exon1	c.A93C	p.R31R	CGCGCATCGCGCA	.	PASS	Atlas-SNP
OTOR	56914	hgsc.bcm.edu	37	20	16729138	16729138	+	Missense_Mutation	SNP	T	T	C	rs6135876	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	237	236	222	0	0.995781	0	T|0.844;C|0.156	0.156	strong	.	OTOR	22	.	NM_020157	exon1	c.T92C	p.L31P	AGAAGCTCTGTGC	.	PASS	Atlas-SNP
MERTK	10461	hgsc.bcm.edu	37	2	112786357	112786357	+	Silent	SNP	G	G	A	rs10205793	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	66	83	0	0.573913	0	G|0.944;A|0.056	0.056	strong	.	MERTK	112	.	NM_006343	exon19	c.G2916A	p.S972S	CCATTCGAGCATG	.	PASS	Atlas-SNP
ATP13A2	23400	hgsc.bcm.edu	37	1	17314942	17314942	+	Silent	SNP	G	G	A	rs9435662	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	164	128	0	0.987952	0	G|0.606;A|0.394	0.394	strong	.	ATP13A2	85	.	NM_022089	exon24	c.C2637T	p.G879G	ATTGGCGCCGTCT	.	PASS	Atlas-SNP
ANO1	55107	hgsc.bcm.edu	37	11	70007311	70007311	+	Silent	SNP	A	A	G	rs2276066	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	65	93	0	0.496183	0	A|0.393;G|0.607	0.607	strong	.	ANO1	156	.	NM_018043	exon17	c.A1623G	p.R541R	CTACAGAATCTCC	.	PASS	Atlas-SNP
PIFO	128344	hgsc.bcm.edu	37	1	111891192	111891192	+	Missense_Mutation	SNP	C	C	A	rs2184884	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	62	153	0	0.462687	0	C|0.891;A|0.109	0.109	strong	.	.	.	.	NM_181643	exon4	c.C313A	p.H105N	GAAAAACACAAAC	.	PASS	Atlas-SNP
IRS4	8471	hgsc.bcm.edu	37	X	107979475	107979475	+	Missense_Mutation	SNP	G	G	A	rs1801162	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	85	74	0	0.904255	0	G|0.943;A|0.057	0.057	strong	.	IRS4	253	.	NM_003604	exon1	c.C100T	p.L34F	AAAGAAGCGGGGT	.	PASS	Atlas-SNP
EPS15	2060	hgsc.bcm.edu	37	1	51829575	51829575	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	236	106	255	1	0.449153	0.00392157	.	.	none	EPS15,right_upper_lobe,carcinoma,0,1	EPS15	72	1	NM_001981	exon23	c.G2322A	p.K774K	TCCGATCTTTGGT	.	PASS	Atlas-SNP
FZD6	8323	hgsc.bcm.edu	37	8	104337096	104337096	+	Silent	SNP	A	A	G	rs3808554	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	54	114	0	0.388489	0	A|0.576;G|0.424	0.424	strong	.	FZD6	61	.	NM_003506	exon4	c.A762G	p.L254L	TTTGCTAGGCGAT	.	PASS	Atlas-SNP
COL9A3	1299	hgsc.bcm.edu	37	20	61460124	61460124	+	Silent	SNP	G	G	A	rs2249903	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	36	60	0	0.529412	0	G|0.833;A|0.167	0.167	strong	COL9A3,right_lower_lobe,carcinoma,+1,1	COL9A3	70	1	NM_001853	exon18	c.G909A	p.P303P	CATGCCGGGCAAG	.	PASS	Atlas-SNP
AR	367	hgsc.bcm.edu	37	X	66765627	66765627	+	Silent	SNP	G	G	A	rs6152	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	45	50	0	0.9	0	G|0.700;A|0.300	0.300	strong	.	AR	249	.	NM_000044	exon1	c.G639A	p.E213E	GAGGGAGGCCTCG	.	PASS	Atlas-SNP
FERMT1	55612	hgsc.bcm.edu	37	20	6088265	6088265	+	Missense_Mutation	SNP	G	G	A	rs62200482	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	71	193	0	0.37766	0	G|0.936;A|0.064	0.064	strong	.	FERMT1	106	.	NM_017671	exon6	c.C763T	p.R255C	GGGAGCGTGAGGA	.	PASS	Atlas-SNP
ALOX15B	247	hgsc.bcm.edu	37	17	7948175	7948175	+	Silent	SNP	C	C	T	rs6503070	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	151	128	0	0.980519	0	A|0.000;C|0.449;T|0.551	0.551	strong	ALOX15B,NS,carcinoma,0,1	ALOX15B	66	1	NM_001141	exon6	c.C705T	p.D235D	GGAGGACGCCTTC	.	PASS	Atlas-SNP
MAP1B	4131	hgsc.bcm.edu	37	5	71494931	71494931	+	Missense_Mutation	SNP	A	A	C	rs13153166	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	39	49	0	0.5	0	A|0.974;C|0.026	0.026	strong	.	MAP1B	243	.	NM_005909	exon5	c.A5749C	p.S1917R	TCTCCAAGTGACA	.	PASS	Atlas-SNP
EHBP1L1	254102	hgsc.bcm.edu	37	11	65349756	65349756	+	Missense_Mutation	SNP	T	T	G	rs6591182	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	78	153	0	0.448276	0	T|0.577;G|0.423	0.423	strong	.	EHBP1L1	64	.	NM_001099409	exon9	c.T1613G	p.V538G	CCCAGGTGAGCAG	.	PASS	Atlas-SNP
SSUH2	51066	hgsc.bcm.edu	37	3	8675539	8675539	+	Missense_Mutation	SNP	G	G	A	rs2276800	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	138	102	1	0.951724	0.00980392	G|0.689;A|0.311	0.311	strong	C3orf32,NS,carcinoma,0,2	.	.	2	NM_015931	exon4	c.C86T	p.P29L	TCACGCGGGCCAG	.	scavenged	Atlas-SNP
ZNF418	147686	hgsc.bcm.edu	37	19	58437773	58437773	+	Silent	SNP	T	T	C	rs184676943	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	15	114	0	0.172414	0	T|0.988;C|0.012	0.012	strong	.	ZNF418	76	.	NM_133460	exon4	c.A1776G	p.E592E	CCTGCATTCATAA	.	PASS	Atlas-SNP
KLHDC7A	127707	hgsc.bcm.edu	37	1	18807536	18807536	+	Missense_Mutation	SNP	G	G	T	rs7512414	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	326	149	278	0	0.457055	0	G|0.888;T|0.112	0.112	strong	.	KLHDC7A	60	.	NM_152375	exon1	c.G61T	p.V21L	GGCAAGGTGGTGC	.	PASS	Atlas-SNP
ZNF655	79027	hgsc.bcm.edu	37	7	99159522	99159522	+	Missense_Mutation	SNP	C	C	G	rs141089610	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	31	84	0	0.303922	0	C|0.988;G|0.012	0.012	strong	ZNF655_ENST00000320583,NS,lymphoid_neoplasm,0,1	ZNF655	75	1	NM_024061	exon3	c.C148G	p.P50A	CCTGTTCCTCAGG	.	PASS	Atlas-SNP
PLEKHO2	80301	hgsc.bcm.edu	37	15	65157482	65157482	+	Missense_Mutation	SNP	C	C	T	rs2010875	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	33	80	0	0.423077	0	T|0.220;G|0.000;C|0.779	0.220	strong	.	PLEKHO2	50	.	NM_025201	exon6	c.C868T	p.P290S	GCAGAACCGTCCC	.	PASS	Atlas-SNP
CPPED1	55313	hgsc.bcm.edu	37	16	12897578	12897578	+	Missense_Mutation	SNP	G	G	T	rs3748976	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	43	77	0	0.43	0	G|0.651;T|0.349	0.349	strong	.	CPPED1	41	.	NM_001099455	exon1	c.C56A	p.A19D	AACGCGGCCAGGG	.	PASS	Atlas-SNP
HLA-DPA1	3113	hgsc.bcm.edu	37	6	33037580	33037580	+	Missense_Mutation	SNP	T	T	G	rs2308911	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	63	182	0	0.381818	0	T|0.716;G|0.284	0.284	strong	.	HLA-DPA1	20	.	NM_033554	exon2	c.A184C	p.M62L	AGAACATCTCATC	.	PASS	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	37	8	113841971	113841971	+	Silent	SNP	A	A	G	rs142880481	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	35	66	0	0.460526	0	A|0.999;G|0.001	0.001	strong	.	CSMD3	2325	.	NM_198123	exon12	c.T1803C	p.D601D	CAAGGTATCATAG	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324664	31324664	+	Silent	SNP	T	T	G	rs9266184	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	61	77	0	0.455224	0	G|0.111;T|0.889	0.111	strong	.	HLA-B	54	.	NM_005514	exon2	c.A144C	p.S48S	GCCCACTGAGATG	.	PASS	Atlas-SNP
PMFBP1	83449	hgsc.bcm.edu	37	16	72184566	72184566	+	Missense_Mutation	SNP	C	C	T	rs35370634	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	73	134	0	0.396739	0	C|0.891;T|0.109	0.109	strong	.	PMFBP1	101	.	NM_031293	exon5	c.G577A	p.E193K	GTAACTCGATGTT	.	PASS	Atlas-SNP
SON	6651	hgsc.bcm.edu	37	21	34945721	34945721	+	Silent	SNP	T	T	C	rs3174808	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	63	154	0	0.538462	0	T|0.696;C|0.304	0.304	strong	.	SON	343	.	NM_138927	exon9	c.T6993C	p.N2331N	AGGCAATAAGGAA	.	PASS	Atlas-SNP
VN1R2	317701	hgsc.bcm.edu	37	19	53761740	53761740	+	Missense_Mutation	SNP	T	T	C	rs2965249	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	28	65	0	0.459016	0	T|0.678;C|0.322	0.322	strong	.	VN1R2	71	.	NM_173856	exon1	c.T112C	p.C38R	TATCAGTGCAGCC	.	PASS	Atlas-SNP
CRIP1	1396	hgsc.bcm.edu	37	14	105954705	105954705	+	Missense_Mutation	SNP	C	C	T	rs55633823	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	232	147	150	0	0.633621	0	C|0.838;T|0.162	0.162	strong	.	CRIP1	1	.	NM_001311	exon4	c.C173T	p.A58V	GCTACGCAGCCAT	.	PASS	Atlas-SNP
ODF4	146852	hgsc.bcm.edu	37	17	8243598	8243598	+	Missense_Mutation	SNP	C	C	T	rs73250854	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	40	105	0	0.444444	0	C|0.881;T|0.119	0.119	strong	ODF4,colon,carcinoma,0,1	ODF4	23	1	NM_153007	exon1	c.C229T	p.R77C	AGCTTCCGCTGGA	.	PASS	Atlas-SNP
SPPL2C	162540	hgsc.bcm.edu	37	17	43923683	43923683	+	Missense_Mutation	SNP	A	A	G	rs12185268	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	56	99	0	0.41791	0	A|0.853;G|0.147	0.147	strong	.	.	.	.	NM_175882	exon1	c.A1411G	p.I471V	CGTCAGATCTACT	.	PASS	Atlas-SNP
OR10AG1	282770	hgsc.bcm.edu	37	11	55735813	55735813	+	Missense_Mutation	SNP	G	G	C	rs80245253	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	49	147	0	0.316129	0	G|0.951;C|0.049	0.049	strong	.	OR10AG1	100	.	NM_001005491	exon1	c.C127G	p.H43D	CGGGGTGAATTTT	.	PASS	Atlas-SNP
ZNF385D	79750	hgsc.bcm.edu	37	3	21462880	21462880	+	Silent	SNP	A	A	G	rs4455340	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	29	35	0	0.591837	0	A|0.722;G|0.278	0.278	strong	.	ZNF385D	93	.	NM_024697	exon8	c.T1014C	p.N338N	TAGAGGATTTGGT	.	PASS	Atlas-SNP
GPR75	10936	hgsc.bcm.edu	37	2	54081548	54081548	+	Missense_Mutation	SNP	C	C	T	rs34000641	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	77	110	0	0.5	0	C|0.975;T|0.025	0.025	strong	.	GPR75	55	.	NM_006794	exon2	c.G346A	p.A116T	AGAAAGCATCCGG	.	PASS	Atlas-SNP
MMP27	64066	hgsc.bcm.edu	37	11	102562700	102562700	+	Missense_Mutation	SNP	C	C	T	rs2509010	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	26	84	0	0.305882	0	C|0.800;T|0.200	0.200	strong	.	MMP27	84	.	NM_022122	exon10	c.G1339A	p.D447N	TAATGTCGTATTC	.	PASS	Atlas-SNP
LONRF2	164832	hgsc.bcm.edu	37	2	100916306	100916306	+	Silent	SNP	A	A	G	rs2033748	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	53	129	0	0.40458	0	A|0.270;G|0.730	0.730	strong	.	LONRF2	62	.	NM_198461	exon5	c.T1140C	p.F380F	CTCTTCAAAGTGT	.	PASS	Atlas-SNP
WDR65	149465	hgsc.bcm.edu	37	1	43649393	43649393	+	Silent	SNP	T	T	C	rs663336	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	150	165	0	0.993378	0	T|0.801;C|0.199	0.199	strong	.	WDR65	76	.	NM_152498	exon4	c.T606C	p.A202A	TCTAGCTCACACC	.	PASS	Atlas-SNP
GAB2	9846	hgsc.bcm.edu	37	11	77936166	77936166	+	Silent	SNP	A	A	G	rs1385600	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	49	76	0	0.550562	0	A|0.691;G|0.309	0.309	strong	.	GAB2	63	.	NM_080491	exon5	c.T1290C	p.V430V	AGAGCCAACTCCA	.	PASS	Atlas-SNP
NIN	51199	hgsc.bcm.edu	37	14	51192659	51192659	+	Silent	SNP	G	G	A	rs1983764	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	246	126	239	0	0.512195	0	G|0.744;A|0.256	0.256	strong	.	NIN	475	.	NM_182946	exon30	c.C6204T	p.P2068P	ATGACCGGGTAGG	.	PASS	Atlas-SNP
TMCC3	57458	hgsc.bcm.edu	37	12	94972290	94972290	+	Silent	SNP	C	C	T	rs2270893	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	59	70	0	0.983333	0	C|0.474;T|0.526	0.526	strong	TMCC3,NS,carcinoma,0,1	TMCC3	63	1	NM_020698	exon3	c.G1011A	p.E337E	CTGGTCCTCCAGT	.	PASS	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	37	8	110447469	110447469	+	Missense_Mutation	SNP	G	G	A	rs376326343		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	80	142	0	0.462428	0	.	.	weak	.	PKHD1L1	522	.	NM_177531	exon29	c.G3391A	p.V1131I	GCCCCCGTTGCTG	.	PASS	Atlas-SNP
EPHA10	284656	hgsc.bcm.edu	37	1	38186189	38186189	+	Missense_Mutation	SNP	C	C	T	rs6671088	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	301	142	271	0	0.471761	0	C|0.875;T|0.125	0.125	strong	EPHA10,NS,carcinoma,0,2	EPHA10	120	2	NM_001099439	exon13	c.G2246A	p.G749E	AGCAACCCCATCA	.	PASS	Atlas-SNP
LTA	4049	hgsc.bcm.edu	37	6	31540556	31540556	+	Missense_Mutation	SNP	T	T	C	rs2229094	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	24	57	0	0.470588	0	T|0.737;C|0.263	0.263	strong	.	LTA	18	.	NM_001159740	exon2	c.T37C	p.C13R	AGGGTGTGTGGCA	.	PASS	Atlas-SNP
GNA13	10672	hgsc.bcm.edu	37	17	63010494	63010494	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	127	309	0	0.863946	0	.	.	none	.	GNA13	69	.	NM_006572	exon4	c.C1015T	p.Q339X	GCTTCTGTTGCTG	.	PASS	Atlas-SNP
MYO16	23026	hgsc.bcm.edu	37	13	109793246	109793246	+	Silent	SNP	G	G	C	rs80260507	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	33	18	40	0	0.545455	0	G|0.933;C|0.067	0.067	strong	MYO16,NS,carcinoma,0,2	MYO16	285	2	NM_001198950	exon32	c.G4686C	p.P1562P	GTCCCCGCAGTAC	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150945862	150945862	+	Silent	SNP	A	A	G	rs3734057	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	202	201	168	0	0.995049	0	A|0.526;G|0.474	0.474	strong	.	FAT2	465	.	NM_001447	exon1	c.T2631C	p.V877V	TCCTGTAACAACC	.	PASS	Atlas-SNP
KRTAP5-5	439915	hgsc.bcm.edu	37	11	1651199	1651199	+	Silent	SNP	A	A	G	rs144216147		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	20	16	53	5	0.8	0.0943396	.	.	weak	KRTAP5-5,NS,neuroblastoma,0,1	KRTAP5-5	86	1	NM_001001480	exon1	c.A129G	p.G43G	CTGTGGAGGCTGT	.	scavenged	Atlas-SNP
KRT74	121391	hgsc.bcm.edu	37	12	52966428	52966428	+	Missense_Mutation	SNP	G	G	C	rs11170177	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	92	172	0	0.522727	0	G|0.933;C|0.067	0.067	strong	.	KRT74	67	.	NM_175053	exon2	c.C495G	p.N165K	AACCTGGTTCTGC	.	PASS	Atlas-SNP
PNISR	25957	hgsc.bcm.edu	37	6	99848998	99848998	+	Silent	SNP	A	A	C	rs369239036		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	83	113	0	0.506098	0	.	.	weak	.	PNISR	74	.	NM_015491	exon11	c.T1836G	p.P612P	TCGGGAAGGACTC	.	PASS	Atlas-SNP
GFER	2671	hgsc.bcm.edu	37	16	2035907	2035907	+	Missense_Mutation	SNP	T	T	C	rs36041021	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	35	44	0	0.530303	0	T|0.938;C|0.062	0.062	strong	.	GFER	8	.	NM_005262	exon3	c.T496C	p.F166L	GCATGCTTCACAC	.	PASS	Atlas-SNP
ACSBG1	23205	hgsc.bcm.edu	37	15	78471110	78471110	+	Silent	SNP	G	G	A	rs17850484	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	38	68	0	0.527778	0	G|0.936;A|0.064	0.064	strong	.	ACSBG1	79	.	NM_015162	exon11	c.C1548T	p.G516G	GATCTCGCCAATG	.	PASS	Atlas-SNP
FRG1	2483	hgsc.bcm.edu	37	4	190878626	190878626	+	Missense_Mutation	SNP	G	G	A	rs71229055		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	317	15	290	1	0.0473186	0.00344828	G|0.500;A|0.500	0.500	weak	FRG1,NS,carcinoma,+1,3	FRG1	76	3	NM_004477	exon6	c.G506A	p.S169N	CAAAAAGTAAAAC	.	scavenged	Atlas-SNP
OR2T2	401992	hgsc.bcm.edu	37	1	248616764	248616764	+	Silent	SNP	C	C	T	rs77869864	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	539	14	429	1	0.025974	0.002331	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
C19orf45	374877	hgsc.bcm.edu	37	19	7570990	7570990	+	Silent	SNP	A	A	G	rs685048	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	38	87	0	0.383838	0	A|0.618;G|0.382	0.382	strong	.	C19orf45	36	.	NM_198534	exon7	c.A1146G	p.R382R	GTGGAGACAGGTG	.	PASS	Atlas-SNP
EFCAB12	90288	hgsc.bcm.edu	37	3	129137127	129137127	+	Silent	SNP	G	G	A	rs3796392	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	58	110	0	0.5	0	G|0.851;A|0.149	0.149	strong	.	.	.	.	NM_207307	exon3	c.C651T	p.T217T	CTCCCTGGTGATT	.	PASS	Atlas-SNP
LINS	55180	hgsc.bcm.edu	37	15	101110302	101110302	+	Missense_Mutation	SNP	C	C	G	rs2411837	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	5	3	1	0	0.6	0	C|0.688;G|0.310	0.310	strong	LINS,NS,carcinoma,0,1	LINS	62	1	NM_001040616	exon7	c.G1415C	p.S472T	GTCAAGCTTTCAG	.	scavenged	Atlas-SNP
CCDC147	159686	hgsc.bcm.edu	37	10	106152111	106152111	+	Missense_Mutation	SNP	T	T	A	rs11192036	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	33	30	80	0	0.909091	0	T|0.767;A|0.233	0.233	strong	.	CCDC147	137	.	NM_001008723	exon10	c.T1486A	p.S496T	GTGAGATCAGACA	.	PASS	Atlas-SNP
FAM120B	84498	hgsc.bcm.edu	37	6	170627651	170627651	+	Silent	SNP	G	G	A	rs9460113	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	60	68	0	0.983607	0	G|0.427;A|0.573	0.573	strong	.	FAM120B	108	.	NM_032448	exon2	c.G1173A	p.T391T	TCCCACGTGTACA	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225534348	225534348	+	Missense_Mutation	SNP	G	G	A	rs7535953	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	83	179	0	0.497006	0	G|0.499;A|0.501	0.501	strong	.	DNAH14	300	.	NM_001373	exon69	c.G11009A	p.R3670K	AGTCTAGACTTAC	.	PASS	Atlas-SNP
MGAM	8972	hgsc.bcm.edu	37	7	141755358	141755358	+	Silent	SNP	T	T	C	rs67998329	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	94	108	1	0.989474	0.00925926	T|0.776;C|0.224	0.224	strong	.	MGAM	767	.	NM_004668	exon28	c.T3315C	p.I1105I	TTTCAGTTGGGAC	.	PASS	Atlas-SNP
BEGAIN	57596	hgsc.bcm.edu	37	14	101005215	101005215	+	Silent	SNP	T	T	C	rs12893951	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	13	45	0	0.361111	0	T|0.388;C|0.612	0.612	strong	.	BEGAIN	32	.	NM_020836	exon7	c.A873G	p.A291A	TGAGCCTGCGTAG	.	PASS	Atlas-SNP
UGT2A2	574537	hgsc.bcm.edu	37	4	70462042	70462042	+	Missense_Mutation	SNP	C	C	T	rs4148301	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	51	82	0	0.520408	0	C|0.916;T|0.084	0.084	strong	.	.	.	.	NM_001105677	exon3	c.G949A	p.G317R	TTGATCCCAGAGA	.	PASS	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	37	22	29885564	29885564	+	Silent	SNP	A	A	G	rs202065964	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	42	15	46	1	0.357143	0.0217391	.	.	weak	NEFH,rectum,carcinoma,0,1	NEFH	178	1	NM_021076	exon4	c.A1935G	p.E645E	GGAGGAAGCAAAG	.	scavenged	Atlas-SNP
PLEKHG2	64857	hgsc.bcm.edu	37	19	39907036	39907036	+	Silent	SNP	C	C	T	rs2277743	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	34	66	0	0.447368	0	C|0.826;T|0.174	0.174	strong	.	PLEKHG2	329	.	NM_022835	exon5	c.C528T	p.A176A	TATTGCCGAGTGC	.	PASS	Atlas-SNP
CCAR1	55749	hgsc.bcm.edu	37	10	70502288	70502288	+	Silent	SNP	G	G	A	rs1300253	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	291	291	302	0	1	0	G|0.135;A|0.865	0.865	strong	CCAR1,NS,carcinoma,+1,1	CCAR1	118	1	NM_018237	exon6	c.G480A	p.T160T	TGATACGTTTGGA	.	PASS	Atlas-SNP
UBA6	55236	hgsc.bcm.edu	37	4	68500171	68500171	+	Silent	SNP	A	A	G	rs10008910	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	24	48	0	0.48	0	A|0.851;G|0.149	0.149	strong	.	UBA6	98	.	NM_018227	exon21	c.T1908C	p.H636H	TATGGTATGTTCA	.	PASS	Atlas-SNP
PCDHA12	56137	hgsc.bcm.edu	37	5	140256920	140256920	+	Silent	SNP	G	G	C	rs115718636	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	230	110	282	4	0.478261	0.0141844	G|0.959;C|0.041	0.041	strong	PCDHA12,colon,carcinoma,0,2	PCDHA12	196	2	NM_018903	exon1	c.G1863C	p.P621P	CATCCCGTTCCAC	.	scavenged	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25075859	25075859	+	Silent	SNP	C	C	T	rs1539096	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	164	166	1	1	0.0060241	C|0.431;T|0.569	0.569	strong	.	PARP4	142	.	NM_006437	exon3	c.G246A	p.R82R	CTTTTCCCTGATA	.	PASS	Atlas-SNP
TMTC4	84899	hgsc.bcm.edu	37	13	101266580	101266580	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	305	141	288	1	0.462295	0.00347222	.	.	none	.	TMTC4	103	.	NM_032813	exon16	c.C1941T	p.L647L	ATTGTCGAGGAGT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	192	186	0	1	0	G|0.289;A|0.711	0.711	strong	.	SLCO1B3	151	.	NM_019844	exon8	c.G699A	p.M233I	TAAAATGTACGTG	.	PASS	Atlas-SNP
N4BP2	55728	hgsc.bcm.edu	37	4	40122453	40122453	+	Missense_Mutation	SNP	C	C	T	rs78417585	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	263	132	254	0	0.501901	0	C|0.992;T|0.008	0.008	strong	N4BP2,NS,carcinoma,0,1	N4BP2	166	1	NM_018177	exon9	c.C2722T	p.P908S	AGTGAGCCCAACC	.	PASS	Atlas-SNP
CEACAM16	388551	hgsc.bcm.edu	37	19	45206695	45206695	+	Silent	SNP	G	G	A	rs894189	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	91	158	0	0.538462	0	G|0.889;A|0.111	0.111	strong	.	CEACAM16	56	.	NM_001039213	exon3	c.G114A	p.T38T	CGTCACGCTGGTC	.	PASS	Atlas-SNP
HLA-DPB1	3115	hgsc.bcm.edu	37	6	33052768	33052768	+	Silent	SNP	T	T	C	rs1042187	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	351	119	430	2	0.339031	0.00465116	A|0.000;C|0.386;G|0.000;T|0.614	0.386	strong	HLA-DPB1,rectum,carcinoma,0,1	HLA-DPB1	28	1	NM_002121	exon3	c.T406C	p.L136L	GGGCCCTTGCAGC	.	scavenged	Atlas-SNP
ATF7IP	55729	hgsc.bcm.edu	37	12	14577892	14577892	+	Missense_Mutation	SNP	A	A	T	rs2231909	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	35	58	0	0.472973	0	A|0.678;T|0.322	0.322	strong	.	ATF7IP	136	.	NM_018179	exon2	c.A1043T	p.N348I	ATGCTAATGAAGA	.	PASS	Atlas-SNP
SARDH	1757	hgsc.bcm.edu	37	9	136561367	136561367	+	Silent	SNP	G	G	A	rs2502740	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	28	55	0	0.459016	0	G|0.744;A|0.256	0.256	strong	SARDH,NS,carcinoma,0,1	SARDH	112	1	NM_007101	exon14	c.C1785T	p.S595S	ATCTGCGGAGAAG	.	PASS	Atlas-SNP
CHRD	8646	hgsc.bcm.edu	37	3	184102396	184102396	+	Silent	SNP	C	C	T	rs16858778	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	27	59	0	0.385714	0	C|0.909;T|0.091	0.091	strong	.	CHRD	149	.	NM_003741	exon13	c.C1512T	p.N504N	CCTGAACGTGGGC	.	PASS	Atlas-SNP
GRIK2	2898	hgsc.bcm.edu	37	6	102483356	102483356	+	Silent	SNP	C	C	A	rs3213607	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	240	234	228	0	0.975	0	C|0.933;A|0.067	0.067	strong	.	GRIK2	487	.	NM_021956	exon14	c.C2226A	p.I742I	AACCATCGAGTTT	.	PASS	Atlas-SNP
TBC1D2B	23102	hgsc.bcm.edu	37	15	78317679	78317679	+	Silent	SNP	C	C	T	rs148026593	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	66	128	0	0.589286	0	C|0.999;T|0.001	0.001	strong	TBC1D2B_ENST00000300584,NS,carcinoma,0,2	TBC1D2B	104	2	NM_144572	exon5	c.G1008A	p.P336P	GGAGGCCGGCTTC	.	PASS	Atlas-SNP
SLX4	84464	hgsc.bcm.edu	37	16	3656482	3656482	+	Silent	SNP	C	C	T	rs8061528	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	105	161	0	0.555556	0	C|0.767;T|0.233	0.233	strong	.	SLX4	173	.	NM_032444	exon3	c.G753A	p.A251A	ATTCCCCGCCATC	.	PASS	Atlas-SNP
DAGLA	747	hgsc.bcm.edu	37	11	61505168	61505168	+	Silent	SNP	G	G	A	rs198444	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	121	124	1	0.991803	0.00806452	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
PARP15	165631	hgsc.bcm.edu	37	3	122345870	122345870	+	Silent	SNP	C	C	T	rs17208928	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	253	107	276	0	0.422925	0	C|0.878;T|0.122	0.122	strong	.	PARP15	115	.	NM_001113523	exon9	c.C1428T	p.S476S	ATTCTCCATGACT	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238135	31238135	+	Silent	SNP	G	G	A	rs1050317	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	99	197	1	0.970588	0.00507614	G|0.266;A|0.734	0.734	strong	.	HLA-C	92	.	NM_002117	exon4	c.C747T	p.T249T	GTCCTGGGTCTGG	.	PASS	Atlas-SNP
FAM20A	54757	hgsc.bcm.edu	37	17	66539847	66539847	+	Silent	SNP	C	C	T	rs2286562	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	75	159	0	0.457317	0	C|0.814;T|0.186	0.186	strong	FAM20A,NS,carcinoma,0,1	FAM20A	35	1	NM_017565	exon5	c.G735A	p.E245E	TGTCTCCTCATCT	.	PASS	Atlas-SNP
ZNF366	167465	hgsc.bcm.edu	37	5	71756102	71756102	+	Silent	SNP	G	G	A	rs7721922	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	253	133	182	0	0.525692	0	G|0.553;A|0.447	0.447	strong	ZNF366,NS,adenoma,0,1	ZNF366	108	1	NM_152625	exon2	c.C1222T	p.L408L	TCTGCAGCTGGCT	.	PASS	Atlas-SNP
NOX5	79400	hgsc.bcm.edu	37	15	69328226	69328226	+	Missense_Mutation	SNP	C	C	T	rs12907196	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	62	94	0	0.574074	0	C|0.650;T|0.350	0.350	strong	.	NOX5	60	.	NM_024505	exon7	c.C1138T	p.L380F	CTCCTCCTCATGT	.	PASS	Atlas-SNP
ACAD9	28976	hgsc.bcm.edu	37	3	128614185	128614185	+	Silent	SNP	A	A	C	rs1680778	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	96	119	0	0.527473	0	A|0.502;C|0.498	0.498	strong	.	ACAD9	51	.	NM_014049	exon4	c.A379C	p.R127R	TACTCAAGACTAG	.	PASS	Atlas-SNP
ATHL1	80162	hgsc.bcm.edu	37	11	290918	290918	+	Silent	SNP	G	G	A	rs72636978	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	205	112	168	0	0.546341	0	G|0.895;A|0.105	0.105	strong	.	ATHL1	88	.	NM_025092	exon4	c.G711A	p.Q237Q	GGCCCAGCTCTGG	.	PASS	Atlas-SNP
NRAP	4892	hgsc.bcm.edu	37	10	115411598	115411598	+	Silent	SNP	C	C	A	rs4918861	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	64	99	0	0.5	0	C|0.712;A|0.288	0.288	strong	.	NRAP	208	.	NM_001261463	exon7	c.G639T	p.L213L	CCGTAGCAGCTCA	.	PASS	Atlas-SNP
CPAMD8	27151	hgsc.bcm.edu	37	19	17108136	17108136	+	Missense_Mutation	SNP	G	G	A	rs61744196	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	56	129	0	0.41791	0	G|0.969;A|0.031	0.031	strong	.	CPAMD8	192	.	NM_015692	exon11	c.C1021T	p.R341W	AGTCCCGGGAGCC	.	PASS	Atlas-SNP
DNAAF1	123872	hgsc.bcm.edu	37	16	84209815	84209815	+	Missense_Mutation	SNP	C	C	G	rs2288021	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	52	112	0	0.530612	0	C|0.848;G|0.152	0.152	strong	.	DNAAF1	81	.	NM_178452	exon11	c.C1975G	p.L659V	GGCCAGCTACTGA	.	PASS	Atlas-SNP
ASB5	140458	hgsc.bcm.edu	37	4	177138061	177138061	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	225	4	199	0	0.0177778	0	.	.	none	ASB5,NS,carcinoma,0,1	ASB5	88	1	NM_080874	exon6	c.C770A	p.A257E	ATATCTGCTCCAA	.	scavenged	Atlas-SNP
KL	9365	hgsc.bcm.edu	37	13	33634983	33634983	+	Silent	SNP	C	C	T	rs564481	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	116	164	0	1	0	C|0.704;T|0.296	0.296	strong	.	KL	106	.	NM_004795	exon4	c.C1767T	p.H589H	AATGCACGTTACA	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13719022	13719022	+	Silent	SNP	T	T	G	rs30169	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	239	238	224	2	0.995816	0.00892857	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
MGAM	8972	hgsc.bcm.edu	37	7	141796215	141796215	+	Silent	SNP	T	T	C	rs199885850		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	295	8	268	0	0.0271186	0	.	.	weak	MGAM_ENST00000549489,NS,carcinoma,+2,6	MGAM	767	6	NM_004668	exon42	c.T5004C	p.R1668R	GGAGCGTGTGAGT	.	scavenged	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40364280	40364280	+	Missense_Mutation	SNP	G	G	A	rs113103150	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	82	108	0	0.5	0	G|0.977;A|0.023	0.023	strong	.	FCGBP	416	.	NM_003890	exon31	c.C14362T	p.P4788S	CCACGGGTACGCA	.	PASS	Atlas-SNP
ZNF333	84449	hgsc.bcm.edu	37	19	14829749	14829749	+	Missense_Mutation	SNP	C	C	T	rs3764626	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	53	96	0	0.535354	0	C|0.613;T|0.387	0.387	strong	.	ZNF333	76	.	NM_032433	exon12	c.C1610T	p.A537V	AGTGCGCGACTTG	.	PASS	Atlas-SNP
NKAPL	222698	hgsc.bcm.edu	37	6	28227436	28227436	+	Missense_Mutation	SNP	A	A	G	rs12000	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	32	66	0	0.470588	0	A|0.613;G|0.387	0.387	strong	.	NKAPL	72	.	NM_001007531	exon1	c.A287G	p.Y96C	ATCGCTACCATCG	.	PASS	Atlas-SNP
SIGLEC10	89790	hgsc.bcm.edu	37	19	51919302	51919302	+	Missense_Mutation	SNP	T	T	C	rs201376644	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	17	84	0	0.157407	0	T|0.998;C|0.002	0.002	strong	SIGLEC12_ENST00000439889,rectum,carcinoma,0,2	SIGLEC10	112	2	NM_001171157	exon5	c.A874G	p.N292D	CTCTGTTCTGCAG	.	PASS	Atlas-SNP
SPAG17	200162	hgsc.bcm.edu	37	1	118644524	118644524	+	Missense_Mutation	SNP	T	T	A	rs17185492	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	56	153	1	0.373333	0.00653595	T|0.860;A|0.140	0.140	strong	SPAG17,NS,adenoma,0,1	SPAG17	263	1	NM_206996	exon5	c.A473T	p.E158V	TCCTTTTCTAACT	.	scavenged	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240729	39240729	+	Missense_Mutation	SNP	A	A	G	rs200532954	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	23	38	3	0.396552	0.0789474	.	.	weak	KRTAP4-9_ENST00000377734,bladder,carcinoma,0,4	KRTAP4-7	49	4	NM_033061	exon1	c.A271G	p.M91V	TGCTGTATGTCCA	.	scavenged	Atlas-SNP
ZNF470	388566	hgsc.bcm.edu	37	19	57085769	57085769	+	Missense_Mutation	SNP	G	G	C	rs10421285	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	68	139	0	0.472222	0	G|0.566;C|0.434	0.434	strong	ZNF470,NS,carcinoma,0,1	ZNF470	103	1	NM_001001668	exon4	c.G67C	p.V23L	GGTTCAGTGACTT	.	PASS	Atlas-SNP
SLC25A22	79751	hgsc.bcm.edu	37	11	793588	793588	+	Silent	SNP	G	G	A	rs80335370	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	46	25	44	0	0.543478	0	G|0.918;A|0.082	0.082	strong	SLC25A22,NS,carcinoma,0,1	SLC25A22	19	1	NM_001191061	exon5	c.C234T	p.P78P	CTTCTCGGGGGTG	.	PASS	Atlas-SNP
VAV2	7410	hgsc.bcm.edu	37	9	136643994	136643994	+	Missense_Mutation	SNP	T	T	C	rs602990	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	88	58	1	1	0.0172414	T|0.441;C|0.559	0.559	strong	VAV2,NS,carcinoma,0,1	VAV2	165	1	NM_001134398	exon22	c.A1780G	p.M594V	TCTGCATGGCCAC	.	scavenged	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150946132	150946132	+	Silent	SNP	G	G	A	rs3734059	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	75	71	0	1	0	G|0.527;A|0.473	0.473	strong	.	FAT2	465	.	NM_001447	exon1	c.C2361T	p.I787I	ATTGAGGATGTAG	.	PASS	Atlas-SNP
TRPM3	80036	hgsc.bcm.edu	37	9	73240431	73240431	+	Silent	SNP	T	T	G	rs73451725	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	218	107	214	0	0.490826	0	T|0.873;G|0.127	0.127	strong	.	TRPM3	700	.	NM_206945	exon13	c.A1176C	p.R392R	ATACTCTCGCTTG	.	PASS	Atlas-SNP
MS4A12	54860	hgsc.bcm.edu	37	11	60265002	60265002	+	Nonsense_Mutation	SNP	C	C	T	rs2298553	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	53	132	0	0.445378	0	C|0.541;N|0.000	.	strong	.	MS4A12	44	.	NM_017716	exon2	c.C211T	p.Q71X	AATATACAAATGA	.	PASS	Atlas-SNP
ILF2	3608	hgsc.bcm.edu	37	1	153635022	153635022	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	71	87	0	0.467105	0	.	.	none	.	ILF2	25	.	NM_004515	exon14	c.T1023C	p.S341S	TATTTCAGAAGCA	.	PASS	Atlas-SNP
C9	735	hgsc.bcm.edu	37	5	39364554	39364554	+	Missense_Mutation	SNP	G	G	A	rs700233	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	29	46	0	0.557692	0	G|0.675;A|0.325	0.325	strong	.	C9	116	.	NM_001737	exon1	c.C13T	p.R5W	AGCTCCGGCAGGC	.	PASS	Atlas-SNP
KLHDC7A	127707	hgsc.bcm.edu	37	1	18808526	18808526	+	Missense_Mutation	SNP	A	A	C	rs2992752	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	53	57	0	0.981481	0	A|0.310;C|0.690	0.690	strong	KLHDC7A,NS,carcinoma,0,1	KLHDC7A	60	1	NM_152375	exon1	c.A1051C	p.T351P	CCGCAGACAGGGC	.	PASS	Atlas-SNP
PTPN23	25930	hgsc.bcm.edu	37	3	47452786	47452786	+	Silent	SNP	G	G	A	rs1531875	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	37	64	0	0.521127	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
ARSH	347527	hgsc.bcm.edu	37	X	2928125	2928125	+	Silent	SNP	C	C	T	rs79487908	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	125	141	0	0.932836	0	C|0.959;T|0.041	0.041	strong	.	ARSH	72	.	NM_001011719	exon2	c.C147T	p.L49L	GCATCTCGCAGCT	.	PASS	Atlas-SNP
FBXW10	10517	hgsc.bcm.edu	37	17	18682399	18682399	+	Missense_Mutation	SNP	A	A	G	rs147994056	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	367	20	531	3	0.0544959	0.00564972	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
SDK2	54549	hgsc.bcm.edu	37	17	71380062	71380062	+	Missense_Mutation	SNP	G	G	A	rs35467001	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	78	153	0	0.464286	0	G|0.944;A|0.056	0.056	strong	.	SDK2	219	.	NM_001144952	exon33	c.C4658T	p.T1553M	CGAAGCGTGAAGC	.	PASS	Atlas-SNP
SEC63	11231	hgsc.bcm.edu	37	6	108222673	108222673	+	Missense_Mutation	SNP	G	G	A	rs192072257	by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	237	115	243	0	0.485232	0	G|1.000;A|0.000	0.000	strong	SEC63,NS,carcinoma,0,2	SEC63	79	2	NM_007214	exon13	c.C1258T	p.R420C	TGTGACGATCTGA	.	PASS	Atlas-SNP
BAI2	576	hgsc.bcm.edu	37	1	32196647	32196647	+	Silent	SNP	C	C	G	rs909001	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	24	47	0	0.510638	0	C|0.675;G|0.325	0.325	strong	.	BAI2	128	.	NM_001703	exon29	c.G4134C	p.P1378P	CCCCTCCGGCCGG	.	PASS	Atlas-SNP
KCNA4	3739	hgsc.bcm.edu	37	11	30033191	30033191	+	Silent	SNP	G	G	A	rs3802914	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	57	116	0	0.491379	0	G|0.833;A|0.167	0.167	strong	.	KCNA4	158	.	NM_002233	exon2	c.C1035T	p.G345G	ATGCCCGCCAGCA	.	PASS	Atlas-SNP
SLC43A2	124935	hgsc.bcm.edu	37	17	1479963	1479963	+	Silent	SNP	G	G	A	rs142934102		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	25	14	36	0	0.56	0	G|1.000;A|0.000	0.000	weak	.	SLC43A2	37	.	NM_152346	exon13	c.C1476T	p.S492S	GAGCGCGCTGATC	.	PASS	Atlas-SNP
FBXO36	130888	hgsc.bcm.edu	37	2	230861519	230861519	+	Missense_Mutation	SNP	G	G	T	rs1035834	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	227	92	209	0	0.405286	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
CCT5	22948	hgsc.bcm.edu	37	5	10256161	10256161	+	Silent	SNP	T	T	C	rs1042392	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	132	100	0	0.970588	0	T|0.255;C|0.745	0.745	strong	.	CCT5	49	.	NM_012073	exon4	c.T426C	p.R142R	TGCTCGTGTTGCT	.	PASS	Atlas-SNP
BPIFB3	359710	hgsc.bcm.edu	37	20	31652292	31652292	+	Missense_Mutation	SNP	G	G	A	rs4911290	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	118	156	0	0.991597	0	G|0.588;A|0.412	0.412	strong	.	.	.	.	NM_182658	exon7	c.G682A	p.V228M	GGGTCCGTGGAAT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	52	101	0	0.468468	0	A|0.519;G|0.481	0.481	strong	.	GPR111	123	.	NM_153839	exon7	c.A1075G	p.K359E	CCAAGCAAATTGT	.	PASS	Atlas-SNP
BEST3	144453	hgsc.bcm.edu	37	12	70091452	70091452	+	Missense_Mutation	SNP	A	A	G	rs1025016	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	95	138	0	0.536723	0	A|0.941;G|0.059	0.059	strong	BEST3_ENST00000330891,lymph_node,lymphoid_neoplasm,0,1	BEST3	129	1	NM_032735	exon2	c.T127C	p.Y43H	CTGTATAAAGAAC	.	PASS	Atlas-SNP
POLR1E	64425	hgsc.bcm.edu	37	9	37503087	37503087	+	Missense_Mutation	SNP	G	G	A	rs10814571	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	77	152	0	0.503268	0	G|0.798;A|0.202	0.202	strong	.	POLR1E	28	.	NM_022490	exon12	c.G1148A	p.R383K	AAAGAAGGGTGTC	.	PASS	Atlas-SNP
KIAA0040	9674	hgsc.bcm.edu	37	1	175129933	175129933	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	11	105	0	0.0887097	0	.	.	none	KIAA0040,colon,carcinoma,0,1	KIAA0040	2	1	NM_001162895	exon3	c.A217G	p.K73E	TCTTCTTCTTCTT	.	PASS	Atlas-SNP
PHF14	9678	hgsc.bcm.edu	37	7	11022230	11022230	+	Missense_Mutation	SNP	A	A	G	rs218966	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	21	45	0	0.477273	0	A|0.369;G|0.631	0.631	strong	.	PHF14	90	.	NM_014660	exon3	c.A344G	p.K115R	AGAAAAAGGAGAA	.	PASS	Atlas-SNP
OR2AE1	81392	hgsc.bcm.edu	37	7	99474427	99474427	+	Missense_Mutation	SNP	A	A	G	rs2572023	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	124	132	0	1	0	G|0.588;N|0.000	0.588	strong	.	OR2AE1	32	.	NM_001005276	exon1	c.T230C	p.I77T	AGGATGATTGTGG	.	PASS	Atlas-SNP
ANXA11	311	hgsc.bcm.edu	37	10	81926702	81926702	+	Missense_Mutation	SNP	G	G	A	rs1049550	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	42	19	45	0	0.452381	0	G|0.630;T|0.004	.	strong	.	ANXA11	32	.	NM_145868	exon7	c.C688T	p.R230C	TGGAGCGACTCCC	.	PASS	Atlas-SNP
CNGB3	54714	hgsc.bcm.edu	37	8	87588198	87588198	+	Missense_Mutation	SNP	T	T	C	rs3735972	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	291	143	354	1	0.491409	0.00282486	T|0.921;C|0.079	0.079	strong	CNGB3,NS,carcinoma,-1,1	CNGB3	176	1	NM_019098	exon18	c.A2264G	p.E755G	GTACATTCAGGTC	.	PASS	Atlas-SNP
TTC7A	57217	hgsc.bcm.edu	37	2	47177617	47177617	+	Silent	SNP	C	C	T	rs61738825	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	53	78	0	0.473214	0	C|0.928;T|0.072	0.072	strong	.	TTC7A	80	.	NM_020458	exon2	c.C300T	p.S100S	GATGAGCGAAGCC	.	PASS	Atlas-SNP
WNK2	65268	hgsc.bcm.edu	37	9	96052295	96052295	+	Silent	SNP	C	C	G	rs4744216	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	34	48	0	0.566667	0	C|0.887;G|0.112	0.112	strong	.	WNK2	277	.	NM_006648	exon20	c.C4902G	p.A1634A	AGGGGCCGTGATG	.	PASS	Atlas-SNP
MUC20	200958	hgsc.bcm.edu	37	3	195452991	195452991	+	Missense_Mutation	SNP	C	C	T	rs3828411	bycluster;byfrequency;byhapmap	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	396	94	366	0	0.237374	0	C|0.942;T|0.058	0.058	strong	.	MUC20	84	.	NM_152673	exon3	c.C1004T	p.T335I	GCGCCACAGAAAG	.	PASS	Atlas-SNP
GRHL3	57822	hgsc.bcm.edu	37	1	24658063	24658063	+	Missense_Mutation	SNP	C	C	G	rs2486668	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	220	101	200	0	0.459091	0	C|0.823;G|0.177	0.177	strong	GRHL3,NS,carcinoma,0,1	GRHL3	69	1	NM_021180	exon2	c.C180G	p.D60E	TGATGACAGTGTT	.	PASS	Atlas-SNP
OR13H1	347468	hgsc.bcm.edu	37	X	130678596	130678596	+	Silent	SNP	C	C	G	rs17316625	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	199	199	161	0	1	0	C|0.787;0|0.015	.	strong	.	OR13H1	41	.	NM_001004486	exon1	c.C549G	p.L183L	CTCCCTCATTAAG	.	PASS	Atlas-SNP
SCN7A	6332	hgsc.bcm.edu	37	2	167263065	167263065	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	272	3	261	1	0.0110294	0.00383142	.	.	none	SCN7A_ENST00000409855,NS,carcinoma,-1,2	SCN7A	410	2	NM_002976	exon25	c.T4074C	p.R1358R	TCCAAGACGCAGC	.	scavenged	Atlas-SNP
ZNF521	25925	hgsc.bcm.edu	37	18	22775185	22775185	+	Silent	SNP	C	C	T	rs1140026	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	48	94	0	0.505263	0	C|0.786;T|0.214	0.214	strong	.	ZNF521	269	.	NM_015461	exon5	c.G3597A	p.K1199K	CTGACACTTGATG	.	PASS	Atlas-SNP
PCMTD1	115294	hgsc.bcm.edu	37	8	52746153	52746153	+	Silent	SNP	C	C	T	rs9298462	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	44	92	0	0.463158	0	C|0.530;T|0.470	0.470	strong	.	PCMTD1	73	.	NM_052937	exon4	c.G507A	p.V169V	TTTCTGCACTCCA	.	PASS	Atlas-SNP
NPLOC4	55666	hgsc.bcm.edu	37	17	79596811	79596811	+	Silent	SNP	C	C	T	rs9894429	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	232	112	238	0	0.482759	0	C|0.375;T|0.625	0.625	strong	.	NPLOC4	27	.	NM_017921	exon2	c.G36A	p.P12P	TCCATCCGGGGAC	.	PASS	Atlas-SNP
EXOC3L4	91828	hgsc.bcm.edu	37	14	103576395	103576395	+	Silent	SNP	G	G	A	rs729185	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	79	114	0	0.49375	0	G|0.764;A|0.236	0.236	strong	.	EXOC3L4	35	.	NM_001077594	exon11	c.G2004A	p.A668A	TCTGGCGCTGCGC	.	PASS	Atlas-SNP
ZKSCAN3	80317	hgsc.bcm.edu	37	6	28331127	28331127	+	Missense_Mutation	SNP	A	A	G	rs371085669	byfrequency;byhapmap;alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	48	74	0	0.505263	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
IRAK1	3654	hgsc.bcm.edu	37	X	153284192	153284192	+	Missense_Mutation	SNP	A	A	G	rs1059702	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	365	226	169	0	0.619178	0	0|0.003;G|0.794	0.794	strong	.	IRAK1	107	.	NM_001569	exon5	c.T587C	p.F196S	AACGGAAAGGGGC	.	PASS	Atlas-SNP
MERTK	10461	hgsc.bcm.edu	37	2	112786049	112786049	+	Missense_Mutation	SNP	G	G	A	rs2230517	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	47	77	0	0.559524	0	G|0.921;A|0.079	0.079	strong	.	MERTK	112	.	NM_006343	exon19	c.G2608A	p.V870I	GCAGACGTTATTT	.	PASS	Atlas-SNP
EPC1	80314	hgsc.bcm.edu	37	10	32635834	32635834	+	Silent	SNP	G	G	A	rs11597888	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	35	63	0	0.492958	0	G|0.859;A|0.141	0.141	strong	.	EPC1	74	.	NM_025209	exon1	c.C10T	p.L4L	ACGACAGTTTACT	.	PASS	Atlas-SNP
CCDC19	25790	hgsc.bcm.edu	37	1	159850401	159850401	+	Silent	SNP	C	C	G	rs7550537	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	324	156	293	0	0.481481	0	C|0.888;G|0.112	0.112	strong	.	CCDC19	79	.	NM_012337	exon8	c.G987C	p.L329L	AGCCAGCAGTTCT	.	PASS	Atlas-SNP
OR1S2	219958	hgsc.bcm.edu	37	11	57971171	57971171	+	Silent	SNP	C	C	T	rs200697120	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	285	28	202	0	0.0982456	0	C|0.928;T|0.072	0.072	strong	.	OR1S2	119	.	NM_001004459	exon1	c.G483A	p.S161S	GAACCACGAGATG	.	PASS	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	37	6	38750888	38750888	+	Missense_Mutation	SNP	A	A	G	rs3823430	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	47	115	0	0.419643	0	A|0.848;G|0.152	0.152	strong	.	DNAH8	1239	.	NM_001206927	exon17	c.A2368G	p.I790V	GCCTGGATCAGAG	.	PASS	Atlas-SNP
ANKRD18B	441459	hgsc.bcm.edu	37	9	33568763	33568763	+	Missense_Mutation	SNP	C	C	T	rs41313967	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	39	91	0	0.464286	0	C|0.944;T|0.056	0.056	strong	.	ANKRD18B	46	.	NM_001244752	exon15	c.C2860T	p.P954S	CCAGACCCAGAGT	.	PASS	Atlas-SNP
LARGE	9215	hgsc.bcm.edu	37	22	33679238	33679238	+	Silent	SNP	T	T	C	rs11913417	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	65	125	0	0.427632	0	T|0.970;C|0.030	0.030	strong	.	LARGE	98	.	NM_004737	exon14	c.A1827G	p.S609S	CGCTTTTGACTTG	.	PASS	Atlas-SNP
SLC39A14	23516	hgsc.bcm.edu	37	8	22273687	22273687	+	Silent	SNP	T	T	C	rs6558052	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	94	134	0	0.463054	0	T|0.748;C|0.252	0.252	strong	SLC39A14_ENST00000381237,NS,malignant_melanoma,+2,2	SLC39A14	59	2	NM_001135153	exon7	c.T1041C	p.H347H	CCTCCATAATTTC	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29779936	29779936	+	Silent	SNP	G	G	A	rs45519332	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	30	66	0	0.333333	0	G|0.928;A|0.072	0.072	strong	.	SVIL	226	.	NM_021738	exon22	c.C4032T	p.S1344S	GGCCACGGAAGAC	.	PASS	Atlas-SNP
ASZ1	136991	hgsc.bcm.edu	37	7	117024820	117024820	+	Missense_Mutation	SNP	T	T	G	rs1029396	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	235	114	211	0	0.485106	0	T|0.868;G|0.132	0.132	strong	.	ASZ1	56	.	NM_130768	exon6	c.A647C	p.K216T	GGCATCTTTCCAT	.	PASS	Atlas-SNP
PPFIA2	8499	hgsc.bcm.edu	37	12	81769581	81769581	+	Silent	SNP	C	C	T	rs10862301	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	221	109	206	0	0.493213	0	C|0.573;N|0.000	.	strong	.	PPFIA2	207	.	NM_001220476	exon9	c.G1125A	p.L375L	CTGCCGCAGGATA	.	PASS	Atlas-SNP
ALCAM	214	hgsc.bcm.edu	37	3	105260518	105260518	+	Silent	SNP	G	G	A	rs579565	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	60	97	0	0.461538	0	G|0.759;A|0.241	0.241	strong	.	ALCAM	71	.	NM_001627	exon8	c.G900A	p.L300L	CACACTGACGGAT	.	PASS	Atlas-SNP
ZNF653	115950	hgsc.bcm.edu	37	19	11598600	11598600	+	Silent	SNP	C	C	T	rs184960221	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	30	49	0	0.46875	0	C|0.959;T|0.041	0.041	strong	ZNF653,NS,carcinoma,0,1	ZNF653	48	1	NM_138783	exon4	c.G678A	p.T226T	GGTGGGCGTCGCT	.	PASS	Atlas-SNP
SAGE1	55511	hgsc.bcm.edu	37	X	134986700	134986700	+	Silent	SNP	T	T	C	rs12014884	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	278	12	203	0	0.0431655	0	T|0.806;C|0.194	0.194	strong	.	SAGE1	160	.	NM_018666	exon4	c.T285C	p.N95N	TGATAATGTCTTG	.	PASS	Atlas-SNP
GYS1	2997	hgsc.bcm.edu	37	19	49485548	49485548	+	Silent	SNP	G	G	A	rs5464	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	108	113	0	1	0	G|0.713;A|0.287	0.287	strong	.	GYS1	59	.	NM_002103	exon7	c.C1026T	p.F342F	CTCCAGGAAGACG	.	PASS	Atlas-SNP
PRRC2A	7916	hgsc.bcm.edu	37	6	31599594	31599594	+	Silent	SNP	A	A	G	rs10947220	bycluster;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	21	42	0	0.446809	0	A|0.949;G|0.050;T|0.000	0.050	strong	PRRC2A,NS,neuroblastoma,0,1	PRRC2A	152	1	NM_004638	exon16	c.A3144G	p.G1048G	GCGGGGAGCCCGA	.	PASS	Atlas-SNP
MRPS9	64965	hgsc.bcm.edu	37	2	105705507	105705507	+	Silent	SNP	C	C	T	rs11538198	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	29	55	0	0.5	0	C|0.797;T|0.203	0.203	strong	.	MRPS9	32	.	NM_182640	exon6	c.C555T	p.L185L	TCTGCTCCCAGAA	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225521101	225521101	+	Missense_Mutation	SNP	G	G	C	rs41268715	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	60	124	0	0.472441	0	G|0.968;C|0.032	0.032	strong	.	DNAH14	300	.	NM_001373	exon64	c.G9694C	p.E3232Q	ACACCAGAATTTC	.	PASS	Atlas-SNP
MAP7D3	79649	hgsc.bcm.edu	37	X	135310785	135310785	+	Missense_Mutation	SNP	T	T	C	rs2273221	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	129	169	0	0.992308	0	0|0.030;C|0.478	0.478	strong	.	MAP7D3	102	.	NM_024597	exon11	c.A1883G	p.Q628R	GACCTTTGCTGCA	.	PASS	Atlas-SNP
TENM2	57451	hgsc.bcm.edu	37	5	167674370	167674370	+	Silent	SNP	C	C	T	rs3733988	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	94	75	0	1	0	C|0.592;T|0.408	0.408	strong	ODZ2,NS,carcinoma,0,1	.	.	1	NM_001122679	exon27	c.C6399T	p.I2133I	CCAGATCATCACC	.	PASS	Atlas-SNP
TRAPPC5	126003	hgsc.bcm.edu	37	19	7747445	7747445	+	Silent	SNP	G	G	A	rs1053363	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	44	76	0	0.53012	0	T|0.000;G|0.798;C|0.000;A|0.202	0.202	strong	.	TRAPPC5	11	.	NM_001042461	exon2	c.G306A	p.A102A	GGAGGCGGACAAG	.	PASS	Atlas-SNP
HLA-DPA1	3113	hgsc.bcm.edu	37	6	33036959	33036959	+	Silent	SNP	G	G	A	rs2308929	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	52	106	0	0.429752	0	G|0.695;A|0.305	0.305	strong	.	HLA-DPA1	20	.	NM_033554	exon3	c.C465T	p.N155N	CTCCCCGTTGCAC	.	PASS	Atlas-SNP
MCM3AP	8888	hgsc.bcm.edu	37	21	47666744	47666744	+	Missense_Mutation	SNP	G	G	T	rs17183220	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	228	103	197	0	0.451754	0	G|0.957;T|0.043	0.043	strong	.	MCM3AP	146	.	NM_003906	exon21	c.C4347A	p.D1449E	CAGGAGGTCCTTC	.	PASS	Atlas-SNP
BDP1	55814	hgsc.bcm.edu	37	5	70809169	70809169	+	Missense_Mutation	SNP	A	A	G	rs1698063	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	42	102	0	0.407767	0	A|0.595;G|0.405	0.405	strong	.	BDP1	204	.	NM_018429	exon19	c.A4405G	p.K1469E	GAAACCAAGAAAA	.	PASS	Atlas-SNP
LONRF2	164832	hgsc.bcm.edu	37	2	100915772	100915772	+	Missense_Mutation	SNP	A	A	G	rs4851287	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	195	81	151	0	0.415385	0	A|0.253;G|0.747	0.747	strong	.	LONRF2	62	.	NM_198461	exon6	c.T1277C	p.L426P	CTTTGAAGTGAGA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	191	210	1	1	0.0047619	A|0.395;G|0.605	0.605	strong	.	SLC30A9	58	.	NM_006345	exon2	c.A148G	p.M50V	TCAAACATGGTTC	.	PASS	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	206	109	173	0	0.529126	0	C|0.291;N|0.001	0.291	strong	.	CCDC77	35	.	NM_032358	exon10	c.T1004C	p.M335T	CCGTTATGCATGA	.	PASS	Atlas-SNP
CASS4	57091	hgsc.bcm.edu	37	20	55033476	55033476	+	Silent	SNP	C	C	G	rs3746623	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	64	145	0	0.528926	0	C|0.588;G|0.412	0.412	strong	.	CASS4	121	.	NM_020356	exon6	c.C2034G	p.L678L	CCGGCTCTACTTT	.	PASS	Atlas-SNP
KLHDC7A	127707	hgsc.bcm.edu	37	1	18808069	18808069	+	Silent	SNP	A	A	G	rs7528572	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	23	72	0	0.442308	0	A|0.893;G|0.107	0.107	strong	.	KLHDC7A	60	.	NM_152375	exon1	c.A594G	p.G198G	TCCAGGACTGGGG	.	PASS	Atlas-SNP
LMTK3	114783	hgsc.bcm.edu	37	19	49013809	49013809	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	67	123	0	0.440789	0	.	.	none	LMTK3_ENST00000270238,caecum,carcinoma,-1,3	LMTK3	125	3	NM_001080434	exon3	c.C204A	p.Y68X	CACAGCGTAGGGA	.	PASS	Atlas-SNP
IKBKAP	8518	hgsc.bcm.edu	37	9	111659439	111659439	+	Missense_Mutation	SNP	T	T	C	rs2230794	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	196	87	191	0	0.443878	0	T|0.950;C|0.050	0.050	strong	IKBKAP,NS,carcinoma,0,1	IKBKAP	122	1	NM_003640	exon23	c.A2490G	p.I830M	AGGATTTATGCTC	.	PASS	Atlas-SNP
USP17L7	392197	hgsc.bcm.edu	37	8	11990882	11990882	+	Missense_Mutation	SNP	C	C	T	rs9720235	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	4	4	0	0	1	.	C|0.499;T|0.501	0.501	strong	.	.	.	.	NM_001256869	exon1	c.G637A	p.V213I	CTGAAACGCCGTG	.	PASS	Atlas-SNP
OR10G7	390265	hgsc.bcm.edu	37	11	123908971	123908971	+	Silent	SNP	C	C	T	rs142080661	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	196	103	186	0	0.52551	0	C|1.000;T|0.000	0.000	strong	.	OR10G7	103	.	NM_001004463	exon1	c.G738A	p.V246V	AAGGACCACGATA	.	PASS	Atlas-SNP
RANBP17	64901	hgsc.bcm.edu	37	5	170626735	170626735	+	Silent	SNP	A	A	G	rs35724654	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	44	87	0	0.52381	0	A|0.890;G|0.110	0.110	strong	.	RANBP17	108	.	NM_022897	exon19	c.A2100G	p.V700V	AACAGTATTACAA	.	PASS	Atlas-SNP
P2RY13	53829	hgsc.bcm.edu	37	3	151046604	151046604	+	Silent	SNP	G	G	T	rs3732757	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	170	82	141	0	0.482353	0	G|0.951;T|0.049	0.049	strong	.	P2RY13	80	.	NM_176894	exon2	c.C240A	p.I80I	GAGGTAGATGATG	.	PASS	Atlas-SNP
SMG6	23293	hgsc.bcm.edu	37	17	2202323	2202323	+	Missense_Mutation	SNP	T	T	C	rs34047637	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	95	164	0	0.497382	0	T|0.966;C|0.034	0.034	strong	.	SMG6	97	.	NM_017575	exon2	c.A1724G	p.N575S	TGCAGGTTCCTCA	.	PASS	Atlas-SNP
TRIM51	84767	hgsc.bcm.edu	37	11	55655597	55655597	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	584	26	502	18	0.0445205	0.0358566	.	.	none	SPRYD5_ENST00000327733,NS,carcinoma,+2,2	.	.	2	NM_032681	exon4	c.A597G	p.E199E	CTTGGAAAGGCTG	.	scavenged	Atlas-SNP
CARD14	79092	hgsc.bcm.edu	37	17	78177680	78177680	+	Missense_Mutation	SNP	G	G	A	rs143600438	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	319	148	298	0	0.46395	0	G|1.000;A|0.000	0.000	weak	.	CARD14	98	.	NM_024110	exon16	c.G2279A	p.R760H	TGACCCGCAAGGT	.	PASS	Atlas-SNP
ALKBH4	54784	hgsc.bcm.edu	37	7	102098010	102098010	+	Missense_Mutation	SNP	G	G	A	rs41275227	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	37	56	0	0.528571	0	G|0.892;A|0.108	0.108	strong	.	ALKBH4	21	.	NM_017621	exon3	c.C740T	p.A247V	CGTGCCGCCCCGG	.	PASS	Atlas-SNP
TBC1D1	23216	hgsc.bcm.edu	37	4	37904089	37904089	+	Missense_Mutation	SNP	C	C	T	rs35859249	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	52	90	0	0.464286	0	C|0.922;T|0.078	0.078	strong	.	TBC1D1	94	.	NM_015173	exon2	c.C373T	p.R125W	GTCCACCGGCAGA	.	PASS	Atlas-SNP
PPT2	9374	hgsc.bcm.edu	37	6	32122472	32122472	+	Missense_Mutation	SNP	C	C	A	rs3096696	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	42	81	0	0.407767	0	C|0.825;A|0.175	0.175	strong	.	PPT2	19	.	NM_138717	exon2	c.C119A	p.A40E	ACCGCGCGTCCTA	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152277657	152277657	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	243	4	206	2	0.0164609	0.00970874	.	.	none	FLG,NS,carcinoma,-2,1	FLG	900	1	NM_002016	exon3	c.T9705C	p.A3235A	TCTGGAAGCAGAC	.	scavenged	Atlas-SNP
KBTBD7	84078	hgsc.bcm.edu	37	13	41767341	41767341	+	Silent	SNP	A	A	G	rs2039135	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	84	184	0	0.976744	0	A|0.378;G|0.622	0.622	strong	.	KBTBD7	60	.	NM_032138	exon1	c.T1053C	p.H351H	TCTAGGATGTCCA	.	PASS	Atlas-SNP
KTI12	112970	hgsc.bcm.edu	37	1	52498861	52498861	+	Missense_Mutation	SNP	A	A	T	rs2783175	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	58	104	0	0.487395	0	A|0.934;T|0.066	0.066	strong	KTI12,NS,carcinoma,0,1	KTI12	30	1	NM_138417	exon1	c.T573A	p.D191E	CTCTGAATCCGGA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	138	340	0	0.992806	0	A|0.658;T|0.342	0.342	strong	.	GBP4	89	.	NM_052941	exon10	c.T1645A	p.L549M	CCTCCAACTTCTT	.	PASS	Atlas-SNP
PPL	5493	hgsc.bcm.edu	37	16	4935636	4935636	+	Missense_Mutation	SNP	G	G	A	rs2075639	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	83	155	0	0.494048	0	G|0.915;A|0.085	0.085	strong	.	PPL	168	.	NM_002705	exon22	c.C3020T	p.A1007V	TCATCCGCCTGGG	.	PASS	Atlas-SNP
HMOX1	3162	hgsc.bcm.edu	37	22	35777185	35777185	+	Missense_Mutation	SNP	G	G	C	rs2071747	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	11	5	6	0	0.454545	0	G|0.952;C|0.048	0.048	strong	.	HMOX1	32	.	NM_002133	exon1	c.G19C	p.D7H	CAACCCGACAGGC	.	PASS	Atlas-SNP
RNF166	115992	hgsc.bcm.edu	37	16	88767769	88767769	+	Silent	SNP	G	G	C	rs2306049	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	46	95	0	0.474227	0	G|0.537;C|0.463	0.463	strong	.	RNF166	3	.	NM_178841	exon2	c.C213G	p.L71L	GCGGCAGAGTGGG	.	PASS	Atlas-SNP
CHRDL2	25884	hgsc.bcm.edu	37	11	74419378	74419378	+	Silent	SNP	C	C	T	rs7948433	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	17	29	0	0.435897	0	C|0.675;T|0.325	0.325	strong	.	CHRDL2	47	.	NM_015424	exon5	c.G495A	p.P165P	TGGCAGCGGGAGG	.	PASS	Atlas-SNP
HERC5	51191	hgsc.bcm.edu	37	4	89391771	89391771	+	Silent	SNP	C	C	T	rs55990584	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	55	145	0	0.359477	0	C|0.989;T|0.011	0.011	strong	.	HERC5	114	.	NM_016323	exon10	c.C1245T	p.I415I	GGAAATCCAAGAG	.	PASS	Atlas-SNP
TUBB8	347688	hgsc.bcm.edu	37	10	95167	95167	+	Silent	SNP	G	G	A	rs202227666	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	8	102	0	0.0689655	0	G|0.980;A|0.019	0.019	strong	TUBB8,colon,carcinoma,-2,2	TUBB8	62	2	NM_177987	exon1	c.C12T	p.I4I	GAGCACGATCTCC	.	scavenged	Atlas-SNP
MDH1B	130752	hgsc.bcm.edu	37	2	207603221	207603221	+	Missense_Mutation	SNP	T	T	C	rs2287632	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	180	179	212	2	0.994444	0.00943396	T|0.898;C|0.102	0.102	strong	.	MDH1B	89	.	NM_001039845	exon12	c.A1543G	p.T515A	CCACGGTTTTGCC	.	PASS	Atlas-SNP
TAS2R50	259296	hgsc.bcm.edu	37	12	11138935	11138935	+	Silent	SNP	T	T	C	rs66679979	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	54	133	0	0.382979	0	T|0.870;C|0.130	0.130	strong	.	TAS2R50	37	.	NM_176890	exon1	c.A525G	p.S175S	CAAATATGAAAGA	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954327	30954327	+	Silent	SNP	C	C	T	rs149194643	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	12	94	0	0.0794702	0	C|0.989;T|0.011	0.011	strong	.	MUC21	98	.	NM_001010909	exon2	c.C375T	p.S125S	TGAGTCCAGCACA	.	PASS	Atlas-SNP
PRRC2C	23215	hgsc.bcm.edu	37	1	171514731	171514731	+	Missense_Mutation	SNP	C	C	G	rs235468	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	262	127	284	0	0.484733	0	C|0.196;G|0.804	0.804	strong	.	.	.	.	NM_015172	exon17	c.C4871G	p.S1624C	AAGATTCTACTGG	.	PASS	Atlas-SNP
NCOA4	8031	hgsc.bcm.edu	37	10	51568378	51568378	+	Missense_Mutation	SNP	T	T	G	rs10761581	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	60	119	0	0.508475	0	T|0.572;G|0.428	0.428	strong	NCOA4_ENST00000452682,NS,carcinoma,0,1	NCOA4	58	1	NM_001145261	exon2	c.T22G	p.F8V	ACCACTTTTGCTC	.	PASS	Atlas-SNP
FAM181A	90050	hgsc.bcm.edu	37	14	94391699	94391699	+	Missense_Mutation	SNP	G	G	A	rs10141024	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	33	33	26	0	1	0	G|0.475;A|0.525	0.525	strong	FAM181A,NS,malignant_melanoma,0,3	FAM181A	42	3	NM_138344	exon2	c.G82A	p.A28T	AAAAGGGCGAGCA	.	PASS	Atlas-SNP
RAB3A	5864	hgsc.bcm.edu	37	19	18311199	18311199	+	Silent	SNP	A	A	G	rs1046565	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	251	114	220	1	0.454183	0.00454545	A|0.782;G|0.218	0.218	strong	RAB3A,colon,carcinoma,0,2	RAB3A	23	2	NM_002866	exon3	c.T285C	p.A95A	GCCCATAGCGCCC	.	scavenged	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	37	11	62296601	62296601	+	Missense_Mutation	SNP	T	T	C	rs74853209	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	85	130	0	0.524691	0	T|0.950;C|0.050	0.050	strong	.	AHNAK	532	.	NM_001620	exon5	c.A5288G	p.K1763R	TTCAACTTTCCTT	.	PASS	Atlas-SNP
INADL	10207	hgsc.bcm.edu	37	1	62579891	62579891	+	Missense_Mutation	SNP	G	G	T	rs12140153	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	195	91	195	0	0.466667	0	G|0.943;T|0.057	0.057	strong	.	INADL	179	.	NM_176877	exon35	c.G4628T	p.G1543V	GCCGGGGCCTGGG	.	PASS	Atlas-SNP
LEPR	3953	hgsc.bcm.edu	37	1	66067109	66067109	+	Silent	SNP	T	T	C	rs1805134	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	60	119	0	0.555556	0	C|0.231;N|0.000	0.231	strong	.	LEPR	284	.	NM_001003680	exon9	c.T1029C	p.S343S	GACAAGTGTTGGG	.	PASS	Atlas-SNP
GRK5	2869	hgsc.bcm.edu	37	10	121196335	121196335	+	Missense_Mutation	SNP	G	G	A	rs2230349	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	59	113	0	0.504274	0	A|0.093;C|0.000;G|0.907	0.093	strong	.	GRK5	58	.	NM_005308	exon9	c.G911A	p.R304H	TCCACCGTGAGAA	.	PASS	Atlas-SNP
UBE3D	90025	hgsc.bcm.edu	37	6	83667045	83667045	+	Missense_Mutation	SNP	C	C	T	rs7739323	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	46	112	0	0.484211	0	C|0.843;T|0.157	0.157	strong	.	.	.	.	NM_198920	exon9	c.G1135A	p.V379M	AATTCACACGGCG	.	PASS	Atlas-SNP
ADAMTS8	11095	hgsc.bcm.edu	37	11	130284668	130284668	+	Missense_Mutation	SNP	G	G	A	rs36124917	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	53	129	0	0.441667	0	G|0.998;A|0.002	0.002	strong	.	ADAMTS8	172	.	NM_007037	exon5	c.C1324T	p.R442C	CCATGCGGCCCGG	.	PASS	Atlas-SNP
NRG2	9542	hgsc.bcm.edu	37	5	139422232	139422232	+	Silent	SNP	G	G	A	rs144634106	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	34	38	0	0.53125	0	G|0.965;A|0.035	0.035	strong	.	NRG2	69	.	NM_013982	exon1	c.C423T	p.A141A	GCCGCCGGCTGGG	.	PASS	Atlas-SNP
SUGP1	57794	hgsc.bcm.edu	37	19	19390185	19390185	+	Silent	SNP	G	G	A	rs11555053	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	24	49	0	0.444444	0	G|0.805;A|0.195	0.195	strong	SUGP1,NS,carcinoma,0,1	SUGP1	63	1	NM_172231	exon10	c.C1365T	p.Y455Y	CATGTCGTACATC	.	PASS	Atlas-SNP
CP	1356	hgsc.bcm.edu	37	3	148904434	148904434	+	Silent	SNP	T	T	G	rs1053709	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	266	129	236	1	0.484962	0.00423729	T|0.962;G|0.038	0.038	strong	.	CP	112	.	NM_000096	exon11	c.A1950C	p.G650G	CTCATTTCCGGCG	.	PASS	Atlas-SNP
GLI2	2736	hgsc.bcm.edu	37	2	121742124	121742124	+	Silent	SNP	G	G	A	rs61732852	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	199	82	179	0	0.41206	0	G|0.991;A|0.009	0.009	strong	.	GLI2	187	.	NM_005270	exon11	c.G1761A	p.T587T	GAAAACGGTCCAC	.	PASS	Atlas-SNP
CYP2D6	1565	hgsc.bcm.edu	37	22	42523528	42523528	+	Missense_Mutation	SNP	C	C	T	rs1058172	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	381	163	208	1	0.427822	0.00480769	C|0.908;T|0.092	0.092	strong	CYP2D6_ENST00000360608,NS,carcinoma,0,2	CYP2D6	104	2	NM_000106	exon7	c.G1094A	p.R365H	CCAAAGCGCTGCA	.	scavenged	Atlas-SNP
NPHP4	261734	hgsc.bcm.edu	37	1	5935162	5935162	+	Splice_Site	SNP	A	A	T	rs1287637	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	43	26	27	0	0.604651	0	A|0.171;T|0.829	0.829	strong	.	NPHP4	119	.	NM_015102	exon22	c.2818-2T>A	.	TGCGCCAGCAGAC	.	PASS	Atlas-SNP
ZZEF1	23140	hgsc.bcm.edu	37	17	3953083	3953083	+	Silent	SNP	T	T	C	rs781853	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	61	149	0	0.423611	0	T|0.502;C|0.498	0.498	strong	ZZEF1,colon,carcinoma,0,1	ZZEF1	195	1	NM_015113	exon37	c.A5934G	p.P1978P	AGTGACTGGTAGG	.	PASS	Atlas-SNP
LPCAT3	10162	hgsc.bcm.edu	37	12	7091918	7091918	+	Silent	SNP	C	C	T	rs3764031	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	87	134	0	0.537037	0	C|0.809;T|0.191	0.191	strong	.	LPCAT3	33	.	NM_005768	exon3	c.G285A	p.L95L	AATACACAGCAGG	.	PASS	Atlas-SNP
PLCB1	23236	hgsc.bcm.edu	37	20	8703060	8703060	+	Nonsense_Mutation	SNP	A	A	T	rs138851178	bycluster;alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	33	97	0	0.434211	0	A|1.000;G|0.000	.	alt	.	PLCB1	394	.	NM_015192	exon15	c.G1573T	p.E525X	TCTTCAATGGATG	.	PASS	Atlas-SNP
GM2A	2760	hgsc.bcm.edu	37	5	150647012	150647012	+	Silent	SNP	A	A	G	rs1048723	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	84	95	0	0.56	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
KIAA1279	26128	hgsc.bcm.edu	37	10	70748784	70748784	+	Missense_Mutation	SNP	G	G	A	rs2255607	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	42	42	30	0	1	0	G|0.584;A|0.416	0.416	strong	.	KIAA1279	35	.	NM_015634	exon1	c.G196A	p.G66S	GAGGACGGCCCGG	.	PASS	Atlas-SNP
COL13A1	1305	hgsc.bcm.edu	37	10	71647223	71647223	+	Silent	SNP	A	A	C	rs11816811	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	41	44	0	0.539474	0	A|0.897;C|0.102	0.102	strong	.	COL13A1	133	.	NM_080802	exon7	c.A498C	p.G166G	ACCAGGAACTAGA	.	PASS	Atlas-SNP
EFCAB7	84455	hgsc.bcm.edu	37	1	63991267	63991267	+	Silent	SNP	T	T	C	rs217478	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	219	93	255	1	0.424658	0.00392157	C|0.347;N|0.000	0.347	strong	EFCAB7,colon,carcinoma,+2,1	EFCAB7	45	1	NM_032437	exon2	c.T24C	p.D8D	AAGCGATGCAACT	.	PASS	Atlas-SNP
MYH8	4626	hgsc.bcm.edu	37	17	10304261	10304261	+	Silent	SNP	G	G	A	rs3744552	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	86	93	0	1	0	G|0.433;A|0.567	0.567	strong	.	MYH8	346	.	NM_002472	exon26	c.C3270T	p.I1090I	ATTGCTGATTTCA	.	PASS	Atlas-SNP
FANCA	2175	hgsc.bcm.edu	37	16	89807233	89807233	+	Silent	SNP	C	C	G	rs11649210	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	234	114	222	0	0.487179	0	C|0.892;G|0.108	0.108	strong	.	FANCA	99	.	NM_000135	exon38	c.G3807C	p.L1269L	TGACGACAGCAGG	.	PASS	Atlas-SNP
DVL2	1856	hgsc.bcm.edu	37	17	7133162	7133162	+	Silent	SNP	G	G	A	rs222836	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	25	94	0	0.342466	0	G|0.552;A|0.448	0.448	strong	.	DVL2	49	.	NM_004422	exon5	c.C621T	p.S207S	CCCCAGGCTGGTA	.	PASS	Atlas-SNP
GRIN2A	2903	hgsc.bcm.edu	37	16	9943666	9943666	+	Silent	SNP	C	C	T	rs2229193	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	84	129	0	0.461538	0	C|0.736;T|0.264	0.264	strong	.	GRIN2A	366	.	NM_000833	exon6	c.G1275A	p.L425L	CTCGGTCAGGGGG	.	PASS	Atlas-SNP
EVC	2121	hgsc.bcm.edu	37	4	5749961	5749961	+	Silent	SNP	G	G	C	rs4688962	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	74	106	0	0.524823	0	G|0.459;C|0.541	0.541	strong	.	EVC	90	.	NM_153717	exon8	c.G1026C	p.L342L	ACAGCTGATGATG	.	PASS	Atlas-SNP
OR7A10	390892	hgsc.bcm.edu	37	19	14952560	14952560	+	Missense_Mutation	SNP	G	G	T	rs12985894	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	43	73	0	0.551282	0	G|0.856;T|0.144	0.144	strong	.	OR7A10	33	.	NM_001005190	exon1	c.C130A	p.L44I	TGATGAGCAGGTT	.	PASS	Atlas-SNP
FANCA	2175	hgsc.bcm.edu	37	16	89866043	89866043	+	Missense_Mutation	SNP	T	T	C	rs7190823	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	73	142	2	0.483444	0.0140845	T|0.408;C|0.592	0.592	strong	FANCA,colon,carcinoma,+1,1	FANCA	99	1	NM_000135	exon9	c.A796G	p.T266A	CAACCGTGACCTG	.	scavenged	Atlas-SNP
POM121	9883	hgsc.bcm.edu	37	7	72413779	72413779	+	Missense_Mutation	SNP	G	G	A	rs140060630	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	247	134	225	0	0.54251	0	G|0.998;A|0.002	0.002	strong	.	POM121	131	.	NM_172020	exon11	c.G2452A	p.G818R	AGCAGCGGGAGCA	.	PASS	Atlas-SNP
BAZ2A	11176	hgsc.bcm.edu	37	12	57004268	57004268	+	Silent	SNP	G	G	A	rs34393899	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	84	130	0	0.502994	0	G|0.974;A|0.026	0.026	strong	.	BAZ2A	263	.	NM_013449	exon8	c.C1710T	p.S570S	TCGGTGGCTGCCC	.	PASS	Atlas-SNP
SNX19	399979	hgsc.bcm.edu	37	11	130784616	130784616	+	Missense_Mutation	SNP	T	T	C	rs3190345	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	42	66	0	0.47191	0	T|0.844;C|0.156	0.156	strong	.	SNX19	84	.	NM_014758	exon1	c.A1219G	p.S407G	GGGAACTCTCTAG	.	PASS	Atlas-SNP
TMEM17	200728	hgsc.bcm.edu	37	2	62733253	62733253	+	Silent	SNP	C	C	T	rs11676567	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	58	75	0	0.557692	0	C|0.598;T|0.402	0.402	strong	TMEM17,NS,carcinoma,0,1	TMEM17	19	1	NM_198276	exon1	c.G12A	p.P4P	CGGATCCGGCAGC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	281	112	283	0	0.398576	0	G|0.635;A|0.365	0.365	strong	.	POLR2B	108	.	NM_000938	exon12	c.G1590A	p.A530A	GATGGCGTATATT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	81	156	0	0.487952	0	G|0.704;A|0.296	0.296	strong	.	DKKL1	23	.	NM_014419	exon2	c.G85A	p.A29T	CCCTCCGCTGCAG	.	PASS	Atlas-SNP
IPO8	10526	hgsc.bcm.edu	37	12	30823971	30823971	+	Silent	SNP	A	A	G	rs1054426	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	80	178	0	0.432432	0	A|0.447;G|0.553	0.553	strong	.	IPO8	105	.	NM_006390	exon9	c.T969C	p.L323L	TTGCTGAAGAACA	.	PASS	Atlas-SNP
MAP7D3	79649	hgsc.bcm.edu	37	X	135313034	135313034	+	Missense_Mutation	SNP	T	T	G	rs1055497	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	146	103	1	1	0.00970874	0|0.026;G|0.527	0.527	strong	.	MAP7D3	102	.	NM_024597	exon9	c.A1505C	p.E502A	GCATTTTCAGGAG	.	PASS	Atlas-SNP
LRRC4C	57689	hgsc.bcm.edu	37	11	40136151	40136151	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	262	3	178	0	0.0114504	0	.	.	none	LRRC4C,NS,carcinoma,0,1	LRRC4C	190	1	NM_001258419	exon7	c.G1692A	p.R564R	AACAGTCCTTGTT	.	scavenged	Atlas-SNP
GPR111	222611	hgsc.bcm.edu	37	6	47646842	47646842	+	Missense_Mutation	SNP	A	A	G	rs6907125	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	175	85	146	0	0.485714	0	A|0.480;G|0.520	0.520	strong	.	GPR111	123	.	NM_153839	exon5	c.A239G	p.Q80R	CCTGCCAGACTCT	.	PASS	Atlas-SNP
ERBB2	2064	hgsc.bcm.edu	37	17	37879588	37879588	+	Missense_Mutation	SNP	A	A	G	rs1136201	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	204	106	181	0	0.519608	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
MUC21	394263	hgsc.bcm.edu	37	6	30955201	30955201	+	Missense_Mutation	SNP	G	G	A	rs2508018	bycluster;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	37	117	0	0.251701	0	G|0.917;A|0.083	0.083	strong	.	MUC21	98	.	NM_001010909	exon2	c.G1249A	p.A417T	AGTGGGGCCAGCA	.	PASS	Atlas-SNP
PIGO	84720	hgsc.bcm.edu	37	9	35091880	35091880	+	Silent	SNP	C	C	T	rs10814196	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	57	33	0	0.982759	0	C|0.816;T|0.184	0.184	strong	.	PIGO	86	.	NM_032634	exon7	c.G2004A	p.L668L	ATACCACAAATTC	.	PASS	Atlas-SNP
CASC5	57082	hgsc.bcm.edu	37	15	40916237	40916237	+	Missense_Mutation	SNP	A	A	G	rs17747633	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	47	81	1	0.979167	0.0123457	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	.	scavenged	Atlas-SNP
SERPINB3	6317	hgsc.bcm.edu	37	18	61322995	61322995	+	Missense_Mutation	SNP	T	T	C	rs1065205	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	338	156	226	0	0.461538	0	T|0.864;C|0.136	0.136	strong	.	SERPINB3	90	.	NM_006919	exon8	c.A1069G	p.T357A	TTGAAGTAGGTGA	.	PASS	Atlas-SNP
TTC4	7268	hgsc.bcm.edu	37	1	55182300	55182300	+	Missense_Mutation	SNP	T	T	A	rs1147990	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	40	54	0	0.57971	0	T|0.395;A|0.605	0.605	strong	TTC4,NS,carcinoma,-2,1	TTC4	21	1	NM_004623	exon2	c.T139A	p.S47T	TTTATGTCGAGAG	.	PASS	Atlas-SNP
MTERFD3	80298	hgsc.bcm.edu	37	12	107372277	107372277	+	Silent	SNP	C	C	T	rs1043156	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	193	102	172	0	0.528497	0	C|0.884;T|0.116	0.116	strong	.	MTERFD3	32	.	NM_001033050	exon3	c.G216A	p.E72E	TTCATCCTCTAAA	.	PASS	Atlas-SNP
CLPB	81570	hgsc.bcm.edu	37	11	72006559	72006559	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	215	3	160	0	0.0139535	0	.	.	none	CLPB,NS,carcinoma,-1,1	CLPB	45	1	NM_030813	exon13	c.G1553A	p.R518H	CGGTTACGGCTCA	.	scavenged	Atlas-SNP
TACSTD2	4070	hgsc.bcm.edu	37	1	59042311	59042311	+	Missense_Mutation	SNP	T	T	G	rs35075952	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	37	10	59	0	0.27027	0	T|0.894;G|0.106	0.106	strong	.	TACSTD2	6	.	NM_002353	exon1	c.A518C	p.D173A	TCGGCGTCCAGGT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	53	20	68	0	0.377358	0	G|0.940;C|0.060	0.060	strong	.	ZNF33A	103	.	NM_006954	exon5	c.G2413C	p.D805H	AGCCCTGATGACA	.	PASS	Atlas-SNP
WDFY4	57705	hgsc.bcm.edu	37	10	50025446	50025446	+	Missense_Mutation	SNP	G	G	T	rs12268007	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	26	45	0	0.472727	0	G|0.836;T|0.164	0.164	strong	.	WDFY4	205	.	NM_020945	exon32	c.G5497T	p.A1833S	CTGGGAGCCCAAA	.	PASS	Atlas-SNP
OR1S1	219959	hgsc.bcm.edu	37	11	57982620	57982620	+	Missense_Mutation	SNP	A	A	G	rs1966834	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	345	155	263	1	0.449275	0.00380228	A|0.569;G|0.431	0.431	strong	.	OR1S1	139	.	NM_001004458	exon1	c.A404G	p.H135R	ATGACCACTTTGT	.	PASS	Atlas-SNP
PDCL3	79031	hgsc.bcm.edu	37	2	101186088	101186088	+	Silent	SNP	C	C	T	rs1052117	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	87	149	0	0.491525	0	C|0.467;T|0.533	0.533	strong	.	PDCL3	27	.	NM_024065	exon4	c.C273T	p.F91F	TAAATTCGGAGAA	.	PASS	Atlas-SNP
IL31RA	133396	hgsc.bcm.edu	37	5	55210702	55210702	+	Silent	SNP	C	C	T	rs17701253	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	282	142	279	0	0.503546	0	C|0.962;T|0.038	0.038	strong	.	IL31RA	84	.	NM_001242637	exon14	c.C1764T	p.T588T	GCCCACCGTTCCC	.	PASS	Atlas-SNP
COL17A1	1308	hgsc.bcm.edu	37	10	105793750	105793750	+	Missense_Mutation	SNP	T	T	C	rs17116350	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	121	243	1	1	0.00411523	C|0.269;N|0.000	0.269	strong	COL17A1,colon,carcinoma,0,1	COL17A1	149	1	NM_000494	exon52	c.A4109G	p.D1370G	TCCAGATCTCCAG	.	PASS	Atlas-SNP
CELSR1	9620	hgsc.bcm.edu	37	22	46786315	46786315	+	Missense_Mutation	SNP	T	T	C	rs4044210	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	39	66	0	0.565217	0	T|0.693;C|0.307	0.307	strong	.	CELSR1	242	.	NM_014246	exon17	c.A6319G	p.I2107V	AGGAGATGGTGGT	.	PASS	Atlas-SNP
OR2A5	393046	hgsc.bcm.edu	37	7	143748257	143748257	+	Missense_Mutation	SNP	G	G	A	rs6464574	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	60	116	0	0.48	0	G|0.752;A|0.248	0.248	strong	OR2A5,NS,carcinoma,0,1	OR2A5	78	1	NM_012365	exon1	c.G763A	p.A255T	GGCAGCGCCATTG	.	PASS	Atlas-SNP
NTN4	59277	hgsc.bcm.edu	37	12	96131895	96131895	+	Missense_Mutation	SNP	A	A	G	rs17288108	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	68	117	0	0.552846	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
PLEKHG4B	153478	hgsc.bcm.edu	37	5	156287	156287	+	Silent	SNP	G	G	A	rs6554830	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	23	57	0	0.45098	0	G|0.820;A|0.180	0.180	strong	PLEKHG4B_ENST00000283426,rectum,carcinoma,0,1	PLEKHG4B	167	1	NM_052909	exon8	c.G1242A	p.A414A	CCTGGCGCGGCTG	.	PASS	Atlas-SNP
OR10G3	26533	hgsc.bcm.edu	37	14	22038731	22038731	+	Missense_Mutation	SNP	C	C	G	rs12886819	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	43	69	0	0.518072	0	C|0.975;G|0.025	0.025	strong	.	OR10G3	40	.	NM_001005465	exon1	c.G145C	p.V49L	CCCAGACAGTGAT	.	PASS	Atlas-SNP
MYO1E	4643	hgsc.bcm.edu	37	15	59453384	59453384	+	Silent	SNP	T	T	C	rs2306791	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	44	75	0	0.52381	0	T|0.727;C|0.273	0.273	strong	.	MYO1E	99	.	NM_004998	exon24	c.A2673G	p.A891A	GCCCCCTGCACTC	.	PASS	Atlas-SNP
PLXND1	23129	hgsc.bcm.edu	37	3	129275206	129275206	+	Silent	SNP	C	C	T	rs11920311	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	223	112	224	0	0.502242	0	C|0.790;T|0.210	0.210	strong	.	PLXND1	149	.	NM_015103	exon36	c.G5727A	p.Q1909Q	CACCACCTGCTCA	.	PASS	Atlas-SNP
KIAA1551	55196	hgsc.bcm.edu	37	12	32137852	32137852	+	Silent	SNP	C	C	G	rs3759297	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	44	93	0	0.478261	0	C|0.840;G|0.160	0.160	strong	C12orf35,NS,lymphoid_neoplasm,+1,1	.	.	1	NM_018169	exon4	c.C3963G	p.T1321T	GGAAACCCGACAG	.	PASS	Atlas-SNP
TLR8	51311	hgsc.bcm.edu	37	X	12937804	12937804	+	Silent	SNP	C	C	T	rs5744080	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	129	109	0	0.921429	0	C|0.402;0|0.003	.	strong	.	TLR8	134	.	NM_138636	exon2	c.C645T	p.H215H	TTCACACGTGCCA	.	PASS	Atlas-SNP
ZBTB21	49854	hgsc.bcm.edu	37	21	43413651	43413651	+	Missense_Mutation	SNP	T	T	C	rs871545	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	444	225	434	0	0.506757	0	T|0.878;C|0.122	0.122	strong	ZNF295,NS,carcinoma,+1,1	.	.	1	NM_001098402	exon3	c.A554G	p.N185S	TTGGTATTGGCCT	.	PASS	Atlas-SNP
ZNF439	90594	hgsc.bcm.edu	37	19	11979164	11979164	+	Missense_Mutation	SNP	T	T	C	rs10500209	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	27	48	0	0.421875	0	T|0.842;C|0.158	0.158	strong	.	ZNF439	67	.	NM_152262	exon3	c.T1280C	p.L427S	TTCAATTGCATGG	.	PASS	Atlas-SNP
PTPRS	5802	hgsc.bcm.edu	37	19	5210782	5210782	+	Silent	SNP	G	G	A	rs1143698	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	40	134	1	0.4	0.00746269	G|0.667;A|0.333	0.333	strong	PTPRS,NS,carcinoma,0,1	PTPRS	169	1	NM_002850	exon34	c.C5269T	p.L1757L	CCGCCAGCGGCCC	.	scavenged	Atlas-SNP
MNS1	55329	hgsc.bcm.edu	37	15	56736681	56736681	+	Missense_Mutation	SNP	A	A	G	rs35775595	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	74	134	0	0.440476	0	A|0.984;G|0.016	0.016	strong	.	MNS1	39	.	NM_018365	exon5	c.T647C	p.I216T	TCATCAATCATGA	.	PASS	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	37	11	62297447	62297447	+	Missense_Mutation	SNP	T	T	C	rs75436331	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	229	114	197	0	0.497817	0	T|0.958;C|0.042	0.042	strong	.	AHNAK	532	.	NM_001620	exon5	c.A4442G	p.K1481R	GGAGCTTTTATCT	.	PASS	Atlas-SNP
MDC1	9656	hgsc.bcm.edu	37	6	30672342	30672342	+	Missense_Mutation	SNP	A	A	G	rs3130645	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	276	121	230	0	0.438406	0	A|0.872;G|0.128	0.128	strong	.	MDC1	218	.	NM_014641	exon10	c.T4618C	p.S1540P	AGGTGGAAGGCTG	.	PASS	Atlas-SNP
C20orf203	284805	hgsc.bcm.edu	37	20	31238627	31238627	+	Silent	SNP	C	C	T	rs7272020	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	35	15	27	0	0.428571	0	C|0.860;T|0.140	0.140	strong	.	.	.	.	NM_182584	exon3	c.G192A	p.A64A	CCTTCCCGCCCCA	.	PASS	Atlas-SNP
RBM43	375287	hgsc.bcm.edu	37	2	152112161	152112161	+	Missense_Mutation	SNP	C	C	G	rs147060862	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	213	111	188	0	0.521127	0	C|0.974;G|0.026	0.026	strong	RBM43,colon,carcinoma,0,1	RBM43	35	1	NM_198557	exon2	c.G100C	p.V34L	CTAATACGGCCAA	.	PASS	Atlas-SNP
NACA	4666	hgsc.bcm.edu	37	12	57114100	57114100	+	Missense_Mutation	SNP	A	A	G	rs2926743	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	46	79	0	0.455446	0	A|0.212;G|0.788	0.788	strong	.	NACA	131	.	NM_001113203	exon3	c.T1214C	p.F405S	AATGAAAAAGAGG	.	PASS	Atlas-SNP
KRTAP5-7	440050	hgsc.bcm.edu	37	11	71238453	71238453	+	Missense_Mutation	SNP	G	G	C	rs147685834	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	91	130	0	0.5	0	G|0.807;C|0.193	0.193	strong	KRTAP5-7,NS,carcinoma,0,1	KRTAP5-7	23	1	NM_001012503	exon1	c.G107C	p.C36S	GCTGCTGTGTGCC	.	PASS	Atlas-SNP
RNASET2	8635	hgsc.bcm.edu	37	6	167369650	167369650	+	Silent	SNP	G	G	A	rs12193095	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	36	66	1	0.610169	0.0151515	G|0.973;A|0.027	0.027	strong	RNASET2,NS,carcinoma,0,1	RNASET2	18	1	NM_003730	exon1	c.C21T	p.R7R	GGCCCCGCGCAGG	.	scavenged	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954909	30954909	+	Missense_Mutation	SNP	C	C	G	rs9262380	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	17	75	3	0.197674	0.04	C|0.971;G|0.029	0.029	strong	MUC21,NS,carcinoma,+2,1	MUC21	98	1	NM_001010909	exon2	c.C957G	p.D319E	CTCTGACTCCAGC	.	scavenged	Atlas-SNP
PION	54103	hgsc.bcm.edu	37	7	76984572	76984572	+	Silent	SNP	G	G	A	rs2037753	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	66	131	0	0.431373	0	G|0.528;A|0.472	0.472	strong	.	PION	74	.	NM_017439	exon16	c.C1296T	p.C432C	GAGCGCGCAGTGC	.	PASS	Atlas-SNP
SLC27A5	10998	hgsc.bcm.edu	37	19	59012675	59012675	+	Missense_Mutation	SNP	C	C	T	rs142672241	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	31	2	37	0	0.0645161	0	C|0.997;T|0.003	0.003	strong	SLC27A5,NS,carcinoma,0,1	SLC27A5	58	1	NM_012254	exon4	c.G1160A	p.R387Q	AAGTACCGCAGGA	.	scavenged	Atlas-SNP
S100A13	6284	hgsc.bcm.edu	37	1	153598904	153598904	+	Silent	SNP	G	G	C	rs113541380	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	78	123	0	0.553191	0	G|0.990;C|0.010	0.010	strong	.	S100A13	10	.	NM_001024213	exon2	c.C45G	p.T15T	GACCACGGTCTCA	.	PASS	Atlas-SNP
TIGD2	166815	hgsc.bcm.edu	37	4	90035549	90035549	+	Missense_Mutation	SNP	A	A	G	rs2280099	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	65	125	0	0.430464	0	G|0.132;N|0.000	0.132	strong	.	TIGD2	36	.	NM_145715	exon1	c.A1424G	p.H475R	AGAAGCATATTAG	.	PASS	Atlas-SNP
CCDC154	645811	hgsc.bcm.edu	37	16	1484528	1484528	+	Missense_Mutation	SNP	G	G	A	rs61744665	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	23	53	0	0.46	0	G|0.901;A|0.099	0.099	strong	.	CCDC154	27	.	NM_001143980	exon17	c.C1885T	p.R629C	TCCAGCGCAGCCA	.	PASS	Atlas-SNP
CDHR2	54825	hgsc.bcm.edu	37	5	176011444	176011444	+	Missense_Mutation	SNP	C	C	T	rs115050587	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	76	115	0	0.558824	0	C|0.991;T|0.009	0.009	strong	.	CDHR2	152	.	NM_017675	exon19	c.C2162T	p.A721V	GGGACGCGGACCA	.	PASS	Atlas-SNP
MYSM1	114803	hgsc.bcm.edu	37	1	59142713	59142713	+	Silent	SNP	T	T	C	rs579110	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	117	118	0	1	0	T|0.386;C|0.614	0.614	strong	.	MYSM1	50	.	NM_001085487	exon9	c.A1275G	p.P425P	GTATTTTGGTTTG	.	PASS	Atlas-SNP
MYSM1	114803	hgsc.bcm.edu	37	1	59125683	59125683	+	Missense_Mutation	SNP	C	C	T	rs232777	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	257	110	239	0	0.428016	0	C|0.742;T|0.258	0.258	strong	MYSM1,NS,carcinoma,+2,2	MYSM1	50	2	NM_001085487	exon20	c.G2473A	p.E825K	ACAATTCCTTTGT	.	PASS	Atlas-SNP
MDC1	9656	hgsc.bcm.edu	37	6	30672326	30672326	+	Missense_Mutation	SNP	T	T	C	rs17292678	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	283	127	250	0	0.448763	0	T|0.957;C|0.043	0.043	strong	.	MDC1	218	.	NM_014641	exon10	c.A4634G	p.Q1545R	ACAGGTTGGTCTG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	54	103	0	0.574468	0	C|0.780;T|0.220	0.220	strong	.	ZNF708	66	.	NM_021269	exon4	c.G389A	p.R130Q	ACACACCGGTTAA	.	PASS	Atlas-SNP
ZC3HAV1	56829	hgsc.bcm.edu	37	7	138764741	138764741	+	Missense_Mutation	SNP	T	T	G	rs142490389	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	38	78	0	0.603175	0	T|0.999;G|0.001	0.001	strong	.	ZC3HAV1	75	.	NM_024625	exon4	c.A946C	p.T316P	GATCAGTAGCCTT	.	PASS	Atlas-SNP
PEF1	553115	hgsc.bcm.edu	37	1	32096265	32096265	+	Silent	SNP	A	A	G	rs1061770	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	71	75	0	0.986111	0	A|0.587;G|0.413	0.413	strong	.	PEF1	20	.	NM_012392	exon5	c.T804C	p.I268I	GAGCCGAATGTTG	.	PASS	Atlas-SNP
PARP15	165631	hgsc.bcm.edu	37	3	122354716	122354716	+	Silent	SNP	C	C	T	rs61754895	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	57	61	0	0.575758	0	C|0.834;T|0.166	0.166	strong	.	PARP15	115	.	NM_001113523	exon12	c.C1806T	p.D602D	CAAGGACACCTAC	.	PASS	Atlas-SNP
AQP12A	375318	hgsc.bcm.edu	37	2	241631665	241631665	+	Silent	SNP	C	C	T	rs76463197	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	41	83	0	0.465909	0	C|0.836;T|0.164	0.164	strong	.	AQP12A	32	.	NM_198998	exon2	c.C298T	p.L100L	GGCACGCTGTTGA	.	PASS	Atlas-SNP
MOB3A	126308	hgsc.bcm.edu	37	19	2078488	2078488	+	Silent	SNP	T	T	C	rs2074894	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	36	62	0	1	0	T|0.597;C|0.403	0.403	strong	MOBKL2A,rectum,carcinoma,0,1	.	.	1	NM_130807	exon3	c.A72G	p.P24P	GGTGCCTGGCTCA	.	PASS	Atlas-SNP
JAK2	3717	hgsc.bcm.edu	37	9	5081828	5081828	+	Missense_Mutation	SNP	G	G	C	rs150221602	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	54	83	0	0.45	0	G|0.999;C|0.001	0.001	strong	.	JAK2	35466	.	NM_004972	exon19	c.G2538C	p.E846D	TGAAGAGAGACAT	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31323215	31323215	+	Silent	SNP	T	T	C	rs41541216	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	61	128	0	0.324468	0	T|0.774;C|0.226	0.226	strong	.	HLA-B	54	.	NM_005514	exon4	c.A774G	p.R258R	TGCTGGTCTGGTC	.	PASS	Atlas-SNP
SUPT20HL1	100130302	hgsc.bcm.edu	37	X	24382453	24382453	+	Missense_Mutation	SNP	G	G	C	rs112697166	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	21	68	0	0.276316	0	G|0.500;C|0.500	0.500	weak	.	.	.	.	NM_001136234	exon1	c.G1576C	p.A526P	GCTGCTGCTGCTC	.	PASS	Atlas-SNP
MYO15A	51168	hgsc.bcm.edu	37	17	18058521	18058521	+	Silent	SNP	C	C	T	rs712272	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	53	66	0	0.540816	0	C|0.696;T|0.304	0.304	strong	.	MYO15A	268	.	NM_016239	exon45	c.C8322T	p.S2774S	CTTCTCCCGCATC	.	PASS	Atlas-SNP
BAG3	9531	hgsc.bcm.edu	37	10	121436362	121436362	+	Silent	SNP	A	A	G	rs196295	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	77	60	0	1	0	A|0.263;G|0.737	0.737	strong	.	BAG3	42	.	NM_004281	exon4	c.A1296G	p.V432V	GAAGGTACAGGGG	.	PASS	Atlas-SNP
LRRC37A2	474170	hgsc.bcm.edu	37	17	44626347	44626347	+	Missense_Mutation	SNP	T	T	C	rs62073349	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	69	110	0	0.408284	0	.	.	weak	.	LRRC37A2	37	.	NM_001006607	exon9	c.T3842C	p.I1281T	TTTCCATTTTAGA	.	PASS	Atlas-SNP
DSG3	1830	hgsc.bcm.edu	37	18	29054294	29054294	+	Missense_Mutation	SNP	C	C	T	rs111986709	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	170	94	146	0	0.552941	0	C|0.975;T|0.025	0.025	strong	.	DSG3	172	.	NM_001944	exon15	c.C2312T	p.S771F	GGCATTCCACTGG	.	PASS	Atlas-SNP
NEDD4	4734	hgsc.bcm.edu	37	15	56243766	56243766	+	Silent	SNP	C	C	T	rs61732704	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	108	132	0	0.972973	0	C|0.943;T|0.057	0.057	strong	.	NEDD4	167	.	NM_006154	exon3	c.G141A	p.T47T	ATATAACGTCACT	.	PASS	Atlas-SNP
OR5R1	219479	hgsc.bcm.edu	37	11	56185401	56185401	+	Missense_Mutation	SNP	C	C	T	rs7123108	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	38	53	0	0.475	0	C|0.951;T|0.049	0.049	strong	.	OR5R1	83	.	NM_001004744	exon1	c.G308A	p.C103Y	AGAAAACAACCCA	.	PASS	Atlas-SNP
CUX2	23316	hgsc.bcm.edu	37	12	111785586	111785586	+	Silent	SNP	T	T	C	rs3803167	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	26	55	0	0.440678	0	T|0.524;C|0.476	0.476	strong	.	CUX2	145	.	NM_015267	exon22	c.T3918C	p.D1306D	GGAGGATGCTGAG	.	PASS	Atlas-SNP
EXD3	54932	hgsc.bcm.edu	37	9	140243880	140243880	+	Missense_Mutation	SNP	G	G	A	rs35097575	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	33	91	0	0.452055	0	G|0.982;A|0.018	0.018	strong	EXD3_ENST00000340951,NS,carcinoma,0,2	EXD3	86	2	NM_017820	exon15	c.C1598T	p.T533M	TGCTGCGTCTTGT	.	PASS	Atlas-SNP
REV1	51455	hgsc.bcm.edu	37	2	100055506	100055506	+	Missense_Mutation	SNP	A	A	G	rs3087386	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	151	92	0	1	0	A|0.422;G|0.578	0.578	strong	.	REV1	100	.	NM_001037872	exon6	c.T770C	p.F257S	TGGGAAAAGGCTG	.	PASS	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25074490	25074490	+	Missense_Mutation	SNP	C	C	T	rs9578751	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	57	67	0	1	0	C|0.909;T|0.091	0.091	strong	.	PARP4	142	.	NM_006437	exon4	c.G365A	p.S122N	GTGGCACTGTCCG	.	PASS	Atlas-SNP
MORF4L1	10933	hgsc.bcm.edu	37	15	79185898	79185898	+	Silent	SNP	C	C	A	rs1435163	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	221	105	290	0	0.475113	0	C|0.877;A|0.123	0.123	strong	.	MORF4L1	26	.	NM_206839	exon10	c.C675A	p.A225A	TCCTGCCAAGAAG	.	PASS	Atlas-SNP
THAP6	152815	hgsc.bcm.edu	37	4	76452302	76452302	+	Missense_Mutation	SNP	T	T	A	rs150566447	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	250	129	213	1	0.516	0.00469484	T|0.998;A|0.002	0.002	strong	.	THAP6	14	.	NM_144721	exon5	c.T547A	p.L183M	AAATCATTGAGGA	.	PASS	Atlas-SNP
UTRN	7402	hgsc.bcm.edu	37	6	144758799	144758799	+	Silent	SNP	A	A	G	rs4895642	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	53	94	0	0.486239	0	A|0.563;G|0.437	0.437	strong	UTRN,NS,carcinoma,0,1	UTRN	327	1	NM_007124	exon10	c.A1158G	p.E386E	CGAAGAAGAATTT	.	PASS	Atlas-SNP
HAUS7	55559	hgsc.bcm.edu	37	X	152735959	152735959	+	Silent	SNP	C	C	T	rs2032436	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	55	72	0	0.436508	0	C|0.857;T|0.143	0.143	strong	.	HAUS7	44	.	NM_017518	exon1	c.G87A	p.E29E	GTCGCCCTCGTCC	.	PASS	Atlas-SNP
TF	7018	hgsc.bcm.edu	37	3	133494354	133494354	+	Missense_Mutation	SNP	C	C	T	rs1049296	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	60	84	0	0.491803	0	C|0.855;T|0.145	0.145	strong	TF,colon,carcinoma,-1,1	TF	116	1	NM_001063	exon15	c.C1765T	p.P589S	AGGAAACCTGTGG	.	PASS	Atlas-SNP
SPATA4	132851	hgsc.bcm.edu	37	4	177113836	177113836	+	Silent	SNP	C	C	T	rs6832177	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	202	92	175	0	0.455446	0	C|0.701;T|0.299	0.299	strong	SPATA4,NS,carcinoma,-1,1	SPATA4	44	1	NM_144644	exon4	c.G630A	p.A210A	GAACTCCGCTTTA	.	PASS	Atlas-SNP
OR8G2	26492	hgsc.bcm.edu	37	11	124096277	124096277	+	Missense_Mutation	SNP	G	G	A	rs2466612	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	180	75	212	0	0.416667	0	G|0.888;A|0.112	0.112	strong	.	.	.	.	NM_001007249	exon1	c.G880A	p.V294I	ACTATTGTTGTGC	.	PASS	Atlas-SNP
TNFRSF19	55504	hgsc.bcm.edu	37	13	24242165	24242165	+	Silent	SNP	C	C	T	rs61745191	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	58	104	0	0.495726	0	C|0.955;T|0.045	0.045	strong	.	TNFRSF19	52	.	NM_018647	exon8	c.C783T	p.S261S	CTGCAGCCCCAAC	.	PASS	Atlas-SNP
PKD1	5310	hgsc.bcm.edu	37	16	2159405	2159405	+	Silent	SNP	C	C	T	rs2575313	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	10	6	20	0	0.6	0	C|0.977;T|0.023	0.023	strong	.	PKD1	184	.	NM_000296	exon15	c.G5763A	p.L1921L	GACCTGCAGGCGG	.	PASS	Atlas-SNP
CLLU1	574028	hgsc.bcm.edu	37	12	92818482	92818482	+	Missense_Mutation	SNP	C	C	T	rs12580153	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	22	60	0	0.392857	0	C|0.805;T|0.195	0.195	strong	.	CLLU1	12	.	NM_001025233	exon1	c.C26T	p.S9F	TTCATTCCTCTAT	.	PASS	Atlas-SNP
XRCC4	7518	hgsc.bcm.edu	37	5	82491674	82491674	+	Missense_Mutation	SNP	T	T	C	rs28360135	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	70	92	0	0.588235	0	T|0.973;C|0.027	0.027	strong	.	XRCC4	37	.	NM_003401	exon4	c.T401C	p.I134T	ACACCATTGCAGA	.	PASS	Atlas-SNP
H1FOO	132243	hgsc.bcm.edu	37	3	129262077	129262077	+	Missense_Mutation	SNP	G	G	A	rs118098064	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	69	99	0	0.456954	0	G|0.971;A|0.029	0.029	strong	.	H1FOO	20	.	NM_153833	exon1	c.G16A	p.V6I	GGGAGCGTCACCA	.	PASS	Atlas-SNP
BSN	8927	hgsc.bcm.edu	37	3	49688155	49688155	+	Silent	SNP	C	C	T	rs139787101	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	78	131	0	0.490566	0	C|0.994;T|0.006	0.006	strong	.	BSN	272	.	NM_003458	exon4	c.C1629T	p.A543A	AGGGGCCCCTCAC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	285	141	203	5	0.494737	0.0246305	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
CCT5	22948	hgsc.bcm.edu	37	5	10254817	10254817	+	Silent	SNP	A	A	G	rs2578617	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	121	126	0	1	0	A|0.264;G|0.736	0.736	strong	.	CCT5	49	.	NM_012073	exon3	c.A198G	p.G66G	GGATGGAGATGTG	.	PASS	Atlas-SNP
TOX4	9878	hgsc.bcm.edu	37	14	21960816	21960816	+	Silent	SNP	T	T	C	rs1060722	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	51	103	0	0.520408	0	T|0.514;C|0.486	0.486	strong	.	TOX4	50	.	NM_014828	exon7	c.T1041C	p.L347L	CACCCTTTCATCC	.	PASS	Atlas-SNP
CDH12	1010	hgsc.bcm.edu	37	5	21752050	21752050	+	Silent	SNP	A	A	G	rs6451992	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	221	103	200	1	0.466063	0.005	A|0.382;G|0.618	0.618	strong	CDH12,NS,carcinoma,0,1	CDH12	238	1	NM_004061	exon15	c.T2181C	p.D727D	AGTTGGATCCACA	.	scavenged	Atlas-SNP
CCDC9	26093	hgsc.bcm.edu	37	19	47770032	47770032	+	Silent	SNP	C	C	T	rs60383222	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	48	151	0	0.328767	0	C|0.880;T|0.120	0.120	strong	.	CCDC9	37	.	NM_015603	exon8	c.C885T	p.A295A	GGATGCCGAGAAG	.	PASS	Atlas-SNP
PRSS54	221191	hgsc.bcm.edu	37	16	58327646	58327646	+	Silent	SNP	A	A	G	rs2288012	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	19	58	0	0.422222	0	A|0.224;G|0.776	0.776	strong	PRSS54,NS,carcinoma,0,1	PRSS54	48	1	NM_001080492	exon3	c.T75C	p.Y25Y	GGAAGAATAGAGA	.	PASS	Atlas-SNP
HIVEP3	59269	hgsc.bcm.edu	37	1	42046613	42046613	+	Silent	SNP	G	G	T	rs12132697	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	49	64	1	0.550562	0.015625	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	.	scavenged	Atlas-SNP
CNTROB	116840	hgsc.bcm.edu	37	17	7847955	7847955	+	Missense_Mutation	SNP	C	C	A	rs11650083	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	29	77	0	0.386667	0	C|0.491;A|0.509	0.509	strong	CNTROB,colon,carcinoma,0,1	CNTROB	61	1	NM_001037144	exon12	c.C1733A	p.P578Q	ACCCTCCAGTACG	.	PASS	Atlas-SNP
MAPK1IP1L	93487	hgsc.bcm.edu	37	14	55529860	55529860	+	Silent	SNP	A	A	G	rs17851309	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	69	107	0	0.50365	0	A|0.960;G|0.040	0.040	strong	.	MAPK1IP1L	14	.	NM_144578	exon3	c.A543G	p.Q181Q	TCCCCAAGCCCCT	.	PASS	Atlas-SNP
SLC4A7	9497	hgsc.bcm.edu	37	3	27472936	27472936	+	Missense_Mutation	SNP	C	C	T	rs3755652	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	218	217	164	0	0.995413	0	C|0.843;T|0.157	0.157	strong	.	SLC4A7	119	.	NM_003615	exon7	c.G976A	p.E326K	GACTCTCTTGGGA	.	PASS	Atlas-SNP
SIVA1	10572	hgsc.bcm.edu	37	14	105222037	105222037	+	Silent	SNP	C	C	T	rs1132975	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	54	67	0	0.519231	0	C|0.646;T|0.354	0.354	strong	.	SIVA1	12	.	NM_006427	exon2	c.C189T	p.A63A	CTGTGCCGTCGTT	.	PASS	Atlas-SNP
SNX19	399979	hgsc.bcm.edu	37	11	130784488	130784488	+	Silent	SNP	A	A	G	rs61734874	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	198	87	201	0	0.439394	0	A|0.842;G|0.158	0.158	strong	.	SNX19	84	.	NM_014758	exon1	c.T1347C	p.I449I	TGTGTCAATATGG	.	PASS	Atlas-SNP
USP4	7375	hgsc.bcm.edu	37	3	49362369	49362369	+	Silent	SNP	C	C	T	rs56038006	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	262	114	243	0	0.435115	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
C9orf129	445577	hgsc.bcm.edu	37	9	96097662	96097662	+	Missense_Mutation	SNP	G	G	A	rs79680372	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	344	153	289	1	0.444767	0.00346021	.	.	weak	.	C9orf129	18	.	NM_001098808	exon3	c.C359T	p.A120V	TTTGTCGCCCCTC	.	PASS	Atlas-SNP
WRN	7486	hgsc.bcm.edu	37	8	30938704	30938704	+	Missense_Mutation	SNP	G	G	A	rs1800391	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	83	195	0	0.427835	0	G|0.944;A|0.056	0.056	strong	.	WRN	116	.	NM_000553	exon9	c.G1161A	p.M387I	GAATATGGAAAGA	.	PASS	Atlas-SNP
COL4A2	1284	hgsc.bcm.edu	37	13	111121620	111121620	+	Missense_Mutation	SNP	C	C	T	rs9583500	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	176	170	1	0.967033	0.00588235	C|0.812;T|0.188	0.188	strong	.	COL4A2	178	.	NM_001846	exon28	c.C2152T	p.P718S	CCAGGGCCCAGGG	.	PASS	Atlas-SNP
STYK1	55359	hgsc.bcm.edu	37	12	10782115	10782115	+	Missense_Mutation	SNP	T	T	C	rs3759259	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	110	121	0	1	0	T|0.438;C|0.562	0.562	strong	.	STYK1	55	.	NM_018423	exon6	c.A610G	p.S204G	GAAAGCTGAGCAG	.	PASS	Atlas-SNP
RRP36	88745	hgsc.bcm.edu	37	6	42995211	42995211	+	Silent	SNP	A	A	G	rs1138141	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	68	171	0	0.419753	0	A|0.725;G|0.275	0.275	strong	.	RRP36	20	.	NM_033112	exon6	c.A639G	p.K213K	CCTGAAAAAATGT	.	PASS	Atlas-SNP
CLEC4C	170482	hgsc.bcm.edu	37	12	7894056	7894056	+	Missense_Mutation	SNP	G	G	A	rs73056605	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	70	176	0	0.503597	0	G|0.766;A|0.234	0.234	strong	CLEC4C,NS,carcinoma,+2,2	CLEC4C	44	2	NM_130441	exon4	c.C196T	p.P66S	GGCTTGGATGATA	.	PASS	Atlas-SNP
NLRP4	147945	hgsc.bcm.edu	37	19	56369908	56369908	+	Missense_Mutation	SNP	G	G	C	rs17857373	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	41	63	0	0.482353	0	G|0.963;C|0.037	0.037	strong	.	NLRP4	331	.	NM_134444	exon3	c.G1149C	p.E383D	ACCTGAGGGTGCC	.	PASS	Atlas-SNP
KAZALD1	81621	hgsc.bcm.edu	37	10	102824349	102824349	+	Missense_Mutation	SNP	G	G	C	rs807037	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	37	36	74	0	0.972973	0	G|0.373;C|0.627	0.627	strong	.	KAZALD1	14	.	NM_030929	exon4	c.G764C	p.G255A	GCCTTGGCCGCAA	.	PASS	Atlas-SNP
TNFAIP8L3	388121	hgsc.bcm.edu	37	15	51350429	51350429	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	247	4	207	1	0.0161943	0.00483092	.	.	none	TNFAIP8L3,caecum,carcinoma,0,1	TNFAIP8L3	30	1	NM_207381	exon3	c.C528T	p.I176I	GATCCCGATTTTG	.	scavenged	Atlas-SNP
UPF2	26019	hgsc.bcm.edu	37	10	12071397	12071397	+	Silent	SNP	G	G	A	rs11257490	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	64	157	0	0.418301	0	G|0.765;A|0.235	0.235	strong	.	UPF2	111	.	NM_080599	exon3	c.C492T	p.L164L	TGAGTCGAGGCGG	.	PASS	Atlas-SNP
APOBEC1	339	hgsc.bcm.edu	37	12	7803646	7803646	+	Silent	SNP	G	G	A	rs10431309	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	67	119	0	0.540323	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
HRH3	11255	hgsc.bcm.edu	37	20	60791404	60791404	+	Silent	SNP	C	C	T	rs3787429	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	102	107	0	0.990291	0	C|0.531;T|0.469	0.469	strong	.	HRH3	25	.	NM_007232	exon3	c.G996A	p.S332S	CTCCAGCGAGGCC	.	PASS	Atlas-SNP
MOK	5891	hgsc.bcm.edu	37	14	102729881	102729881	+	Splice_Site	SNP	A	A	G	rs56377169	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	35	84	0	0.443038	0	A|0.954;G|0.046	0.046	strong	.	.	.	.	NM_014226	exon5	c.283+2T>C	.	CTACGTACCTCGT	.	PASS	Atlas-SNP
GRAMD1C	54762	hgsc.bcm.edu	37	3	113594377	113594377	+	Silent	SNP	A	A	G	rs13079383	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	37	103	0	0.506849	0	A|0.724;G|0.276	0.276	strong	.	GRAMD1C	71	.	NM_017577	exon4	c.A306G	p.L102L	ACGACTATACCTT	.	PASS	Atlas-SNP
KIF1A	547	hgsc.bcm.edu	37	2	241713646	241713646	+	Silent	SNP	A	A	G	rs1063353	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	246	129	165	0	0.52439	0	A|0.528;G|0.472	0.472	strong	.	KIF1A	152	.	NM_001244008	exon12	c.T991C	p.L331L	GACTCAAGGCTGC	.	PASS	Atlas-SNP
ACAA1	30	hgsc.bcm.edu	37	3	38170810	38170810	+	Missense_Mutation	SNP	C	C	G	rs156265	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	230	119	209	0	0.517391	0	C|0.865;G|0.135	0.135	strong	.	ACAA1	32	.	NM_001607	exon6	c.G516C	p.E172D	GGCCTTCTCCTTC	.	PASS	Atlas-SNP
ZNRF4	148066	hgsc.bcm.edu	37	19	5455735	5455735	+	Missense_Mutation	SNP	G	G	A	rs2240744	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	57	41	0	1	0	G|0.785;A|0.215	0.215	strong	.	ZNRF4	59	.	NM_181710	exon1	c.G233A	p.R78Q	CGGGCCGAGCCCT	.	PASS	Atlas-SNP
SLC16A8	23539	hgsc.bcm.edu	37	22	38478666	38478666	+	Splice_Site	SNP	C	C	G	rs77968014	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	32	38	0	0.561404	0	C|0.997;G|0.003	0.003	strong	.	SLC16A8	13	.	NM_013356	exon3	c.214+1G>C	.	CACTGACCCGTGC	.	PASS	Atlas-SNP
CDSN	1041	hgsc.bcm.edu	37	6	31084787	31084787	+	Missense_Mutation	SNP	A	A	G	rs707913	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	98	77	0	0.98	0	A|0.728;G|0.272	0.272	strong	.	CDSN	48	.	NM_001264	exon2	c.T605C	p.F202S	ACCCCAAAGGTCT	.	PASS	Atlas-SNP
ZNF366	167465	hgsc.bcm.edu	37	5	71756670	71756670	+	Silent	SNP	C	C	T	rs2278600	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	32	62	0	0.4	0	C|0.757;T|0.243	0.243	strong	ZNF366,NS,carcinoma,-2,1	ZNF366	108	1	NM_152625	exon2	c.G654A	p.E218E	CTGGGGCTCGGCT	.	PASS	Atlas-SNP
NLRC3	197358	hgsc.bcm.edu	37	16	3613263	3613263	+	Missense_Mutation	SNP	C	C	T	rs142571279	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	18	8	29	0	0.444444	0	C|0.993;T|0.007	0.007	strong	NLRC3,NS,carcinoma,0,1	NLRC3	103	1	NM_178844	exon5	c.G1675A	p.A559T	AGACTGCGGCATC	.	PASS	Atlas-SNP
PMFBP1	83449	hgsc.bcm.edu	37	16	72156842	72156842	+	Missense_Mutation	SNP	T	T	G	rs16973716	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	43	79	0	0.5	0	T|0.542;G|0.458	0.458	strong	.	PMFBP1	101	.	NM_031293	exon19	c.A2739C	p.K913N	AATGTATTTCACC	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	37	16	72992221	72992221	+	Silent	SNP	G	G	A	rs61735550	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	261	258	226	0	0.988506	0	G|0.830;A|0.170	0.170	strong	.	ZFHX3	404	.	NM_006885	exon2	c.C1824T	p.S608S	CTCTGTGCTTTCA	.	PASS	Atlas-SNP
OR4D11	219986	hgsc.bcm.edu	37	11	59271637	59271637	+	Missense_Mutation	SNP	T	T	C	rs7120079	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	382	381	368	1	0.997382	0.00271739	T|0.696;C|0.304	0.304	strong	OR4D11,NS,carcinoma,0,1	OR4D11	62	1	NM_001004706	exon1	c.T589C	p.F197L	CTTGAGTTCTTGA	.	PASS	Atlas-SNP
SLC4A1AP	22950	hgsc.bcm.edu	37	2	27908005	27908005	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	3	124	0	0.025	0	.	.	none	SLC4A1AP,NS,carcinoma,+2,1	SLC4A1AP	63	1	NM_018158	exon10	c.A1977G	p.K659K	AGAGAAAGAAAAG	.	scavenged	Atlas-SNP
SLC9C1	285335	hgsc.bcm.edu	37	3	111887788	111887788	+	Missense_Mutation	SNP	A	A	G	rs73853324	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	181	88	116	0	0.486188	0	A|0.946;G|0.054	0.054	strong	.	.	.	.	NM_183061	exon25	c.T3173C	p.V1058A	TCTTCTACAGCTC	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105411260	105411260	+	Missense_Mutation	SNP	A	A	G	rs2819425	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	75	113	0	0.443787	0	A|0.978;G|0.022	0.022	strong	AHNAK2_ENST00000333244,NS,carcinoma,+1,1	AHNAK2	719	1	NM_138420	exon7	c.T10528C	p.S3510P	TGGAGGAGAGGCT	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155298432	155298432	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	38	92	0	0.431818	0	.	.	none	.	DCHS2	594	.	NM_001142552	exon2	c.T2217C	p.Y739Y	GAGATCATAGGTA	.	PASS	Atlas-SNP
TPM1	7168	hgsc.bcm.edu	37	15	63351873	63351873	+	Silent	SNP	T	T	C	rs11558747	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	28	51	0	0.474576	0	T|0.951;C|0.049	0.049	strong	.	TPM1	59	.	NM_001018007	exon4	c.T486C	p.Y162Y	CAAATATGAAGAG	.	PASS	Atlas-SNP
OAS3	4940	hgsc.bcm.edu	37	12	113386779	113386779	+	Missense_Mutation	SNP	C	C	G	rs2285933	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	84	158	0	0.506024	0	C|0.724;G|0.276	0.276	strong	OAS3,brain,glioma,0,1	OAS3	63	1	NM_006187	exon6	c.C1143G	p.S381R	AGGGAGCAAACCT	.	PASS	Atlas-SNP
GALNS	2588	hgsc.bcm.edu	37	16	88884466	88884466	+	Silent	SNP	C	C	T	rs2303271	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	40	78	0	0.47619	0	C|0.573;T|0.427	0.427	strong	.	GALNS	37	.	NM_000512	exon13	c.G1431A	p.E477E	CAAGGCCTCCTGG	.	PASS	Atlas-SNP
TUT1	64852	hgsc.bcm.edu	37	11	62343667	62343667	+	Silent	SNP	A	A	T	rs118073625	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	17	48	0	0.326923	0	A|0.995;T|0.005	0.005	strong	.	TUT1	122	.	NM_022830	exon9	c.T1638A	p.R546R	GGAGCCACGAAGA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	23	48	0	0.45098	0	T|0.800;C|0.200	0.200	strong	.	IGSF22	211	.	NM_173588	exon21	c.A3391G	p.I1131V	TGATGATGTAGTG	.	PASS	Atlas-SNP
ZNF286A	57335	hgsc.bcm.edu	37	17	15604485	15604485	+	Silent	SNP	T	T	C	rs78494624	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	263	61	192	0	0.231939	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
CENPF	1063	hgsc.bcm.edu	37	1	214830617	214830617	+	Missense_Mutation	SNP	A	A	G	rs438034	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	32	58	0	0.410256	0	T|0.003;G|0.549	0.549	strong	.	CENPF	321	.	NM_016343	exon18	c.A8827G	p.R2943G	AATGGTAGAGGAC	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239430	31239430	+	Missense_Mutation	SNP	C	C	T	rs41543814	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	216	213	192	4	0.986111	0.0208333	C|0.546;T|0.454	0.454	strong	HLA-C_ENST00000383329,NS,lymphoid_neoplasm,0,2	HLA-C	92	2	NM_002117	exon2	c.G289A	p.A97T	GGTCAGCCTGTGC	.	scavenged	Atlas-SNP
ELMSAN1	91748	hgsc.bcm.edu	37	14	74206658	74206658	+	Silent	SNP	G	G	A	rs758773	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	61	154	0	0.484127	0	G|0.859;A|0.141	0.141	strong	.	.	.	.	NM_194278	exon2	c.C54T	p.F18F	GCCCCCGAAGAGG	.	PASS	Atlas-SNP
LAMTOR5	10542	hgsc.bcm.edu	37	1	110950277	110950277	+	Missense_Mutation	SNP	G	G	A	rs6698159	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	66	120	0	0.468085	0	G|0.880;A|0.120	0.120	strong	.	.	.	.	NM_006402	exon1	c.C212T	p.P71L	CCCAGCGGCACGG	.	PASS	Atlas-SNP
MYOM2	9172	hgsc.bcm.edu	37	8	2050519	2050519	+	Silent	SNP	C	C	T	rs2294071	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	30	58	0	0.447761	0	C|0.901;T|0.099	0.099	strong	.	MYOM2	251	.	NM_003970	exon21	c.C2682T	p.G894G	AAATGGCGTGGGG	.	PASS	Atlas-SNP
MALL	7851	hgsc.bcm.edu	37	2	110849222	110849222	+	Silent	SNP	G	G	A	rs3849324	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	26	134	1	0.19697	0.00746269	G|0.884;A|0.116	0.116	strong	MALL,NS,carcinoma,0,1	MALL	14	1	NM_005434	exon2	c.C231T	p.Y77Y	AAACAAGTAAGAC	.	scavenged	Atlas-SNP
SMYD4	114826	hgsc.bcm.edu	37	17	1703982	1703982	+	Missense_Mutation	SNP	C	C	T	rs9913923	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	226	126	230	1	0.557522	0.00434783	C|0.863;T|0.137	0.137	strong	.	SMYD4	50	.	NM_052928	exon5	c.G706A	p.G236S	ATAAGCCGATGGA	.	PASS	Atlas-SNP
SCN9A	6335	hgsc.bcm.edu	37	2	167144995	167144995	+	Silent	SNP	T	T	C	rs13402180	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	94	112	0	0.989474	0	C|0.338;T|0.662	0.338	strong	.	SCN9A	296	.	NM_002977	exon10	c.A1266G	p.E422E	TTGAAATTCTAAT	.	PASS	Atlas-SNP
LRRC34	151827	hgsc.bcm.edu	37	3	169514585	169514585	+	Missense_Mutation	SNP	A	A	T	rs10936600	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	262	147	237	0	0.561069	0	A|0.759;T|0.241	0.241	strong	.	LRRC34	30	.	NM_001172779	exon8	c.T856A	p.L286I	CACATAACTGTTG	.	PASS	Atlas-SNP
BACE1	23621	hgsc.bcm.edu	37	11	117163824	117163824	+	Silent	SNP	C	C	G	rs638405	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	62	145	0	0.424658	0	C|0.533;G|0.467	0.467	strong	.	BACE1	33	.	NM_012104	exon5	c.G786C	p.V262V	AATGATCACCTCA	.	PASS	Atlas-SNP
TONSL	4796	hgsc.bcm.edu	37	8	145661320	145661320	+	Silent	SNP	G	G	A	rs2721140	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	6	6	7	0	1	0	G|0.603;A|0.397	0.397	strong	TONSL_ENST00000409379,rectum,carcinoma,0,2	TONSL	128	2	NM_013432	exon17	c.C2496T	p.A832A	GTCCCCGGCCAGG	.	scavenged	Atlas-SNP
HMGXB3	22993	hgsc.bcm.edu	37	5	149404179	149404179	+	Missense_Mutation	SNP	G	G	T	rs35341726	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	35	69	0	0.486111	0	G|0.934;T|0.066	0.066	strong	.	HMGXB3	31	.	NM_014983	exon7	c.G1396T	p.V466L	GCAGACGTACCAA	.	PASS	Atlas-SNP
SI	6476	hgsc.bcm.edu	37	3	164773057	164773057	+	Silent	SNP	G	G	A	rs9290257	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	34	73	0	0.492754	0	G|0.403;A|0.597	0.597	strong	.	SI	500	.	NM_001041	exon13	c.C1437T	p.N479N	GTTTGGGTTAGTG	.	PASS	Atlas-SNP
ZAP70	7535	hgsc.bcm.edu	37	2	98354511	98354511	+	Silent	SNP	G	G	A	rs3192177	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	103	188	0	0.515	0	G|0.786;A|0.214	0.214	strong	.	ZAP70	77	.	NM_001079	exon13	c.G1677A	p.E559E	GATGGAGTGCCCA	.	PASS	Atlas-SNP
C15orf27	123591	hgsc.bcm.edu	37	15	76496232	76496232	+	Missense_Mutation	SNP	G	G	A	rs937732	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	60	83	0	0.540541	0	G|0.704;A|0.296	0.296	strong	.	C15orf27	32	.	NM_152335	exon11	c.G1172A	p.R391H	CCTCCCGCAGCTC	.	PASS	Atlas-SNP
TTLL2	83887	hgsc.bcm.edu	37	6	167753691	167753691	+	Silent	SNP	C	C	T	rs877653	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	62	120	0	0.516667	0	C|0.724;T|0.276	0.276	strong	.	TTLL2	82	.	NM_031949	exon3	c.C303T	p.S101S	GCAAAGCGTCCTC	.	PASS	Atlas-SNP
CELSR2	1952	hgsc.bcm.edu	37	1	109810544	109810544	+	Silent	SNP	C	C	A	rs2281894	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	163	159	0	0.987879	0	C|0.824;A|0.176	0.176	strong	.	CELSR2	228	.	NM_001408	exon17	c.C6180A	p.R2060R	CCTGCGCAACGCC	.	PASS	Atlas-SNP
SLC6A13	6540	hgsc.bcm.edu	37	12	332362	332362	+	Silent	SNP	C	C	T	rs2289954	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	35	64	0	0.564516	0	C|0.802;T|0.198	0.198	strong	SLC6A13,NS,carcinoma,-1,1	SLC6A13	62	1	NM_016615	exon12	c.G1350A	p.A450A	ACTGGCCGCATAG	.	PASS	Atlas-SNP
HCLS1	3059	hgsc.bcm.edu	37	3	121361787	121361787	+	Silent	SNP	G	G	A	rs2070178	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	32	75	0	0.380952	0	G|0.772;A|0.228	0.228	strong	.	HCLS1	78	.	NM_005335	exon6	c.C441T	p.H147H	AGATGTGTGCTTC	.	PASS	Atlas-SNP
SIRPG	55423	hgsc.bcm.edu	37	20	1610918	1610918	+	Silent	SNP	T	T	A	rs34442420	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	29	59	0	0.508772	0	T|0.991;A|0.009	0.009	strong	.	SIRPG	61	.	NM_018556	exon5	c.A1116T	p.I372I	GACAGCTATGAGG	.	PASS	Atlas-SNP
ADSSL1	122622	hgsc.bcm.edu	37	14	105211221	105211221	+	Silent	SNP	C	C	T	rs12432802	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	60	79	0	0.483871	0	C|0.882;T|0.118	0.118	strong	.	ADSSL1	37	.	NM_199165	exon11	c.C1275T	p.N425N	GCTGAACGGGAAA	.	PASS	Atlas-SNP
PGM5	5239	hgsc.bcm.edu	37	9	70993219	70993219	+	Silent	SNP	C	C	T	rs439331		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	360	168	307	0	0.466667	0	.	.	weak	.	PGM5	80	.	NM_021965	exon2	c.C366T	p.S122S	AGCCAGCCACTGC	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324110	31324110	+	Silent	SNP	G	G	A	rs12721849	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	39	88	0	0.224138	0	T|0.000;G|0.957;A|0.043	0.043	strong	.	HLA-B	54	.	NM_005514	exon3	c.C453T	p.N151N	GTCCTCGTTCAGG	.	PASS	Atlas-SNP
MSGN1	343930	hgsc.bcm.edu	37	2	17998331	17998331	+	Silent	SNP	T	T	C	rs13001625	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	77	73	0	1	0	T|0.585;C|0.415	0.415	strong	.	MSGN1	39	.	NM_001105569	exon1	c.T546C	p.L182L	CCTCCTTAACCGC	.	PASS	Atlas-SNP
PRKCB	5579	hgsc.bcm.edu	37	16	24202458	24202458	+	Silent	SNP	C	C	T	rs3729904	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	59	89	0	0.468254	0	C|0.765;T|0.235	0.235	strong	PRKCB_ENST00000321728,NS,carcinoma,+2,3	PRKCB	383	3	NM_212535	exon16	c.C1770T	p.G590G	TGAAGGCGAACGT	.	PASS	Atlas-SNP
CEP135	9662	hgsc.bcm.edu	37	4	56820412	56820412	+	Missense_Mutation	SNP	G	G	A	rs77591659	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	233	116	254	0	0.497854	0	G|0.973;A|0.027	0.027	strong	.	CEP135	115	.	NM_025009	exon4	c.G335A	p.R112H	GTGCACGTGAAAC	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32552000	32552000	+	Missense_Mutation	SNP	C	C	T	rs17880292	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	16	33	0	0.32	0	C|0.989;T|0.011	0.011	strong	.	HLA-DRB1	41	.	NM_002124	exon2	c.G256A	p.D86N	CAGCGTCAGGCCG	.	PASS	Atlas-SNP
GNAI1	2770	hgsc.bcm.edu	37	7	79842157	79842157	+	Silent	SNP	T	T	C	rs10241877	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	216	94	208	0	0.435185	0	T|0.917;C|0.083	0.083	strong	.	GNAI1	44	.	NM_002069	exon7	c.T846C	p.P282P	GAGCCCTCTCACT	.	PASS	Atlas-SNP
ARIH2	10425	hgsc.bcm.edu	37	3	48965102	48965102	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	2	111	0	0.0147059	0	.	.	none	ARIH2,NS,carcinoma,+2,1	ARIH2	32	1	NM_006321	exon3	c.C111T	p.D37D	AGAGGACTATTAC	.	scavenged	Atlas-SNP
JAG2	3714	hgsc.bcm.edu	37	14	105611282	105611282	+	Silent	SNP	A	A	G	rs2272591	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	44	109	0	1	0	A|0.300;G|0.700	0.700	strong	.	JAG2	69	.	NM_002226	exon24	c.T3069C	p.A1023A	CTCCACAGCACTG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	208	71	189	0	0.341346	0	A|0.589;G|0.411	0.411	strong	.	SVIL	226	.	NM_021738	exon20	c.T3799C	p.L1267L	TGTCCAACTTCAG	.	PASS	Atlas-SNP
SBNO2	22904	hgsc.bcm.edu	37	19	1113701	1113701	+	Missense_Mutation	SNP	G	G	A	rs2302110	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	85	73	0	0.634328	0	A|0.162;G|0.838	0.162	strong	.	SBNO2	112	.	NM_014963	exon19	c.C2080T	p.P694S	ACAGGGGTCCTAG	.	PASS	Atlas-SNP
ESPNL	339768	hgsc.bcm.edu	37	2	239039183	239039183	+	Missense_Mutation	SNP	G	G	A	rs73102303	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	33	74	0	0.471429	0	G|0.871;A|0.129	0.129	strong	ESPNL,NS,carcinoma,0,1	ESPNL	63	1	NM_194312	exon9	c.G1828A	p.V610M	AAGGGCGTGCATG	.	PASS	Atlas-SNP
TRIM2	23321	hgsc.bcm.edu	37	4	154216710	154216710	+	Silent	SNP	G	G	A	rs893805	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	82	81	0	1	0	G|0.511;A|0.489	0.489	strong	TRIM2,NS,carcinoma,0,1	TRIM2	105	1	NM_015271	exon6	c.G1032A	p.T344T	CGGGACGATCTTA	.	PASS	Atlas-SNP
PRSS53	339105	hgsc.bcm.edu	37	16	31097689	31097689	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	39	63	0	0.39	0	.	.	none	.	PRSS53	29	.	NM_001039503	exon5	c.G632A	p.G211D	TGGGGGCCCCCAC	.	PASS	Atlas-SNP
ZZEF1	23140	hgsc.bcm.edu	37	17	3916823	3916823	+	Silent	SNP	G	G	A	rs8075562	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	27	66	0	0.375	0	G|0.778;A|0.222	0.222	strong	.	ZZEF1	195	.	NM_015113	exon52	c.C8499T	p.G2833G	GGCCACGCCCACC	.	PASS	Atlas-SNP
CNTNAP1	8506	hgsc.bcm.edu	37	17	40842762	40842762	+	Silent	SNP	C	C	A	rs1553469	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	49	91	0	0.515789	0	T|0.000;G|0.005	.	strong	.	CNTNAP1	116	.	NM_003632	exon13	c.C1861A	p.R621R	GAGAACCGAGCGT	.	PASS	Atlas-SNP
PCSK4	54760	hgsc.bcm.edu	37	19	1489817	1489817	+	Missense_Mutation	SNP	C	C	T	rs12972390	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	96	160	0	0.55814	0	C|0.980;T|0.020	0.020	strong	.	PCSK4	44	.	NM_017573	exon2	c.G269A	p.R90H	TGCAGGCGGTGGC	.	PASS	Atlas-SNP
PKP2	5318	hgsc.bcm.edu	37	12	33021917	33021917	+	Missense_Mutation	SNP	C	C	G	rs200586695	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	42	74	0	0.518519	0	C|0.999;G|0.001	0.001	weak	.	PKP2	110	.	NM_004572	exon4	c.G1114C	p.A372P	CTGCAGCAGAAAT	.	PASS	Atlas-SNP
ZFPM2	23414	hgsc.bcm.edu	37	8	106813518	106813518	+	Missense_Mutation	SNP	C	C	G	rs11993776	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	153	139	0	0.993506	0	C|0.817;G|0.183	0.183	strong	.	ZFPM2	219	.	NM_012082	exon8	c.C1208G	p.A403G	CAAGTGCAACTGA	.	PASS	Atlas-SNP
HS3ST1	9957	hgsc.bcm.edu	37	4	11401087	11401087	+	Silent	SNP	A	A	G	rs1047389	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	205	92	145	0	0.44878	0	G|0.241;N|0.000	0.241	strong	.	HS3ST1	41	.	NM_005114	exon2	c.T543C	p.D181D	CCTGCCATCGCGC	.	PASS	Atlas-SNP
MEFV	4210	hgsc.bcm.edu	37	16	3304654	3304654	+	Silent	SNP	T	T	C	rs224224	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	11	5	12	0	0.454545	0	T|0.550;C|0.450	0.450	strong	MEFV,colon,carcinoma,-2,1	MEFV	170	1	NM_000243	exon2	c.A414G	p.G138G	GGCAGCTCCGCCC	.	scavenged	Atlas-SNP
ABCA2	20	hgsc.bcm.edu	37	9	139905141	139905141	+	Silent	SNP	G	G	A	rs112887513	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	339	164	240	0	0.483776	0	A|0.055;C|0.000;G|0.945	0.055	strong	.	ABCA2	113	.	NM_212533	exon40	c.C6195T	p.A2065A	CTCACTGGCCACG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	65	95	0	0.528455	0	A|0.571;G|0.429	0.429	strong	.	TMEM132C	142	.	NM_001136103	exon2	c.A482G	p.H161R	ATGACCACGGCGC	.	PASS	Atlas-SNP
TRAPPC12	51112	hgsc.bcm.edu	37	2	3425749	3425749	+	Missense_Mutation	SNP	C	C	T	rs145733257	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	74	108	0	0.459627	0	C|0.999;T|0.001	0.001	strong	.	.	.	.	NM_016030	exon4	c.C1262T	p.T421M	GCCACACGACAGA	.	PASS	Atlas-SNP
SCAMP2	10066	hgsc.bcm.edu	37	15	75146371	75146371	+	Silent	SNP	C	C	T	rs77456595	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	59	85	0	0.495798	0	C|0.967;T|0.033	0.033	strong	.	SCAMP2	18	.	NM_005697	exon3	c.G216A	p.P72P	GGGGGTCGGCTGG	.	PASS	Atlas-SNP
WDR60	55112	hgsc.bcm.edu	37	7	158715219	158715219	+	Silent	SNP	A	A	G	rs2730238	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	232	231	183	0	0.99569	0	A|0.178;G|0.822	0.822	strong	WDR60,right_lower_lobe,carcinoma,+1,1	WDR60	94	1	NM_018051	exon16	c.A2073G	p.K691K	ACAGAAAGTTCTG	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239100	31239100	+	Silent	SNP	A	A	G	rs1131114	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	36	69	7	0.378947	0.101449	G|0.048;A|0.952	0.048	strong	HLA-C_ENST00000383329,colon,carcinoma,-2,2	HLA-C	92	2	NM_002117	exon3	c.T369C	p.S123S	GCAGCCAGACATC	.	scavenged	Atlas-SNP
GTPBP5	26164	hgsc.bcm.edu	37	20	60768615	60768615	+	Missense_Mutation	SNP	G	G	A	rs6062133	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	58	100	0	0.552381	0	A|0.128;C|0.000;G|0.872	0.128	strong	.	GTPBP5	43	.	NM_015666	exon2	c.G139A	p.G47S	TCGGTCGGCCGTG	.	PASS	Atlas-SNP
MYH11	4629	hgsc.bcm.edu	37	16	15809117	15809117	+	Silent	SNP	C	C	T	rs28505375	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	77	146	0	0.503268	0	C|0.920;T|0.080	0.080	strong	.	MYH11	520	.	NM_001040114	exon40	c.G5538A	p.A1846A	GGTGGCCGCCTGT	.	PASS	Atlas-SNP
EMILIN3	90187	hgsc.bcm.edu	37	20	39991171	39991171	+	Silent	SNP	G	G	A	rs61739307	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	19	54	0	0.431818	0	G|0.883;A|0.117	0.117	strong	EMILIN3,rectum,carcinoma,0,1	EMILIN3	63	1	NM_052846	exon4	c.C1038T	p.A346A	GCTGGCGGCCTGA	.	PASS	Atlas-SNP
MRC2	9902	hgsc.bcm.edu	37	17	60767594	60767594	+	Silent	SNP	C	C	A	rs147759673		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	227	116	192	0	0.511013	0	C|1.000;A|0.000	0.000	weak	.	MRC2	126	.	NM_006039	exon26	c.C3820A	p.R1274R	CCCTTCCGGGAGC	.	PASS	Atlas-SNP
SACS	26278	hgsc.bcm.edu	37	13	23930055	23930055	+	Missense_Mutation	SNP	A	A	T	rs2031640	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	313	162	265	0	0.517572	0	A|0.907;T|0.093	0.093	strong	.	SACS	871	.	NM_014363	exon8	c.T696A	p.N232K	TTTGAGATTCCAA	.	PASS	Atlas-SNP
ARHGAP11A	9824	hgsc.bcm.edu	37	15	32925226	32925226	+	Silent	SNP	T	T	G	rs77143444	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	81	154	0	0.490909	0	T|0.995;G|0.005	0.005	strong	.	ARHGAP11A	84	.	NM_199357	exon9	c.T1152G	p.S384S	ACTCTCTCCTGTA	.	PASS	Atlas-SNP
OR8B3	390271	hgsc.bcm.edu	37	11	124266927	124266927	+	Silent	SNP	A	A	G	rs142812088		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	347	16	271	0	0.0461095	0	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
KIAA1429	25962	hgsc.bcm.edu	37	8	95538708	95538708	+	Silent	SNP	G	G	A	rs7835534	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	268	134	264	0	0.5	0	G|0.958;A|0.042	0.042	strong	.	KIAA1429	176	.	NM_015496	exon8	c.C1764T	p.H588H	TGTGTCGTGATCA	.	PASS	Atlas-SNP
ATP8B3	148229	hgsc.bcm.edu	37	19	1783261	1783261	+	Silent	SNP	C	C	T	rs2385387	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	44	86	0	0.483516	0	C|0.687;T|0.313	0.313	strong	.	ATP8B3	108	.	NM_138813	exon29	c.G3669A	p.K1223K	CTCCACCTTCTCC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	28	12	32	0	0.428571	0	C|0.626;T|0.374	0.374	strong	.	SERPINH1	33	.	NM_001235	exon2	c.C598T	p.L200L	GCCCTGCTAGTCA	.	PASS	Atlas-SNP
LRRC42	115353	hgsc.bcm.edu	37	1	54432019	54432019	+	Silent	SNP	G	G	A	rs2294514	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	112	173	0	0.586387	0	G|0.708;A|0.292	0.292	strong	.	LRRC42	29	.	NM_052940	exon7	c.G978A	p.E326E	ACGGGAGACCTCG	.	PASS	Atlas-SNP
PNLIPRP3	119548	hgsc.bcm.edu	37	10	118236218	118236218	+	Silent	SNP	C	C	T	rs61729315	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	79	168	0	0.470238	0	C|0.982;T|0.018	0.018	strong	.	PNLIPRP3	101	.	NM_001011709	exon11	c.C1227T	p.N409N	TGTTAACGTTGGA	.	PASS	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	37	8	110510964	110510964	+	Missense_Mutation	SNP	A	A	C	rs191412861	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	59	138	0	0.373418	0	A|0.997;C|0.003	0.003	strong	.	PKHD1L1	522	.	NM_177531	exon67	c.A10792C	p.S3598R	ATCATGAGTTACA	.	PASS	Atlas-SNP
STAB2	55576	hgsc.bcm.edu	37	12	104092996	104092996	+	Silent	SNP	T	T	C	rs697210	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	92	152	0	0.479167	0	T|0.664;C|0.336	0.336	strong	.	STAB2	370	.	NM_017564	exon34	c.T3705C	p.H1235H	TCTCCATAATGAC	.	PASS	Atlas-SNP
OR4A5	81318	hgsc.bcm.edu	37	11	51411740	51411740	+	Missense_Mutation	SNP	A	A	T	rs35083184	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	52	67	0	0.5	0	A|0.903;T|0.097	0.097	strong	.	OR4A5	116	.	NM_001005272	exon1	c.T656A	p.L219Q	GAGCTTAGGATGA	.	PASS	Atlas-SNP
CAMKK1	84254	hgsc.bcm.edu	37	17	3775848	3775848	+	Missense_Mutation	SNP	T	T	C	rs7214723	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	52	118	0	0.468468	0	T|0.644;C|0.356	0.356	strong	.	CAMKK1	70	.	NM_172207	exon13	c.A1238G	p.E413G	ACTCACTCCTCAG	.	PASS	Atlas-SNP
TBL3	10607	hgsc.bcm.edu	37	16	2026891	2026891	+	Missense_Mutation	SNP	T	T	C	rs17605	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	54	57	0	0.5625	0	T|0.925;C|0.075	0.075	strong	.	TBL3	54	.	NM_006453	exon14	c.T1369C	p.S457P	TTGCTGTCCAAGA	.	PASS	Atlas-SNP
SF3B3	23450	hgsc.bcm.edu	37	16	70569215	70569215	+	Silent	SNP	A	A	T	rs33910368	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	190	102	171	0	0.536842	0	A|0.596;T|0.404	0.404	strong	.	SF3B3	99	.	NM_012426	exon6	c.A717T	p.P239P	AGTTCCAGGAGGG	.	PASS	Atlas-SNP
MRGPRE	116534	hgsc.bcm.edu	37	11	3249552	3249552	+	Missense_Mutation	SNP	C	C	T	rs4391795	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	25	14	35	0	0.56	0	C|0.673;T|0.327	0.327	strong	.	MRGPRE	35	.	NM_001039165	exon2	c.G478A	p.G160S	AGGCGCCGCTGAG	.	PASS	Atlas-SNP
DNAI2	64446	hgsc.bcm.edu	37	17	72295966	72295966	+	Silent	SNP	C	C	T	rs34159194	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	40	20	38	0	0.5	0	C|0.883;T|0.117	0.117	strong	.	DNAI2	102	.	NM_001172810	exon7	c.C834T	p.T278T	GGGCACCGAGTGC	.	PASS	Atlas-SNP
DBF4	10926	hgsc.bcm.edu	37	7	87537183	87537183	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	297	158	234	0	0.531987	0	.	.	none	.	DBF4	67	.	NM_006716	exon12	c.A1730G	p.K577R	ATCGAAAAGTGAA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	94	90	0	0.989474	0	C|0.408;T|0.592	0.592	strong	.	REP15	13	.	NM_001029874	exon1	c.C300T	p.S100S	GGGATCCAACAAG	.	PASS	Atlas-SNP
PSEN2	5664	hgsc.bcm.edu	37	1	227069677	227069677	+	Silent	SNP	T	T	C	rs11405	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	123	127	0	0.984	0	T|0.227;C|0.773	0.773	strong	.	PSEN2	55	.	NM_012486	exon4	c.T69C	p.A23A	GTCGGCTGAGAGC	.	PASS	Atlas-SNP
MC1R	4157	hgsc.bcm.edu	37	16	89986608	89986608	+	Silent	SNP	A	A	G	rs2228478	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	227	120	196	0	0.528634	0	A|0.821;G|0.179	0.179	strong	.	MC1R	20	.	NM_002386	exon1	c.A942G	p.T314T	GCTGACATGCTCC	.	PASS	Atlas-SNP
OR8H3	390152	hgsc.bcm.edu	37	11	55890320	55890320	+	Missense_Mutation	SNP	G	G	C	rs61743838	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	316	132	258	0	0.417722	0	G|0.948;C|0.052	0.052	strong	.	OR8H3	92	.	NM_001005201	exon1	c.G472C	p.V158L	TCCTTTGTCAATG	.	PASS	Atlas-SNP
TAS2R30	259293	hgsc.bcm.edu	37	12	11286790	11286790	+	Silent	SNP	A	A	C	rs2600355	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	83	164	0	0.427835	0	A|0.635;C|0.365	0.365	strong	.	TAS2R30	28	.	NM_001097643	exon1	c.T54G	p.V18V	TCCAATAACAAAT	.	PASS	Atlas-SNP
EBF1	1879	hgsc.bcm.edu	37	5	158204425	158204425	+	Silent	SNP	A	A	G	rs1368298	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	214	213	178	0	0.995327	0	A|0.408;G|0.592	0.592	strong	EBF1,NS,carcinoma,0,1	EBF1	110	1	NM_024007	exon10	c.T1032C	p.Y344Y	ACCTGTATAAATG	.	PASS	Atlas-SNP
ZNF490	57474	hgsc.bcm.edu	37	19	12691497	12691497	+	Silent	SNP	G	G	A	rs140620156	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	42	94	0	0.411765	0	G|0.997;A|0.003	0.003	strong	.	ZNF490	42	.	NM_020714	exon5	c.C1392T	p.H464H	TCTTTCGTGCCTT	.	PASS	Atlas-SNP
EVA1C	59271	hgsc.bcm.edu	37	21	33887131	33887131	+	Silent	SNP	G	G	A	rs1129157	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	23	51	0	0.418182	0	G|0.575;A|0.425	0.425	strong	.	.	.	.	NM_058187	exon8	c.G957A	p.P319P	CCACCCGGAGAGA	.	PASS	Atlas-SNP
CLASP2	23122	hgsc.bcm.edu	37	3	33543195	33543195	+	Silent	SNP	C	C	T	rs111990025	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	32	61	0	0.450704	0	C|0.987;T|0.013	0.013	strong	.	CLASP2	138	.	NM_015097	exon38	c.G4410A	p.A1470A	AATTACCGCATGA	.	PASS	Atlas-SNP
SLC6A18	348932	hgsc.bcm.edu	37	5	1244425	1244425	+	Missense_Mutation	SNP	C	C	T	rs4073918	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	85	147	0	0.454545	0	C|0.254;T|0.746	0.746	strong	.	SLC6A18	84	.	NM_182632	exon10	c.C1433T	p.P478L	CTTCCCCGAACCT	.	PASS	Atlas-SNP
OR52N1	79473	hgsc.bcm.edu	37	11	5809548	5809548	+	Missense_Mutation	SNP	G	G	A	rs7948009	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	74	140	0	0.448485	0	G|0.440;A|0.560	0.560	strong	.	OR52N1	70	.	NM_001001913	exon1	c.C499T	p.R167C	GAAGGCGCTTGGT	.	PASS	Atlas-SNP
ZNF74	7625	hgsc.bcm.edu	37	22	20761063	20761063	+	Silent	SNP	G	G	A	rs2228236	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	41	85	0	0.476744	0	G|0.859;A|0.141	0.141	strong	.	ZNF74	54	.	NM_003426	exon5	c.G1740A	p.E580E	CAGCGAGGGGAAG	.	PASS	Atlas-SNP
KIAA1683	80726	hgsc.bcm.edu	37	19	18377274	18377274	+	Missense_Mutation	SNP	A	A	G	rs3746186	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	274	139	232	1	0.507299	0.00431034	A|0.485;G|0.515	0.515	strong	.	KIAA1683	190	.	NM_001145304	exon3	c.T1076C	p.M359T	GTGGTCATCGTGG	.	PASS	Atlas-SNP
CACHD1	57685	hgsc.bcm.edu	37	1	65016302	65016302	+	Missense_Mutation	SNP	C	C	G	rs61731118	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	329	157	331	0	0.477204	0	C|0.991;G|0.009	0.009	strong	.	CACHD1	125	.	NM_020925	exon2	c.C71G	p.T24S	TTTACACTGAGAA	.	PASS	Atlas-SNP
KIAA1683	80726	hgsc.bcm.edu	37	19	18376407	18376407	+	Missense_Mutation	SNP	T	T	A	rs8110972	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	62	119	0	0.459259	0	T|0.486;A|0.514	0.514	strong	.	KIAA1683	190	.	NM_001145304	exon3	c.A1943T	p.Y648F	GGCACATACACGT	.	PASS	Atlas-SNP
PREB	10113	hgsc.bcm.edu	37	2	27355991	27355991	+	Silent	SNP	G	G	T	rs2289358	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	56	77	0	0.533333	0	G|0.800;T|0.200	0.200	strong	.	PREB	37	.	NM_013388	exon3	c.C540A	p.V180V	CTTCCAGACACGG	.	PASS	Atlas-SNP
MORC1	27136	hgsc.bcm.edu	37	3	108703587	108703587	+	Missense_Mutation	SNP	C	C	T	rs2290057	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	76	138	0	0.562963	0	C|0.801;T|0.199	0.199	strong	.	MORC1	211	.	NM_014429	exon23	c.G2300A	p.S767N	GAAGAGCTTCTTT	.	PASS	Atlas-SNP
TUBGCP2	10844	hgsc.bcm.edu	37	10	135098621	135098621	+	Silent	SNP	G	G	A	rs35736540	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	60	126	0	0.428571	0	G|0.986;A|0.014	0.014	strong	.	TUBGCP2	79	.	NM_001256617	exon14	c.C2076T	p.T692T	CTTGGCGGTTTTG	.	PASS	Atlas-SNP
MARCH1	55016	hgsc.bcm.edu	37	4	164466824	164466824	+	Silent	SNP	C	C	T	rs13130399	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	248	119	177	0	0.479839	0	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
KIAA1614	57710	hgsc.bcm.edu	37	1	180905448	180905448	+	Missense_Mutation	SNP	G	G	T	rs3795504	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	65	102	0	0.5	0	G|0.614;T|0.386	0.386	strong	.	KIAA1614	75	.	NM_020950	exon5	c.G2403T	p.L801F	TTCCTTGTGTCCT	.	PASS	Atlas-SNP
MTUS1	57509	hgsc.bcm.edu	37	8	17612694	17612694	+	Missense_Mutation	SNP	C	C	G	rs73206291	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	70	129	0	0.56	0	C|0.943;G|0.057	0.057	strong	.	MTUS1	144	.	NM_001001924	exon2	c.G623C	p.W208S	GATGTCCAAGTGG	.	PASS	Atlas-SNP
EIF5B	9669	hgsc.bcm.edu	37	2	99995517	99995517	+	Silent	SNP	C	C	T	rs11896520	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	43	106	0	0.488636	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
OR12D2	26529	hgsc.bcm.edu	37	6	29364838	29364838	+	Missense_Mutation	SNP	C	C	G	rs2073152	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	289	119	245	0	0.411765	0	C|0.763;G|0.237	0.237	strong	.	OR12D2	42	.	NM_013936	exon1	c.C362G	p.S121C	ACCTCTCTGTGGC	.	PASS	Atlas-SNP
SLC5A10	125206	hgsc.bcm.edu	37	17	18880268	18880268	+	Silent	SNP	C	C	A	rs2472715	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	56	81	0	0.5	0	C|0.687;A|0.313	0.313	strong	.	SLC5A10	55	.	NM_001042450	exon9	c.C948A	p.I316I	GATCATCATGCCG	.	PASS	Atlas-SNP
SLFN5	162394	hgsc.bcm.edu	37	17	33586111	33586111	+	Silent	SNP	G	G	A	rs141928271	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	198	96	201	0	0.484848	0	G|0.994;A|0.006	0.006	strong	.	SLFN5	92	.	NM_144975	exon2	c.G402A	p.L134L	AGCTCTGGCATTC	.	PASS	Atlas-SNP
POLQ	10721	hgsc.bcm.edu	37	3	121208176	121208176	+	Missense_Mutation	SNP	T	T	C	rs3218651	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	79	205	0	0.407216	0	T|0.779;C|0.221	0.221	strong	.	POLQ	273	.	NM_199420	exon16	c.A3602G	p.H1201R	TGTTCATGAGATT	.	PASS	Atlas-SNP
HLA-DOA	3111	hgsc.bcm.edu	37	6	32975257	32975257	+	Silent	SNP	C	C	T	rs365066	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	48	67	0	0.527473	0	C|0.605;T|0.395	0.395	strong	.	HLA-DOA	22	.	NM_002119	exon3	c.G444A	p.L148L	GTTGCGCAGCCAG	.	PASS	Atlas-SNP
THEM5	284486	hgsc.bcm.edu	37	1	151820324	151820324	+	Missense_Mutation	SNP	T	T	C	rs6587625	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	121	109	1	0.991803	0.00917431	T|0.206;C|0.794	0.794	strong	.	THEM5	41	.	NM_182578	exon5	c.A590G	p.D197G	AGAGAGTCCACGG	.	PASS	Atlas-SNP
SAMD9L	219285	hgsc.bcm.edu	37	7	92763720	92763720	+	Missense_Mutation	SNP	G	G	A	rs151304501	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	62	162	0	0.430556	0	G|0.987;A|0.013	0.013	strong	.	SAMD9L	227	.	NM_152703	exon5	c.C1565T	p.A522V	TCTGAAGCTCTTT	.	PASS	Atlas-SNP
TRIM29	23650	hgsc.bcm.edu	37	11	119998151	119998151	+	Missense_Mutation	SNP	C	C	G	rs146343820	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	197	90	174	0	0.456853	0	C|0.999;G|0.001	0.001	strong	.	TRIM29	78	.	NM_012101	exon3	c.G1027C	p.V343L	CCTTCACTTGGTC	.	PASS	Atlas-SNP
GSTM5	2949	hgsc.bcm.edu	37	1	110260040	110260040	+	Missense_Mutation	SNP	A	A	G	rs113130058	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	32	78	0	0.395062	0	A|0.995;G|0.005	0.005	strong	.	GSTM5	89	.	NM_000851	exon8	c.A649G	p.S217G	TGGAACAGCAAAT	.	PASS	Atlas-SNP
ZNF211	10520	hgsc.bcm.edu	37	19	58153465	58153465	+	Nonsense_Mutation	SNP	T	T	A	rs146505315	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	53	20	43	0	0.377358	0	T|0.996;A|0.004	0.004	strong	.	ZNF211	78	.	NM_001265597	exon5	c.T1806A	p.Y602X	GCCTTATCAGTGC	.	PASS	Atlas-SNP
MBD4	8930	hgsc.bcm.edu	37	3	129155451	129155451	+	Missense_Mutation	SNP	C	C	T	rs140693	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	228	102	237	0	0.447368	0	C|0.939;T|0.061	0.061	strong	.	MBD4	53	.	NM_003925	exon3	c.G1036A	p.E346K	ACTTCTCGTTGTG	.	PASS	Atlas-SNP
DNAH6	1768	hgsc.bcm.edu	37	2	84861723	84861723	+	Silent	SNP	C	C	T	rs7570005	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	52	100	0	0.490566	0	C|0.843;T|0.157	0.157	strong	.	DNAH6	194	.	NM_001370	exon30	c.C4611T	p.I1537I	CGTCATCGCGCAG	.	PASS	Atlas-SNP
C1S	716	hgsc.bcm.edu	37	12	7171620	7171620	+	Silent	SNP	C	C	T	rs7965055	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	183	186	0	0.989189	0	C|0.903;T|0.097	0.097	strong	.	C1S	93	.	NM_201442	exon5	c.C441T	p.C147C	CTTCTGCAACAAT	.	PASS	Atlas-SNP
CHST10	9486	hgsc.bcm.edu	37	2	101010082	101010082	+	Silent	SNP	G	G	C	rs3748930	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	55	100	0	0.509259	0	G|0.426;C|0.574	0.574	strong	.	CHST10	42	.	NM_004854	exon7	c.C696G	p.T232T	CCCCCGGGTCTCT	.	PASS	Atlas-SNP
AOC2	314	hgsc.bcm.edu	37	17	40996656	40996656	+	Missense_Mutation	SNP	A	A	G	rs34230945	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	92	144	0	0.528736	0	A|0.984;G|0.016	0.016	strong	.	AOC2	61	.	NM_009590	exon1	c.A13G	p.I5V	CTCAAGATAGTCC	.	PASS	Atlas-SNP
LIPK	643414	hgsc.bcm.edu	37	10	90512306	90512306	+	Missense_Mutation	SNP	G	G	C	rs1214464	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	52	85	0	0.912281	0	G|0.809;C|0.191	0.191	strong	.	LIPK	50	.	NM_001080518	exon9	c.G993C	p.M331I	TAAGATGGAAGTT	.	PASS	Atlas-SNP
ABCA1	19	hgsc.bcm.edu	37	9	107602666	107602666	+	Silent	SNP	C	C	T	rs2246841	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	242	113	212	0	0.466942	0	C|0.866;T|0.134	0.134	strong	.	ABCA1	244	.	NM_005502	exon9	c.G948A	p.G316G	CTTCAGCCCCCCT	.	PASS	Atlas-SNP
OR5H1	26341	hgsc.bcm.edu	37	3	97851659	97851659	+	Missense_Mutation	SNP	A	A	T	rs199787047	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	680	11	512	3	0.0161765	0.00585938	A|0.978;T|0.022	0.022	strong	OR5H1,NS,carcinoma,-2,7	OR5H1	71	7	NM_001005338	exon1	c.A118T	p.M40L	ACCATCATGGGGA	.	scavenged	Atlas-SNP
CD72	971	hgsc.bcm.edu	37	9	35612978	35612978	+	Missense_Mutation	SNP	G	G	A	rs34791102	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	100	173	0	0.537634	0	G|0.929;A|0.071	0.071	strong	.	CD72	20	.	NM_001782	exon6	c.C701T	p.P234L	CCCGACGGACAGC	.	PASS	Atlas-SNP
MCCD1	401250	hgsc.bcm.edu	37	6	31496915	31496915	+	Missense_Mutation	SNP	G	G	A	rs2259435	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	45	86	0	0.548781	0	G|0.837;A|0.163	0.163	strong	.	MCCD1	3	.	NM_001011700	exon1	c.G124A	p.E42K	ATGGAAGAGCAGA	.	PASS	Atlas-SNP
VPS4A	27183	hgsc.bcm.edu	37	16	69355155	69355155	+	Silent	SNP	G	G	A	rs1127232	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	52	88	0	0.536082	0	A|0.047;C|0.000;G|0.953	0.047	strong	.	VPS4A	18	.	NM_013245	exon9	c.G1053A	p.S351S	GCAGTCGGCCACA	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	37	MT	14053	14053	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	29	13	0	0.966667	0	.	.	none	.	.	.	.	ENST00000361567	exon1	c.A1717G	p.T573A	ATCTCCACCTCCA	.	PASS	Atlas-SNP
AGGF1	55109	hgsc.bcm.edu	37	5	76359024	76359024	+	Missense_Mutation	SNP	C	C	A	rs34400049	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	190	78	193	0	0.410526	0	A|0.225;C|0.775	0.225	strong	.	AGGF1	71	.	NM_018046	exon14	c.C2092A	p.P698T	ACTAAGCCTCAAA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	250	131	235	0	0.524	0	C|0.623;A|0.377	0.377	strong	.	MYPN	189	.	NM_032578	exon17	c.C3403A	p.P1135T	ATTGACCCACTCA	.	PASS	Atlas-SNP
PRKCDBP	112464	hgsc.bcm.edu	37	11	6340525	6340525	+	Silent	SNP	A	A	T	rs12570	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	19	9	21	0	0.473684	0	A|0.354;T|0.646	0.646	strong	PRKCDBP,NS,carcinoma,0,1	PRKCDBP	19	1	NM_145040	exon2	c.T654A	p.A218A	GGCTTCAGCGCTC	.	PASS	Atlas-SNP
ZZEF1	23140	hgsc.bcm.edu	37	17	3953102	3953102	+	Missense_Mutation	SNP	A	A	G	rs781852	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	53	132	0	0.452991	0	T|0.003;G|0.504	0.504	strong	ZZEF1,colon,carcinoma,0,1	ZZEF1	195	1	NM_015113	exon37	c.T5915C	p.L1972P	TCTTCTAGGCTCG	.	PASS	Atlas-SNP
C1orf162	128346	hgsc.bcm.edu	37	1	112018657	112018657	+	Missense_Mutation	SNP	G	G	A	rs6703267	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	67	140	0	0.489051	0	G|0.782;A|0.218	0.218	strong	.	C1orf162	14	.	NM_174896	exon2	c.G7A	p.G3S	ATGGGAGGCAATG	.	PASS	Atlas-SNP
TLE3	7090	hgsc.bcm.edu	37	15	70346923	70346923	+	Silent	SNP	C	C	T	rs2228178	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	60	72	0	0.618557	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
KIAA1430	57587	hgsc.bcm.edu	37	4	186097045	186097045	+	Silent	SNP	C	C	T	rs6855305	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	110	229	0	0.547264	0	C|0.502;N|0.000	.	strong	.	KIAA1430	55	.	NM_020827	exon3	c.G1215A	p.P405P	GCTTCCCGGCTTT	.	PASS	Atlas-SNP
SYTL1	84958	hgsc.bcm.edu	37	1	27676925	27676925	+	Silent	SNP	G	G	A	rs6702341	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	71	70	0	0.986111	0	G|0.711;A|0.289	0.289	strong	.	SYTL1	57	.	NM_001193308	exon10	c.G954A	p.K318K	GCGCAAGACGGCG	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324154	31324154	+	Missense_Mutation	SNP	G	G	A	rs1050379	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	46	82	0	0.958333	0	G|0.731;A|0.269	0.269	strong	.	HLA-B	54	.	NM_005514	exon3	c.C409T	p.H137Y	GGTCATGCCCGCG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	303	141	283	0	0.465347	0	A|0.370;G|0.630	0.370	strong	.	MYPN	189	.	NM_032578	exon11	c.G2072A	p.S691N	CTTTCAGCATGAC	.	PASS	Atlas-SNP
AIMP2	7965	hgsc.bcm.edu	37	7	6063283	6063283	+	Silent	SNP	C	C	T	rs4560	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	213	212	203	0	0.995305	0	C|0.643;T|0.357	0.357	strong	.	AIMP2	32	.	NM_006303	exon4	c.C924T	p.N308N	TGAAAACCTGGCT	.	PASS	Atlas-SNP
PRSS35	167681	hgsc.bcm.edu	37	6	84234144	84234144	+	Silent	SNP	C	C	T	rs3812141	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	54	81	0	0.580645	0	C|0.813;T|0.187	0.187	strong	.	PRSS35	60	.	NM_153362	exon2	c.C984T	p.S328S	TGTGTCCGACGAA	.	PASS	Atlas-SNP
OR4C15	81309	hgsc.bcm.edu	37	11	55322099	55322099	+	Missense_Mutation	SNP	C	C	G	rs17496724	bycluster;byfrequency;byhapmap;by1000genomes;alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	36	66	0	0.467532	0	C|0.966;A|0.034	.	alt	.	OR4C15	145	.	NM_001001920	exon1	c.C317G	p.A106G	GCCCTGCTCTTCT	.	PASS	Atlas-SNP
VGLL2	245806	hgsc.bcm.edu	37	6	117591755	117591755	+	Silent	SNP	T	T	C	rs13194610	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	32	19	49	0	0.59375	0	T|0.831;C|0.169	0.169	strong	.	VGLL2	18	.	NM_182645	exon3	c.T441C	p.N147N	CTGGAATAGCGCG	.	PASS	Atlas-SNP
OXGR1	27199	hgsc.bcm.edu	37	13	97639414	97639414	+	Silent	SNP	C	C	T	rs9284174	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	170	74	138	0	0.435294	0	C|0.476;T|0.524	0.524	strong	.	OXGR1	46	.	NM_080818	exon4	c.G600A	p.L200L	CAAAATCAGGTTG	.	PASS	Atlas-SNP
MADCAM1	8174	hgsc.bcm.edu	37	19	501767	501767	+	Missense_Mutation	SNP	C	C	T	rs78245161	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	15	87	0	0.157895	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
CEP290	80184	hgsc.bcm.edu	37	12	88500847	88500847	+	Missense_Mutation	SNP	T	T	C	rs11104738	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	38	139	0	0.306452	0	T|0.898;C|0.102	0.102	strong	.	CEP290	195	.	NM_025114	exon24	c.A2512G	p.K838E	TTGTTTTAGATTC	.	PASS	Atlas-SNP
KRTAP10-5	386680	hgsc.bcm.edu	37	21	45999908	45999908	+	Missense_Mutation	SNP	A	A	C	rs380585	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	50	105	0	0.526316	0	A|0.902;C|0.098	0.098	strong	.	KRTAP10-5	43	.	NM_198694	exon1	c.T548G	p.F183C	GGTTTGAAGCAGA	.	PASS	Atlas-SNP
BPIFB6	128859	hgsc.bcm.edu	37	20	31627291	31627291	+	Missense_Mutation	SNP	A	A	G	rs4911287	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	97	110	0	1	0	A|0.477;G|0.523	0.523	strong	BPIL3,NS,carcinoma,-2,1	.	.	1	NM_174897	exon10	c.A1039G	p.S347G	TGGCGGAGCAAGG	.	PASS	Atlas-SNP
CEP290	80184	hgsc.bcm.edu	37	12	88505633	88505633	+	Silent	SNP	A	A	G	rs45465996	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	37	87	0	0.486842	0	A|0.892;G|0.108	0.108	strong	.	CEP290	195	.	NM_025114	exon21	c.T2055C	p.A685A	TTCTATAGCCTAG	.	PASS	Atlas-SNP
CCDC155	147872	hgsc.bcm.edu	37	19	49894152	49894152	+	Silent	SNP	C	C	T	rs7256629	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	77	67	0	0.987179	0	C|0.523;T|0.477	0.477	strong	.	CCDC155	46	.	NM_144688	exon2	c.C12T	p.P4P	CCTGCCCGAGGGC	.	PASS	Atlas-SNP
FZD6	8323	hgsc.bcm.edu	37	8	104343686	104343686	+	Silent	SNP	G	G	A	rs1053917	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	50	93	0	0.46729	0	G|0.585;A|0.415	0.415	strong	.	FZD6	61	.	NM_003506	exon7	c.G2070A	p.P690P	TCACCCGGTTTCA	.	PASS	Atlas-SNP
ECI1	1632	hgsc.bcm.edu	37	16	2294549	2294549	+	Missense_Mutation	SNP	C	C	T	rs145543160	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	42	108	0	0.385321	0	C|0.998;T|0.002	0.002	strong	ECI1,NS,carcinoma,-1,1	ECI1	20	1	NM_001178029	exon4	c.G299A	p.R100H	CCCGGGCGGTCCT	.	PASS	Atlas-SNP
C4orf33	132321	hgsc.bcm.edu	37	4	130032843	130032843	+	Missense_Mutation	SNP	A	A	G	rs17351999	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	183	97	150	0	0.530055	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
MUC16	94025	hgsc.bcm.edu	37	19	8987218	8987218	+	Missense_Mutation	SNP	G	G	T	rs3764556	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	260	126	231	1	0.484615	0.004329	G|0.618;T|0.382	0.382	strong	.	MUC16	4315	.	NM_024690	exon68	c.C41869A	p.Q13957K	GGTGCTGCATGAC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	56	90	0	0.486957	0	C|0.383;N|0.000	0.383	strong	.	LRP4	160	.	NM_002334	exon31	c.A4660G	p.S1554G	CATGGCTGACCAA	.	PASS	Atlas-SNP
AP4B1	10717	hgsc.bcm.edu	37	1	114443899	114443899	+	Silent	SNP	G	G	A	rs17464525	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	297	148	312	0	0.498316	0	G|0.856;A|0.144	0.144	strong	.	AP4B1	72	.	NM_006594	exon5	c.C576T	p.G192G	GACAACGCCTCCT	.	PASS	Atlas-SNP
MYSM1	114803	hgsc.bcm.edu	37	1	59147926	59147926	+	Missense_Mutation	SNP	T	T	C	rs12139511	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	151	116	1	0.993421	0.00862069	T|0.407;C|0.593	0.593	strong	.	MYSM1	50	.	NM_001085487	exon8	c.A790G	p.T264A	CAGAAGTAATGAA	.	PASS	Atlas-SNP
TRIM6-TRIM34	445372	hgsc.bcm.edu	37	11	5625784	5625784	+	Silent	SNP	A	A	G	rs3751005	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	43	66	0	0.494253	0	A|0.949;G|0.051	0.051	strong	.	TRIM6-TRIM34	68	.	NM_001003819	exon3	c.A528G	p.L176L	GTCTCTAAAGAAG	.	PASS	Atlas-SNP
R3HCC1	203069	hgsc.bcm.edu	37	8	23152334	23152334	+	Silent	SNP	A	A	G	rs15946	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	62	100	0	0.496	0	A|0.205;C|0.000;G|0.795	0.795	strong	.	R3HCC1	11	.	NM_001136108	exon7	c.A588G	p.T196T	CCTCACACAGGGA	.	PASS	Atlas-SNP
THAP8	199745	hgsc.bcm.edu	37	19	36530428	36530428	+	Missense_Mutation	SNP	G	G	A	rs34250145	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	46	105	0	0.410714	0	G|0.931;A|0.069	0.069	strong	.	THAP8	11	.	NM_152658	exon3	c.C469T	p.P157S	GCTCAGGAGTTGG	.	PASS	Atlas-SNP
KIF5B	3799	hgsc.bcm.edu	37	10	32306151	32306151	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	355	4	301	1	0.0112676	0.00332226	.	.	none	KIF5B,rectum,carcinoma,-1,1	KIF5B	81	1	NM_004521	exon24	c.G2681A	p.R894H	TGATAGCGTTTGC	.	scavenged	Atlas-SNP
DHX58	79132	hgsc.bcm.edu	37	17	40255812	40255812	+	Missense_Mutation	SNP	C	C	T	rs2074160	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	42	22	30	0	0.52381	0	C|0.886;T|0.114	0.114	strong	.	DHX58	39	.	NM_024119	exon12	c.G1568A	p.R523Q	AGATCCCGGATCT	.	PASS	Atlas-SNP
TCF4	6925	hgsc.bcm.edu	37	18	52895531	52895531	+	Silent	SNP	T	T	C	rs8766	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	30	47	0	0.46875	0	T|0.626;C|0.374	0.374	strong	.	TCF4	178	.	NM_001243226	exon20	c.A2247G	p.S749S	AGGCTCTGAGGAC	.	PASS	Atlas-SNP
CTSW	1521	hgsc.bcm.edu	37	11	65650883	65650883	+	Silent	SNP	A	A	G	rs35841983	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	44	60	0	0.54321	0	A|0.975;G|0.025	0.025	strong	.	CTSW	18	.	NM_001335	exon9	c.A1008G	p.Q336Q	GGCCCAATGGGGA	.	PASS	Atlas-SNP
GLI1	2735	hgsc.bcm.edu	37	12	57861785	57861785	+	Silent	SNP	T	T	C	rs61734545	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	44	76	0	0.5	0	T|0.978;C|0.022	0.022	strong	GLI1,NS,carcinoma,+1,1	GLI1	141	1	NM_005269	exon10	c.T1086C	p.Y362Y	GCCGTATGTATGT	.	PASS	Atlas-SNP
SKP2	6502	hgsc.bcm.edu	37	5	36163858	36163858	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	95	173	0	0.513514	0	.	.	none	.	SKP2	70	.	NM_032637	exon3	c.C392T	p.A131V	GCCTAGCGTAAGT	.	PASS	Atlas-SNP
SMPD4	55627	hgsc.bcm.edu	37	2	130912778	130912778	+	Silent	SNP	A	A	G	rs149268431	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	15	111	0	0.0980392	0	A|0.998;G|0.002	0.002	strong	SMPD4,NS,adenoma,0,1	SMPD4	67	1	NM_017951	exon15	c.T1461C	p.F487F	GTTCAGAAAGCCC	.	PASS	Atlas-SNP
OBP2A	29991	hgsc.bcm.edu	37	9	138440554	138440554	+	Missense_Mutation	SNP	G	G	C	rs55695858	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	90	140	0	0.502793	0	G|0.790;C|0.210	0.210	strong	.	OBP2A	21	.	NM_014582	exon5	c.G389C	p.G130A	CTGCAGGTAGGAA	.	PASS	Atlas-SNP
DYDC2	84332	hgsc.bcm.edu	37	10	82126541	82126541	+	Missense_Mutation	SNP	C	C	G	rs36027713	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	47	131	0	0.451923	0	C|0.982;G|0.018	0.018	strong	DYDC2,NS,carcinoma,+1,1	DYDC2	18	1	NM_001270042	exon4	c.C410G	p.P137R	TCCTGCCAGGTAC	.	PASS	Atlas-SNP
HLA-DPB1	3115	hgsc.bcm.edu	37	6	33052958	33052958	+	Missense_Mutation	SNP	C	C	T	rs1042335	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	249	106	215	0	0.425703	0	C|0.607;T|0.393	0.393	strong	.	HLA-DPB1	28	.	NM_002121	exon3	c.C596T	p.T199I	TCTACACCTGCCA	.	PASS	Atlas-SNP
ZNF839	55778	hgsc.bcm.edu	37	14	102792631	102792631	+	Missense_Mutation	SNP	G	G	A	rs7158139	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	54	107	0	0.469565	0	G|0.622;A|0.378	0.378	strong	.	ZNF839	41	.	NM_018335	exon2	c.G598A	p.D200N	GCTCCAGATGAAC	.	PASS	Atlas-SNP
TRPM6	140803	hgsc.bcm.edu	37	9	77436641	77436641	+	Silent	SNP	G	G	A	rs7018994	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	40	62	0	0.555556	0	G|0.701;A|0.299	0.299	strong	.	TRPM6	377	.	NM_017662	exon8	c.C954T	p.G318G	ACCTGTGCCCTCA	.	PASS	Atlas-SNP
ZNF12	7559	hgsc.bcm.edu	37	7	6731672	6731672	+	Missense_Mutation	SNP	G	G	C	rs61731528	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	30	72	0	0.38961	0	G|0.952;C|0.048	0.048	strong	.	ZNF12	53	.	NM_016265	exon5	c.C901G	p.Q301E	CACACTGATTACA	.	PASS	Atlas-SNP
CEACAM20	125931	hgsc.bcm.edu	37	19	45016116	45016116	+	Missense_Mutation	SNP	A	A	G	rs8100718	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	95	171	0	0.516304	0	A|0.633;G|0.366	0.366	strong	CEACAM20,NS,carcinoma,0,1	CEACAM20	31	1	NM_001102600	exon10	c.T1534C	p.C512R	TATTGCAATACTC	.	PASS	Atlas-SNP
ATG7	10533	hgsc.bcm.edu	37	3	11596302	11596302	+	Silent	SNP	T	T	C	rs8154	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	47	63	0	0.534091	0	T|0.705;C|0.295	0.295	strong	ATG7,NS,adenoma,0,2	ATG7	56	2	NM_006395	exon19	c.T2097C	p.D699D	GAGCGATGATGAG	.	PASS	Atlas-SNP
PTCHD3	374308	hgsc.bcm.edu	37	10	27702744	27702744	+	Silent	SNP	A	A	G	rs11015754	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	46	83	0	0.597403	0	A|0.865;G|0.135	0.135	strong	.	PTCHD3	140	.	NM_001034842	exon1	c.T436C	p.L146L	GCATCAAGGGCGC	.	PASS	Atlas-SNP
ABCC1	4363	hgsc.bcm.edu	37	16	16138322	16138322	+	Silent	SNP	T	T	C	rs246221	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	63	121	0	0.512195	0	T|0.563;C|0.437	0.437	strong	.	ABCC1	156	.	NM_004996	exon8	c.T825C	p.V275V	GAAGGTTGTGTAC	.	PASS	Atlas-SNP
NUP62	23636	hgsc.bcm.edu	37	19	50412217	50412217	+	Missense_Mutation	SNP	C	C	G	rs1062798	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	29	53	0	0.414286	0	C|0.677;G|0.323	0.323	strong	NUP62,NS,carcinoma,0,2	NUP62	50	2	NM_153719	exon3	c.G848C	p.S283T	CTGCTGCTGGTGG	.	PASS	Atlas-SNP
SLC14A2	8170	hgsc.bcm.edu	37	18	43246156	43246156	+	Missense_Mutation	SNP	G	G	A	rs9960464	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	47	138	0	0.401709	0	G|0.615;A|0.385	0.385	strong	SLC14A2,NS,carcinoma,0,1	SLC14A2	121	1	NM_001242692	exon13	c.G1529A	p.R510Q	CCTATCGATACCG	.	PASS	Atlas-SNP
CHTF18	63922	hgsc.bcm.edu	37	16	840378	840378	+	Missense_Mutation	SNP	A	A	G	rs3765263	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	56	91	1	0.434109	0.010989	A|0.564;G|0.436	0.436	strong	CHTF18,NS,carcinoma,0,1	CHTF18	52	1	NM_022092	exon6	c.A731G	p.K244R	CCCAGAAGCTTTC	.	scavenged	Atlas-SNP
SPATA2	9825	hgsc.bcm.edu	37	20	48522330	48522330	+	Silent	SNP	G	G	A	rs495337	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	273	129	234	1	0.472527	0.0042735	G|0.679;A|0.321	0.321	strong	.	SPATA2	36	.	NM_006038	exon3	c.C1389T	p.C463C	GCGGTTGCAGAAG	.	PASS	Atlas-SNP
GMNN	51053	hgsc.bcm.edu	37	6	24780944	24780944	+	Silent	SNP	A	A	C	rs2307300	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	55	117	0	0.419847	0	A|0.969;C|0.031	0.031	strong	.	GMNN	19	.	NM_001251991	exon3	c.A105C	p.G35G	ATCTGGATCTCTT	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56204410	56204410	+	Silent	SNP	C	C	T	rs55910046	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	181	43	182	0	0.237569	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
POM121L2	94026	hgsc.bcm.edu	37	6	27277051	27277051	+	Missense_Mutation	SNP	C	C	T	rs41269255	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	51	102	0	0.455357	0	C|0.891;T|0.109	0.109	strong	POM121L2,colon,carcinoma,0,1	POM121L2	61	1	NM_033482	exon1	c.G2899A	p.A967T	TGGGGGCCATAGT	.	PASS	Atlas-SNP
SBNO2	22904	hgsc.bcm.edu	37	19	1119019	1119019	+	Silent	SNP	C	C	T	rs2074920	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	28	14	30	0	0.5	0	C|0.519;T|0.481	0.481	strong	.	SBNO2	112	.	NM_014963	exon14	c.G1518A	p.A506A	CAGGGCCGCGCGG	.	PASS	Atlas-SNP
PAMR1	25891	hgsc.bcm.edu	37	11	35456061	35456061	+	Missense_Mutation	SNP	T	T	C	rs61736408	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	162	134	0	0.987805	0	T|0.819;C|0.181	0.181	strong	.	PAMR1	85	.	NM_015430	exon11	c.A1676G	p.Q559R	CTTACCTGTAGGC	.	PASS	Atlas-SNP
KANK4	163782	hgsc.bcm.edu	37	1	62732421	62732421	+	Missense_Mutation	SNP	T	T	C	rs11207949	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	67	192	0	0.403614	0	T|0.722;C|0.278	0.278	strong	.	KANK4	135	.	NM_181712	exon6	c.A2302G	p.T768A	CTGTGGTGGTCCC	.	PASS	Atlas-SNP
GRIN2B	2904	hgsc.bcm.edu	37	12	13715975	13715975	+	Silent	SNP	A	A	G	rs1805247	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	57	84	1	0.487179	0.0119048	A|0.815;G|0.185	0.185	strong	GRIN2B,NS,carcinoma,-2,1	GRIN2B	303	1	NM_000834	exon13	c.T4197C	p.H1399H	GCTGCCATGGAGC	.	scavenged	Atlas-SNP
BAI3	577	hgsc.bcm.edu	37	6	70071173	70071173	+	Silent	SNP	G	G	A	rs913543	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	33	64	0	0.52381	0	G|0.585;A|0.415	0.415	strong	.	BAI3	451	.	NM_001704	exon29	c.G4008A	p.P1336P	CTTGCCGCATGAA	.	PASS	Atlas-SNP
MROH7	374977	hgsc.bcm.edu	37	1	55119534	55119534	+	Missense_Mutation	SNP	C	C	T	rs17399810	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	85	169	0	0.502959	0	C|0.855;T|0.145	0.145	strong	.	.	.	.	NM_001039464	exon3	c.C935T	p.S312F	TGCACTCCAGCAC	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144921924	144921924	+	Silent	SNP	G	G	A	rs71664015	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	302	64	296	0	0.211921	0	A|0.001;C|0.795	0.001	strong	.	PDE4DIP	817	.	NM_001002811	exon5	c.C1594T	p.L532L	CAGCCAGTTGGCG	.	PASS	Atlas-SNP
OLA1	29789	hgsc.bcm.edu	37	2	174946760	174946760	+	Missense_Mutation	SNP	T	T	C	rs11558990	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	51	76	0	0.614458	0	T|0.841;C|0.159	0.159	strong	.	OLA1	37	.	NM_013341	exon8	c.A761G	p.Y254C	GGGTCATACTTGT	.	PASS	Atlas-SNP
GRM6	2916	hgsc.bcm.edu	37	5	178415937	178415937	+	Silent	SNP	A	A	G	rs2067011	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	219	121	226	0	0.552511	0	A|0.500;G|0.500	0.500	strong	.	GRM6	149	.	NM_000843	exon6	c.T1353C	p.N451N	CTCACCATTGAAG	.	PASS	Atlas-SNP
AP1M2	10053	hgsc.bcm.edu	37	19	10692000	10692000	+	Silent	SNP	T	T	C	rs1045361	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	67	124	1	0.5	0.00806452	T|0.749;C|0.251	0.251	strong	AP1M2,colon,carcinoma,0,1	AP1M2	35	1	NM_005498	exon6	c.A615G	p.S205S	CATTCCTGACAGA	.	scavenged	Atlas-SNP
CUX1	1523	hgsc.bcm.edu	37	7	101837149	101837149	+	Silent	SNP	G	G	A	rs11540899	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	25	85	0	0.409836	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
TBXAS1	6916	hgsc.bcm.edu	37	7	139715645	139715645	+	Missense_Mutation	SNP	C	C	A	rs5763	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	25	76	0	0.438596	0	C|0.988;A|0.012	0.012	strong	.	TBXAS1	121	.	NM_001166253	exon12	c.C1490A	p.T497N	CGGAGACCTTCAA	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13894894	13894894	+	Missense_Mutation	SNP	T	T	A	rs4701997	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	83	54	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
ZKSCAN3	80317	hgsc.bcm.edu	37	6	28331128	28331128	+	Missense_Mutation	SNP	A	A	C	rs373509101	alternate_allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	48	75	0	0.494845	0	.	.	alt	ZKSCAN3,NS,other,-1,1	ZKSCAN3	50	1	NM_024493	exon4	c.A599C	p.K200T	AAGATAAAGTGGT	.	PASS	Atlas-SNP
ADCK4	79934	hgsc.bcm.edu	37	19	41220529	41220529	+	Silent	SNP	C	C	T	rs11673492	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	50	115	0	0.446429	0	C|0.854;T|0.146	0.146	strong	.	ADCK4	92	.	NM_001142555	exon2	c.G9A	p.L3L	CACCTTCAGCCAC	.	PASS	Atlas-SNP
IDO2	169355	hgsc.bcm.edu	37	8	39872935	39872935	+	Nonsense_Mutation	SNP	T	T	A	rs4503083	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	204	91	192	0	0.446078	0	T|0.758;A|0.242	0.242	strong	.	IDO2	78	.	NM_194294	exon11	c.T1077A	p.Y359X	GAGCTATCACATC	.	PASS	Atlas-SNP
MERTK	10461	hgsc.bcm.edu	37	2	112751928	112751928	+	Missense_Mutation	SNP	G	G	A	rs7604639	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	239	236	189	0	0.987448	0	G|0.415;A|0.585	0.585	strong	.	MERTK	112	.	NM_006343	exon9	c.G1397A	p.R466K	TCACCAGAGGGGG	.	PASS	Atlas-SNP
CARKD	55739	hgsc.bcm.edu	37	13	111279817	111279817	+	Missense_Mutation	SNP	A	A	G	rs3742191	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	67	141	0	0.411043	0	A|0.955;G|0.045	0.045	strong	.	CARKD	36	.	NM_018210	exon5	c.A418G	p.K140E	GTGGAGAAGTGGC	.	PASS	Atlas-SNP
SYDE2	84144	hgsc.bcm.edu	37	1	85666156	85666156	+	Missense_Mutation	SNP	T	T	G	rs12121540	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	39	92	0	0.464286	0	T|0.705;G|0.295	0.295	strong	.	SYDE2	135	.	NM_032184	exon1	c.A524C	p.Q175P	CCTTCCTGGCGGT	.	PASS	Atlas-SNP
MPDZ	8777	hgsc.bcm.edu	37	9	13176312	13176312	+	Silent	SNP	C	C	T	rs2274856	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	260	258	234	0	0.992308	0	C|0.613;T|0.387	0.387	strong	.	MPDZ	324	.	NM_003829	exon20	c.G2754A	p.S918S	GTCCACCGAAGGT	.	PASS	Atlas-SNP
CCT6B	10693	hgsc.bcm.edu	37	17	33269648	33269648	+	Missense_Mutation	SNP	C	C	G	rs2230553	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	26	66	0	0.412698	0	C|0.717;G|0.283	0.283	strong	.	CCT6B	63	.	NM_006584	exon7	c.G740C	p.G247A	AAGAAACCAGAGT	.	PASS	Atlas-SNP
KIAA1683	80726	hgsc.bcm.edu	37	19	18375882	18375882	+	Missense_Mutation	SNP	G	G	C	rs12608777	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	23	32	0	0.522727	0	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	.	PASS	Atlas-SNP
ZNF705A	440077	hgsc.bcm.edu	37	12	8329833	8329833	+	Missense_Mutation	SNP	G	G	A	rs11043758	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	69	196	1	0.361257	0.00510204	G|0.506;A|0.494	0.494	strong	ZNF705A,NS,carcinoma,0,1	ZNF705A	32	1	NM_001004328	exon5	c.G557A	p.R186H	GCTTTCGCCTTAG	.	scavenged	Atlas-SNP
C4orf51	646603	hgsc.bcm.edu	37	4	146653620	146653620	+	Missense_Mutation	SNP	G	G	A	rs10008599	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	67	145	0	0.449664	0	G|0.908;A|0.092	0.092	strong	.	C4orf51	18	.	NM_001080531	exon6	c.G517A	p.D173N	CGGTGCGATTCTG	.	PASS	Atlas-SNP
WDR66	144406	hgsc.bcm.edu	37	12	122396395	122396395	+	Missense_Mutation	SNP	C	C	T	rs17852561	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	86	128	0	0.527607	0	C|0.702;T|0.298	0.298	strong	.	WDR66	143	.	NM_001178003	exon12	c.C1948T	p.L650F	AAGGGGCTTGGAG	.	PASS	Atlas-SNP
FFAR2	2867	hgsc.bcm.edu	37	19	35941248	35941248	+	Missense_Mutation	SNP	T	T	A	rs409093	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	53	109	0	0.417323	0	T|0.950;A|0.050	0.050	strong	.	FFAR2	39	.	NM_005306	exon1	c.T632A	p.L211H	AGCCCCTTGTGGG	.	PASS	Atlas-SNP
MAML2	84441	hgsc.bcm.edu	37	11	95825797	95825797	+	Silent	SNP	A	A	G	rs7931870	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	83	137	0	0.479769	0	A|0.486;G|0.514	0.514	strong	.	MAML2	94	.	NM_032427	exon2	c.T1398C	p.S466S	AGCAGAAGAGGGC	.	PASS	Atlas-SNP
CYP4Z1	199974	hgsc.bcm.edu	37	1	47571902	47571902	+	Silent	SNP	C	C	T	rs75156930		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	363	144	363	1	0.396694	0.00275482	.	.	weak	.	CYP4Z1	43	.	NM_178134	exon9	c.C1170T	p.I390I	ACCCATCACCTTT	.	PASS	Atlas-SNP
C1QTNF6	114904	hgsc.bcm.edu	37	22	37578579	37578579	+	Silent	SNP	C	C	T	rs229519	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	35	80	2	0.460526	0.025	C|0.580;T|0.420	0.420	strong	C1QTNF6,NS,adenoma,0,2	C1QTNF6	32	2	NM_182486	exon3	c.G486A	p.T162T	GAGCAGCGTCTGG	.	scavenged	Atlas-SNP
OR12D2	26529	hgsc.bcm.edu	37	6	29365241	29365241	+	Silent	SNP	T	T	C	rs2073150	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	261	124	267	1	0.475096	0.00374532	T|0.623;C|0.377	0.377	strong	.	OR12D2	42	.	NM_013936	exon1	c.T765C	p.L255L	TGTTCTTTTCACC	.	PASS	Atlas-SNP
VCAN	1462	hgsc.bcm.edu	37	5	82836241	82836241	+	Silent	SNP	C	C	T	rs61754536	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	91	151	0	0.514124	0	C|0.993;G|0.000;T|0.006	0.006	strong	VCAN,colon,carcinoma,0,1	VCAN	498	1	NM_004385	exon8	c.C7419T	p.S2473S	GCCAAGCGCTAAA	.	PASS	Atlas-SNP
FN3K	64122	hgsc.bcm.edu	37	17	80708607	80708607	+	Silent	SNP	C	C	T	rs149413139	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	24	42	0	0.5	0	C|0.988;T|0.012	0.012	strong	.	FN3K	17	.	NM_022158	exon6	c.C906T	p.G302G	CTTGGGCACCATG	.	PASS	Atlas-SNP
WDFY4	57705	hgsc.bcm.edu	37	10	49998780	49998780	+	Missense_Mutation	SNP	G	G	A	rs41282009	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	70	99	0	0.514706	0	G|0.892;A|0.108	0.108	strong	.	WDFY4	205	.	NM_020945	exon23	c.G4075A	p.V1359I	GTGAGGGTATTCC	.	PASS	Atlas-SNP
CR1	1378	hgsc.bcm.edu	37	1	207782707	207782707	+	Missense_Mutation	SNP	A	A	G	rs17259045	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	210	101	175	0	0.480952	0	A|0.938;G|0.062	0.062	strong	.	CR1	354	.	NM_000651	exon37	c.A5969G	p.N1990S	TTCACAATGGAAC	.	PASS	Atlas-SNP
OR4E2	26686	hgsc.bcm.edu	37	14	22134018	22134018	+	Missense_Mutation	SNP	C	C	T	rs61732411	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	236	235	180	1	0.995763	0.00555556	C|0.830;T|0.170	0.170	strong	OR4E2,NS,carcinoma,-1,1	OR4E2	44	1	NM_001001912	exon1	c.C722T	p.S241L	CCTGCTCGGCCCA	.	PASS	Atlas-SNP
PPP2R2B	5521	hgsc.bcm.edu	37	5	145972610	145972610	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	3	108	0	0.0202703	0	.	.	none	PPP2R2B_ENST00000508545,NS,carcinoma,0,4	PPP2R2B	271	4	NM_181675	exon9	c.C1294T	p.R432C	TGCTGCGGAGGTA	.	scavenged	Atlas-SNP
FCN2	2220	hgsc.bcm.edu	37	9	137779091	137779091	+	Missense_Mutation	SNP	G	G	T	rs7851696	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	209	96	153	0	0.45933	0	G|0.858;T|0.142	0.142	strong	.	FCN2	55	.	NM_004108	exon8	c.G772T	p.A258S	AATTGTGCTGTGA	.	PASS	Atlas-SNP
CDCA7L	55536	hgsc.bcm.edu	37	7	21956405	21956405	+	Silent	SNP	G	G	A	rs1128250	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	69	111	0	0.492857	0	G|0.773;A|0.227	0.227	strong	CDCA7L,caecum,carcinoma,0,1	CDCA7L	56	1	NM_018719	exon2	c.C132T	p.C44C	ACTATCGCAGCTC	.	PASS	Atlas-SNP
NOX3	50508	hgsc.bcm.edu	37	6	155775980	155775980	+	Silent	SNP	G	G	T	rs12195525	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	35	62	0	0.421687	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
ZNF414	84330	hgsc.bcm.edu	37	19	8578000	8578000	+	Missense_Mutation	SNP	G	G	A	rs1064010	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	44	84	0	0.44898	0	G|0.788;A|0.212	0.212	strong	.	ZNF414	25	.	NM_032370	exon2	c.C229T	p.P77S	GGCCAGGCTGGCA	.	PASS	Atlas-SNP
OR10A6	390093	hgsc.bcm.edu	37	11	7950024	7950024	+	Silent	SNP	A	A	G	rs12272735	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	260	111	260	1	0.426923	0.00384615	A|0.658;G|0.342	0.342	strong	.	OR10A6	49	.	NM_001004461	exon1	c.T186C	p.F62F	CAGGAGAAACAGG	.	PASS	Atlas-SNP
CASS4	57091	hgsc.bcm.edu	37	20	55033635	55033635	+	Silent	SNP	C	C	T	rs3746624	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	45	86	0	0.454545	0	C|0.699;T|0.301	0.301	strong	.	CASS4	121	.	NM_020356	exon6	c.C2193T	p.N731N	GCGCAACGAGATC	.	PASS	Atlas-SNP
NBPF4	148545	hgsc.bcm.edu	37	1	108771721	108771721	+	Missense_Mutation	SNP	T	T	C	rs79996376	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	710	513	309	2	0.722535	0.00647249	T|0.838;C|0.162	0.162	strong	.	NBPF4	4	.	NM_001143989	exon13	c.A1481G	p.Q494R	TCTGACTGGTGGT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	49	77	0	0.521277	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
KHDRBS2	202559	hgsc.bcm.edu	37	6	62887099	62887099	+	Silent	SNP	C	C	T	rs6921170	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	43	67	0	0.5375	0	C|0.396;T|0.604	0.604	strong	.	KHDRBS2	103	.	NM_152688	exon2	c.G210A	p.Q70Q	TGGATACTGCTTG	.	PASS	Atlas-SNP
NID2	22795	hgsc.bcm.edu	37	14	52495455	52495455	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	3	161	0	0.0149254	0	.	.	none	NID2,colon,carcinoma,0,3	NID2	201	3	NM_007361	exon11	c.C2515T	p.R839W	TATGCCGGTCATC	.	scavenged	Atlas-SNP
TDGF1	6997	hgsc.bcm.edu	37	3	46620614	46620614	+	Missense_Mutation	SNP	T	T	C	rs11130097	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	213	212	219	0	0.995305	0	T|0.504;C|0.496	0.496	strong	TDGF1,NS,carcinoma,-1,1	TDGF1	17	1	NM_003212	exon2	c.T65C	p.V22A	CTAAAGTCTTTGA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9048035	9048035	+	Missense_Mutation	SNP	G	G	C	rs10417358	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	173	175	0	1	0	G|0.780;C|0.220	0.220	strong	.	MUC16	4315	.	NM_024690	exon5	c.C33596G	p.A11199G	GAGACAGCTAAAG	.	PASS	Atlas-SNP
OR52E4	390081	hgsc.bcm.edu	37	11	5906291	5906291	+	Missense_Mutation	SNP	T	T	C	rs11823842	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	238	121	171	0	0.508403	0	T|0.627;C|0.373	0.373	strong	.	OR52E4	65	.	NM_001005165	exon1	c.T769C	p.F257L	CCAGCATTTTTTT	.	PASS	Atlas-SNP
SYTL2	54843	hgsc.bcm.edu	37	11	85436352	85436352	+	Missense_Mutation	SNP	G	G	A	rs641393	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	107	132	1	1	0.00757576	G|0.451;A|0.549	0.549	strong	SYTL2,NS,carcinoma,+1,1	SYTL2	231	1	NM_206927	exon1	c.C1148T	p.T383M	ATTTCCGTTTGAG	.	PASS	Atlas-SNP
HSD17B4	3295	hgsc.bcm.edu	37	5	118861713	118861713	+	Missense_Mutation	SNP	A	A	G	rs11205	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	210	93	190	0	0.442857	0	A|0.591;G|0.409	0.409	strong	HSD17B4,NS,carcinoma,0,1	HSD17B4	63	1	NM_001199291	exon20	c.A1750G	p.I584V	AAGGCAATTAAGG	.	PASS	Atlas-SNP
FAM71F2	346653	hgsc.bcm.edu	37	7	128315889	128315889	+	Missense_Mutation	SNP	A	A	T	rs6971819	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	33	19	29	0	0.575758	0	A|0.892;T|0.108	0.108	strong	.	FAM71F2	19	.	NM_001012454	exon2	c.A341T	p.D114V	CTGGTGACGCCCC	.	PASS	Atlas-SNP
IGF2BP2	10644	hgsc.bcm.edu	37	3	185375100	185375100	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	3	89	0	0.0280374	0	.	.	none	IGF2BP2,brain,primitive_neuroectodermal_tumour-medulloblastoma,+1,1	IGF2BP2	69	1	NM_006548	exon12	c.G1360A	p.A454T	ATCTCGCCAGCTG	.	scavenged	Atlas-SNP
CNGA3	1261	hgsc.bcm.edu	37	2	98986510	98986510	+	Silent	SNP	T	T	C	rs6727412	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	33	68	0	0.471429	0	T|0.869;C|0.131	0.131	strong	.	CNGA3	118	.	NM_001298	exon2	c.T72C	p.D24D	CCGAGATCTCAAT	.	PASS	Atlas-SNP
PSMB8	5696	hgsc.bcm.edu	37	6	32809947	32809947	+	Silent	SNP	G	G	A	rs11540143	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	54	116	0	0.453782	0	G|0.996;A|0.004	0.004	strong	.	PSMB8	42	.	NM_148919	exon4	c.C501T	p.L167L	CATAGAGAGGCCC	.	PASS	Atlas-SNP
SPTBN2	6712	hgsc.bcm.edu	37	11	66457681	66457681	+	Missense_Mutation	SNP	C	C	T	rs35532855	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	66	84	0	0.717391	0	C|0.982;T|0.018	0.018	strong	.	SPTBN2	188	.	NM_006946	exon27	c.G5639A	p.R1880H	ATGTGGCGGCCGA	.	PASS	Atlas-SNP
CCDC88B	283234	hgsc.bcm.edu	37	11	64110668	64110668	+	Silent	SNP	G	G	A	rs574835	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	19	8	24	0	0.421053	0	G|0.738;A|0.262	0.262	strong	.	CCDC88B	89	.	NM_032251	exon11	c.G1080A	p.S360S	GCTCTCGGGGGTG	.	PASS	Atlas-SNP
NBPF3	84224	hgsc.bcm.edu	37	1	21806667	21806667	+	Silent	SNP	C	C	G	rs12043777	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	12	180	0	0.106195	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
MUC2	4583	hgsc.bcm.edu	37	11	1093769	1093769	+	Missense_Mutation	SNP	G	G	A	rs41361144	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	46	66	0	0.45098	0	G|0.937;A|0.063	0.063	strong	.	MUC2	614	.	NM_002457	exon31	c.G5576A	p.R1859Q	CCTCTCGGTCCAC	.	PASS	Atlas-SNP
USP15	9958	hgsc.bcm.edu	37	12	62783462	62783462	+	Silent	SNP	A	A	G	rs61760205	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	28	40	0	0.538462	0	A|0.996;G|0.004	0.004	strong	.	USP15	105	.	NM_001252078	exon13	c.A1635G	p.E545E	TATGGAACGGGAT	.	PASS	Atlas-SNP
PRSS58	136541	hgsc.bcm.edu	37	7	141952110	141952110	+	Silent	SNP	G	G	A	rs1052406	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	110	83	0	1	0	G|0.709;A|0.291	0.291	strong	.	PRSS58	41	.	NM_001001317	exon6	c.C657T	p.A219A	AACATCGGCTCTC	.	PASS	Atlas-SNP
PRPF8	10594	hgsc.bcm.edu	37	17	1578939	1578939	+	Silent	SNP	C	C	T	rs33965342	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	63	105	0	0.477273	0	C|0.711;T|0.289	0.289	strong	.	PRPF8	169	.	NM_006445	exon19	c.G2847A	p.P949P	AAGCAGCGGAGGT	.	PASS	Atlas-SNP
CARS2	79587	hgsc.bcm.edu	37	13	111340342	111340342	+	Silent	SNP	G	G	A	rs2304767	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	109	73	0	1	0	G|0.791;A|0.209	0.209	strong	.	CARS2	37	.	NM_024537	exon4	c.C417T	p.L139L	ACTGGCGAGGGAA	.	PASS	Atlas-SNP
PTPRG	5793	hgsc.bcm.edu	37	3	62189437	62189437	+	Silent	SNP	G	G	C	rs17634074	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	54	103	0	0.435484	0	G|0.887;C|0.113	0.113	strong	.	PTPRG	153	.	NM_002841	exon12	c.G1968C	p.T656T	CCAGACGGGCGGA	.	PASS	Atlas-SNP
C3	718	hgsc.bcm.edu	37	19	6677989	6677989	+	Silent	SNP	G	G	A	rs17030	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	130	115	0	1	0	G|0.494;A|0.506	0.506	strong	.	C3	192	.	NM_000064	exon41	c.C4896T	p.P1632P	CTCCTCGGGCCAG	.	PASS	Atlas-SNP
GPR110	266977	hgsc.bcm.edu	37	6	46977475	46977475	+	Silent	SNP	A	A	G	rs73480725	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	47	111	0	0.451923	0	A|0.958;G|0.042	0.042	strong	.	GPR110	102	.	NM_153840	exon11	c.T1696C	p.L566L	AGGTCAAGTGAGT	.	PASS	Atlas-SNP
ZNF705A	440077	hgsc.bcm.edu	37	12	8329652	8329652	+	Missense_Mutation	SNP	A	A	G	rs10743251	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	238	107	254	0	0.44958	0	A|0.527;G|0.473	0.473	strong	ZNF705A,NS,carcinoma,0,1	ZNF705A	32	1	NM_001004328	exon5	c.A376G	p.T126A	GATTGCACTCACA	.	PASS	Atlas-SNP
SEMA3G	56920	hgsc.bcm.edu	37	3	52469628	52469628	+	Silent	SNP	C	C	T	rs61729091	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	214	101	179	0	0.471963	0	C|0.968;T|0.032	0.032	strong	.	SEMA3G	58	.	NM_020163	exon16	c.G2340A	p.E780E	CGTGGCCTCCACC	.	PASS	Atlas-SNP
XRCC4	7518	hgsc.bcm.edu	37	5	82648943	82648943	+	Splice_Site	SNP	G	G	A	rs1805377	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	223	100	220	0	0.44843	0	G|0.679;A|0.321	0.321	strong	.	XRCC4	37	.	NM_022406	exon8	c.894-1G>A	.	TTTTCAGTTCTAG	.	PASS	Atlas-SNP
ZKSCAN8	7745	hgsc.bcm.edu	37	6	28117331	28117331	+	Missense_Mutation	SNP	C	C	T	rs62620225	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	73	177	0	0.450617	0	C|0.971;T|0.029	0.029	strong	.	.	.	.	NM_006298	exon3	c.C488T	p.P163L	CAGAGCCTCCAAA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	290	147	266	0	0.506897	0	T|0.831;C|0.169	0.169	strong	.	C1orf63	17	.	NM_020317	exon4	c.A716G	p.E239G	GGTTTTTCATTGG	.	PASS	Atlas-SNP
NRDE2	55051	hgsc.bcm.edu	37	14	90745442	90745442	+	Silent	SNP	T	T	C	rs141933992	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	46	96	0	0.429907	0	T|0.998;C|0.002	0.002	strong	.	.	.	.	NM_017970	exon13	c.A3333G	p.V1111V	GTAGAATACACCT	.	PASS	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201181920	201181920	+	Silent	SNP	G	G	T	rs12060924	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	74	132	0	0.521127	0	G|0.691;T|0.309	0.309	strong	.	IGFN1	220	.	NM_001164586	exon12	c.G7899T	p.G2633G	CCAGGGGTTTAGC	.	PASS	Atlas-SNP
PEX10	5192	hgsc.bcm.edu	37	1	2340212	2340212	+	Silent	SNP	G	G	A	rs1143016	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	92	107	0	0.575	0	G|0.960;A|0.040	0.040	strong	.	PEX10	18	.	NM_002617	exon3	c.C279T	p.G93G	CAGCACGCCACGG	.	PASS	Atlas-SNP
NPAP1	23742	hgsc.bcm.edu	37	15	24921649	24921649	+	Missense_Mutation	SNP	T	T	C	rs3784246	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	33	55	0	0.492537	0	T|0.914;C|0.086	0.086	strong	C15orf2,caecum,carcinoma,0,1	.	.	1	NM_018958	exon1	c.T635C	p.V212A	GAAATGTCTACCA	.	PASS	Atlas-SNP
TRERF1	55809	hgsc.bcm.edu	37	6	42236589	42236589	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	60	84	0	0.504202	0	.	.	none	.	TRERF1	124	.	NM_033502	exon5	c.G740C	p.G247A	TGTCCTCCCTGCA	.	PASS	Atlas-SNP
OR5I1	10798	hgsc.bcm.edu	37	11	55703010	55703010	+	Silent	SNP	C	C	A	rs9665863	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	37	118	0	0.45679	0	C|0.955;A|0.045	0.045	strong	OR5I1,NS,carcinoma,0,1	OR5I1	110	1	NM_006637	exon1	c.G867T	p.P289P	AATCAACGGATTC	.	PASS	Atlas-SNP
C2orf42	54980	hgsc.bcm.edu	37	2	70387826	70387826	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	370	247	262	0	0.667568	0	.	.	none	.	C2orf42	30	.	NM_017880	exon9	c.G1447T	p.E483X	AGGTTTCTGCTAT	.	PASS	Atlas-SNP
PIK3C2G	5288	hgsc.bcm.edu	37	12	18649057	18649057	+	Missense_Mutation	SNP	C	C	T	rs12312266	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	40	98	0	0.408163	0	C|0.665;N|0.000	.	strong	.	PIK3C2G	315	.	NM_004570	exon20	c.C2732T	p.P911L	CTAATCCGATGGG	.	PASS	Atlas-SNP
OR51G1	79324	hgsc.bcm.edu	37	11	4945236	4945236	+	Missense_Mutation	SNP	T	T	C	rs35666095	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	36	65	0	0.521739	0	T|0.912;C|0.088	0.088	strong	.	OR51G1	74	.	NM_001005237	exon1	c.A334G	p.M112V	ACTCCATTGAAGA	.	PASS	Atlas-SNP
FRMD1	79981	hgsc.bcm.edu	37	6	168461516	168461516	+	Missense_Mutation	SNP	C	C	T	rs148097635	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	78	100	0	0.527027	0	C|0.999;T|0.001	0.001	strong	.	FRMD1	52	.	NM_024919	exon9	c.G1267A	p.G423R	GGAGCCCGTGGAC	.	PASS	Atlas-SNP
OR11H6	122748	hgsc.bcm.edu	37	14	20691962	20691962	+	Missense_Mutation	SNP	C	C	G	rs9323693	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	319	168	273	0	0.526646	0	C|0.918;G|0.082	0.082	strong	.	OR11H6	60	.	NM_001004480	exon1	c.C94G	p.L32V	TTTGTCCTCCTGG	.	PASS	Atlas-SNP
RSBN1	54665	hgsc.bcm.edu	37	1	114354654	114354654	+	Silent	SNP	T	T	C	rs3195954	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	18	11	25	0	0.611111	0	T|0.861;C|0.139	0.139	strong	RSBN1,colon,carcinoma,0,2	RSBN1	71	2	NM_018364	exon1	c.A381G	p.P127P	ATTCGTTGGCGGC	.	PASS	Atlas-SNP
OR5AK2	390181	hgsc.bcm.edu	37	11	56756399	56756399	+	Missense_Mutation	SNP	G	G	T	rs10896563	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	240	115	220	0	0.479167	0	G|0.918;T|0.082	0.082	strong	.	OR5AK2	45	.	NM_001005323	exon1	c.G11T	p.G4V	CACTAGGAAACAG	.	PASS	Atlas-SNP
EHD2	30846	hgsc.bcm.edu	37	19	48219929	48219929	+	Silent	SNP	G	G	A	rs61746407	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	46	53	0	0.657143	0	G|0.975;A|0.025	0.025	strong	EHD2,NS,carcinoma,0,1	EHD2	59	1	NM_014601	exon2	c.G60A	p.T20T	CCGCACGGTGACC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	139	106	0	1	0	C|0.544;T|0.456	0.456	strong	.	FAT2	465	.	NM_001447	exon1	c.G3010A	p.G1004S	TCCCACCATCACT	.	PASS	Atlas-SNP
NCLN	56926	hgsc.bcm.edu	37	19	3207646	3207646	+	Missense_Mutation	SNP	A	A	G	rs2288949	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	88	108	0	0.526946	0	A|0.876;G|0.124	0.124	strong	.	NCLN	27	.	NM_020170	exon15	c.A1652G	p.K551R	TCTACAAGACCGT	.	PASS	Atlas-SNP
KIF27	55582	hgsc.bcm.edu	37	9	86474262	86474262	+	Missense_Mutation	SNP	T	T	C	rs79324787	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	11	121	0	0.0808824	0	T|0.994;C|0.006	0.006	strong	.	KIF27	103	.	NM_017576	exon14	c.A2959G	p.I987V	TTGATATTTTCAA	.	PASS	Atlas-SNP
MED10	84246	hgsc.bcm.edu	37	5	6377293	6377293	+	Silent	SNP	C	C	T	rs17831958	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	63	111	0	0.504	0	C|0.942;T|0.058	0.058	strong	.	MED10	7	.	NM_032286	exon2	c.G192A	p.P64P	TTCTAACGGTACA	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324562	31324562	+	Silent	SNP	C	C	T	rs1050564	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	70	78	0	0.486111	0	T|0.074;C|0.926	0.074	strong	.	HLA-B	54	.	NM_005514	exon2	c.G246A	p.E82E	CCAATACTCCGGC	.	PASS	Atlas-SNP
LOXL3	84695	hgsc.bcm.edu	37	2	74761539	74761539	+	Missense_Mutation	SNP	T	T	A	rs17010021	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	314	205	217	1	0.652866	0.00460829	T|0.937;A|0.063	0.063	strong	.	LOXL3	73	.	NM_032603	exon11	c.A1843T	p.I615F	TGAAGATGTCCAT	.	PASS	Atlas-SNP
SUV39H2	79723	hgsc.bcm.edu	37	10	14941654	14941654	+	Silent	SNP	C	C	T	rs17353856	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	96	176	0	0.536313	0	C|0.912;T|0.088	0.088	strong	.	SUV39H2	72	.	NM_001193424	exon4	c.C966T	p.Y322Y	TCGATACGGCAAT	.	PASS	Atlas-SNP
IHH	3549	hgsc.bcm.edu	37	2	219920412	219920412	+	Silent	SNP	A	A	G	rs3731881	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	101	142	1	0.980583	0.00704225	A|0.454;G|0.546	0.546	strong	.	IHH	33	.	NM_002181	exon3	c.T753C	p.P251P	CCTGTGAGGCTCG	.	PASS	Atlas-SNP
TEK	7010	hgsc.bcm.edu	37	9	27205021	27205021	+	Silent	SNP	G	G	A	rs542913	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	234	107	190	0	0.457265	0	G|0.808;A|0.192	0.192	strong	.	TEK	250	.	NM_000459	exon14	c.G2322A	p.R774R	GAAGAGGGCAAAT	.	PASS	Atlas-SNP
LDHAL6B	92483	hgsc.bcm.edu	37	15	59499274	59499274	+	Silent	SNP	C	C	A	rs3809528	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	65	95	0	0.503876	0	C|0.586;A|0.414	0.414	strong	.	LDHAL6B	30	.	NM_033195	exon1	c.C135A	p.T45T	CTTCACCCCCGTG	.	PASS	Atlas-SNP
DYX1C1	161582	hgsc.bcm.edu	37	15	55722956	55722956	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	60	130	0	0.48	0	.	.	none	DYX1C1,NS,carcinoma,-1,1	DYX1C1	54	1	NM_130810	exon10	c.C1175T	p.A392V	TTAAGTGCCGCTT	.	PASS	Atlas-SNP
SYNE3	161176	hgsc.bcm.edu	37	14	95910933	95910933	+	Silent	SNP	T	T	C	rs9919918	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	43	76	2	0.573333	0.0263158	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	.	scavenged	Atlas-SNP
FMN1	342184	hgsc.bcm.edu	37	15	33260973	33260973	+	Missense_Mutation	SNP	C	C	T	rs150962800	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	321	154	273	0	0.479751	0	C|0.987;T|0.013	0.013	strong	.	FMN1	174	.	NM_001103184	exon4	c.G2260A	p.E754K	TGGGCTCGATGGC	.	PASS	Atlas-SNP
ABCC8	6833	hgsc.bcm.edu	37	11	17419279	17419279	+	Silent	SNP	C	C	T	rs1799859	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	23	48	0	0.489362	0	C|0.611;T|0.389	0.389	strong	.	ABCC8	170	.	NM_000352	exon31	c.G3819A	p.R1273R	GAGCTCCCTGTGC	.	PASS	Atlas-SNP
RHBG	57127	hgsc.bcm.edu	37	1	156351699	156351699	+	Missense_Mutation	SNP	G	G	A	rs3748569	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	292	147	241	0	0.503425	0	G|0.472;A|0.528	0.528	strong	.	RHBG	133	.	NM_020407	exon6	c.G943A	p.G315R	TTGGCTGGGACTG	.	PASS	Atlas-SNP
SDK2	54549	hgsc.bcm.edu	37	17	71410891	71410891	+	Silent	SNP	C	C	T	rs12386051	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	41	52	0	0.525641	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
CEP89	84902	hgsc.bcm.edu	37	19	33370161	33370161	+	Silent	SNP	A	A	C	rs745959	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	89	101	0	1	0	A|0.759;C|0.241	0.241	strong	.	CEP89	82	.	NM_032816	exon19	c.T2259G	p.V753V	GGGGGCAACCAGA	.	PASS	Atlas-SNP
SAMD9L	219285	hgsc.bcm.edu	37	7	92760738	92760738	+	Missense_Mutation	SNP	T	T	G	rs10282508	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	283	115	234	0	0.40636	0	T|0.887;G|0.113	0.113	strong	.	SAMD9L	227	.	NM_152703	exon5	c.A4547C	p.N1516T	ACTTCATTTTTTT	.	PASS	Atlas-SNP
BOD1L1	259282	hgsc.bcm.edu	37	4	13604182	13604182	+	Missense_Mutation	SNP	T	T	C	rs17745676	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	317	148	257	0	0.466877	0	T|0.855;C|0.145	0.145	strong	.	.	.	.	NM_148894	exon10	c.A4342G	p.T1448A	TTTCTGTATTCAG	.	PASS	Atlas-SNP
MAGEB18	286514	hgsc.bcm.edu	37	X	26157220	26157220	+	Missense_Mutation	SNP	C	C	T	rs5944317	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	115	95	0	1	0	C|0.372;T|0.628	0.628	strong	.	MAGEB18	67	.	NM_173699	exon2	c.C118T	p.P40S	CCCTCCCCTGCCT	.	PASS	Atlas-SNP
KLHDC7A	127707	hgsc.bcm.edu	37	1	18807620	18807620	+	Missense_Mutation	SNP	G	G	C	rs34109355	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	193	98	194	0	0.507772	0	G|0.899;C|0.101	0.101	strong	KLHDC7A,NS,carcinoma,0,1	KLHDC7A	60	1	NM_152375	exon1	c.G145C	p.G49R	CGGTGGGGTGGGA	.	PASS	Atlas-SNP
SWT1	54823	hgsc.bcm.edu	37	1	185240474	185240474	+	Missense_Mutation	SNP	A	A	G	rs12041704	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	249	247	321	0	0.991968	0	A|0.637;G|0.363	0.363	strong	SWT1,NS,carcinoma,0,1	SWT1	88	1	NM_017673	exon17	c.A2461G	p.N821D	AACAGTAATTATC	.	PASS	Atlas-SNP
CLEC16A	23274	hgsc.bcm.edu	37	16	11154770	11154770	+	Silent	SNP	G	G	A	rs2286973	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	36	73	0	0.467532	0	G|0.516;A|0.484	0.484	strong	CLEC16A,NS,carcinoma,0,1	CLEC16A	101	1	NM_015226	exon18	c.G2007A	p.V669V	CCGGGTGTTCTTC	.	PASS	Atlas-SNP
ZNF354B	117608	hgsc.bcm.edu	37	5	178294059	178294059	+	Silent	SNP	T	T	C	rs11952817	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	231	123	189	0	0.532468	0	T|0.635;C|0.365	0.365	strong	ZNF354B,NS,carcinoma,0,1	ZNF354B	67	1	NM_058230	exon4	c.T243C	p.G81G	TTCTGGTGTCTCC	.	PASS	Atlas-SNP
ASCL3	56676	hgsc.bcm.edu	37	11	8959370	8959370	+	Silent	SNP	G	G	A	rs2742505	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	62	132	0	0.504065	0	G|0.718;A|0.282	0.282	strong	ASCL3,NS,carcinoma,-1,2	ASCL3	19	2	NM_020646	exon2	c.C339T	p.Y113Y	CTGGGCGTAGCCT	.	PASS	Atlas-SNP
AGR2	10551	hgsc.bcm.edu	37	7	16834597	16834597	+	Silent	SNP	A	A	G	rs6842	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	144	135	0	0.993103	0	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
HLA-B	3106	hgsc.bcm.edu	37	6	31324705	31324705	+	Missense_Mutation	SNP	A	A	C	rs1131170	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	42	63	0	0.525	0	C|0.646;A|0.354	0.646	strong	.	HLA-B	54	.	NM_005514	exon2	c.T103G	p.S35A	ACACGGAGGTGTA	.	PASS	Atlas-SNP
TSHZ2	128553	hgsc.bcm.edu	37	20	51872869	51872869	+	Missense_Mutation	SNP	C	C	A	rs61760185	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	75	84	0	0.619835	0	C|0.999;A|0.001	0.001	strong	.	TSHZ2	209	.	NM_173485	exon2	c.C2872A	p.R958S	ATGACCCGCTTGT	.	PASS	Atlas-SNP
OR2T12	127064	hgsc.bcm.edu	37	1	248458736	248458736	+	Missense_Mutation	SNP	A	A	G	rs28409263	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	264	112	233	0	0.424242	0	A|0.868;G|0.132	0.132	strong	.	OR2T12	113	.	NM_001004692	exon1	c.T145C	p.W49R	GGTCCCAGTGAAT	.	PASS	Atlas-SNP
MRPS9	64965	hgsc.bcm.edu	37	2	105713697	105713697	+	Silent	SNP	A	A	G	rs15567	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	44	88	0	0.488889	0	T|0.000;G|0.203;C|0.000;A|0.797	0.203	strong	.	MRPS9	32	.	NM_182640	exon10	c.A1014G	p.S338S	GAGGTCAGCGCAG	.	PASS	Atlas-SNP
VN1R2	317701	hgsc.bcm.edu	37	19	53762675	53762675	+	Silent	SNP	G	G	A	rs61734062	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	331	180	294	0	0.543807	0	G|0.974;A|0.026	0.026	strong	.	VN1R2	71	.	NM_173856	exon1	c.G1047A	p.V349V	GCTAGTGAACACT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	137	117	0	0.985611	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
CCT5	22948	hgsc.bcm.edu	37	5	10261764	10261764	+	Missense_Mutation	SNP	C	C	G	rs141675330	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	376	196	374	1	0.521277	0.0026738	C|0.996;G|0.004	0.004	strong	.	CCT5	49	.	NM_012073	exon8	c.C1086G	p.I362M	GGAGATCTCATTT	.	PASS	Atlas-SNP
CEACAM18	729767	hgsc.bcm.edu	37	19	51986547	51986547	+	Missense_Mutation	SNP	A	A	G	rs10426247	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	90	77	0	0.989011	0	A|0.816;G|0.184	0.184	strong	CEACAM18_ENST00000451626,colon,carcinoma,0,1	CEACAM18	96	1	NM_001080405	exon5	c.A1133G	p.H378R	CCCCCCATGAGTG	.	PASS	Atlas-SNP
SPANXE	171489	hgsc.bcm.edu	37	X	140785739	140785739	+	Missense_Mutation	SNP	A	A	C	rs149295712	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	522	325	405	1	0.622605	0.00246914	.	.	weak	.	.	.	.	NM_145665	exon2	c.T177G	p.F59L	TCTTTTAAAGTTC	.	PASS	Atlas-SNP
DNHD1	144132	hgsc.bcm.edu	37	11	6579106	6579106	+	Missense_Mutation	SNP	C	C	A	rs11040920	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	35	16	25	0	0.457143	0	A|0.281;C|0.718;T|0.001	0.281	strong	.	DNHD1	198	.	NM_144666	exon25	c.C8581A	p.H2861N	AGCCCCCACCTGG	.	PASS	Atlas-SNP
DOCK8	81704	hgsc.bcm.edu	37	9	334337	334337	+	Missense_Mutation	SNP	A	A	G	rs10970979	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	204	97	150	0	0.47549	0	A|0.758;G|0.242	0.242	strong	.	DOCK8	401	.	NM_203447	exon11	c.A1238G	p.N413S	TCTTCAATGTCTC	.	PASS	Atlas-SNP
OR2T12	127064	hgsc.bcm.edu	37	1	248457993	248457993	+	Missense_Mutation	SNP	C	C	G	rs56024759		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	293	160	229	0	0.546075	0	.	.	weak	.	OR2T12	113	.	NM_001004692	exon1	c.G888C	p.K296N	GGCTTCCTTGACC	.	PASS	Atlas-SNP
AMZ1	155185	hgsc.bcm.edu	37	7	2752487	2752487	+	Missense_Mutation	SNP	G	G	A	rs7776970	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	63	99	0	0.984375	0	G|0.664;A|0.336	0.336	strong	.	AMZ1	41	.	NM_133463	exon7	c.G1472A	p.R491H	CCCCCCGTCCCTG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	46	87	0	0.455446	0	C|0.595;G|0.405	0.405	strong	.	CHPF2	52	.	NM_019015	exon4	c.C1527G	p.A509A	CGAGGCCTTTGCA	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238138	31238138	+	Silent	SNP	C	C	T	rs1050320	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	97	195	0	0.989796	0	C|0.320;T|0.680	0.680	strong	.	HLA-C	92	.	NM_002117	exon4	c.G744A	p.Q248Q	CTGGGTCTGGTCC	.	PASS	Atlas-SNP
CSRNP1	64651	hgsc.bcm.edu	37	3	39185525	39185525	+	Missense_Mutation	SNP	G	G	A	rs375810664		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	21	36	0	0.403846	0	.	.	weak	.	CSRNP1	59	.	NM_033027	exon5	c.C791T	p.T264I	AATGCTGTGTGGT	.	PASS	Atlas-SNP
PCED1B	91523	hgsc.bcm.edu	37	12	47629368	47629368	+	Silent	SNP	G	G	T	rs2244818	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	48	34	0	0.979592	0	G|0.835;T|0.165	0.165	strong	.	.	.	.	NM_138371	exon2	c.G522T	p.G174G	CACCGGGGGTTTT	.	PASS	Atlas-SNP
DCLK3	85443	hgsc.bcm.edu	37	3	36779707	36779707	+	Silent	SNP	G	G	A	rs3796187	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	223	110	183	1	0.493274	0.00546448	G|0.709;A|0.291	0.291	strong	DCLK3,NS,carcinoma,0,1	DCLK3	95	1	NM_033403	exon2	c.C444T	p.L148L	CTGCTGGAGCTCC	.	scavenged	Atlas-SNP
NFKBIL1	4795	hgsc.bcm.edu	37	6	31525448	31525448	+	Silent	SNP	C	C	T	rs2230365	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	24	55	0	0.5	0	C|0.865;T|0.135	0.135	strong	.	NFKBIL1	17	.	NM_005007	exon3	c.C378T	p.S126S	TCCCTCCGCCATG	.	PASS	Atlas-SNP
TTYH2	94015	hgsc.bcm.edu	37	17	72246101	72246101	+	Silent	SNP	T	T	C	rs3897753	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	214	87	180	0	0.406542	0	T|0.549;C|0.451	0.451	strong	.	TTYH2	63	.	NM_032646	exon9	c.T957C	p.L319L	CGCACTTACCACC	.	PASS	Atlas-SNP
ZNF485	220992	hgsc.bcm.edu	37	10	44112214	44112214	+	Silent	SNP	C	C	T	rs7478426	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	37	51	0	0.578125	0	C|0.904;T|0.096	0.096	strong	.	ZNF485	102	.	NM_145312	exon5	c.C723T	p.P241P	GAAACCCTACAAA	.	PASS	Atlas-SNP
MYH9	4627	hgsc.bcm.edu	37	22	36685329	36685329	+	Silent	SNP	C	C	T	rs202127454	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	22	55	0	0.385965	0	C|1.000;T|0.000	0.000	strong	.	MYH9	225	.	NM_002473	exon32	c.G4359A	p.E1453E	GGTCTTCTCCTCC	.	PASS	Atlas-SNP
OR5I1	10798	hgsc.bcm.edu	37	11	55703650	55703650	+	Missense_Mutation	SNP	A	A	G	rs9666086	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	45	83	0	0.511364	0	A|0.953;G|0.047	0.047	strong	OR5I1,NS,carcinoma,+1,1	OR5I1	110	1	NM_006637	exon1	c.T227C	p.F76S	TCTGAGAAATAGC	.	PASS	Atlas-SNP
POLQ	10721	hgsc.bcm.edu	37	3	121151784	121151784	+	Missense_Mutation	SNP	G	G	A	rs2306211	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	74	121	0	0.560606	0	G|0.977;A|0.023	0.023	strong	.	POLQ	273	.	NM_199420	exon29	c.C7640T	p.A2547V	TCTTCTGCCACTT	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1538464	1538464	+	Missense_Mutation	SNP	C	C	T	rs2745103	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	222	89	191	0	0.400901	0	C|0.758;T|0.242	0.242	strong	.	PTX4	46	.	NM_001013658	exon1	c.G5A	p.G2E	CCACTCCCCATGA	.	PASS	Atlas-SNP
AKAP9	10142	hgsc.bcm.edu	37	7	91712698	91712698	+	Missense_Mutation	SNP	A	A	G	rs6960867	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	72	133	0	0.473684	0	A|0.667;G|0.333	0.333	strong	.	AKAP9	788	.	NM_005751	exon33	c.A8375G	p.N2792S	GCAGCAATCAGAC	.	PASS	Atlas-SNP
RPS6KA4	8986	hgsc.bcm.edu	37	11	64138805	64138805	+	Silent	SNP	T	T	C	rs11542299	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	29	77	0	0.446154	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
DECR2	26063	hgsc.bcm.edu	37	16	461554	461554	+	Missense_Mutation	SNP	C	C	G	rs370013477		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	64	123	0	0.520325	0	.	.	weak	.	DECR2	47	.	NM_020664	exon8	c.C855G	p.F285L	GGATTTCGCATCC	.	PASS	Atlas-SNP
FGA	2243	hgsc.bcm.edu	37	4	155507590	155507590	+	Missense_Mutation	SNP	T	T	C	rs6050	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	105	90	0	1	0	T|0.700;C|0.300	0.300	strong	FGA,NS,carcinoma,0,1	FGA	179	1	NM_000508	exon5	c.A991G	p.T331A	TTCCAGTACTTCC	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158607935	158607935	+	Missense_Mutation	SNP	T	T	G	rs857725	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	69	136	0	0.570248	0	G|0.277;N|0.000	0.277	strong	.	SPTA1	720	.	NM_003126	exon36	c.A5077C	p.K1693Q	AACGCTTGTTGAC	.	PASS	Atlas-SNP
KCNA10	3744	hgsc.bcm.edu	37	1	111061011	111061011	+	Silent	SNP	C	C	A	rs3748731	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	30	55	0	0.47619	0	C|0.792;A|0.208	0.208	strong	.	KCNA10	92	.	NM_005549	exon1	c.G399T	p.R133R	CCGGTTCCGATCA	.	PASS	Atlas-SNP
C3orf20	84077	hgsc.bcm.edu	37	3	14724413	14724413	+	Missense_Mutation	SNP	G	G	A	rs9821143	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	118	125	1	1	0.008	G|0.672;A|0.328	0.328	strong	.	C3orf20	109	.	NM_032137	exon3	c.G193A	p.D65N	CCGTCCGACATCT	.	PASS	Atlas-SNP
SIGLEC10	89790	hgsc.bcm.edu	37	19	51919267	51919267	+	Silent	SNP	A	A	G	rs7258638	bycluster;byfrequency;by2hit2allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	26	97	0	0.153846	0	A|0.996;G|0.004	0.004	strong	.	SIGLEC10	112	.	NM_001171157	exon5	c.T909C	p.P303P	GGGTCTAGGGCCC	.	PASS	Atlas-SNP
CRTC3	64784	hgsc.bcm.edu	37	15	91161163	91161163	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	2	118	0	0.0178571	0	.	.	none	CRTC3,NS,carcinoma,0,1	CRTC3	47	1	NM_022769	exon8	c.C662T	p.P221L	ATGTTCCGAAGCC	.	scavenged	Atlas-SNP
TMEM125	128218	hgsc.bcm.edu	37	1	43738760	43738760	+	Missense_Mutation	SNP	G	G	A	rs143350378	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	24	13	13	0	0.541667	0	G|0.997;A|0.003	0.003	strong	.	TMEM125	18	.	NM_144626	exon4	c.G367A	p.V123M	GGCCTCGTGCTGC	.	PASS	Atlas-SNP
OAS3	4940	hgsc.bcm.edu	37	12	113379390	113379390	+	Missense_Mutation	SNP	C	C	T	rs12819767	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	40	79	0	0.421053	0	C|0.988;T|0.012	0.012	strong	.	OAS3	63	.	NM_006187	exon2	c.C193T	p.R65W	TCGGGCCGGGGCA	.	PASS	Atlas-SNP
FAM166A	401565	hgsc.bcm.edu	37	9	140139106	140139106	+	Silent	SNP	G	G	A	rs62584882	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	223	98	184	0	0.439462	0	G|0.994;A|0.006	0.006	strong	.	FAM166A	44	.	NM_001001710	exon5	c.C735T	p.F245F	CTTGTCGAATTCG	.	PASS	Atlas-SNP
SH3BP4	23677	hgsc.bcm.edu	37	2	235950391	235950391	+	Silent	SNP	C	C	T	rs35039245	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	43	92	0	0.425743	0	C|0.976;T|0.024	0.024	strong	.	SH3BP4	109	.	NM_014521	exon4	c.C978T	p.S326S	TAGCTCCGGGGGT	.	PASS	Atlas-SNP
DUSP16	80824	hgsc.bcm.edu	37	12	12630346	12630346	+	Silent	SNP	G	G	A	rs12815760	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	171	83	139	0	0.48538	0	G|0.940;A|0.060	0.060	strong	.	DUSP16	64	.	NM_030640	exon7	c.C1419T	p.T473T	CCTGGCGGTCTGC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	30	64	0	0.47619	0	G|0.630;A|0.370	0.370	strong	.	APIP	21	.	NM_015957	exon1	c.C19T	p.R7W	CCTCCCGAGCATC	.	PASS	Atlas-SNP
MYH9	4627	hgsc.bcm.edu	37	22	36708244	36708244	+	Silent	SNP	G	G	C	rs201827299	by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	50	71	0	0.543478	0	G|1.000;C|0.000	0.000	strong	.	MYH9	225	.	NM_002473	exon14	c.C1578G	p.A526A	CAGCAGGGCCAGA	.	PASS	Atlas-SNP
OSGEPL1	64172	hgsc.bcm.edu	37	2	190617700	190617700	+	Silent	SNP	T	T	C	rs16831960	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	274	131	246	0	0.478102	0	T|0.939;C|0.061	0.061	strong	.	OSGEPL1	19	.	NM_022353	exon6	c.A969G	p.A323A	ACCAGATGCAACC	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29812602	29812602	+	Silent	SNP	G	G	T	rs7070678	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	82	165	1	0.518987	0.00606061	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	.	scavenged	Atlas-SNP
CASZ1	54897	hgsc.bcm.edu	37	1	10725498	10725498	+	Silent	SNP	G	G	A	rs284322	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	12	7	20	0	0.583333	0	G|0.817;A|0.183	0.183	strong	.	CASZ1	150	.	NM_001079843	exon5	c.C147T	p.D49D	GCCGGCGTCAGCT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179579822	179579822	+	Silent	SNP	T	T	A	rs2562836	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	276	139	253	0	0.503623	0	T|0.630;N|0.001	.	strong	.	TTN	18412	.	NM_001267550	exon90	c.A26091T	p.L8697L	ACTGGTTAGGAAG	.	PASS	Atlas-SNP
FHAD1	114827	hgsc.bcm.edu	37	1	15708540	15708540	+	Missense_Mutation	SNP	A	A	G	rs1010294	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	288	155	263	0	0.538194	0	T|0.004;G|0.400	0.400	strong	.	FHAD1	78	.	NM_052929	exon30	c.A3973G	p.I1325V	GTGTCCATTGAGA	.	PASS	Atlas-SNP
PAQR9	344838	hgsc.bcm.edu	37	3	142681249	142681249	+	Silent	SNP	G	G	A	rs62276870	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	52	83	0	0.5	0	G|0.946;A|0.054	0.054	strong	.	PAQR9	57	.	NM_198504	exon1	c.C930T	p.S310S	CTGGTGGCTGTGG	.	PASS	Atlas-SNP
SHB	6461	hgsc.bcm.edu	37	9	38068330	38068330	+	Missense_Mutation	SNP	T	T	C	rs147813967	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	11	42	0	0.366667	0	T|0.996;C|0.004	0.004	strong	.	SHB	31	.	NM_003028	exon1	c.A313G	p.K105E	GCAGTTTGCGCAG	.	PASS	Atlas-SNP
TIMMDC1	51300	hgsc.bcm.edu	37	3	119222456	119222456	+	Silent	SNP	G	G	C	rs1131265	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	108	108	0	0.981818	0	G|0.795;C|0.205	0.205	strong	TIMMDC1,NS,carcinoma,0,1	TIMMDC1	29	1	NM_016589	exon3	c.G438C	p.V146V	GTTTGTGACTATA	.	PASS	Atlas-SNP
MEP1A	4224	hgsc.bcm.edu	37	6	46801071	46801071	+	Missense_Mutation	SNP	G	G	T	rs2274658	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	54	87	0	0.495413	0	G|0.604;T|0.396	0.396	strong	.	MEP1A	93	.	NM_005588	exon11	c.G1405T	p.V469L	TTTGGGGTAACTT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	847	490	386	1	0.578512	0.00259067	C|0.870;0|0.002	.	strong	.	CSAG1	27	.	NM_153478	exon4	c.C84G	p.Y28X	ACTGTACAGAGAC	.	PASS	Atlas-SNP
PEMT	10400	hgsc.bcm.edu	37	17	17425631	17425631	+	Missense_Mutation	SNP	C	C	T	rs897453	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	48	104	0	0.436364	0	T|0.286;G|0.001;C|0.713;N|0.000	0.286	strong	.	PEMT	12	.	NM_001267552	exon3	c.G283A	p.V95I	TGGTGACGCTTAG	.	PASS	Atlas-SNP
MAP3K5	4217	hgsc.bcm.edu	37	6	136977568	136977568	+	Silent	SNP	T	T	C	rs2076260	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	56	46	0	0.528302	0	T|0.613;C|0.387	0.387	strong	MAP3K5,NS,carcinoma,0,1	MAP3K5	136	1	NM_005923	exon10	c.A1557G	p.L519L	ATATATTAAAATT	.	PASS	Atlas-SNP
KANSL1	284058	hgsc.bcm.edu	37	17	44248837	44248837	+	Missense_Mutation	SNP	T	T	C	rs35643216	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	456	96	368	0	0.210526	0	T|0.857;C|0.143	0.143	strong	.	.	.	.	NM_001193466	exon2	c.A673G	p.N225D	TATTATTGCTATA	.	PASS	Atlas-SNP
SLC4A8	9498	hgsc.bcm.edu	37	12	51856159	51856159	+	Silent	SNP	C	C	T	rs71449805	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	58	101	0	0.53211	0	C|0.974;T|0.026	0.026	strong	.	SLC4A8	292	.	NM_001039960	exon10	c.C1167T	p.F389F	TGAGTTCCTAGAC	.	PASS	Atlas-SNP
HDAC4	9759	hgsc.bcm.edu	37	2	240011717	240011717	+	Silent	SNP	T	T	C	rs61752234	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	292	136	236	1	0.465753	0.00423729	T|0.965;C|0.035	0.035	strong	.	HDAC4	127	.	NM_006037	exon18	c.A2361G	p.T787T	CTCCCCTGTGGCC	.	PASS	Atlas-SNP
SP100	6672	hgsc.bcm.edu	37	2	231307660	231307660	+	Missense_Mutation	SNP	C	C	T	rs373614701		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	309	4	292	0	0.012945	0	.	.	weak	SP100_ENST00000340126,NS,carcinoma,0,2	SP100	167	2	NM_001206702	exon3	c.C116T	p.T39M	TGTTCACGGAAGA	.	scavenged	Atlas-SNP
VN1R1	57191	hgsc.bcm.edu	37	19	57967133	57967133	+	Missense_Mutation	SNP	G	G	A	rs28649880	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	265	127	230	0	0.479245	0	G|0.674;A|0.326	0.326	strong	VN1R1,NS,adenoma,0,1	VN1R1	48	1	NM_020633	exon1	c.C722T	p.S241F	ACCATGGAGCCAC	.	PASS	Atlas-SNP
DLGAP2	9228	hgsc.bcm.edu	37	8	1514009	1514009	+	Missense_Mutation	SNP	C	C	A	rs2301963	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	73	58	0	1	0	C|0.556;A|0.444	0.444	strong	.	DLGAP2	292	.	NM_004745	exon3	c.C1151A	p.P384Q	TCCTACCAGAGCC	.	PASS	Atlas-SNP
GP2	2813	hgsc.bcm.edu	37	16	20328685	20328685	+	Silent	SNP	T	T	C	rs1129818	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	31	53	0	0.356322	0	T|0.687;C|0.313	0.313	strong	.	GP2	122	.	NM_001007240	exon9	c.A1275G	p.Q425Q	ATCACGTTGATTT	.	PASS	Atlas-SNP
CNTNAP2	26047	hgsc.bcm.edu	37	7	147092861	147092861	+	Silent	SNP	G	G	A	rs34592169	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	72	110	0	0.486486	0	G|0.845;A|0.155	0.155	strong	CNTNAP2,colon,carcinoma,0,1	CNTNAP2	392	1	NM_014141	exon10	c.G1659A	p.A553A	GTGTGCGATCATA	.	PASS	Atlas-SNP
LAMA3	3909	hgsc.bcm.edu	37	18	21511034	21511034	+	Missense_Mutation	SNP	C	C	A	rs1154232	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	53	105	0	0.546392	0	C|0.849;A|0.151	0.151	strong	.	LAMA3	397	.	NM_198129	exon65	c.C8445A	p.N2815K	AAGGAACCTGCAG	.	PASS	Atlas-SNP
RARS	5917	hgsc.bcm.edu	37	5	167933158	167933158	+	Missense_Mutation	SNP	T	T	A	rs2305734	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	95	95	0	1	0	T|0.869;A|0.131	0.131	strong	.	RARS	58	.	NM_002887	exon10	c.T1190A	p.F397Y	GACTATTTGAGGA	.	PASS	Atlas-SNP
KRTAP5-8	57830	hgsc.bcm.edu	37	11	71249152	71249152	+	Silent	SNP	C	C	T	rs112809261	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	16	112	1	0.153846	0.00892857	C|0.896;T|0.104	0.104	strong	KRTAP5-8,NS,carcinoma,+1,1	KRTAP5-8	28	1	NM_021046	exon1	c.C51T	p.C17C	GGGCTGCGGCTCT	.	scavenged	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238984	31238984	+	Missense_Mutation	SNP	G	G	T	rs2308584	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	36	291	1	0.223602	0.00343643	T|0.057;G|0.944	0.057	strong	HLA-C_ENST00000383329,NS,carcinoma,+1,2	HLA-C	92	2	NM_002117	exon3	c.C485A	p.T162N	GCCGCGGTGTCCG	.	scavenged	Atlas-SNP
CCDC33	80125	hgsc.bcm.edu	37	15	74622533	74622533	+	Missense_Mutation	SNP	A	A	G	rs2277603	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	92	179	0	0.481675	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
PXDNL	137902	hgsc.bcm.edu	37	8	52321728	52321728	+	Missense_Mutation	SNP	G	G	C	rs201184283	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	28	15	39	0	0.535714	0	.	.	weak	PXDNL_ENST00000356297,uveal_tract,malignant_melanoma,0,2	PXDNL	414	2	NM_144651	exon17	c.C2456G	p.P819R	AGCGCAGGCACTG	.	PASS	Atlas-SNP
RIMBP2	23504	hgsc.bcm.edu	37	12	130884347	130884347	+	Silent	SNP	A	A	G	rs756186	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	48	68	0	0.494845	0	A|0.703;G|0.297	0.297	strong	.	RIMBP2	220	.	NM_015347	exon18	c.T3009C	p.N1003N	CTGCCCATTCAGC	.	PASS	Atlas-SNP
SGOL2	151246	hgsc.bcm.edu	37	2	201437048	201437048	+	Missense_Mutation	SNP	A	A	G	rs17532665	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	217	107	212	0	0.493088	0	A|0.914;G|0.086	0.086	strong	.	SGOL2	126	.	NM_001160046	exon7	c.A1979G	p.N660S	CTGAAAACATAGA	.	PASS	Atlas-SNP
ADCY6	112	hgsc.bcm.edu	37	12	49176872	49176872	+	Silent	SNP	G	G	T	rs3730308	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	44	29	0	0.594595	0	G|0.834;T|0.166	0.166	strong	.	ADCY6	81	.	NM_020983	exon2	c.C346A	p.R116R	AGGATCGCCCACT	.	PASS	Atlas-SNP
SUGP1	57794	hgsc.bcm.edu	37	19	19413092	19413092	+	Missense_Mutation	SNP	C	C	T	rs17751061	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	62	131	0	0.476923	0	C|0.891;T|0.109	0.109	strong	.	SUGP1	63	.	NM_172231	exon7	c.G869A	p.R290H	TTCTCACGGTTGT	.	PASS	Atlas-SNP
TAP2	6891	hgsc.bcm.edu	37	6	32798548	32798548	+	Silent	SNP	G	G	A	rs200734705		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	48	103	0	0.475248	0	.	.	weak	.	TAP2	98	.	NM_018833	exon8	c.C1308T	p.N436N	TCCCACGTTGCTG	.	PASS	Atlas-SNP
TDRD6	221400	hgsc.bcm.edu	37	6	46658915	46658915	+	Missense_Mutation	SNP	G	G	A	rs140575009	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	28	80	0	0.430769	0	G|0.999;A|0.001	0.001	strong	.	TDRD6	205	.	NM_001168359	exon1	c.G3050A	p.C1017Y	TGTCATGTAGTAT	.	PASS	Atlas-SNP
SLC6A12	6539	hgsc.bcm.edu	37	12	319111	319111	+	Silent	SNP	T	T	C	rs526690	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	76	129	0	0.493506	0	T|0.434;C|0.566	0.566	strong	.	SLC6A12	60	.	NM_001122848	exon3	c.A42G	p.A14A	GGAGACTGCAGGA	.	PASS	Atlas-SNP
KLK14	43847	hgsc.bcm.edu	37	19	51584951	51584951	+	Missense_Mutation	SNP	T	T	C	rs35287116	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	110	134	0	0.990991	0	T|0.653;C|0.347	0.347	strong	.	KLK14	49	.	NM_022046	exon4	c.A98G	p.Q33R	TGGCTCTGTGTCA	.	PASS	Atlas-SNP
OR10J5	127385	hgsc.bcm.edu	37	1	159505101	159505101	+	Missense_Mutation	SNP	G	G	A	rs35393723	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	117	117	0	0.991525	0	G|0.871;A|0.129	0.129	strong	.	OR10J5	68	.	NM_001004469	exon1	c.C697T	p.R233W	TCTTCCGGCCCTC	.	PASS	Atlas-SNP
FERMT1	55612	hgsc.bcm.edu	37	20	6096632	6096632	+	Silent	SNP	G	G	A	rs1056141	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	79	146	0	0.509677	0	G|0.894;A|0.106	0.106	strong	.	FERMT1	106	.	NM_017671	exon3	c.C211T	p.L71L	TTTTCAGAAGCCA	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239577	31239577	+	Missense_Mutation	SNP	A	A	C	rs707911	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	77	114	0	0.974684	0	C|0.594;A|0.406	0.594	strong	.	HLA-C	92	.	NM_002117	exon2	c.T142G	p.S48A	CCACTGAGATGAA	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17086941	17086941	+	Missense_Mutation	SNP	C	C	T	rs28462251	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	25	239	0	0.14881	0	C|0.946;T|0.054	0.054	strong	Q13209_HUMAN,NS,carcinoma,0,2	.	.	2	NM_001271733	exon4	c.G383A	p.R128H	GGGTTACGGCAGA	.	scavenged	Atlas-SNP
TTC3	7267	hgsc.bcm.edu	37	21	38525356	38525356	+	Missense_Mutation	SNP	T	T	C	rs1053808	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	185	175	1	0.989305	0.00571429	T|0.427;C|0.573	0.573	strong	.	TTC3	182	.	NM_001001894	exon27	c.T2519C	p.M840T	CAGCCATGCTTCT	.	PASS	Atlas-SNP
CEACAM1	634	hgsc.bcm.edu	37	19	43013363	43013363	+	Silent	SNP	A	A	G	rs11666350	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	175	70	169	0	0.4	0	A|0.874;G|0.126	0.126	strong	.	CEACAM1	43	.	NM_001712	exon9	c.T1479C	p.Y493Y	GGTAGAATAAGTA	.	PASS	Atlas-SNP
OR5M9	390162	hgsc.bcm.edu	37	11	56230120	56230120	+	Missense_Mutation	SNP	G	G	A	rs61902868	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	54	132	0	0.519231	0	G|0.922;A|0.078	0.078	strong	.	OR5M9	75	.	NM_001004743	exon1	c.C758T	p.P253L	AAGATGGGGGTCC	.	PASS	Atlas-SNP
ENPP2	5168	hgsc.bcm.edu	37	8	120575249	120575249	+	Missense_Mutation	SNP	C	C	T	rs61758149	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	57	79	0	0.459677	0	C|0.998;T|0.002	0.002	strong	.	ENPP2	254	.	NM_006209	exon25	c.G2425A	p.V809M	CTTCCACGTACCT	.	PASS	Atlas-SNP
SIGLEC11	114132	hgsc.bcm.edu	37	19	50463670	50463670	+	Missense_Mutation	SNP	T	T	G	rs79085301	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	53	123	0	0.30814	0	T|0.840;G|0.160	0.160	strong	.	SIGLEC11	70	.	NM_052884	exon3	c.A469C	p.K157Q	GCTTCTTAGTCAG	.	PASS	Atlas-SNP
VN1R4	317703	hgsc.bcm.edu	37	19	53770746	53770746	+	Missense_Mutation	SNP	C	C	A	rs140031028	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	258	28	193	0	0.108527	0	A|0.055;C|0.945;G|0.001	0.055	strong	VN1R4,mouth,carcinoma,0,1	VN1R4	65	1	NM_173857	exon1	c.G173T	p.R58L	TTACAGCGGAGAG	.	PASS	Atlas-SNP
MUC20	200958	hgsc.bcm.edu	37	3	195456561	195456561	+	Missense_Mutation	SNP	C	C	G	rs3762739	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	29	73	0	0.329545	0	C|0.780;G|0.220	0.220	strong	.	MUC20	84	.	NM_152673	exon4	c.C1499G	p.S500C	TGGCTTCCCCGGA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9071916	9071916	+	Missense_Mutation	SNP	G	G	A	rs35346115	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	207	92	197	0	0.444444	0	G|0.980;A|0.020	0.020	strong	.	MUC16	4315	.	NM_024690	exon3	c.C15530T	p.T5177I	TTTGTAGTCTCAG	.	PASS	Atlas-SNP
WASL	8976	hgsc.bcm.edu	37	7	123388732	123388732	+	Silent	SNP	G	G	A	rs1054706	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	56	53	0	0.965517	0	G|0.567;A|0.433	0.433	strong	.	WASL	70	.	NM_003941	exon1	c.C57T	p.S19S	CAACAGGGACCCC	.	PASS	Atlas-SNP
GGTLC2	91227	hgsc.bcm.edu	37	22	22989281	22989281	+	Silent	SNP	T	T	C	rs3966363	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	31	11	370	1	0.354839	0.0027027	T|0.877;C|0.123	0.123	strong	.	GGTLC2	20	.	NM_199127	exon2	c.T234C	p.D78D	AATGGATGACTTC	.	PASS	Atlas-SNP
POLR1E	64425	hgsc.bcm.edu	37	9	37493588	37493588	+	Silent	SNP	C	C	T	rs10758434	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	60	114	0	0.566038	0	C|0.796;T|0.204	0.204	strong	.	POLR1E	28	.	NM_022490	exon6	c.C435T	p.T145T	TACCACCAAACAG	.	PASS	Atlas-SNP
BTNL2	56244	hgsc.bcm.edu	37	6	32372863	32372863	+	Missense_Mutation	SNP	A	A	T	rs28362682	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	318	166	274	1	0.522013	0.00364964	A|0.894;T|0.106	0.106	strong	.	BTNL2	50	.	NM_019602	exon2	c.T280A	p.W94R	CTACCCAGCCTCT	.	PASS	Atlas-SNP
OR13C5	138799	hgsc.bcm.edu	37	9	107361002	107361002	+	Silent	SNP	C	C	G	rs78992791	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	218	109	154	0	0.5	0	C|0.999;G|0.001	0.001	strong	OR13C5,right_upper_lobe,carcinoma,0,2	OR13C5	60	2	NM_001004482	exon1	c.G693C	p.S231S	CCCCTCCGAAGAG	.	PASS	Atlas-SNP
GAS8	2622	hgsc.bcm.edu	37	16	90103659	90103659	+	Missense_Mutation	SNP	G	G	A	rs17178299	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	95	193	0	0.494792	0	G|0.958;A|0.042	0.042	strong	.	GAS8	29	.	NM_001481	exon7	c.G776A	p.R259Q	ACATGCGGAAGAA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	218	103	172	0	0.472477	0	C|0.700;T|0.300	0.300	strong	.	GSTM3	21	.	NM_000849	exon9	c.G670A	p.V224I	AGCATACAGGCTT	.	PASS	Atlas-SNP
KRTAP5-8	57830	hgsc.bcm.edu	37	11	71249183	71249183	+	Missense_Mutation	SNP	T	T	C	rs55921335	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	38	111	1	0.35514	0.00900901	T|0.650;C|0.350	0.350	strong	KRTAP5-8,colon,carcinoma,0,1	KRTAP5-8	28	1	NM_021046	exon1	c.T82C	p.C28R	TCTAGCTGCTGTG	.	scavenged	Atlas-SNP
NUGGC	389643	hgsc.bcm.edu	37	8	27925204	27925204	+	Missense_Mutation	SNP	T	T	C	rs4732620	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	72	155	0	0.431138	0	T|0.419;C|0.581	0.581	strong	.	.	.	.	NM_001010906	exon6	c.A538G	p.S180G	CTCTGCTCAGCTC	.	PASS	Atlas-SNP
ITGA2	3673	hgsc.bcm.edu	37	5	52347369	52347369	+	Silent	SNP	C	C	T	rs1126643	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	63	114	0	0.456522	0	C|0.629;T|0.371	0.371	strong	.	ITGA2	211	.	NM_002203	exon7	c.C759T	p.F253F	CACATTCGGAGCA	.	PASS	Atlas-SNP
RPS6KA2	6196	hgsc.bcm.edu	37	6	166862233	166862233	+	Silent	SNP	T	T	C	rs2230730	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	88	196	0	0.433498	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
SPPL2C	162540	hgsc.bcm.edu	37	17	43924219	43924219	+	Silent	SNP	T	T	C	rs12373124	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	32	46	0	0.426667	0	A|0.854;G|0.146	.	strong	.	.	.	.	NM_175882	exon1	c.T1947C	p.H649H	GGGCCATGTCCAT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	60	93	0	0.555556	0	T|0.245;N|0.000	0.245	strong	.	SLC16A7	82	.	NM_001270622	exon6	c.A1333T	p.T445S	CAGAAGACCAGAG	.	PASS	Atlas-SNP
ZNF143	7702	hgsc.bcm.edu	37	11	9549142	9549142	+	Silent	SNP	G	G	A	rs11607631	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	59	136	0	0.513043	0	G|0.953;A|0.047	0.047	strong	.	ZNF143	38	.	NM_003442	exon16	c.G1899A	p.T633T	AGAAACGCCAGGG	.	PASS	Atlas-SNP
DOM3Z	1797	hgsc.bcm.edu	37	6	31938412	31938412	+	Missense_Mutation	SNP	G	G	T	rs17207867	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	35	78	0	0.346535	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
TNC	3371	hgsc.bcm.edu	37	9	117808785	117808785	+	Missense_Mutation	SNP	T	T	A	rs2104772	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	287	287	279	0	1	0	T|0.519;A|0.481	0.481	strong	.	TNC	282	.	NM_002160	exon17	c.A5029T	p.I1677L	CTGTTATGTCCCT	.	PASS	Atlas-SNP
C17orf97	400566	hgsc.bcm.edu	37	17	263613	263613	+	Missense_Mutation	SNP	C	C	A	rs184547508	by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	207	28	158	3	0.135266	0.0189873	C|0.942;A|0.058	0.058	strong	C17orf97_ENST00000360127,NS,carcinoma,-2,1	C17orf97	76	1	NM_001013672	exon2	c.C979A	p.P327T	TTCCACCCCGACC	.	scavenged	Atlas-SNP
BRSK2	9024	hgsc.bcm.edu	37	11	1411572	1411572	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	23	13	23	0	0.565217	0	.	.	none	.	BRSK2	97	.	NM_001256629	exon1	c.C58T	p.R20W	CCCTACCGGCTGG	.	PASS	Atlas-SNP
OR8I2	120586	hgsc.bcm.edu	37	11	55861297	55861297	+	Missense_Mutation	SNP	A	A	G	rs117967749	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	58	124	0	0.4	0	A|0.950;G|0.050	0.050	strong	.	OR8I2	119	.	NM_001003750	exon1	c.A514G	p.S172G	GATTCCAGCATCA	.	PASS	Atlas-SNP
WDR81	124997	hgsc.bcm.edu	37	17	1630584	1630584	+	Silent	SNP	A	A	G	rs7221974	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	42	25	32	0	0.595238	0	A|0.680;G|0.320	0.320	strong	.	WDR81	180	.	NM_001163809	exon1	c.A2331G	p.L777L	TGTCCTATTGGCA	.	PASS	Atlas-SNP
TCTN3	26123	hgsc.bcm.edu	37	10	97447373	97447373	+	Silent	SNP	A	A	T	rs10786229	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	44	86	0	0.745763	0	A|0.624;T|0.376	0.376	strong	.	TCTN3	66	.	NM_015631	exon4	c.T603A	p.T201T	TGATTGAGTTTGG	.	PASS	Atlas-SNP
AKAP13	11214	hgsc.bcm.edu	37	15	86123988	86123988	+	Missense_Mutation	SNP	G	G	A	rs4075254	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	110	102	1	0.990991	0.00980392	G|0.388;N|0.001	.	strong	.	AKAP13	394	.	NM_007200	exon7	c.G2689A	p.V897M	CAAAGTGTGGGTA	.	PASS	Atlas-SNP
MBD3L3	653657	hgsc.bcm.edu	37	19	7056571	7056571	+	Missense_Mutation	SNP	G	G	T	rs200589118	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	116	268	0	0.655367	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
OR51Q1	390061	hgsc.bcm.edu	37	11	5443739	5443739	+	Silent	SNP	T	T	C	rs2736587	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	197	101	170	0	0.51269	0	T|0.601;C|0.399	0.399	strong	.	OR51Q1	79	.	NM_001004757	exon1	c.T309C	p.F103F	TCAGTTTTTCTTC	.	PASS	Atlas-SNP
STK17B	9262	hgsc.bcm.edu	37	2	197004439	197004439	+	Silent	SNP	A	A	G	rs1054537	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	106	184	0	0.522168	0	A|0.349;G|0.651	0.651	strong	.	STK17B	28	.	NM_004226	exon7	c.T741C	p.I247I	TTGAGAAATATTG	.	PASS	Atlas-SNP
NOTCH4	4855	hgsc.bcm.edu	37	6	32188603	32188603	+	Silent	SNP	C	C	T	rs520803	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	47	137	0	0.412281	0	T|0.292;C|0.708	0.292	strong	NOTCH4,left_upper_lobe,carcinoma,-1,1	NOTCH4	201	1	NM_004557	exon5	c.G852A	p.Q284Q	CTGACACTGGTGG	.	PASS	Atlas-SNP
KMO	8564	hgsc.bcm.edu	37	1	241712134	241712134	+	Silent	SNP	C	C	T	rs11556464	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	20	15	11	0	0.75	0	C|0.616;T|0.384	0.384	strong	.	KMO	69	.	NM_003679	exon2	c.C60T	p.G20G	GGTTGGCTCATTA	.	PASS	Atlas-SNP
OR2T34	127068	hgsc.bcm.edu	37	1	248737230	248737230	+	Missense_Mutation	SNP	T	T	C	rs199863869	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	63	174	0	0.28125	0	T|0.875;C|0.125	0.125	strong	OR2T34,NS,carcinoma,0,1	OR2T34	72	1	NM_001001821	exon1	c.A829G	p.M277V	CCATCATGTCCTG	.	scavenged	Atlas-SNP
PTPRU	10076	hgsc.bcm.edu	37	1	29631909	29631909	+	Missense_Mutation	SNP	A	A	G	rs2235937	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	41	72	0	0.506173	0	A|0.730;G|0.269	0.269	strong	PTPRU,NS,carcinoma,0,1	PTPRU	374	1	NM_005704	exon19	c.A2819G	p.N940S	ACCCCAATGCCGA	.	PASS	Atlas-SNP
PRRT3	285368	hgsc.bcm.edu	37	3	9991163	9991163	+	Missense_Mutation	SNP	A	A	G	rs55847610	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	23	37	0	0.396552	0	A|0.673;G|0.327	0.327	strong	PRRT3,NS,carcinoma,0,1	PRRT3	35	1	NM_207351	exon2	c.T637C	p.S213P	AGTGGGAAACAAG	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225533684	225533684	+	Missense_Mutation	SNP	A	A	G	rs6667999	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	52	151	0	0.403101	0	A|0.507;G|0.493	0.493	strong	.	DNAH14	300	.	NM_001373	exon68	c.A10420G	p.K3474E	GATGACAAAATTG	.	PASS	Atlas-SNP
CR1L	1379	hgsc.bcm.edu	37	1	207890866	207890866	+	Missense_Mutation	SNP	T	T	C	rs2796257	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	251	126	208	1	0.501992	0.00480769	T|0.675;C|0.325	0.325	strong	.	CR1L	97	.	NM_175710	exon11	c.T1472C	p.L491P	CTCCCCTTGGAGA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	178	76	144	0	0.426966	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
SCFD2	152579	hgsc.bcm.edu	37	4	54011603	54011603	+	Silent	SNP	C	C	T	rs17082453	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	85	144	0	0.512048	0	C|0.913;T|0.087	0.087	strong	.	SCFD2	78	.	NM_152540	exon5	c.G1458A	p.T486T	GTCTACCGTGAGC	.	PASS	Atlas-SNP
MAPT	4137	hgsc.bcm.edu	37	17	44061278	44061278	+	Missense_Mutation	SNP	C	C	T	rs17651549	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	46	21	44	0	0.456522	0	C|0.867;T|0.133	0.133	strong	.	MAPT	135	.	NM_001123066	exon6	c.C1108T	p.R370W	GTCAGCCGGGTCC	.	PASS	Atlas-SNP
SGOL2	151246	hgsc.bcm.edu	37	2	201437932	201437932	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	216	3	206	0	0.0138889	0	.	.	none	SGOL2,NS,carcinoma,-1,1	SGOL2	126	1	NM_001160046	exon7	c.C2863T	p.Q955X	GAATGCCAAGACA	.	scavenged	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45234411	45234411	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	7	44	0	0.127273	0	.	.	none	CDC27_ENST00000531206,caecum,carcinoma,0,2	CDC27	337	2	NM_001114091	exon7	c.C710A	p.S237X	ACAGCTGAATCAA	.	PASS	Atlas-SNP
NIPBL	25836	hgsc.bcm.edu	37	5	37036492	37036492	+	Silent	SNP	C	C	T	rs61748200	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	27	61	0	0.490909	0	C|0.844;T|0.156	0.156	strong	.	NIPBL	513	.	NM_015384	exon33	c.C5874T	p.S1958S	GAAGTCCGAAGAG	.	PASS	Atlas-SNP
PEX11B	8799	hgsc.bcm.edu	37	1	145522887	145522887	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	3	137	0	0.0196078	0	.	.	none	PEX11B,NS,carcinoma,-2,1	PEX11B	26	1	NM_003846	exon4	c.C748T	p.L250L	CTCACCCTAATCT	.	scavenged	Atlas-SNP
GPANK1	7918	hgsc.bcm.edu	37	6	31630241	31630241	+	Silent	SNP	C	C	T	rs7992	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	80	182	0	0.45977	0	C|0.620;T|0.380	0.380	strong	.	GPANK1	19	.	NM_001199238	exon4	c.G873A	p.R291R	CTGGTCCCTCTTG	.	PASS	Atlas-SNP
ZNF721	170960	hgsc.bcm.edu	37	4	436991	436991	+	Missense_Mutation	SNP	C	C	T	rs376220761		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	16	47	1	0.410256	0.0212766	.	.	weak	ZNF721_ENST00000511833,NS,carcinoma,-1,2	ZNF721	205	2	NM_133474	exon3	c.C1265A	p.P422H	CTGCCACGATCTT	.	scavenged	Atlas-SNP
TTYH2	94015	hgsc.bcm.edu	37	17	72248483	72248483	+	Silent	SNP	A	A	G	rs4789640	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	28	46	1	0.491228	0.0217391	A|0.567;G|0.433	0.433	strong	TTYH2,NS,carcinoma,0,1	TTYH2	63	1	NM_032646	exon11	c.A1227G	p.A409A	CTGTGCAGGGCCA	.	scavenged	Atlas-SNP
MRO	83876	hgsc.bcm.edu	37	18	48346024	48346024	+	Missense_Mutation	SNP	G	G	T	rs3813089	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	58	83	0	0.522523	0	G|0.849;T|0.151	0.151	strong	.	MRO	36	.	NM_001127175	exon2	c.C68A	p.T23N	TCCCGGGTAGTAG	.	PASS	Atlas-SNP
FRAS1	80144	hgsc.bcm.edu	37	4	79434685	79434685	+	Missense_Mutation	SNP	T	T	G	rs35933858	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	47	65	0	0.516484	0	T|0.882;G|0.118	0.118	strong	.	FRAS1	779	.	NM_025074	exon65	c.T10153G	p.Y3385D	ACCACCTATGACC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	72	164	0	0.441718	0	A|0.479;G|0.521	0.521	strong	.	C9orf96	77	.	NM_153710	exon14	c.A1417G	p.K473E	TCCCTCAAAAGCA	.	PASS	Atlas-SNP
CDC6	990	hgsc.bcm.edu	37	17	38457151	38457151	+	Missense_Mutation	SNP	G	G	A	rs13706	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	231	108	238	0	0.467532	0	G|0.734;A|0.266	0.266	strong	.	CDC6	53	.	NM_001254	exon10	c.G1321A	p.V441I	TCAGAAGTTGATG	.	PASS	Atlas-SNP
DCLK1	9201	hgsc.bcm.edu	37	13	36402426	36402426	+	Silent	SNP	A	A	G	rs2296645	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	28	66	0	0.933333	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
DARC	2532	hgsc.bcm.edu	37	1	159175527	159175527	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	94	130	0	0.534091	0	.	.	none	.	DARC	76	.	NM_001122951	exon1	c.G304A	p.A102T	GTCCTGGCACAGC	.	PASS	Atlas-SNP
RAB3IL1	5866	hgsc.bcm.edu	37	11	61672265	61672265	+	Silent	SNP	T	T	C	rs174474	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	285	103	293	0	0.361403	0	T|0.759;C|0.241	0.241	strong	RAB3IL1,NS,carcinoma,-2,1	RAB3IL1	39	1	NM_013401	exon6	c.A747G	p.R249R	GTCCTCTCGGTAC	.	PASS	Atlas-SNP
PNPLA7	375775	hgsc.bcm.edu	37	9	140356422	140356422	+	Silent	SNP	G	G	C	rs28452008	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	42	18	65	0	0.428571	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
MLL3	58508	hgsc.bcm.edu	37	7	151970859	151970859	+	Missense_Mutation	SNP	C	C	A	rs149992209	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	330	17	321	0	0.0515152	0	C|0.994;T|0.006	.	strong	MLL3_ENST00000355193,NS,carcinoma,0,14	MLL3	1564	14	NM_170606	exon7	c.G943T	p.G315C	AGGTGCCGGCTCC	.	PASS	Atlas-SNP
HCRTR1	3061	hgsc.bcm.edu	37	1	32084904	32084904	+	Silent	SNP	C	C	T	rs1056526	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	149	102	0	0.993333	0	C|0.612;T|0.388	0.388	strong	.	HCRTR1	20	.	NM_001525	exon3	c.C111T	p.R37R	GTGGCGCGATTAT	.	PASS	Atlas-SNP
KRTAP5-8	57830	hgsc.bcm.edu	37	11	71249121	71249121	+	Missense_Mutation	SNP	C	C	G	rs200585722	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	7	117	0	0.0686275	0	.	.	weak	.	KRTAP5-8	28	.	NM_021046	exon1	c.C20G	p.S7C	GCTGCTCTGGAGG	.	PASS	Atlas-SNP
TCERG1	10915	hgsc.bcm.edu	37	5	145838656	145838656	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	26	3	22	0	0.115385	0	.	.	none	TCERG1,NS,carcinoma,0,2	TCERG1	148	2	NM_006706	exon4	c.G648A	p.Q216Q	GGCCCAGGCCCAG	.	scavenged	Atlas-SNP
LCN8	138307	hgsc.bcm.edu	37	9	139649612	139649612	+	Missense_Mutation	SNP	C	C	A	rs2282258	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	76	138	0	0.510067	0	C|0.851;A|0.149	0.149	strong	LCN8,colon,carcinoma,0,1	LCN8	14	1	NM_178469	exon6	c.G422T	p.G141V	CACCGCCCTGCAG	.	PASS	Atlas-SNP
PDE1C	5137	hgsc.bcm.edu	37	7	31855625	31855625	+	Missense_Mutation	SNP	C	C	G	rs61736729	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	333	168	254	1	0.504505	0.00393701	C|0.983;G|0.017	0.017	strong	.	PDE1C	465	.	NM_001191058	exon16	c.G1906C	p.V636L	CATTGACTTGATT	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238259	31238259	+	Missense_Mutation	SNP	G	G	T	rs1131096	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	127	145	0	0.947761	0	T|0.722;G|0.275;C|0.003	0.722	strong	HLA-C_ENST00000383329,NS,neuroblastoma,0,2	HLA-C	92	2	NM_002117	exon4	c.C623A	p.P208H	TTTGGGGGTTCTG	.	PASS	Atlas-SNP
FOS	2353	hgsc.bcm.edu	37	14	75746690	75746690	+	Silent	SNP	C	C	T	rs1046117	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	80	115	0	0.551724	0	C|0.238;T|0.762	0.762	strong	.	FOS	30	.	NM_005252	exon2	c.C252T	p.S84S	CTCCTCCGTGGCC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	294	290	251	0	0.986395	0	T|0.760;C|0.240	0.240	strong	.	CHPT1	27	.	NM_020244	exon3	c.T485C	p.F162S	TTTTTTTCTGCTC	.	PASS	Atlas-SNP
EVPL	2125	hgsc.bcm.edu	37	17	74014619	74014619	+	Silent	SNP	G	G	A	rs140458042	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	274	167	190	0	0.609489	0	G|0.996;A|0.004	0.004	strong	.	EVPL	155	.	NM_001988	exon12	c.C1347T	p.V449V	CTGCACGACCCAG	.	PASS	Atlas-SNP
BCAT1	586	hgsc.bcm.edu	37	12	24970966	24970966	+	Silent	SNP	G	G	A	rs117200620	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	240	114	202	1	0.475	0.00495049	G|0.992;A|0.008	0.008	strong	BCAT1,NS,carcinoma,0,1	BCAT1	44	1	NM_001178093	exon11	c.C1173T	p.S391S	CCAGTCGCTCTCT	.	scavenged	Atlas-SNP
CYP4A22	284541	hgsc.bcm.edu	37	1	47608983	47608983	+	Missense_Mutation	SNP	G	G	T	rs4926581	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	687	305	610	0	0.443959	0	G|0.849;T|0.151	0.151	strong	CYP4A22,colon,carcinoma,-2,1	CYP4A22	60	1	NM_001010969	exon5	c.G553T	p.V185F	CTGGAGGTCTTTC	.	PASS	Atlas-SNP
RNF13	11342	hgsc.bcm.edu	37	3	149678534	149678534	+	Silent	SNP	C	C	T	rs6768054	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	269	130	260	0	0.483271	0	C|0.360;T|0.640	0.640	strong	RNF13_ENST00000344229,NS,adenoma,0,1	RNF13	57	1	NM_007282	exon11	c.C789T	p.H263H	TTATCACTGCAAG	.	PASS	Atlas-SNP
IPO7	10527	hgsc.bcm.edu	37	11	9455374	9455374	+	Silent	SNP	T	T	C	rs4910052	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	36	54	0	0.423529	0	T|0.955;C|0.045	0.045	strong	.	IPO7	72	.	NM_006391	exon18	c.T2055C	p.D685D	GCAAGATGGCTTT	.	PASS	Atlas-SNP
PCDHA4	56144	hgsc.bcm.edu	37	5	140188356	140188356	+	Silent	SNP	A	A	G	rs144593807	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	15	107	0	0.25	0	A|0.976;G|0.024	0.024	strong	PCDHA4_ENST00000530339,NS,carcinoma,+2,8	PCDHA4	419	8	NM_031500	exon1	c.A1584G	p.L528L	GGAGCTAGAGCTG	.	scavenged	Atlas-SNP
C1orf210	149466	hgsc.bcm.edu	37	1	43748763	43748763	+	Missense_Mutation	SNP	G	G	A	rs35465732	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	67	98	0	0.489051	0	G|0.989;A|0.011	0.011	strong	C1orf210,NS,carcinoma,+1,1	C1orf210	9	1	NM_182517	exon3	c.C35T	p.S12L	AGCTCCGAAGGCC	.	PASS	Atlas-SNP
ACSM2A	123876	hgsc.bcm.edu	37	16	20471450	20471450	+	Missense_Mutation	SNP	G	G	A	rs59292608	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	57	102	1	0.495652	0.00980392	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	.	scavenged	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179578730	179578730	+	Silent	SNP	G	G	A	rs2562839	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	102	187	0	0.502463	0	G|0.613;A|0.387	0.387	strong	.	TTN	18412	.	NM_001267550	exon92	c.C26655T	p.S8885S	AAGGCCGGATACT	.	PASS	Atlas-SNP
C8A	731	hgsc.bcm.edu	37	1	57383358	57383358	+	Missense_Mutation	SNP	C	C	T	rs17300936	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	306	143	239	0	0.46732	0	C|0.917;N|0.000	.	strong	.	C8A	103	.	NM_000562	exon11	c.C1724T	p.P575L	CGTGTCCAGGGCG	.	PASS	Atlas-SNP
BTNL8	79908	hgsc.bcm.edu	37	5	180374534	180374534	+	Silent	SNP	G	G	A	rs3733756	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	278	275	326	0	0.989209	0	G|0.508;A|0.492	0.492	strong	BTNL8_ENST00000340184,NS,carcinoma,0,2	BTNL8	114	2	NM_001159708	exon4	c.G696A	p.S232S	TATATCGTGGCAC	.	PASS	Atlas-SNP
GBP4	115361	hgsc.bcm.edu	37	1	89652094	89652094	+	Silent	SNP	G	G	A	rs1142887	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	123	357	0	1	0	G|0.527;A|0.473	0.473	strong	.	GBP4	89	.	NM_052941	exon10	c.C1629T	p.A543A	CATTTGGGCCATG	.	PASS	Atlas-SNP
MXD1	4084	hgsc.bcm.edu	37	2	70162534	70162534	+	Silent	SNP	T	T	G	rs2228183	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	263	79	158	0	0.30038	0	T|0.439;G|0.561	0.561	strong	.	MXD1	23	.	NM_001202513	exon4	c.T255G	p.L85L	GCCACTTGGACCC	.	PASS	Atlas-SNP
IDI2	91734	hgsc.bcm.edu	37	10	1068668	1068668	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	2	79	0	0.0235294	0	.	.	none	IDI2,caecum,carcinoma,0,1	IDI2	20	1	NM_033261	exon3	c.C190T	p.R64X	GGATTCGATTCTT	.	scavenged	Atlas-SNP
TPSAB1	7177	hgsc.bcm.edu	37	16	1291454	1291454	+	Missense_Mutation	SNP	G	G	A	rs201351744	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	386	42	361	0	0.108808	0	.	.	weak	TPSAB1,NS,carcinoma,0,2	TPSAB1	24	2	NM_003294	exon4	c.G253A	p.A85T	CTGGCCGCCCTCA	.	scavenged	Atlas-SNP
SIRPG	55423	hgsc.bcm.edu	37	20	1610939	1610939	+	Silent	SNP	G	G	A	rs3746722	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	64	56	0	1	0	G|0.220;A|0.780	0.780	strong	SIRPG,NS,carcinoma,0,1	SIRPG	61	1	NM_018556	exon5	c.C1095T	p.S365S	AGTAAGGGATGAT	.	PASS	Atlas-SNP
CACNA1S	779	hgsc.bcm.edu	37	1	201060865	201060865	+	Silent	SNP	G	G	A	rs2296383	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	85	162	0	0.480226	0	G|0.684;A|0.316	0.316	strong	.	CACNA1S	249	.	NM_000069	exon5	c.C597T	p.I199I	CAGGGCGATGTGA	.	PASS	Atlas-SNP
KRT71	112802	hgsc.bcm.edu	37	12	52946543	52946543	+	Missense_Mutation	SNP	C	C	T	rs665522	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	72	149	0	0.431138	0	C|0.784;T|0.216	0.216	strong	.	KRT71	70	.	NM_033448	exon1	c.G319A	p.V107I	CATTGACGGTAAC	.	PASS	Atlas-SNP
COL12A1	1303	hgsc.bcm.edu	37	6	75848181	75848181	+	Missense_Mutation	SNP	A	A	G	rs240736	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	80	117	0	0.540541	0	A|0.734;G|0.266	0.266	strong	.	COL12A1	385	.	NM_004370	exon29	c.T5213C	p.I1738T	CTGCCAATCAGGT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	73	78	0	1	0	G|0.565;A|0.435	0.435	strong	.	CERKL	138	.	NM_001160277	exon1	c.C156T	p.F52F	GATCTCGAAGATG	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29821523	29821523	+	Silent	SNP	T	T	C	rs1328323	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	84	147	0	0.477273	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
ALPK2	115701	hgsc.bcm.edu	37	18	56204932	56204932	+	Missense_Mutation	SNP	T	T	G	rs3809973	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	230	113	214	0	0.491304	0	T|0.534;G|0.466	0.466	strong	.	ALPK2	487	.	NM_052947	exon5	c.A2487C	p.K829N	CGAATATTTATCA	.	PASS	Atlas-SNP
RHOT2	89941	hgsc.bcm.edu	37	16	722548	722548	+	Silent	SNP	A	A	G	rs1128550	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	92	92	1	1	0.0108696	A|0.452;G|0.548	0.548	strong	RHOT2,NS,carcinoma,0,1	RHOT2	35	1	NM_138769	exon16	c.A1386G	p.G462G	CAATGGACAGGAG	.	scavenged	Atlas-SNP
SEPT12	124404	hgsc.bcm.edu	37	16	4833970	4833970	+	Silent	SNP	C	C	T	rs759991	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	54	117	0	0.504673	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
ABCC1	4363	hgsc.bcm.edu	37	16	16177275	16177275	+	Missense_Mutation	SNP	G	G	A	rs4148356	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	104	193	0	0.553191	0	G|0.977;A|0.023	0.023	strong	.	ABCC1	156	.	NM_004996	exon17	c.G2168A	p.R723Q	CTCTCCGAGAAAA	.	PASS	Atlas-SNP
LRTOMT	220074	hgsc.bcm.edu	37	11	71800166	71800166	+	Missense_Mutation	SNP	G	G	A	rs146942815	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	34	82	0	0.425	0	G|0.996;A|0.004	0.004	strong	.	LRTOMT	20	.	NM_001271471	exon3	c.G37A	p.E13K	GTACAGGAGCCCC	.	PASS	Atlas-SNP
RAB1B	81876	hgsc.bcm.edu	37	11	66043586	66043586	+	Silent	SNP	G	G	A	rs367843963		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	45	88	0	0.412844	0	.	.	weak	.	RAB1B	14	.	NM_030981	exon6	c.G483A	p.A161A	GCAGGCGTTCATG	.	PASS	Atlas-SNP
ZC3H12C	85463	hgsc.bcm.edu	37	11	110036365	110036365	+	Missense_Mutation	SNP	A	A	C	rs61756697	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	50	83	0	0.50505	0	A|0.987;C|0.013	0.013	strong	.	ZC3H12C	83	.	NM_033390	exon6	c.A2555C	p.D852A	CCCCTGACCTTGT	.	PASS	Atlas-SNP
ALPL	249	hgsc.bcm.edu	37	1	21889635	21889635	+	Silent	SNP	T	T	C	rs1780316	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	286	284	307	2	0.993007	0.00651466	T|0.072;C|0.928	0.928	strong	.	ALPL	50	.	NM_000478	exon5	c.T330C	p.S110S	TGACAGTGCCGGC	.	PASS	Atlas-SNP
DLGAP2	9228	hgsc.bcm.edu	37	8	1626541	1626541	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	3	61	0	0.0365854	0	.	.	none	DLGAP2_ENST00000356067,NS,carcinoma,0,3	DLGAP2	292	3	NM_004745	exon9	c.C2210T	p.A737V	ACAGCGCGGTGAG	.	scavenged	Atlas-SNP
NAA25	80018	hgsc.bcm.edu	37	12	112471090	112471090	+	Missense_Mutation	SNP	G	G	T	rs12298022	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	67	122	0	0.462069	0	G|0.868;T|0.132	0.132	strong	.	NAA25	105	.	NM_024953	exon23	c.C2743A	p.L915I	CAATTAGATGTGT	.	PASS	Atlas-SNP
CACNA2D4	93589	hgsc.bcm.edu	37	12	1949939	1949939	+	Silent	SNP	C	C	T	rs33972365	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	18	32	0	0.461538	0	C|0.890;T|0.110	0.110	strong	.	CACNA2D4	220	.	NM_172364	exon26	c.G2517A	p.A839A	GGTCACCGCCACA	.	PASS	Atlas-SNP
WDR66	144406	hgsc.bcm.edu	37	12	122369762	122369762	+	Silent	SNP	C	C	T	rs7313748	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	238	110	239	0	0.462185	0	C|0.713;T|0.287	0.287	strong	.	WDR66	143	.	NM_001178003	exon4	c.C858T	p.N286N	CTACAACGTGTTC	.	PASS	Atlas-SNP
SNUPN	10073	hgsc.bcm.edu	37	15	75909803	75909803	+	Silent	SNP	A	A	G	rs11547316	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	199	103	220	1	0.517588	0.00454545	A|0.923;G|0.077	0.077	strong	.	SNUPN	26	.	NM_001042581	exon3	c.T249C	p.D83D	TTCTTCATCATCT	.	PASS	Atlas-SNP
OPTN	10133	hgsc.bcm.edu	37	10	13151224	13151224	+	Silent	SNP	G	G	A	rs2234968	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	45	53	0	0.576923	0	G|0.815;A|0.185	0.185	strong	OPTN,NS,carcinoma,0,1	OPTN	57	1	NM_001008212	exon3	c.G102A	p.T34T	GGACACGTTTACC	.	PASS	Atlas-SNP
RAX2	84839	hgsc.bcm.edu	37	19	3771684	3771684	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	20	43	0	0.408163	0	.	.	none	.	RAX2	4	.	NM_032753	exon2	c.C57T	p.G19G	CTCCTCGCCCGGC	.	PASS	Atlas-SNP
BPIFB6	128859	hgsc.bcm.edu	37	20	31622083	31622083	+	Missense_Mutation	SNP	G	G	A	rs2070317	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	120	100	0	0.991736	0	G|0.480;A|0.520	0.520	strong	.	.	.	.	NM_174897	exon3	c.G289A	p.V97I	ATGACCGTCACTG	.	PASS	Atlas-SNP
PLIN4	729359	hgsc.bcm.edu	37	19	4512669	4512669	+	Missense_Mutation	SNP	T	T	C	rs55901236	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	87	4	0	0.448454	0	T|0.494;C|0.506	0.506	strong	.	PLIN4	191	.	NM_001080400	exon3	c.A1261G	p.T421A	AGACGGTGTCCTT	.	PASS	Atlas-SNP
TANC1	85461	hgsc.bcm.edu	37	2	160035195	160035195	+	Silent	SNP	C	C	T	rs12988603	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	215	113	186	0	0.525581	0	C|0.763;T|0.237	0.237	strong	.	TANC1	157	.	NM_033394	exon14	c.C2031T	p.N677N	CAGCAACATCTCC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	77	159	0	0.490446	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
KIAA1328	57536	hgsc.bcm.edu	37	18	34647323	34647323	+	Silent	SNP	T	T	A	rs3747896	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	233	105	176	0	0.450644	0	A|0.237;G|0.031;T|0.732	0.237	strong	.	KIAA1328	39	.	NM_020776	exon7	c.T1047A	p.G349G	TGGTGGTGGGGCA	.	PASS	Atlas-SNP
PCNT	5116	hgsc.bcm.edu	37	21	47831621	47831621	+	Silent	SNP	C	C	T	rs61735811	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	29	64	0	0.5	0	C|0.953;T|0.047	0.047	strong	PCNT,colon,carcinoma,0,1	PCNT	283	1	NM_006031	exon28	c.C5634T	p.D1878D	AATCGACGCTCTG	.	PASS	Atlas-SNP
TMEM207	131920	hgsc.bcm.edu	37	3	190158168	190158168	+	Missense_Mutation	SNP	G	G	C	rs35161724	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	47	99	0	0.534091	0	G|0.893;C|0.107	0.107	strong	.	TMEM207	19	.	NM_207316	exon4	c.C169G	p.L57V	CCAGCAGCAGGAG	.	PASS	Atlas-SNP
NLRP4	147945	hgsc.bcm.edu	37	19	56392875	56392875	+	Silent	SNP	T	T	G	rs302456	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	46	48	0	0.605263	0	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	.	PASS	Atlas-SNP
ZBTB21	49854	hgsc.bcm.edu	37	21	43413553	43413553	+	Missense_Mutation	SNP	T	T	G	rs871546	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	273	140	288	0	0.512821	0	T|0.803;G|0.197	0.197	strong	.	.	.	.	NM_001098402	exon3	c.A652C	p.K218Q	GAGACTTTGCATA	.	PASS	Atlas-SNP
CEACAM18	729767	hgsc.bcm.edu	37	19	51981753	51981753	+	Missense_Mutation	SNP	G	G	C	rs11878388	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	42	41	22	0	0.97619	0	G|0.834;C|0.166	0.166	strong	.	CEACAM18	96	.	NM_001080405	exon2	c.G40C	p.A14P	CAGAGTGCACCCT	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10470068	10470068	+	Missense_Mutation	SNP	C	C	T	rs74990397	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	32	22	25	0	0.6875	0	C|0.632;T|0.368	0.368	strong	RP1L1,NS,haematopoietic_neoplasm,0,1	RP1L1	453	1	NM_178857	exon4	c.G1540A	p.G514S	CTGGGCCGCCCAG	.	PASS	Atlas-SNP
SETDB1	9869	hgsc.bcm.edu	37	1	150923099	150923099	+	Silent	SNP	T	T	C	rs17661357	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	57	58	0	0.553398	0	T|0.949;C|0.051	0.051	strong	.	SETDB1	204	.	NM_012432	exon13	c.T1746C	p.C582C	TACCTGTCTGTCT	.	PASS	Atlas-SNP
MST1	4485	hgsc.bcm.edu	37	3	49723750	49723750	+	Missense_Mutation	SNP	A	A	G	rs71324987	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	36	74	0	0.270677	0	A|0.970;G|0.030	0.030	strong	.	MST1	84	.	NM_020998	exon8	c.T1012C	p.C338R	ACTTGCACGCGTA	.	PASS	Atlas-SNP
PRDM8	56978	hgsc.bcm.edu	37	4	81124596	81124596	+	Silent	SNP	G	G	C	rs12780	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	65	130	0	0.442177	0	G|0.671;C|0.329	0.329	strong	PRDM8,colon,carcinoma,0,1	PRDM8	44	1	NM_001099403	exon4	c.G1980C	p.R660R	GAAGCGGCGGCGA	.	PASS	Atlas-SNP
NKX3-1	4824	hgsc.bcm.edu	37	8	23538908	23538908	+	Silent	SNP	A	A	G	rs35350906	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	2	97	0	0.0137931	0	A|0.981;G|0.019	0.019	strong	NKX3-1,NS,carcinoma,-1,4	NKX3-1	25	4	NM_006167	exon2	c.T531C	p.Y177Y	AGTCTTATAGCGT	.	scavenged	Atlas-SNP
SYCP1	6847	hgsc.bcm.edu	37	1	115399884	115399884	+	Silent	SNP	C	C	G	rs17544210	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	53	26	85	0	0.490566	0	C|0.950;G|0.048;T|0.002	0.048	strong	SYCP1,caecum,carcinoma,+1,1	SYCP1	149	1	NM_003176	exon4	c.C225G	p.P75P	CTTGCCCGTGCTT	.	PASS	Atlas-SNP
IGSF10	285313	hgsc.bcm.edu	37	3	151155758	151155758	+	Silent	SNP	A	A	C	rs9864533	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	76	150	0	0.463415	0	A|0.843;C|0.157	0.157	strong	IGSF10,colon,carcinoma,-1,1	IGSF10	279	1	NM_178822	exon6	c.T6591G	p.S2197S	GGTCAAAGACCCA	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17087593	17087593	+	Silent	SNP	C	C	T	rs12145944	bycluster;byfrequency;byhapmap	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	447	49	354	0	0.10962	0	C|0.942;T|0.058	0.058	strong	Q13209_HUMAN,right_upper_lobe,carcinoma,0,2	.	.	2	NM_001271733	exon2	c.G72A	p.Q24Q	CGAGCGCTGCCCT	.	PASS	Atlas-SNP
KCTD18	130535	hgsc.bcm.edu	37	2	201355106	201355106	+	Missense_Mutation	SNP	G	G	A	rs13018579	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	56	95	0	0.583333	0	G|0.849;A|0.151	0.151	strong	.	KCTD18	44	.	NM_152387	exon7	c.C998T	p.A333V	ACCAGGGCCGTGG	.	PASS	Atlas-SNP
CCDC50	152137	hgsc.bcm.edu	37	3	191093053	191093053	+	Silent	SNP	T	T	C	rs2028572	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	225	224	170	0	0.995556	0	T|0.501;C|0.499	0.499	strong	.	CCDC50	39	.	NM_178335	exon6	c.T651C	p.H217H	TCCCCATATTAAC	.	PASS	Atlas-SNP
PIGN	23556	hgsc.bcm.edu	37	18	59810563	59810563	+	Silent	SNP	A	A	G	rs34227891	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	244	110	232	0	0.45082	0	A|0.789;G|0.211	0.211	strong	PIGN,NS,carcinoma,0,1	PIGN	62	1	NM_176787	exon11	c.T939C	p.N313N	CTTCCAATTCTCC	.	PASS	Atlas-SNP
METTL21A	151194	hgsc.bcm.edu	37	2	208477956	208477956	+	Silent	SNP	C	C	T	rs2709416	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	131	105	0	1	0	C|0.146;T|0.854	0.854	strong	.	METTL21A	24	.	NM_145280	exon4	c.G471A	p.Q157Q	CAGTGTCTGAAGA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	230	119	207	1	0.517391	0.00483092	C|0.766;T|0.234	0.234	strong	.	TXK	58	.	NM_003328	exon3	c.G134A	p.R45H	CTGCGACGCTGGG	.	PASS	Atlas-SNP
SMC1B	27127	hgsc.bcm.edu	37	22	45749966	45749966	+	Missense_Mutation	SNP	G	G	C	rs61735519	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	73	144	0	0.51773	0	G|0.936;C|0.064	0.064	strong	.	SMC1B	215	.	NM_148674	exon21	c.C3165G	p.F1055L	TTGCTCGAACTCT	.	PASS	Atlas-SNP
HYDIN	54768	hgsc.bcm.edu	37	16	71015329	71015329	+	Missense_Mutation	SNP	G	G	T	rs78763837	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	153	156	2	0.93865	0.0128205	.	.	weak	LOC652153,NS,haematopoietic_neoplasm,0,2	HYDIN	788	2	NM_001270974	exon29	c.C4475A	p.P1492H	ATTTGGGGAAAGA	.	scavenged	Atlas-SNP
CD101	9398	hgsc.bcm.edu	37	1	117560818	117560818	+	Silent	SNP	A	A	G	rs3736908	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	62	128	0	0.521008	0	A|0.738;G|0.262	0.262	strong	.	CD101	95	.	NM_001256109	exon6	c.A1653G	p.Q551Q	GCCGCAAGTGATG	.	PASS	Atlas-SNP
CNTROB	116840	hgsc.bcm.edu	37	17	7849087	7849087	+	Silent	SNP	C	C	G	rs4462665	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	30	76	0	0.379747	0	C|0.474;G|0.526	0.526	strong	CNTROB,colon,carcinoma,0,1	CNTROB	61	1	NM_001037144	exon13	c.C1776G	p.P592P	GGAGCCCGAGAAG	.	PASS	Atlas-SNP
LZTR1	8216	hgsc.bcm.edu	37	22	21337325	21337325	+	Silent	SNP	G	G	A	rs13054014	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	60	100	0	0.483871	0	G|0.733;A|0.267	0.267	strong	.	LZTR1	99	.	NM_006767	exon2	c.G210A	p.K70K	CAGCAAGCACACA	.	PASS	Atlas-SNP
C1GALT1C1	29071	hgsc.bcm.edu	37	X	119760629	119760629	+	Missense_Mutation	SNP	A	A	T	rs17261572	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	242	173	141	1	0.714876	0.0070922	A|0.847;0|0.015	.	strong	.	C1GALT1C1	22	.	NM_152692	exon3	c.T393A	p.D131E	ATACTTATCAAAG	.	PASS	Atlas-SNP
DSC2	1824	hgsc.bcm.edu	37	18	28673565	28673565	+	Silent	SNP	T	T	C	rs12954874	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	32	80	0	0.363636	0	T|0.885;C|0.115	0.115	strong	.	DSC2	168	.	NM_024422	exon2	c.A111G	p.L37L	AACATGTAATGTC	.	PASS	Atlas-SNP
PREX1	57580	hgsc.bcm.edu	37	20	47253043	47253043	+	Silent	SNP	G	G	A	rs11553083	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	23	67	0	0.45098	0	G|0.878;A|0.122	0.122	strong	PREX1_ENST00000396220,colon,carcinoma,0,2	PREX1	441	2	NM_020820	exon32	c.C4125T	p.G1375G	CAGGACGCCCGTG	.	PASS	Atlas-SNP
ZNF3	7551	hgsc.bcm.edu	37	7	99669802	99669802	+	Missense_Mutation	SNP	A	A	G	rs11550034	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	52	84	0	0.514852	0	A|0.890;G|0.110	0.110	strong	.	ZNF3	54	.	NM_032924	exon6	c.T305C	p.I102T	TCAGAAATTTCTT	.	PASS	Atlas-SNP
LILRB3	11025	hgsc.bcm.edu	37	19	54721042	54721042	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	279	5	263	1	0.0179211	0.00380228	.	.	none	LILRB3,NS,carcinoma,0,1	LILRB3	67	1	NM_001081450	exon13	c.A1819G	p.K607E	TTGCCTTCCGTCT	.	scavenged	Atlas-SNP
PARP1	142	hgsc.bcm.edu	37	1	226573364	226573364	+	Silent	SNP	A	A	G	rs1805414	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	43	71	0	0.530864	0	A|0.543;G|0.457	0.457	strong	.	PARP1	100	.	NM_001618	exon7	c.T852C	p.A284A	GCCATCAGCTACT	.	PASS	Atlas-SNP
NLGN2	57555	hgsc.bcm.edu	37	17	7318061	7318061	+	Silent	SNP	T	T	C	rs78355381	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	79	136	0	0.568345	0	A|0.000;C|0.114;T|0.886	0.114	strong	.	NLGN2	61	.	NM_020795	exon4	c.T738C	p.S246S	GCTCAGTGAAAAC	.	PASS	Atlas-SNP
TTC3	7267	hgsc.bcm.edu	37	21	38568009	38568009	+	Missense_Mutation	SNP	G	G	C	rs1053966	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	187	232	0	1	0	G|0.348;C|0.652	0.652	strong	.	TTC3	182	.	NM_001001894	exon42	c.G5251C	p.D1751H	TCAGGCGACGATG	.	PASS	Atlas-SNP
DNAH3	55567	hgsc.bcm.edu	37	16	20975303	20975303	+	Silent	SNP	A	A	G	rs3743697	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	180	178	168	0	0.988889	0	A|0.889;G|0.111	0.111	strong	.	DNAH3	1142	.	NM_017539	exon53	c.T9903C	p.S3301S	GGTGGCAGAATGC	.	PASS	Atlas-SNP
OR8B2	26595	hgsc.bcm.edu	37	11	124252892	124252892	+	Silent	SNP	A	A	G	rs644147	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	315	115	320	1	0.365079	0.003125	A|0.723;G|0.277	0.277	strong	.	OR8B2	42	.	NM_001005468	exon1	c.T348C	p.T116T	CATTGAAGTCAAC	.	PASS	Atlas-SNP
WDR19	57728	hgsc.bcm.edu	37	4	39207318	39207318	+	Silent	SNP	A	A	G	rs17584431	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	251	111	226	0	0.442231	0	A|0.881;G|0.119	0.119	strong	.	WDR19	96	.	NM_025132	exon9	c.A852G	p.S284S	AGTATCACAGACT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	44	91	0	0.396396	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
TAF4	6874	hgsc.bcm.edu	37	20	60585139	60585139	+	Missense_Mutation	SNP	G	G	A	rs141880507	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	40	21	33	0	0.525	0	G|1.000;A|0.000	0.000	strong	.	TAF4	84	.	NM_003185	exon4	c.C1724T	p.T575M	GGTACCGTGCGCT	.	PASS	Atlas-SNP
AKAP3	10566	hgsc.bcm.edu	37	12	4735770	4735770	+	Silent	SNP	G	G	A	rs34392018	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	318	153	246	0	0.481132	0	G|0.974;A|0.026	0.026	strong	.	AKAP3	212	.	NM_006422	exon4	c.C2298T	p.D766D	AACTGTGTCCGTT	.	PASS	Atlas-SNP
SVEP1	79987	hgsc.bcm.edu	37	9	113220820	113220820	+	Silent	SNP	C	C	T	rs10980398	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	23	53	0	0.511111	0	C|0.795;T|0.205	0.205	strong	SVEP1,NS,carcinoma,-1,2	SVEP1	326	2	NM_153366	exon20	c.G3507A	p.A1169A	CTCTGCCGCTGAG	.	PASS	Atlas-SNP
CDC42BPB	9578	hgsc.bcm.edu	37	14	103440473	103440473	+	Silent	SNP	G	G	C	rs8009219	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	35	46	0	0.546875	0	G|0.410;C|0.589	0.589	strong	.	CDC42BPB	123	.	NM_006035	exon12	c.C1521G	p.L507L	TCGCTCGAGCCTG	.	PASS	Atlas-SNP
THAP4	51078	hgsc.bcm.edu	37	2	242573211	242573211	+	Missense_Mutation	SNP	T	T	C	rs7424328	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	63	61	0	1	0	T|0.492;C|0.508	0.508	strong	.	THAP4	27	.	NM_015963	exon2	c.A361G	p.S121G	CTCTGCTGGTGGC	.	PASS	Atlas-SNP
OR1S2	219958	hgsc.bcm.edu	37	11	57971190	57971190	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	269	17	195	0	0.063197	0	.	.	none	OR1S2,trunk,malignant_melanoma,0,1	OR1S2	119	1	NM_001004459	exon1	c.C464T	p.T155I	AGCAAAGTGCCGA	.	PASS	Atlas-SNP
ANKRD44	91526	hgsc.bcm.edu	37	2	197990741	197990741	+	Missense_Mutation	SNP	A	A	C	rs35338671	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	96	164	0	0.513369	0	A|0.959;C|0.041	0.041	strong	.	ANKRD44	281	.	NM_153697	exon5	c.T282G	p.I94M	GTGCTTAATCAAA	.	PASS	Atlas-SNP
HGC6.3	0	hgsc.bcm.edu	37	6	168377012	168377012	+	Silent	SNP	G	G	T	rs78475769	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	49	75	0	0.273743	0	T|1.000;|0.000	1.000	weak	.	.	.	.	NM_001129895	exon1	c.C321A	p.S107S	GTGTGGGGAGGAG	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239108	31239108	+	Missense_Mutation	SNP	T	T	A	rs1131118	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	19	57	0	0.25	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	.	scavenged	Atlas-SNP
HTR3C	170572	hgsc.bcm.edu	37	3	183778010	183778010	+	Missense_Mutation	SNP	G	G	C	rs6807362	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	74	114	0	0.536232	0	G|0.457;C|0.543	0.543	strong	HTR3C,NS,carcinoma,0,1	HTR3C	65	1	NM_130770	exon9	c.G1214C	p.G405A	GCTCAGGATGGAC	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238234	31238234	+	Silent	SNP	G	G	A	rs1050344	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	127	135	0	0.992188	0	G|0.275;A|0.725	0.725	strong	.	HLA-C	92	.	NM_002117	exon4	c.C648T	p.H216H	GAGGGGGTGGTGG	.	PASS	Atlas-SNP
PIGR	5284	hgsc.bcm.edu	37	1	207104881	207104881	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	264	4	262	0	0.0151515	0	.	.	none	PIGR,NS,carcinoma,-1,1	PIGR	98	1	NM_002644	exon10	c.G2160A	p.E720E	GGTGCTCTCAGTG	.	scavenged	Atlas-SNP
AMTN	401138	hgsc.bcm.edu	37	4	71396989	71396989	+	Silent	SNP	C	C	T	rs17676820	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	237	102	183	0	0.43038	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
IFIT2	3433	hgsc.bcm.edu	37	10	91066460	91066460	+	Silent	SNP	T	T	A	rs954439	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	54	118	0	0.870968	0	T|0.339;A|0.661	0.661	strong	.	IFIT2	39	.	NM_001547	exon2	c.T747A	p.V249V	AGATGTTCTTCGC	.	PASS	Atlas-SNP
LAPTM5	7805	hgsc.bcm.edu	37	1	31208042	31208042	+	Missense_Mutation	SNP	C	C	T	rs35351292	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	34	61	0	0.441558	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
GABBR2	9568	hgsc.bcm.edu	37	9	101151192	101151192	+	Silent	SNP	G	G	A	rs144313756	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	393	203	309	0	0.516539	0	G|0.999;A|0.001	0.001	strong	.	GABBR2	126	.	NM_005458	exon10	c.C1473T	p.L491L	CATCCCGAGGATG	.	PASS	Atlas-SNP
FAM47B	170062	hgsc.bcm.edu	37	X	34961479	34961479	+	Silent	SNP	C	C	T	rs149160457		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	107	85	0	0.862903	0	C|1.000;T|0.000	0.000	weak	.	FAM47B	209	.	NM_152631	exon1	c.C531T	p.T177T	ACCCACCGAGTCT	.	PASS	Atlas-SNP
SZT2	23334	hgsc.bcm.edu	37	1	43890811	43890811	+	Missense_Mutation	SNP	G	G	A	rs143992266	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	59	110	0	0.460938	0	G|0.992;A|0.008	0.008	strong	.	SZT2	383	.	NM_015284	exon18	c.G2578A	p.E860K	GCAGCTGAAGAGA	.	PASS	Atlas-SNP
DACT2	168002	hgsc.bcm.edu	37	6	168708793	168708793	+	Silent	SNP	C	C	G	rs10945500	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	28	8	37	0	0.285714	0	C|0.753;G|0.247	0.247	strong	.	DACT2	46	.	NM_214462	exon4	c.G1644C	p.R548R	TGGCCTCCGCTGG	.	PASS	Atlas-SNP
MUC20	200958	hgsc.bcm.edu	37	3	195452987	195452987	+	Missense_Mutation	SNP	G	G	A	rs9866681	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	387	93	369	0	0.24031	0	G|0.891;A|0.109	0.109	strong	.	MUC20	84	.	NM_152673	exon3	c.G1000A	p.A334T	AACAGCGCCACAG	.	PASS	Atlas-SNP
ARHGAP24	83478	hgsc.bcm.edu	37	4	86844835	86844835	+	Silent	SNP	A	A	G	rs6824722	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	79	115	0	0.50641	0	A|0.669;G|0.331	0.331	strong	.	ARHGAP24	116	.	NM_001025616	exon4	c.A303G	p.E101E	TCATGAAAGCTAC	.	PASS	Atlas-SNP
ATRN	8455	hgsc.bcm.edu	37	20	3515924	3515924	+	Silent	SNP	G	G	A	rs151518	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	59	115	0	0.427536	0	G|0.754;A|0.246	0.246	strong	.	ATRN	118	.	NM_139321	exon2	c.G435A	p.V145V	GTTTGTGACAGAT	.	PASS	Atlas-SNP
BDP1	55814	hgsc.bcm.edu	37	5	70806457	70806457	+	Missense_Mutation	SNP	G	G	A	rs715748	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	80	129	0	0.551724	0	A|0.426;C|0.014	0.426	strong	.	BDP1	204	.	NM_018429	exon17	c.G3538A	p.G1180S	AGAGAGGGTTCCT	.	PASS	Atlas-SNP
ELF2	1998	hgsc.bcm.edu	37	4	140046466	140046466	+	Silent	SNP	A	A	C	rs115767880	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	59	126	0	0.440298	0	A|0.997;C|0.003	0.003	strong	.	ELF2	43	.	NM_201999	exon3	c.G90G	p.E30E	ATATTCAGAAACC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	9	163	0	0.0818182	0	A|0.604;C|0.396	0.396	strong	.	SCD	25	.	NM_005063	exon5	c.A670C	p.M224L	TTGCTGATGATGT	.	PASS	Atlas-SNP
C7orf55-LUC7L2	100996928	hgsc.bcm.edu	37	7	139026152	139026152	+	Missense_Mutation	SNP	T	T	G	rs10265	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	27	14	30	0	0.518519	0	T|0.587;G|0.413	0.413	strong	C7orf55,brain,glioma,0,1	.	.	1	NM_001244584	exon1	c.T22G	p.S8A	TCCCCGTCGCACA	.	PASS	Atlas-SNP
FAM181B	220382	hgsc.bcm.edu	37	11	82443754	82443754	+	Missense_Mutation	SNP	G	G	A	rs147683846	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	31	17	20	0	0.548387	0	G|0.982;A|0.018	0.018	strong	.	FAM181B	14	.	NM_175885	exon1	c.C1018T	p.P340S	CGCGGGGGGCAGT	.	PASS	Atlas-SNP
APOL3	80833	hgsc.bcm.edu	37	22	36537725	36537725	+	Silent	SNP	G	G	A	rs61731692	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	43	17	48	0	0.395349	0	G|0.888;A|0.112	0.112	strong	.	APOL3	60	.	NM_145640	exon3	c.C732T	p.Y244Y	TGATGTGTATGAG	.	PASS	Atlas-SNP
JAKMIP2	9832	hgsc.bcm.edu	37	5	147012291	147012291	+	Silent	SNP	G	G	A	rs3763094	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	78	120	0	0.450867	0	G|0.876;A|0.124	0.124	strong	.	JAKMIP2	154	.	NM_001270941	exon13	c.C1728T	p.D576D	TCTGGCGTCCTGT	.	PASS	Atlas-SNP
TAS2R30	259293	hgsc.bcm.edu	37	12	11286088	11286088	+	Missense_Mutation	SNP	A	A	C	rs2599404	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	236	126	211	0	0.533898	0	A|0.579;C|0.421	0.421	strong	.	TAS2R30	28	.	NM_001097643	exon1	c.T756G	p.F252L	CCTCCCAAAATTA	.	PASS	Atlas-SNP
TPSB2	64499	hgsc.bcm.edu	37	16	1279704	1279704	+	Silent	SNP	A	A	G	rs62012906		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	27	120	0	0.333333	0	.	.	weak	.	TPSB2	8	.	NM_024164	exon3	c.T96C	p.V32V	ACCCCCAACGATG	.	PASS	Atlas-SNP
ST6GALNAC2	10610	hgsc.bcm.edu	37	17	74562308	74562308	+	Missense_Mutation	SNP	C	C	T	rs373585653		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	36	76	0	0.439024	0	.	.	weak	.	ST6GALNAC2	29	.	NM_006456	exon9	c.G1003A	p.D335N	AGTGGTCGGAAAA	.	PASS	Atlas-SNP
OR52B6	340980	hgsc.bcm.edu	37	11	5602929	5602929	+	Missense_Mutation	SNP	C	C	A	rs74053516	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	261	134	225	0	0.51341	0	C|0.961;A|0.039	0.039	strong	.	OR52B6	37	.	NM_001005162	exon1	c.C823A	p.L275I	CCTGCGCTTTTTT	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13719089	13719089	+	Missense_Mutation	SNP	G	G	A	rs30168	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	234	231	187	2	0.987179	0.0106952	G|0.549;A|0.451	0.451	strong	DNAH5,colon,carcinoma,-1,1	DNAH5	868	1	NM_001369	exon72	c.C12401T	p.A4134V	TTATGAGCCTCGG	.	scavenged	Atlas-SNP
NPSR1	387129	hgsc.bcm.edu	37	7	34851393	34851393	+	Silent	SNP	C	C	G	rs9655357	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	57	107	0	0.445312	0	C|0.847;G|0.153	0.153	strong	NPSR1_ENST00000359791,NS,carcinoma,+2,2	NPSR1	134	2	NM_207172	exon4	c.C396G	p.L132L	GCTGCTCTACGCC	.	PASS	Atlas-SNP
MMD2	221938	hgsc.bcm.edu	37	7	4959807	4959807	+	Silent	SNP	G	G	A	rs932061	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	25	13	18	0	0.52	0	G|0.545;A|0.455	0.455	strong	.	MMD2	63	.	NM_198403	exon3	c.C285T	p.H95H	CCTGAGGTGGCTC	.	PASS	Atlas-SNP
REST	5978	hgsc.bcm.edu	37	4	57798189	57798189	+	Silent	SNP	G	G	A	rs2227901	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	64	186	0	0.407643	0	G|0.791;A|0.209	0.209	strong	.	REST	104	.	NM_001193508	exon4	c.G3165A	p.A1055A	CAAAGCGGCTAAG	.	PASS	Atlas-SNP
ABHD16A	7920	hgsc.bcm.edu	37	6	31660848	31660848	+	Silent	SNP	G	G	A	rs11552114	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	35	66	0	0.486111	0	G|0.983;A|0.017	0.017	strong	.	ABHD16A	34	.	NM_021160	exon7	c.C582T	p.D194D	GAGGGTGTCTGCT	.	PASS	Atlas-SNP
ZNF362	149076	hgsc.bcm.edu	37	1	33764617	33764617	+	Silent	SNP	C	C	T	rs55887741	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	32	58	0	0.542373	0	C|0.997;T|0.003	0.003	strong	.	ZNF362	31	.	NM_152493	exon9	c.C1233T	p.P411P	GTCCCCCGGCATC	.	PASS	Atlas-SNP
TTLL2	83887	hgsc.bcm.edu	37	6	167754702	167754702	+	Silent	SNP	C	C	T	rs909546	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	100	106	0	1	0	C|0.503;A|0.003	.	strong	TTLL2,NS,carcinoma,0,1	TTLL2	82	1	NM_031949	exon3	c.C1314T	p.D438D	CATCGACGCTGCA	.	PASS	Atlas-SNP
TP53TG5	27296	hgsc.bcm.edu	37	20	44005936	44005936	+	Missense_Mutation	SNP	C	C	T	rs2231616	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	41	102	0	0.372727	0	C|0.863;T|0.137	0.137	strong	.	TP53TG5	36	.	NM_014477	exon3	c.G170A	p.R57H	ATCCGGCGGTTTG	.	PASS	Atlas-SNP
SPINK5	11005	hgsc.bcm.edu	37	5	147480080	147480080	+	Missense_Mutation	SNP	G	G	A	rs2303064	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	55	73	0	0.514019	0	G|0.688;A|0.312	0.312	strong	.	SPINK5	245	.	NM_001127699	exon13	c.G1156A	p.D386N	GAGAACGATCCTA	.	PASS	Atlas-SNP
EPG5	57724	hgsc.bcm.edu	37	18	43490602	43490602	+	Silent	SNP	G	G	A	rs3744996	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	38	68	0	0.493506	0	G|0.786;A|0.214	0.214	strong	.	EPG5	199	.	NM_020964	exon23	c.C4089T	p.H1363H	AGCATGGTGGAAG	.	PASS	Atlas-SNP
KRT1	3848	hgsc.bcm.edu	37	12	53069014	53069014	+	Missense_Mutation	SNP	T	T	C	rs14024	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	65	146	0	0.460993	0	T|0.726;C|0.274	0.274	strong	.	KRT1	110	.	NM_006121	exon9	c.A1898G	p.K633R	ACAAACTTCACGC	.	PASS	Atlas-SNP
VPS13D	55187	hgsc.bcm.edu	37	1	12339619	12339619	+	Missense_Mutation	SNP	A	A	T	rs4845898	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	244	238	229	0	0.97541	0	A|0.831;T|0.169	0.169	strong	.	VPS13D	316	.	NM_015378	exon20	c.A4514T	p.E1505V	AGAGAGAATCTGA	.	PASS	Atlas-SNP
TGOLN2	10618	hgsc.bcm.edu	37	2	85554080	85554080	+	Missense_Mutation	SNP	G	G	A	rs4247303	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	115	132	0	0.991379	0	G|0.432;A|0.567	0.567	strong	TGOLN2_ENST00000377386,colon,carcinoma,0,1	TGOLN2	32	1	NM_001206841	exon2	c.C775T	p.R259W	CTTTCCGGGAAGG	.	PASS	Atlas-SNP
HDAC9	9734	hgsc.bcm.edu	37	7	18993870	18993870	+	Silent	SNP	C	C	T	rs2389998	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	113	83	0	1	0	C|0.237;T|0.763	0.763	strong	.	HDAC9	560	.	NM_058176	exon23	c.C3030T	p.F1010F	AAAGTTCTCTTAA	.	PASS	Atlas-SNP
EPN3	55040	hgsc.bcm.edu	37	17	48616271	48616271	+	Silent	SNP	C	C	T	rs72835715	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	291	152	236	0	0.522337	0	C|0.973;T|0.027	0.027	strong	.	EPN3	32	.	NM_017957	exon4	c.C708T	p.D236D	CAGGGACGAGGAC	.	PASS	Atlas-SNP
COPS7A	50813	hgsc.bcm.edu	37	12	6839913	6839913	+	Silent	SNP	C	C	T	rs2286730	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	62	118	0	0.516667	0	C|0.879;T|0.121	0.121	strong	.	COPS7A	26	.	NM_001164094	exon7	c.C715T	p.L239L	CAACACCTGACTG	.	PASS	Atlas-SNP
TBC1D1	23216	hgsc.bcm.edu	37	4	37904082	37904082	+	Silent	SNP	T	T	C	rs2279026	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	60	94	0	0.5	0	T|0.642;C|0.358	0.358	strong	.	TBC1D1	94	.	NM_015173	exon2	c.T366C	p.A122A	AGACGCTGTCCAC	.	PASS	Atlas-SNP
HLA-DPB1	3115	hgsc.bcm.edu	37	6	33052736	33052736	+	Missense_Mutation	SNP	G	G	A	rs1126537	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	280	78	382	0	0.278571	0	G|0.710;A|0.290	0.290	strong	.	HLA-DPB1	28	.	NM_002121	exon3	c.G374A	p.R125K	AGCCTAGGGTGAA	.	PASS	Atlas-SNP
MS4A5	64232	hgsc.bcm.edu	37	11	60197299	60197299	+	Missense_Mutation	SNP	G	G	A	rs34169848	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	33	26	0	0.589286	0	G|0.965;A|0.035	0.035	strong	.	MS4A5	35	.	NM_023945	exon1	c.G152A	p.G51E	TCTTAGGGGTAAG	.	PASS	Atlas-SNP
SYCE1	93426	hgsc.bcm.edu	37	10	135368590	135368590	+	Missense_Mutation	SNP	T	T	C	rs3737031	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	273	68	149	0	0.249084	0	T|0.856;C|0.144	0.144	strong	SYCE1_ENST00000343131,NS,carcinoma,0,1	SYCE1	81	1	NM_001143764	exon13	c.A962G	p.H321R	GCTTGGTGTGCAG	.	PASS	Atlas-SNP
KIAA1683	80726	hgsc.bcm.edu	37	19	18376517	18376517	+	Silent	SNP	C	C	T	rs61740752	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	101	211	0	0.505	0	C|0.886;T|0.114	0.114	strong	.	KIAA1683	190	.	NM_001145304	exon3	c.G1833A	p.Q611Q	CTGTTTCTGGGTG	.	PASS	Atlas-SNP
SKIV2L	6499	hgsc.bcm.edu	37	6	31930351	31930351	+	Silent	SNP	A	A	G	rs2734331	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	53	83	0	0.430894	0	T|0.005;G|0.039	0.039	strong	.	SKIV2L	97	.	NM_006929	exon11	c.A1200G	p.T400T	GACCACAGAGATC	.	PASS	Atlas-SNP
LMOD2	442721	hgsc.bcm.edu	37	7	123301940	123301940	+	Silent	SNP	A	A	G	rs7809453	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	73	67	0	1	0	A|0.535;G|0.465	0.465	strong	.	LMOD2	62	.	NM_207163	exon2	c.A300G	p.E100E	AAGTGAAGAAGAG	.	PASS	Atlas-SNP
IGFALS	3483	hgsc.bcm.edu	37	16	1841033	1841033	+	Silent	SNP	G	G	A	rs17559	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	8	5	8	0	0.625	0	G|0.790;A|0.210	0.210	strong	IGFALS,NS,carcinoma,0,1	IGFALS	29	1	NM_001146006	exon2	c.C1500T	p.Y500Y	CAGCAGGTACTCC	.	scavenged	Atlas-SNP
COL5A2	1290	hgsc.bcm.edu	37	2	189932764	189932764	+	Missense_Mutation	SNP	G	G	A	rs35830636	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	59	121	0	0.388158	0	G|0.965;A|0.035	0.035	strong	.	COL5A2	230	.	NM_000393	exon21	c.C1378T	p.P460S	CCTGAGGACCAGT	.	PASS	Atlas-SNP
BBS12	166379	hgsc.bcm.edu	37	4	123664427	123664427	+	Silent	SNP	G	G	C	rs13135766	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	66	205	0	0.39521	0	G|0.853;C|0.147	0.147	strong	.	BBS12	63	.	NM_001178007	exon3	c.G1380C	p.V460V	ACAAGTGAATGAA	.	PASS	Atlas-SNP
OR4A5	81318	hgsc.bcm.edu	37	11	51412066	51412066	+	Silent	SNP	G	G	C	rs5002409	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	74	112	0	0.521127	0	C|0.001;G|0.999	0.001	strong	.	OR4A5	116	.	NM_001005272	exon1	c.C330G	p.V110V	AAGGAAGACCTCA	.	PASS	Atlas-SNP
RALGAPA2	57186	hgsc.bcm.edu	37	20	20493550	20493550	+	Missense_Mutation	SNP	T	T	C	rs45484900	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	47	119	0	0.419643	0	T|0.964;C|0.036	0.036	strong	.	RALGAPA2	274	.	NM_020343	exon32	c.A4463G	p.N1488S	CTTCCATTGGGTG	.	PASS	Atlas-SNP
NLRP3	114548	hgsc.bcm.edu	37	1	247588140	247588140	+	Silent	SNP	C	C	T	rs111400208	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	41	18	29	0	0.439024	0	C|0.997;T|0.003	0.003	strong	.	NLRP3	286	.	NM_183395	exon3	c.C1395T	p.H465H	CGCCCACCTCTGG	.	PASS	Atlas-SNP
TREML4	285852	hgsc.bcm.edu	37	6	41196733	41196733	+	Silent	SNP	C	C	T	rs147088240	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	88	192	0	0.52381	0	C|0.996;T|0.004	0.004	strong	.	TREML4	25	.	NM_198153	exon2	c.C345T	p.S115S	CGCTTCCGAAAAC	.	PASS	Atlas-SNP
LAMB4	22798	hgsc.bcm.edu	37	7	107696130	107696130	+	Silent	SNP	A	A	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	2	73	0	0.0243902	0	.	.	none	LAMB4,mucosal,malignant_melanoma,-2,1	LAMB4	253	1	NM_007356	exon25	c.T3702A	p.P1234P	GAAAACAGGATGT	.	scavenged	Atlas-SNP
TATDN2	9797	hgsc.bcm.edu	37	3	10312633	10312633	+	Silent	SNP	G	G	A	rs115984909	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	18	28	0	0.6	0	G|0.998;A|0.002	0.002	strong	.	TATDN2	59	.	NM_014760	exon4	c.G1767A	p.V589V	GGCTGTGGCATTT	.	PASS	Atlas-SNP
EFCAB7	84455	hgsc.bcm.edu	37	1	63997633	63997633	+	Silent	SNP	A	A	T	rs9804078	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	82	168	0	0.476744	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
IL4R	3566	hgsc.bcm.edu	37	16	27373872	27373872	+	Missense_Mutation	SNP	A	A	C	rs1805011	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	56	75	0	0.571429	0	A|0.756;C|0.244	0.244	strong	IL4R,NS,carcinoma,0,1	IL4R	70	1	NM_000418	exon11	c.A1199C	p.E400A	GAAGGGAGGGCAT	.	PASS	Atlas-SNP
THEMIS2	9473	hgsc.bcm.edu	37	1	28203156	28203156	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	39	57	0	0.619048	0	.	.	none	.	.	.	.	NM_001039477	exon2	c.A152G	p.K51R	TGATCAAGGTCAC	.	PASS	Atlas-SNP
CD207	50489	hgsc.bcm.edu	37	2	71061108	71061108	+	Silent	SNP	G	G	A	rs17662453	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	113	116	0	0.631285	0	G|0.858;A|0.142	0.142	strong	.	CD207	47	.	NM_015717	exon3	c.C234T	p.V78V	CAACTGGACATTG	.	PASS	Atlas-SNP
ARRDC5	645432	hgsc.bcm.edu	37	19	4902754	4902754	+	Silent	SNP	G	G	A	rs2779168	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	242	106	169	0	0.438017	0	G|0.806;A|0.194	0.194	strong	.	ARRDC5	19	.	NM_001080523	exon1	c.C126T	p.I42I	GGTTAAGATCACC	.	PASS	Atlas-SNP
LIMCH1	22998	hgsc.bcm.edu	37	4	41687843	41687843	+	Missense_Mutation	SNP	C	C	T	rs76461603	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	16	116	0	0.125984	0	C|0.999;T|0.001	0.001	strong	.	LIMCH1	233	.	NM_014988	exon23	c.C2932T	p.R978W	GAAAGGCGGAAGT	.	PASS	Atlas-SNP
TAF2	6873	hgsc.bcm.edu	37	8	120814172	120814172	+	Silent	SNP	G	G	A	rs61753749	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	63	98	0	0.496063	0	G|0.992;A|0.008	0.008	strong	.	TAF2	204	.	NM_003184	exon6	c.C654T	p.G218G	CAAATCGCCATTA	.	PASS	Atlas-SNP
ACSM5	54988	hgsc.bcm.edu	37	16	20442562	20442562	+	Silent	SNP	C	C	T	rs78006992	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	19	102	0	0.146154	0	C|0.500;T|0.500	0.500	strong	ACSM5,NS,carcinoma,0,1	ACSM5	101	1	NM_017888	exon10	c.C1227T	p.N409N	GGGCAACGTCCTG	.	PASS	Atlas-SNP
PLSCR4	57088	hgsc.bcm.edu	37	3	145938619	145938619	+	Missense_Mutation	SNP	T	T	C	rs3762685	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	135	118	1	1	0.00847458	T|0.671;C|0.329	0.329	strong	.	PLSCR4	44	.	NM_020353	exon3	c.A101G	p.N34S	TGAGAATTGTATT	.	PASS	Atlas-SNP
DDX49	54555	hgsc.bcm.edu	37	19	19037176	19037176	+	Silent	SNP	G	G	A	rs115860110	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	224	90	216	0	0.401786	0	G|0.993;A|0.007	0.007	strong	.	DDX49	37	.	NM_019070	exon10	c.G1092A	p.E364E	CATCGAGGAGCAG	.	PASS	Atlas-SNP
TAS2R46	259292	hgsc.bcm.edu	37	12	11214212	11214212	+	Missense_Mutation	SNP	A	A	T	rs2708380	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	229	85	151	0	0.371179	0	A|0.642;T|0.358	0.358	strong	.	TAS2R46	43	.	NM_176887	exon1	c.T682A	p.L228M	TTTGCAAAGCTTT	.	PASS	Atlas-SNP
CDH4	1002	hgsc.bcm.edu	37	20	60419750	60419750	+	Silent	SNP	C	C	T	rs34912551	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	64	90	0	0.507937	0	C|0.970;T|0.030	0.030	strong	.	CDH4	172	.	NM_001794	exon5	c.C603T	p.I201I	TGACATCCCCATC	.	PASS	Atlas-SNP
HEATR5B	54497	hgsc.bcm.edu	37	2	37241050	37241050	+	Silent	SNP	G	G	A	rs17020125	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	71	122	0	0.507143	0	G|0.798;A|0.202	0.202	strong	.	HEATR5B	185	.	NM_019024	exon27	c.C4218T	p.S1406S	CTGGCTGGAAGAT	.	PASS	Atlas-SNP
SLC13A2	9058	hgsc.bcm.edu	37	17	26817537	26817537	+	Silent	SNP	G	G	A	rs11568466	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	65	102	0	0.488722	0	G|0.830;C|0.000;A|0.170	0.170	strong	.	SLC13A2	125	.	NM_001145975	exon3	c.G444A	p.A148A	CATCGCGGTGGAA	.	PASS	Atlas-SNP
CPAMD8	27151	hgsc.bcm.edu	37	19	17108052	17108052	+	Missense_Mutation	SNP	C	C	T	rs62622858	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	227	106	201	0	0.46696	0	C|0.964;T|0.036	0.036	strong	.	CPAMD8	192	.	NM_015692	exon11	c.G1105A	p.V369M	TGGTCACCATGGC	.	PASS	Atlas-SNP
PRSS54	221191	hgsc.bcm.edu	37	16	58318604	58318604	+	Missense_Mutation	SNP	T	T	C	rs3815803	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	88	143	0	0.505747	0	T|0.421;C|0.579	0.579	strong	PRSS54,NS,carcinoma,0,1	PRSS54	48	1	NM_001080492	exon6	c.A544G	p.S182G	GGACACTCATCGT	.	PASS	Atlas-SNP
TANC1	85461	hgsc.bcm.edu	37	2	159954175	159954175	+	Missense_Mutation	SNP	C	C	T	rs34588551	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	60	98	0	0.461538	0	C|0.753;T|0.247	0.247	strong	.	TANC1	157	.	NM_033394	exon4	c.C88T	p.P30S	ACTTCTCCAGTCC	.	PASS	Atlas-SNP
KIAA0753	9851	hgsc.bcm.edu	37	17	6524298	6524298	+	Missense_Mutation	SNP	T	T	A	rs9889363	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	51	83	0	0.542553	0	T|0.697;A|0.303	0.303	strong	.	KIAA0753	63	.	NM_014804	exon7	c.A1125T	p.E375D	TTTCTTTTCCAGG	.	PASS	Atlas-SNP
SCRN2	90507	hgsc.bcm.edu	37	17	45917703	45917703	+	Silent	SNP	C	C	T	rs11652952	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	89	142	0	0.481081	0	C|0.963;T|0.037	0.037	strong	.	SCRN2	35	.	NM_138355	exon3	c.G210A	p.T70T	AGCGTGCGTCTTC	.	PASS	Atlas-SNP
BCL2	596	hgsc.bcm.edu	37	18	60985879	60985879	+	Silent	SNP	T	T	C	rs1801018	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	47	89	0	0.394958	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
CLC	1178	hgsc.bcm.edu	37	19	40225646	40225646	+	Missense_Mutation	SNP	G	G	A	rs17608	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	63	132	0	0.440559	0	G|0.343;A|0.657	0.657	strong	CLC,NS,carcinoma,0,1	CLC	20	1	NM_001828	exon2	c.C83T	p.A28V	AAACAGGCAAGTG	.	PASS	Atlas-SNP
MADCAM1	8174	hgsc.bcm.edu	37	19	501762	501762	+	Missense_Mutation	SNP	A	A	C	rs200007467		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	28	90	3	0.301075	0.0333333	.	.	weak	MADCAM1,NS,carcinoma,0,1	MADCAM1	29	1	NM_130760	exon4	c.A761C	p.Q254P	CCTCCCAGGAGCC	.	scavenged	Atlas-SNP
SLC25A6	293	hgsc.bcm.edu	37	X	1508583	1508583	+	Missense_Mutation	SNP	T	T	C	rs14005	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	95	152	0	0.940594	0	T|0.888;C|0.112	0.112	strong	.	SLC25A6	27	.	NM_001636	exon2	c.A149G	p.Q50R	TTGTACTGCTTGT	.	PASS	Atlas-SNP
SORBS1	10580	hgsc.bcm.edu	37	10	97174537	97174537	+	Missense_Mutation	SNP	C	C	A	rs7081076	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	80	139	1	0.930233	0.00719424	C|0.952;A|0.048	0.048	strong	.	SORBS1	185	.	NM_001034955	exon7	c.G524T	p.G175V	GCAGTGCCTTCTT	.	PASS	Atlas-SNP
APOBR	55911	hgsc.bcm.edu	37	16	28506872	28506872	+	Silent	SNP	A	A	G	rs149271	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	41	99	0	0.41	0	A|0.711;G|0.289	0.289	strong	.	APOBR	89	.	NM_018690	exon2	c.A510G	p.E170E	CAGAGAAGAGAGG	.	PASS	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50749554	50749554	+	Missense_Mutation	SNP	G	G	T	rs74090114	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	76	182	0	0.408602	0	G|0.820;T|0.180	0.180	strong	.	FAM186A	181	.	NM_001145475	exon4	c.C1061A	p.P354H	GGTCCAGGTAACA	.	PASS	Atlas-SNP
PIGR	5284	hgsc.bcm.edu	37	1	207106478	207106478	+	Missense_Mutation	SNP	G	G	A	rs291102	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	54	81	0	0.580645	0	G|0.748;T|0.004	.	strong	PIGR,rectum,carcinoma,-1,3	PIGR	98	3	NM_002644	exon7	c.C1739T	p.A580V	GGAGCAGCGTCTG	.	PASS	Atlas-SNP
ZNF438	220929	hgsc.bcm.edu	37	10	31146615	31146615	+	Missense_Mutation	SNP	T	T	C	rs16932010	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	93	83	0	1	0	T|0.811;C|0.189	0.189	strong	.	ZNF438	90	.	NM_001143770	exon7	c.A1G	p.M1V	TATCCATAGGACT	.	PASS	Atlas-SNP
DNAH3	55567	hgsc.bcm.edu	37	16	21151913	21151913	+	Missense_Mutation	SNP	G	G	T	rs72780891	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	210	84	212	1	0.4	0.00471698	G|0.825;T|0.175	0.175	strong	DNAH3_ENST00000261383,colon,carcinoma,0,2	DNAH3	1142	2	NM_017539	exon5	c.C640A	p.Q214K	CCTGCTGTAACAT	.	scavenged	Atlas-SNP
FRAS1	80144	hgsc.bcm.edu	37	4	79343111	79343111	+	Silent	SNP	G	G	A	rs78575519	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	29	55	0	0.604167	0	G|0.863;A|0.137	0.137	strong	.	FRAS1	779	.	NM_001166133	exon34	c.G4635A	p.P1545P	TCCCCCGGCAGCA	.	PASS	Atlas-SNP
TSSK6	83983	hgsc.bcm.edu	37	19	19625547	19625547	+	Silent	SNP	A	A	G	rs7250893	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	15	6	38	0	0.4	0	A|0.563;G|0.437	0.437	strong	TSSK6,NS,carcinoma,0,1	TSSK6	32	1	NM_032037	exon1	c.T690C	p.Y230Y	TTCGGGATAGAGC	.	PASS	Atlas-SNP
FRAS1	80144	hgsc.bcm.edu	37	4	79238649	79238649	+	Silent	SNP	T	T	C	rs345514	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	137	104	1	0.985611	0.00961538	T|0.234;G|0.013	.	strong	.	FRAS1	779	.	NM_001166133	exon17	c.T1947C	p.H649H	TGACCATGGAGTC	.	PASS	Atlas-SNP
CILP2	148113	hgsc.bcm.edu	37	19	19654117	19654117	+	Silent	SNP	G	G	C	rs7252453	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	207	111	208	0	0.536232	0	G|0.754;C|0.246	0.246	strong	.	CILP2	84	.	NM_153221	exon7	c.G1038C	p.L346L	GGAGCTGCGGGGA	.	PASS	Atlas-SNP
AGRN	375790	hgsc.bcm.edu	37	1	985377	985377	+	Silent	SNP	C	C	T	rs113020870	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	41	67	0	0.630769	0	C|0.998;T|0.002	0.002	strong	.	AGRN	110	.	NM_198576	exon27	c.C4839T	p.C1613C	TCAGTGCGAGTGC	.	PASS	Atlas-SNP
SRRM4	84530	hgsc.bcm.edu	37	12	119568596	119568596	+	Missense_Mutation	SNP	G	G	A	rs7297606	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	17	19	0	0.566667	0	G|0.908;A|0.092	0.092	strong	.	SRRM4	131	.	NM_194286	exon8	c.G728A	p.S243N	CGCCCAGTCAACC	.	PASS	Atlas-SNP
MINK1	50488	hgsc.bcm.edu	37	17	4787720	4787720	+	Silent	SNP	C	C	T	rs6502827	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	225	108	207	0	0.48	0	C|0.985;T|0.015	0.015	strong	.	MINK1	110	.	NM_170663	exon5	c.C369T	p.N123N	AGGCAACGCCCTG	.	PASS	Atlas-SNP
SP4	6671	hgsc.bcm.edu	37	7	21468934	21468934	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	31	53	0	0.424658	0	.	.	none	.	SP4	91	.	NM_003112	exon3	c.C151T	p.L51L	GCTTTACTGGCAG	.	PASS	Atlas-SNP
OR2M7	391196	hgsc.bcm.edu	37	1	248487016	248487016	+	Silent	SNP	C	C	T	rs4451579	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	261	130	214	0	0.498084	0	C|0.847;T|0.153	0.153	strong	.	OR2M7	84	.	NM_001004691	exon1	c.G855A	p.L285L	AGGATTCAGCATG	.	PASS	Atlas-SNP
SLC3A2	6520	hgsc.bcm.edu	37	11	62652779	62652779	+	Silent	SNP	C	C	T	rs4726	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	99	184	0	0.543956	0	C|0.834;A|0.001	.	strong	.	SLC3A2	55	.	NM_001012662	exon9	c.C1255T	p.L419L	AAATCCCTAGTCA	.	PASS	Atlas-SNP
FBXO34	55030	hgsc.bcm.edu	37	14	55818706	55818706	+	Missense_Mutation	SNP	T	T	C	rs3742569	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	215	103	188	0	0.47907	0	T|0.582;C|0.418	0.418	strong	FBXO34,NS,carcinoma,0,1	FBXO34	61	1	NM_017943	exon2	c.T1598C	p.L533P	TTGTACTGCCAGC	.	PASS	Atlas-SNP
DNM1L	10059	hgsc.bcm.edu	37	12	32854366	32854366	+	Silent	SNP	A	A	C	rs10844308	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	49	88	0	0.576471	0	A|0.858;C|0.142	0.142	strong	.	DNM1L	52	.	NM_012062	exon2	c.A120C	p.S40S	GAGCTCAGTGCTA	.	PASS	Atlas-SNP
GALNS	2588	hgsc.bcm.edu	37	16	88891240	88891240	+	Missense_Mutation	SNP	C	C	A	rs2303269	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	57	89	0	0.548077	0	C|0.952;A|0.048	0.048	strong	.	GALNS	37	.	NM_000512	exon11	c.G1177T	p.A393S	GGGTGGCCGCCAT	.	PASS	Atlas-SNP
LGI4	163175	hgsc.bcm.edu	37	19	35617639	35617639	+	Silent	SNP	C	C	G	rs1687998	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	10	5	11	0	0.5	0	C|0.694;G|0.306	0.306	strong	.	LGI4	32	.	NM_139284	exon8	c.G834C	p.P278P	GAGGCTCGGGCCC	.	PASS	Atlas-SNP
NFKBIE	4794	hgsc.bcm.edu	37	6	44232977	44232977	+	Missense_Mutation	SNP	G	G	A	rs2233433	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	32	63	0	0.542373	0	G|0.930;A|0.070	0.070	strong	.	NFKBIE	31	.	NM_004556	exon1	c.C524T	p.P175L	GAGGCTGGAGCCG	.	PASS	Atlas-SNP
HS1BP3	64342	hgsc.bcm.edu	37	2	20838318	20838318	+	Silent	SNP	G	G	A	rs3796064	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	324	132	279	1	0.407407	0.00358423	G|0.702;A|0.298	0.298	strong	.	HS1BP3	33	.	NM_022460	exon4	c.C501T	p.F167F	AAAGTCGAAAGCC	.	PASS	Atlas-SNP
THAP4	51078	hgsc.bcm.edu	37	2	242572846	242572846	+	Silent	SNP	A	A	G	rs3208142	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	74	69	0	1	0	A|0.650;G|0.350	0.350	strong	.	THAP4	27	.	NM_015963	exon2	c.T726C	p.S242S	GTGCTTAGAGGAG	.	PASS	Atlas-SNP
HHLA2	11148	hgsc.bcm.edu	37	3	108095365	108095365	+	Silent	SNP	G	G	A	rs2124736	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	45	59	0	0.6	0	G|0.881;A|0.119	0.119	strong	.	HHLA2	95	.	NM_007072	exon9	c.G1185A	p.E395E	TGGTGAGCGCTGT	.	PASS	Atlas-SNP
CCDC13	152206	hgsc.bcm.edu	37	3	42787467	42787467	+	Missense_Mutation	SNP	G	G	A	rs141737119	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	42	110	0	0.56	0	G|1.000;A|0.000	0.000	strong	CCDC13,colon,carcinoma,+1,1	CCDC13	71	1	NM_144719	exon7	c.C773T	p.S258L	CCTGGCGAAGATA	.	PASS	Atlas-SNP
C14orf159	80017	hgsc.bcm.edu	37	14	91681888	91681888	+	Silent	SNP	G	G	A	rs34424078	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	33	20	31	0	0.606061	0	G|0.936;A|0.064	0.064	strong	.	C14orf159	57	.	NM_001102368	exon13	c.G1704A	p.P568P	CCTCCCGTCGGTC	.	PASS	Atlas-SNP
STARD13	90627	hgsc.bcm.edu	37	13	33703656	33703656	+	Silent	SNP	T	T	C	rs495680	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	87	182	1	0.988636	0.00549451	T|0.463;C|0.537	0.537	strong	.	STARD13	100	.	NM_178006	exon5	c.A1158G	p.E386E	GTGAAATTCATGC	.	PASS	Atlas-SNP
CXCR5	643	hgsc.bcm.edu	37	11	118765108	118765108	+	Silent	SNP	G	G	A	rs113967672	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	62	140	0	0.459259	0	G|0.997;A|0.003	0.003	strong	CXCR5,NS,carcinoma,+1,1	CXCR5	34	1	NM_001716	exon2	c.G855A	p.A285A	CCTGGCGAGGCTG	.	PASS	Atlas-SNP
DHX34	9704	hgsc.bcm.edu	37	19	47858489	47858489	+	Missense_Mutation	SNP	C	C	G	rs34802163	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	68	137	0	0.475524	0	C|0.979;G|0.021	0.021	strong	DHX34,lower_third,carcinoma,-1,1	DHX34	98	1	NM_014681	exon3	c.C899G	p.P300R	TGTTGCCCACGCG	.	PASS	Atlas-SNP
CAGE1	285782	hgsc.bcm.edu	37	6	7387236	7387236	+	Silent	SNP	G	G	A	rs9406026	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	85	104	0	0.988372	0	G|0.618;A|0.382	0.382	strong	.	CAGE1	165	.	NM_001170693	exon2	c.C171T	p.T57T	GGTGCCGGTGGTT	.	PASS	Atlas-SNP
CRELD1	78987	hgsc.bcm.edu	37	3	9985656	9985656	+	Silent	SNP	C	C	T	rs3774207	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	52	131	0	0.419355	0	C|0.600;T|0.400	0.400	strong	CRELD1,NS,carcinoma,0,1	CRELD1	48	1	NM_001031717	exon11	c.C1119T	p.H373H	TCCCCACTCTACA	.	PASS	Atlas-SNP
OR8A1	390275	hgsc.bcm.edu	37	11	124440362	124440362	+	Missense_Mutation	SNP	C	C	G	rs55861866	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	76	171	0	0.477987	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
PGR	5241	hgsc.bcm.edu	37	11	100999245	100999245	+	Missense_Mutation	SNP	G	G	A	rs11571145	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	14	6	42	0	0.428571	0	G|0.994;A|0.006	0.006	strong	PGR,NS,carcinoma,0,1	PGR	115	1	NM_000926	exon1	c.C557T	p.P186L	CCCCGGGGCAGCA	.	PASS	Atlas-SNP
PDZD2	23037	hgsc.bcm.edu	37	5	32087808	32087808	+	Silent	SNP	G	G	C	rs3733720	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	70	137	0	0.451613	0	G|0.891;C|0.109	0.109	strong	.	PDZD2	306	.	NM_178140	exon19	c.G4254C	p.G1418G	AGGGGGGAGTAGA	.	PASS	Atlas-SNP
PCSK5	5125	hgsc.bcm.edu	37	9	78506187	78506187	+	Silent	SNP	T	T	C	rs7040769	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	37	99	0	0.440476	0	T|0.760;C|0.240	0.240	strong	.	PCSK5	329	.	NM_006200	exon1	c.T90C	p.C30C	CGTGTGTCGGACG	.	PASS	Atlas-SNP
SNCG	6623	hgsc.bcm.edu	37	10	88722398	88722398	+	Missense_Mutation	SNP	A	A	T	rs9864	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	84	122	0	0.976744	0	A|0.789;T|0.211	0.211	strong	.	SNCG	8	.	NM_003087	exon4	c.A329T	p.E110V	AGGGTGAGGCATC	.	PASS	Atlas-SNP
PATE1	160065	hgsc.bcm.edu	37	11	125617610	125617610	+	Missense_Mutation	SNP	A	A	G	rs2114084	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	15	36	0	0.384615	0	A|0.675;G|0.325	0.325	strong	.	PATE1	21	.	NM_138294	exon4	c.A140G	p.Q47R	TTGTTCAGTGTAG	.	PASS	Atlas-SNP
MRPL9	65005	hgsc.bcm.edu	37	1	151735604	151735604	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	2	131	0	0.0153846	0	.	.	none	MRPL9,colon,carcinoma,+1,1	MRPL9	21	1	NM_031420	exon2	c.C172T	p.R58C	ACCAGCGCTCCAC	.	scavenged	Atlas-SNP
PBRM1	55193	hgsc.bcm.edu	37	3	52668638	52668638	+	Silent	SNP	G	G	A	rs17052357	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	56	125	1	0.46281	0.008	G|0.876;A|0.124	0.124	strong	PBRM1_ENST00000356770,NS,carcinoma,-2,3	PBRM1	1252	3	NM_018313	exon12	c.C1281T	p.P427P	TGATATGGGCATT	.	scavenged	Atlas-SNP
ZNF470	388566	hgsc.bcm.edu	37	19	57088850	57088850	+	Silent	SNP	T	T	C	rs3752180	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	25	27	0	0.403226	0	T|0.693;C|0.307	0.307	strong	.	ZNF470	103	.	NM_001001668	exon6	c.T1053C	p.D351D	TAGTGATTGCTCA	.	PASS	Atlas-SNP
VEGFA	7422	hgsc.bcm.edu	37	6	43738977	43738977	+	Silent	SNP	C	C	T	rs25648	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	42	19	23	0	0.452381	0	C|0.876;T|0.124	0.124	strong	.	VEGFA	21	.	NM_001171622	exon1	c.C534T	p.S178S	GGCCTCCGAAACC	.	PASS	Atlas-SNP
OR2AG1	144125	hgsc.bcm.edu	37	11	6806827	6806827	+	Missense_Mutation	SNP	G	G	T	rs2659880	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	206	84	189	0	0.407767	0	G|0.741;T|0.259	0.259	strong	.	OR2AG1	57	.	NM_001004489	exon1	c.G559T	p.V187L	CTGAAGGTGGCCT	.	PASS	Atlas-SNP
SLC17A6	57084	hgsc.bcm.edu	37	11	22360167	22360167	+	Splice_Site	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	2	107	0	0.016129	0	.	.	none	SLC17A6,caecum,carcinoma,0,1	SLC17A6	135	1	NM_020346	exon1	c.86+2T>C	.	TACAGGTAAGACA	.	scavenged	Atlas-SNP
DYRK4	8798	hgsc.bcm.edu	37	12	4700352	4700352	+	Silent	SNP	G	G	A	rs35827006	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	50	97	0	0.480769	0	G|0.957;A|0.043	0.043	strong	.	DYRK4	75	.	NM_003845	exon3	c.G6A	p.P2P	GATGCCGGCCTCA	.	PASS	Atlas-SNP
EML5	161436	hgsc.bcm.edu	37	14	89205265	89205265	+	Missense_Mutation	SNP	T	T	C	rs17188228	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	51	124	0	0.443478	0	T|0.733;C|0.267	0.267	strong	.	EML5	141	.	NM_183387	exon6	c.A805G	p.I269V	CAGTAATTGGTTT	.	PASS	Atlas-SNP
SMC6	79677	hgsc.bcm.edu	37	2	17897488	17897488	+	Missense_Mutation	SNP	T	T	C	rs35195207	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	232	117	212	0	0.50431	0	T|0.825;C|0.175	0.175	strong	.	SMC6	102	.	NM_001142286	exon15	c.A1390G	p.R464G	GTTGCCTCTGATT	.	PASS	Atlas-SNP
C2orf71	388939	hgsc.bcm.edu	37	2	29297068	29297068	+	Silent	SNP	C	C	T	rs35929540	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	49	68	0	0.510417	0	C|0.822;T|0.178	0.178	strong	.	C2orf71	146	.	NM_001029883	exon1	c.G60A	p.Q20Q	CAAGAACTGAATG	.	PASS	Atlas-SNP
PRAMEF11	440560	hgsc.bcm.edu	37	1	12888397	12888397	+	Missense_Mutation	SNP	C	C	T	rs78478513		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	376	74	225	26	0.196809	0.115556	C|0.250;T|0.750	0.750	weak	PRAMEF11,NS,other,0,1	PRAMEF11	72	1	NM_001146344	exon2	c.G127A	p.D43N	GCCCATCGAGCAC	.	scavenged	Atlas-SNP
SYTL1	84958	hgsc.bcm.edu	37	1	27679954	27679954	+	Silent	SNP	G	G	A	rs1128918	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	123	95	0	1	0	G|0.746;A|0.254	0.254	strong	.	SYTL1	57	.	NM_001193308	exon14	c.G1524A	p.G508G	GCTGGGGGGCACA	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	701656	701656	+	Missense_Mutation	SNP	C	C	T	rs11642546	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	14	65	0	0.27451	0	C|0.651;T|0.349	0.349	strong	WDR90,NS,carcinoma,0,1	WDR90	107	1	NM_145294	exon8	c.C749T	p.P250L	TGGGGCCGGGGCC	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40392496	40392496	+	Missense_Mutation	SNP	C	C	T	rs143680639	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	272	88	256	0	0.323529	0	C|0.970;T|0.030	0.030	strong	FCGBP,rectum,carcinoma,0,1	FCGBP	416	1	NM_003890	exon16	c.G8008A	p.G2670R	GTGGCCCTGTGGG	.	PASS	Atlas-SNP
CCL16	6360	hgsc.bcm.edu	37	17	34304644	34304644	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	212	3	193	0	0.0141509	0	.	.	none	CCL16,colon,carcinoma,-1,1	CCL16	7	1	NM_004590	exon3	c.T321C	p.I107I	TGCTGTAATAATT	.	scavenged	Atlas-SNP
IFRD2	7866	hgsc.bcm.edu	37	3	50326883	50326883	+	Silent	SNP	A	A	G	rs78165652	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	76	122	0	0.571429	0	A|0.992;G|0.008	0.008	strong	.	IFRD2	34	.	NM_006764	exon7	c.T966C	p.L322L	CCTGTCAAGGATG	.	PASS	Atlas-SNP
AKR7A2	8574	hgsc.bcm.edu	37	1	19635011	19635011	+	Missense_Mutation	SNP	C	C	T	rs1043657	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	77	138	0	0.48125	0	C|0.938;T|0.062	0.062	strong	.	AKR7A2	19	.	NM_003689	exon2	c.G424A	p.A142T	CAGGTGCGTGTAG	.	PASS	Atlas-SNP
NOTCH3	4854	hgsc.bcm.edu	37	19	15299112	15299112	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	4	83	0	0.0416667	0	.	.	none	.	NOTCH3	340	.	NM_000435	exon9	c.A1426G	p.S476G	AGGGGCTACTCTG	.	PASS	Atlas-SNP
TBX6	6911	hgsc.bcm.edu	37	16	30097630	30097630	+	Silent	SNP	C	C	T	rs2289292	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	50	96	0	0.45045	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
IDH3B	3420	hgsc.bcm.edu	37	20	2641471	2641471	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	35	75	0	0.448718	0	.	.	none	.	IDH3B	25	.	NM_006899	exon6	c.A403G	p.K135E	CCAACTTACGCCT	.	PASS	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	37	18	7008591	7008591	+	Missense_Mutation	SNP	T	T	C	rs662471	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	31	77	0	0.364706	0	T|0.753;C|0.247	0.247	strong	.	LAMA1	458	.	NM_005559	exon28	c.A4018G	p.M1340V	CCTCCATTGAAAT	.	PASS	Atlas-SNP
KRT27	342574	hgsc.bcm.edu	37	17	38936659	38936659	+	Missense_Mutation	SNP	C	C	T	rs17558560	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	129	97	0	0.992308	0	C|0.642;T|0.358	0.358	strong	.	KRT27	41	.	NM_181537	exon3	c.G577A	p.G193S	GCAAACCATTGAT	.	PASS	Atlas-SNP
ICAM5	7087	hgsc.bcm.edu	37	19	10407169	10407169	+	Silent	SNP	G	G	C	rs710845	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	4	4	9	0	1	0	G|0.499;C|0.501	0.501	strong	.	ICAM5	53	.	NM_003259	exon11	c.G2652C	p.L884L	GTGTCTGAACGGA	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169529826	169529826	+	Silent	SNP	C	C	A	rs6022	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	98	139	0	0.566474	0	C|0.638;A|0.362	0.362	strong	.	F5	301	.	NM_000130	exon4	c.G552T	p.S184S	CAGCCCCGAGTTG	.	PASS	Atlas-SNP
USP40	55230	hgsc.bcm.edu	37	2	234449358	234449358	+	Missense_Mutation	SNP	C	C	G	rs202235068	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	221	109	226	0	0.493213	0	.	.	weak	.	USP40	174	.	NM_018218	exon9	c.G1153C	p.G385R	ATATTCCTATCTT	.	PASS	Atlas-SNP
LLGL2	3993	hgsc.bcm.edu	37	17	73567801	73567801	+	Missense_Mutation	SNP	G	G	A	rs148020757	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	27	56	0	0.421875	0	G|0.994;A|0.006	0.006	strong	.	LLGL2	155	.	NM_004524	exon18	c.G2230A	p.A744T	ATCTATGCCTTCT	.	PASS	Atlas-SNP
BSN	8927	hgsc.bcm.edu	37	3	49698115	49698115	+	Missense_Mutation	SNP	G	G	A	rs116113662	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	54	92	0	0.45	0	G|0.990;A|0.010	0.010	strong	BSN,NS,carcinoma,-1,1	BSN	272	1	NM_003458	exon6	c.G8837A	p.R2946Q	TGGACCGGGACCT	.	PASS	Atlas-SNP
CD300C	10871	hgsc.bcm.edu	37	17	72541052	72541052	+	Silent	SNP	C	C	T	rs2292107	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	60	70	0	0.517241	0	C|0.911;T|0.089	0.089	strong	CD300C,NS,carcinoma,-2,1	CD300C	41	1	NM_006678	exon2	c.G96A	p.A32A	GGGGCCCGCCACG	.	PASS	Atlas-SNP
LRRN2	10446	hgsc.bcm.edu	37	1	204589101	204589101	+	Missense_Mutation	SNP	G	G	A	rs3789044	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	56	130	0	0.414815	0	G|0.822;A|0.178	0.178	strong	LRRN2,brain,primitive_neuroectodermal_tumour-medulloblastoma,+1,2	LRRN2	81	2	NM_006338	exon3	c.C20T	p.P7L	AAGAGTGGGGCCA	.	PASS	Atlas-SNP
TTC23	64927	hgsc.bcm.edu	37	15	99762041	99762041	+	Missense_Mutation	SNP	C	C	T	rs78534478	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	50	97	0	0.49505	0	C|0.970;T|0.030	0.030	strong	TTC23,colon,carcinoma,-1,1	TTC23	33	1	NM_001040657	exon4	c.G209A	p.R70H	ACGCAACGCACAA	.	PASS	Atlas-SNP
AKAP13	11214	hgsc.bcm.edu	37	15	86123170	86123170	+	Missense_Mutation	SNP	G	G	T	rs745191	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	142	101	0	1	0	G|0.813;T|0.187	0.187	strong	.	AKAP13	394	.	NM_007200	exon7	c.G1871T	p.G624V	TTCTTGGGCTGGA	.	PASS	Atlas-SNP
DDX50	79009	hgsc.bcm.edu	37	10	70700944	70700944	+	Silent	SNP	A	A	G	rs5030900	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	143	147	0	0.993056	0	A|0.368;G|0.632	0.632	strong	.	DDX50	65	.	NM_024045	exon13	c.A1884G	p.G628G	GAAAGGAAATATG	.	PASS	Atlas-SNP
MDN1	23195	hgsc.bcm.edu	37	6	90384216	90384216	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	13	20	0	0.433333	0	.	.	none	.	MDN1	478	.	NM_014611	exon79	c.A12854C	p.Q4285P	GTCCACTGCTGCA	.	PASS	Atlas-SNP
OR52B4	143496	hgsc.bcm.edu	37	11	4388905	4388905	+	Silent	SNP	C	C	T	rs11031960	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	45	79	0	0.555556	0	C|0.718;T|0.282	0.282	strong	.	OR52B4	56	.	NM_001005161	exon1	c.G621A	p.S207S	CACCGTCGACATT	.	PASS	Atlas-SNP
C9orf96	169436	hgsc.bcm.edu	37	9	136270538	136270538	+	Missense_Mutation	SNP	T	T	G	rs41302673	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	24	23	0	0.8	0	T|0.932;G|0.068	0.068	strong	C9orf96_ENST00000371957,NS,carcinoma,0,1	C9orf96	77	1	NM_153710	exon18	c.T2036G	p.L679R	GGGGACTGGAATA	.	PASS	Atlas-SNP
MAP9	79884	hgsc.bcm.edu	37	4	156289900	156289900	+	Silent	SNP	C	C	T	rs3733390	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	546	252	551	1	0.461538	0.00181488	C|0.687;T|0.313	0.313	strong	.	MAP9	79	.	NM_001039580	exon5	c.G546A	p.L182L	CTTTTTCAACATA	.	PASS	Atlas-SNP
CA5A	763	hgsc.bcm.edu	37	16	87938398	87938398	+	Silent	SNP	G	G	A	rs7186698	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	278	156	251	1	0.561151	0.00398406	G|0.840;A|0.160	0.160	strong	.	CA5A	32	.	NM_001739	exon3	c.C453T	p.P151P	CTCTGCGGGGTAC	.	PASS	Atlas-SNP
CYFIP1	23191	hgsc.bcm.edu	37	15	22969232	22969232	+	Missense_Mutation	SNP	G	G	A	rs7170637	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	58	95	0	0.471545	0	G|0.704;A|0.296	0.296	strong	CYFIP1_ENST00000435939,colon,carcinoma,0,2	CYFIP1	159	2	NM_014608	exon22	c.G2458A	p.G820S	CTGGACGGCTTCG	.	PASS	Atlas-SNP
VWA5B2	90113	hgsc.bcm.edu	37	3	183955109	183955109	+	Silent	SNP	C	C	T	rs843334	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	123	104	0	0.984	0	C|0.817;T|0.183	0.183	strong	.	VWA5B2	47	.	NM_138345	exon11	c.C1629T	p.P543P	GACCCCCCGGGAG	.	PASS	Atlas-SNP
PCDHA4	56144	hgsc.bcm.edu	37	5	140188354	140188354	+	Missense_Mutation	SNP	C	C	G	rs142480630	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	13	107	1	0.232143	0.00934579	C|0.999;G|0.001	0.001	weak	PCDHA4_ENST00000530339,NS,carcinoma,0,8	PCDHA4	419	8	NM_031500	exon1	c.C1582G	p.L528V	GAGGAGCTAGAGC	.	scavenged	Atlas-SNP
NEIL3	55247	hgsc.bcm.edu	37	4	178262784	178262784	+	Missense_Mutation	SNP	A	A	G	rs34193982	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	17	74	0	0.314815	0	A|0.894;G|0.106	0.106	strong	.	NEIL3	89	.	NM_018248	exon6	c.A857G	p.H286R	CTCAACATGTTGA	.	PASS	Atlas-SNP
MYO5B	4645	hgsc.bcm.edu	37	18	47566678	47566678	+	Missense_Mutation	SNP	C	C	G	rs141998504	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	285	141	236	1	0.494737	0.00423729	C|0.992;G|0.008	0.008	strong	.	MYO5B	178	.	NM_001080467	exon3	c.G145C	p.E49Q	GGTATTCCAGAAT	.	PASS	Atlas-SNP
KIAA2018	205717	hgsc.bcm.edu	37	3	113376119	113376119	+	Silent	SNP	C	C	T	rs62265538		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	24	40	0	0.170213	0	C|0.500;T|0.500	0.500	weak	KIAA2018,rectum,carcinoma,0,1	KIAA2018	180	1	NM_001009899	exon7	c.G4410A	p.Q1470Q	CTGCTGCTGCTGC	.	PASS	Atlas-SNP
PCDHGB2	56103	hgsc.bcm.edu	37	5	140741761	140741761	+	Missense_Mutation	SNP	A	A	G	rs57735633	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	170	82	153	0	0.482353	0	A|0.877;G|0.123	0.123	strong	PCDHGB2_ENST00000522605,NS,carcinoma,0,1	PCDHGB2	196	1	NM_018923	exon1	c.A2059G	p.K687E	CAGGCAAAACTGC	.	PASS	Atlas-SNP
C6orf170	221322	hgsc.bcm.edu	37	6	121629167	121629167	+	Silent	SNP	G	G	A	rs9398629	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	262	129	257	1	0.492366	0.00389105	G|0.704;A|0.296	0.296	strong	.	C6orf170	146	.	NM_152730	exon5	c.C645T	p.C215C	TTTTTCGCAGAGA	.	PASS	Atlas-SNP
PCDHGA3	56112	hgsc.bcm.edu	37	5	140724060	140724060	+	Missense_Mutation	SNP	A	A	C	rs11575948	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	60	92	0	0.631579	0	A|0.881;C|0.119	0.119	strong	.	PCDHGA3	246	.	NM_032011	exon1	c.A460C	p.I154L	TTTCCAATTAAAA	.	PASS	Atlas-SNP
ZNF717	100131827	hgsc.bcm.edu	37	3	75790797	75790797	+	Missense_Mutation	SNP	C	C	T	rs147946451	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	14	6	4	1	0.428571	0.25	C|0.753;T|0.247	0.247	strong	ZNF717,NS,malignant_melanoma,0,1	ZNF717	160	1	NM_001128223	exon3	c.G148A	p.V50M	GCATCACGTCCCT	.	scavenged	Atlas-SNP
FREM2	341640	hgsc.bcm.edu	37	13	39430314	39430314	+	Missense_Mutation	SNP	C	C	T	rs9548509	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	32	32	73	0	1	0	C|0.256;T|0.744	0.744	strong	FREM2,NS,carcinoma,0,1	FREM2	385	1	NM_207361	exon12	c.C6977T	p.T2326I	AAGTTACCTTTGA	.	PASS	Atlas-SNP
NT5DC2	64943	hgsc.bcm.edu	37	3	52563199	52563199	+	Missense_Mutation	SNP	A	A	T	rs35920544	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	71	154	0	0.430303	0	A|0.925;T|0.075	0.075	strong	.	NT5DC2	35	.	NM_001134231	exon2	c.T384A	p.S128R	GGCGGTACTGAAG	.	PASS	Atlas-SNP
OVGP1	5016	hgsc.bcm.edu	37	1	111957592	111957592	+	Missense_Mutation	SNP	A	A	G	rs56294468	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	67	182	0	0.362162	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
PPP1R15A	23645	hgsc.bcm.edu	37	19	49379167	49379167	+	Silent	SNP	C	C	T	rs524	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	98	105	1	1	0.00952381	C|0.647;T|0.353	0.353	strong	.	PPP1R15A	48	.	NM_014330	exon3	c.C1962T	p.A654A	TGTGGCCACACCT	.	PASS	Atlas-SNP
TNIP1	10318	hgsc.bcm.edu	37	5	150441711	150441711	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	68	132	0	0.511278	0	.	.	none	.	TNIP1	51	.	NM_001252385	exon4	c.C334G	p.P112A	GGACTGGTGCTGG	.	PASS	Atlas-SNP
PGR	5241	hgsc.bcm.edu	37	11	100922202	100922202	+	Silent	SNP	G	G	A	rs1042839	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	210	97	192	0	0.461905	0	G|0.892;A|0.108	0.108	strong	.	PGR	115	.	NM_000926	exon5	c.C2310T	p.H770H	ACTGACGTGTTTG	.	PASS	Atlas-SNP
CACNA2D4	93589	hgsc.bcm.edu	37	12	1988167	1988167	+	Silent	SNP	T	T	C	rs7966806	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	25	38	0	0.357143	0	T|0.874;C|0.126	0.126	strong	CACNA2D4_ENST00000382722,NS,carcinoma,0,1	CACNA2D4	220	1	NM_172364	exon15	c.A1599G	p.S533S	CACATCTGAGCCC	.	PASS	Atlas-SNP
SWT1	54823	hgsc.bcm.edu	37	1	185143721	185143721	+	Missense_Mutation	SNP	A	A	G	rs10489579	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	221	220	171	1	0.995475	0.00584795	G|0.396;N|0.000	0.396	strong	.	SWT1	88	.	NM_017673	exon5	c.A442G	p.I148V	CATGGAATTAAAA	.	PASS	Atlas-SNP
PELP1	27043	hgsc.bcm.edu	37	17	4574751	4574751	+	Missense_Mutation	SNP	T	T	A	rs9436	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	36	89	0	0.382979	0	T|0.893;A|0.107	0.107	strong	.	PELP1	102	.	NM_014389	exon17	c.A3376T	p.T1126S	GCTCTGTGGGAGG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	68	154	0	0.43871	0	G|0.585;T|0.415	0.415	strong	.	WNK1	403	.	NM_001184985	exon21	c.G6204T	p.M2068I	AGAGATGATCACA	.	PASS	Atlas-SNP
PPAT	5471	hgsc.bcm.edu	37	4	57273840	57273840	+	Silent	SNP	C	C	G	rs11538098	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	126	149	1	1	0.00671141	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
OR4A5	81318	hgsc.bcm.edu	37	11	51412327	51412327	+	Missense_Mutation	SNP	T	T	A	rs56302591	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	63	77	0	0.533898	0	T|0.908;A|0.092	0.092	strong	.	OR4A5	116	.	NM_001005272	exon1	c.A69T	p.K23N	TAATGCTTTTTGC	.	PASS	Atlas-SNP
ALG12	79087	hgsc.bcm.edu	37	22	50301430	50301430	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	85	145	0	0.508982	0	.	.	none	.	ALG12	35	.	NM_024105	exon7	c.C931T	p.R311C	TGAAGCGTAGCTC	.	PASS	Atlas-SNP
LMF2	91289	hgsc.bcm.edu	37	22	50942121	50942121	+	Missense_Mutation	SNP	C	C	T	rs13056405	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	21	10	18	0	0.47619	0	C|0.841;T|0.159	0.159	strong	.	LMF2	40	.	NM_033200	exon14	c.G1823A	p.S608N	GGTGGGCTTTTCT	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49434074	49434074	+	Silent	SNP	C	C	A	rs10747559	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	45	80	0	0.494505	0	C|0.614;A|0.386	0.386	strong	.	MLL2	1173	.	NM_003482	exon31	c.G7479T	p.G2493G	TGGGAACCCCCCA	.	PASS	Atlas-SNP
NECAB2	54550	hgsc.bcm.edu	37	16	84028014	84028014	+	Missense_Mutation	SNP	C	C	G	rs2292324	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	41	84	0	0.43617	0	C|0.800;G|0.200	0.200	strong	NECAB2,NS,carcinoma,0,1	NECAB2	36	1	NM_019065	exon7	c.C704G	p.T235S	GCAAGACCCTTCC	.	PASS	Atlas-SNP
PCDHA4	56144	hgsc.bcm.edu	37	5	140188353	140188353	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	58	15	107	0	0.258621	0	.	.	none	.	PCDHA4	419	.	NM_031500	exon1	c.G1581A	p.E527E	CGAGGAGCTAGAG	.	PASS	Atlas-SNP
CACNA2D4	93589	hgsc.bcm.edu	37	12	1983782	1983782	+	Silent	SNP	C	C	T	rs758160	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	406	187	361	0	0.460591	0	C|0.904;T|0.096	0.096	strong	CACNA2D4_ENST00000382722,NS,carcinoma,0,1	CACNA2D4	220	1	NM_172364	exon18	c.G1866A	p.P622P	ATCCATCGGAACC	.	PASS	Atlas-SNP
GPLD1	2822	hgsc.bcm.edu	37	6	24463020	24463020	+	Missense_Mutation	SNP	G	G	C	rs17300770	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	43	81	0	0.488636	0	G|0.900;C|0.100	0.100	strong	.	GPLD1	91	.	NM_001503	exon11	c.C825G	p.D275E	GTTGCAGTCACTG	.	PASS	Atlas-SNP
CEBPB	1051	hgsc.bcm.edu	37	20	48808011	48808011	+	Silent	SNP	C	C	T	rs4253439	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	8	5	10	0	0.625	0	C|0.638;T|0.362	0.362	strong	.	CEBPB	5	.	NM_005194	exon1	c.C441T	p.A147A	GGGGGCCGCCAAG	.	PASS	Atlas-SNP
DNAJC24	120526	hgsc.bcm.edu	37	11	31447864	31447864	+	Missense_Mutation	SNP	A	A	G	rs144649932	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	28	46	0	0.474576	0	A|0.998;G|0.002	0.002	strong	.	DNAJC24	23	.	NM_181706	exon4	c.A281G	p.D94G	CAGTAGATGCTCA	.	PASS	Atlas-SNP
LRRC16B	90668	hgsc.bcm.edu	37	14	24526206	24526206	+	Silent	SNP	T	T	C	rs45484702	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	129	98	0	0.984733	0	T|0.820;C|0.180	0.180	strong	.	LRRC16B	120	.	NM_138360	exon13	c.T1035C	p.P345P	GAATCCTGGGCTC	.	PASS	Atlas-SNP
RASAL3	64926	hgsc.bcm.edu	37	19	15565046	15565046	+	Silent	SNP	G	G	A	rs9646651	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	63	124	0	0.446809	0	G|0.871;A|0.129	0.129	strong	.	RASAL3	49	.	NM_022904	exon14	c.C2193T	p.T731T	CAGGATGGTGGGC	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31323203	31323203	+	Silent	SNP	A	A	G	rs1050823	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	180	68	130	0	0.377778	0	A|0.927;G|0.073	0.073	strong	.	HLA-B	54	.	NM_005514	exon4	c.T786C	p.D262D	GGTTCTATCTCCT	.	PASS	Atlas-SNP
COQ10A	93058	hgsc.bcm.edu	37	12	56664041	56664041	+	Silent	SNP	G	G	A	rs11543260	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	57	111	0	0.475	0	G|0.986;A|0.014	0.014	strong	.	COQ10A	20	.	NM_144576	exon5	c.G684A	p.K228K	CACCAAGTTTGGT	.	PASS	Atlas-SNP
MUS81	80198	hgsc.bcm.edu	37	11	65631361	65631361	+	Missense_Mutation	SNP	C	C	T	rs34891773	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	46	61	0	0.479167	0	C|0.979;T|0.021	0.021	strong	.	MUS81	68	.	NM_025128	exon10	c.C1048T	p.R350W	CGCTTCCGGGAGC	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11502188	11502188	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	9	6	19	0	0.666667	0	.	.	none	.	DNAH9	695	.	NM_001372	exon1	c.C373T	p.L125L	GGGGACCTGCCCG	.	PASS	Atlas-SNP
CEP112	201134	hgsc.bcm.edu	37	17	63822357	63822357	+	Missense_Mutation	SNP	T	T	C	rs62065084	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	178	327	1	0.946809	0.0030581	T|0.765;C|0.235	0.235	strong	.	CEP112	192	.	NM_001037325	exon1	c.A61G	p.I21V	TCTCTATCAGTCT	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	37	7	82785097	82785097	+	Missense_Mutation	SNP	T	T	C	rs61741659	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	312	145	231	1	0.464744	0.004329	T|0.813;C|0.187	0.187	strong	.	PCLO	1506	.	NM_014510	exon2	c.A860G	p.D287G	ACTATGTCTGCCT	.	PASS	Atlas-SNP
CSPG4	1464	hgsc.bcm.edu	37	15	75979782	75979782	+	Silent	SNP	G	G	T	rs8030131	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	161	143	0	0.993827	0	G|0.567;T|0.433	0.433	strong	.	CSPG4	175	.	NM_001897	exon3	c.C3624A	p.R1208R	GGTGTCGCGGGGG	.	PASS	Atlas-SNP
KIF26A	26153	hgsc.bcm.edu	37	14	104641792	104641792	+	Silent	SNP	C	C	T	rs2487305	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	12	7	6	0	0.583333	0	C|0.573;T|0.427	0.427	strong	KIF26A,NS,carcinoma,0,1	KIF26A	84	1	NM_015656	exon12	c.C2667T	p.A889A	GAAGGCCGTGGGC	.	PASS	Atlas-SNP
C20orf26	26074	hgsc.bcm.edu	37	20	20055848	20055848	+	Silent	SNP	A	A	G	rs367870948		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	78	137	0	0.496815	0	.	.	weak	.	C20orf26	188	.	NM_015585	exon5	c.A387G	p.A129A	TAAGGCAGTGCCA	.	PASS	Atlas-SNP
C12orf4	57102	hgsc.bcm.edu	37	12	4627414	4627414	+	Silent	SNP	C	C	T	rs35924298	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	31	91	0	0.352273	0	C|0.922;T|0.078	0.078	strong	.	C12orf4	58	.	NM_020374	exon8	c.G843A	p.Q281Q	CTTCAACTGGGCT	.	PASS	Atlas-SNP
ADAMTS8	11095	hgsc.bcm.edu	37	11	130275749	130275749	+	Missense_Mutation	SNP	T	T	C	rs11222085	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	67	112	0	0.57265	0	T|0.886;C|0.114	0.114	strong	.	ADAMTS8	172	.	NM_007037	exon9	c.A2374G	p.T792A	GGACTGTCAGGAG	.	PASS	Atlas-SNP
OR5AU1	390445	hgsc.bcm.edu	37	14	21623648	21623648	+	Silent	SNP	G	G	A	rs7161544	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	41	102	0	0.455556	0	G|0.567;A|0.433	0.433	strong	.	OR5AU1	46	.	NM_001004731	exon1	c.C537T	p.N179N	CAGGGGGTTACAA	.	PASS	Atlas-SNP
ZSWIM2	151112	hgsc.bcm.edu	37	2	187693003	187693003	+	Missense_Mutation	SNP	A	A	T	rs10195632	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	198	86	194	0	0.434343	0	A|0.813;T|0.187	0.187	strong	.	ZSWIM2	119	.	NM_182521	exon9	c.T1610A	p.F537Y	GTGTGAAATTTTC	.	PASS	Atlas-SNP
DGKQ	1609	hgsc.bcm.edu	37	4	960542	960542	+	Silent	SNP	T	T	G	rs35117553	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	77	150	1	0.496774	0.00666667	T|0.975;G|0.025	0.025	strong	DGKQ,NS,carcinoma,0,1	DGKQ	29	1	NM_001347	exon11	c.A1360C	p.R454R	CGTGCCTGCAGCC	.	scavenged	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1537451	1537451	+	Missense_Mutation	SNP	C	C	G	rs28473314	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	39	98	0	0.481481	0	C|0.810;G|0.190	0.190	strong	.	PTX4	46	.	NM_001013658	exon2	c.G647C	p.G216A	GGGGGGCCCCTGT	.	PASS	Atlas-SNP
ULK4	54986	hgsc.bcm.edu	37	3	41756965	41756965	+	Missense_Mutation	SNP	C	C	T	rs61744388	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	49	84	0	0.457944	0	C|0.772;T|0.228	0.228	strong	.	ULK4	150	.	NM_017886	exon24	c.G2551A	p.V851I	GCACTACAGGCAT	.	PASS	Atlas-SNP
ROR1	4919	hgsc.bcm.edu	37	1	64643277	64643277	+	Missense_Mutation	SNP	C	C	T	rs7527017	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	163	132	0	1	0	C|0.748;T|0.252	0.252	strong	.	ROR1	113	.	NM_005012	exon9	c.C1553T	p.T518M	AATGGACGGAATT	.	PASS	Atlas-SNP
TPPP	11076	hgsc.bcm.edu	37	5	665295	665295	+	Silent	SNP	A	A	G	rs61731455	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	44	66	0	0.44898	0	A|0.870;G|0.130	0.130	strong	TPPP,caecum,carcinoma,0,1	TPPP	24	1	NM_007030	exon4	c.T582C	p.D194D	CACCAGATCCACG	.	PASS	Atlas-SNP
PSMF1	9491	hgsc.bcm.edu	37	20	1108122	1108122	+	Silent	SNP	C	C	T	rs6514113	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	57	130	0	0.445312	0	C|0.885;T|0.115	0.115	strong	.	PSMF1	27	.	NM_006814	exon3	c.C336T	p.I112I	TTATATCGATGCA	.	PASS	Atlas-SNP
WWTR1	25937	hgsc.bcm.edu	37	3	149374873	149374873	+	Missense_Mutation	SNP	G	G	T	rs1055153	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	12	7	7	0	0.583333	0	G|0.923;T|0.077	0.077	strong	.	WWTR1	42	.	NM_001168278	exon3	c.C221A	p.P74Q	GGCCCCGGGTGGC	.	PASS	Atlas-SNP
OR52K1	390036	hgsc.bcm.edu	37	11	4510587	4510587	+	Missense_Mutation	SNP	C	C	T	rs331510	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	219	111	206	1	0.506849	0.00485437	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
OR4K17	390436	hgsc.bcm.edu	37	14	20586432	20586432	+	Silent	SNP	C	C	T	rs9323534	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	91	184	0	0.491892	0	C|0.566;T|0.434	0.434	strong	.	OR4K17	58	.	NM_001004715	exon1	c.C867T	p.Y289Y	TATCTACATTTGG	.	PASS	Atlas-SNP
ASTL	431705	hgsc.bcm.edu	37	2	96789787	96789787	+	Silent	SNP	T	T	C	rs893173	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	79	80	0	1	0	T|0.657;C|0.343	0.343	strong	ASTL,NS,carcinoma,0,1	ASTL	59	1	NM_001002036	exon9	c.A1098G	p.L366L	GGAAGCTAGGGTC	.	PASS	Atlas-SNP
TTYH2	94015	hgsc.bcm.edu	37	17	72246466	72246466	+	Silent	SNP	C	C	T	rs7224615	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	80	198	0	0.451977	0	C|0.592;T|0.408	0.408	strong	TTYH2,NS,carcinoma,0,1	TTYH2	63	1	NM_032646	exon10	c.C1086T	p.T362T	GCTGACCGCCATG	.	PASS	Atlas-SNP
STK39	27347	hgsc.bcm.edu	37	2	168931636	168931636	+	Missense_Mutation	SNP	C	C	T	rs56031549	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	63	160	0	0.431507	0	C|0.987;T|0.013	0.013	strong	.	STK39	95	.	NM_013233	exon11	c.G1195A	p.A399T	AAAAAGCTGCTTT	.	PASS	Atlas-SNP
FANCA	2175	hgsc.bcm.edu	37	16	89839766	89839766	+	Missense_Mutation	SNP	G	G	C	rs17232910	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	17	73	0	0.283333	0	G|0.936;C|0.064	0.064	strong	.	FANCA	99	.	NM_000135	exon22	c.C1927G	p.P643A	AGTTGGGTTCTGC	.	PASS	Atlas-SNP
KRTAP1-1	81851	hgsc.bcm.edu	37	17	39197248	39197248	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	4	83	0	0.0314961	0	.	.	none	KRTAP1-1,NS,carcinoma,0,1	KRTAP1-1	23	1	NM_030967	exon1	c.C402T	p.C134C	CACCACGCAGCAG	.	scavenged	Atlas-SNP
SPATA31D1	389763	hgsc.bcm.edu	37	9	84606647	84606647	+	Missense_Mutation	SNP	A	A	G	rs112107496	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	181	91	134	0	0.502762	0	A|0.982;G|0.018	0.018	strong	.	.	.	.	NM_001001670	exon4	c.A1262G	p.K421R	TCAAAAAAAGGGG	.	PASS	Atlas-SNP
C15orf40	123207	hgsc.bcm.edu	37	15	83680329	83680329	+	Missense_Mutation	SNP	G	G	A	rs17361375	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	16	31	0	0.533333	0	G|0.855;A|0.145	0.145	strong	.	C15orf40	18	.	NM_001160116	exon1	c.C31T	p.L11F	CCCGAAGGTGCCT	.	PASS	Atlas-SNP
TAP1	6890	hgsc.bcm.edu	37	6	32816772	32816772	+	Missense_Mutation	SNP	C	C	A	rs41550019	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	40	79	0	0.380952	0	G|0.000;C|0.939;A|0.061	0.061	strong	.	TAP1	39	.	NM_000593	exon6	c.G1552T	p.V518L	CCTCCACAGCCTG	.	PASS	Atlas-SNP
CCDC88B	283234	hgsc.bcm.edu	37	11	64120703	64120703	+	Silent	SNP	G	G	A	rs61744422	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	53	31	45	0	0.584906	0	G|0.990;A|0.010	0.010	strong	.	CCDC88B	89	.	NM_032251	exon21	c.G3678A	p.T1226T	GACCACGCAGTGT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	91	177	0	0.473958	0	C|0.727;A|0.273	0.273	strong	.	GUCA1C	39	.	NM_005459	exon4	c.442+1G>T	.	CCATTACCATCAT	.	PASS	Atlas-SNP
PRKRIR	5612	hgsc.bcm.edu	37	11	76072085	76072085	+	Missense_Mutation	SNP	C	C	T	rs76214254	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	5	107	3	0.0454545	0.0280374	C|0.999;T|0.001	0.001	strong	PRKRIR,caecum,adenoma,0,1	PRKRIR	65	1	NM_004705	exon3	c.G233A	p.R78Q	TTATCTCGAAGAA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	221	102	222	0	0.461538	0	T|0.693;A|0.307	0.307	strong	.	ZBBX	299	.	NM_024687	exon9	c.A480T	p.K160N	GTGAACTTTAGCA	.	PASS	Atlas-SNP
C1S	716	hgsc.bcm.edu	37	12	7175047	7175047	+	Silent	SNP	A	A	G	rs1143664	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	150	123	0	0.993378	0	A|0.900;G|0.100	0.100	strong	.	C1S	93	.	NM_201442	exon10	c.A1167G	p.P389P	GGAGCCATATTAC	.	PASS	Atlas-SNP
KRT32	3882	hgsc.bcm.edu	37	17	39616429	39616429	+	Missense_Mutation	SNP	G	G	A	rs117083040	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	221	106	164	0	0.479638	0	G|0.987;A|0.013	0.013	strong	.	KRT32	57	.	NM_002278	exon7	c.C1280T	p.P427L	GTGCGGGGCACGC	.	PASS	Atlas-SNP
DDX20	11218	hgsc.bcm.edu	37	1	112309123	112309123	+	Missense_Mutation	SNP	C	C	A	rs197414	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	61	135	0	0.525862	0	C|0.846;A|0.154	0.154	strong	.	DDX20	50	.	NM_007204	exon11	c.C2077A	p.R693S	GATGATCGTATTT	.	PASS	Atlas-SNP
NUP107	57122	hgsc.bcm.edu	37	12	69090624	69090624	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	4	81	0	0.0714286	0	.	.	none	.	NUP107	88	.	NM_020401	exon6	c.C474T	p.F158F	TGATTTCCTGCAG	.	PASS	Atlas-SNP
GDF9	2661	hgsc.bcm.edu	37	5	132198100	132198100	+	Silent	SNP	C	C	T	rs10491279	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	110	124	0	0.973451	0	C|0.826;T|0.174	0.174	strong	.	GDF9	50	.	NM_005260	exon2	c.G546A	p.E182E	CTTTGGCTCCTTT	.	PASS	Atlas-SNP
IL17F	112744	hgsc.bcm.edu	37	6	52101844	52101844	+	Missense_Mutation	SNP	T	T	C	rs2397084	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	37	66	0	0.402174	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
BFAR	51283	hgsc.bcm.edu	37	16	14742400	14742400	+	Missense_Mutation	SNP	T	T	G	rs11546303	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	175	183	0	0.994318	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
TRPV4	59341	hgsc.bcm.edu	37	12	110222182	110222182	+	Silent	SNP	C	C	T	rs141301107		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	231	3	179	0	0.012987	0	C|1.000;T|0.000	0.000	weak	TRPV4,right_lower_lobe,carcinoma,0,1	TRPV4	88	1	NM_021625	exon15	c.G2397A	p.P799P	CTTGCCCGGGTCC	.	scavenged	Atlas-SNP
TECPR1	25851	hgsc.bcm.edu	37	7	97873994	97873994	+	Silent	SNP	G	G	A	rs1874344	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	38	66	0	0.463415	0	G|0.696;A|0.304	0.304	strong	TECPR1,NS,carcinoma,0,2	TECPR1	77	2	NM_015395	exon5	c.C420T	p.Y140Y	GATGGCGTACGTC	.	PASS	Atlas-SNP
SDHA	6389	hgsc.bcm.edu	37	5	256508	256508	+	Silent	SNP	C	C	T	rs3211499		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	6	137	0	0.0416667	0	.	.	weak	SDHA,NS,carcinoma,+2,1	SDHA	80	1	NM_004168	exon15	c.C1968T	p.T656T	TGCCACCGTCCCG	.	scavenged	Atlas-SNP
HPGD	3248	hgsc.bcm.edu	37	4	175443156	175443156	+	Silent	SNP	C	C	T	rs1050145	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	46	61	0	0.418182	0	C|0.628;T|0.372	0.372	strong	HPGD,NS,carcinoma,0,1	HPGD	19	1	NM_000860	exon2	c.G156A	p.Q52Q	TTCAAACTGCTCA	.	PASS	Atlas-SNP
ESPNL	339768	hgsc.bcm.edu	37	2	239040343	239040343	+	Silent	SNP	G	G	A	rs73102311	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	37	81	0	0.402174	0	G|0.914;A|0.086	0.086	strong	.	ESPNL	63	.	NM_194312	exon9	c.G2988A	p.K996K	GGAGAAGGAAGCT	.	PASS	Atlas-SNP
TPSAB1	7177	hgsc.bcm.edu	37	16	1291308	1291308	+	Silent	SNP	A	A	G	rs71384641		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	215	21	222	1	0.0976744	0.0045045	G|1.000;|0.000	1.000	weak	TPSAB1,NS,carcinoma,+2,1	TPSAB1	24	1	NM_003294	exon3	c.A216G	p.A72A	GACCGCAGCGCAC	.	scavenged	Atlas-SNP
OR2T4	127074	hgsc.bcm.edu	37	1	248525780	248525780	+	Missense_Mutation	SNP	C	C	T	rs77428015		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	837	412	749	0	0.492234	0	.	.	weak	OR2T4,NS,carcinoma,-1,1	OR2T4	126	1	NM_001004696	exon1	c.C898T	p.P300S	CACACCCCTGAGA	.	PASS	Atlas-SNP
PIGN	23556	hgsc.bcm.edu	37	18	59780424	59780424	+	Silent	SNP	A	A	G	rs17714875	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	54	134	0	0.486486	0	A|0.877;G|0.123	0.123	strong	.	PIGN	62	.	NM_176787	exon16	c.T1377C	p.S459S	CAACAAAGAGGCA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	269	135	257	0	0.501859	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
CNTNAP3B	728577	hgsc.bcm.edu	37	9	43891639	43891639	+	Silent	SNP	G	G	A	rs200586830	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	868	149	585	0	0.171659	0	.	.	weak	CNTNAP3B,NS,carcinoma,0,1	CNTNAP3B	37	1	NM_001201380	exon17	c.G2682A	p.Q894Q	TGATCAGCTTCCT	.	scavenged	Atlas-SNP
CRYBA1	1411	hgsc.bcm.edu	37	17	27580756	27580756	+	Silent	SNP	C	C	T	rs1047790	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	43	86	0	0.467391	0	C|0.756;T|0.244	0.244	strong	.	CRYBA1	15	.	NM_005208	exon5	c.C456T	p.G152G	CATGGGCTGGTTC	.	PASS	Atlas-SNP
PALM	5064	hgsc.bcm.edu	37	19	746712	746712	+	Silent	SNP	C	C	T	rs10421265	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	21	41	0	0.477273	0	C|0.778;T|0.222	0.222	strong	.	PALM	26	.	NM_002579	exon9	c.C1062T	p.A354A	GGAGGCCGCCTCC	.	PASS	Atlas-SNP
MMRN2	79812	hgsc.bcm.edu	37	10	88702390	88702390	+	Silent	SNP	G	G	A	rs10887673	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	8	7	10	0	0.875	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
GLRA4	441509	hgsc.bcm.edu	37	X	102978806	102978806	+	Silent	SNP	G	G	C	rs5945807	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	394	25	256	0	0.0634518	0	0|0.009;C|0.169	0.169	strong	.	GLRA4	86	.	NM_001024452	exon5	c.C555G	p.T185T	CGTGCAGGTCTGG	.	PASS	Atlas-SNP
OR8K5	219453	hgsc.bcm.edu	37	11	55927442	55927442	+	Missense_Mutation	SNP	T	T	C	rs61746523	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	54	71	0	0.55102	0	T|0.948;C|0.052	0.052	strong	.	OR8K5	82	.	NM_001004058	exon1	c.A352G	p.M118V	AGGCCATGGCTGA	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	37	16	72992626	72992626	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	9	38	0	0.157895	0	.	.	none	.	ZFHX3	404	.	NM_006885	exon2	c.G1419A	p.E473E	CTCCTCCTCCGCC	.	PASS	Atlas-SNP
FBXW10	10517	hgsc.bcm.edu	37	17	18653070	18653070	+	Missense_Mutation	SNP	G	G	A	rs9895749	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	433	282	351	0	0.65127	0	G|0.630;A|0.370	0.370	strong	.	FBXW10	82	.	NM_001267585	exon3	c.G706A	p.E236K	ATATCCGAAATGA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	51	84	0	0.463636	0	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	.	PASS	Atlas-SNP
C3orf58	205428	hgsc.bcm.edu	37	3	143708645	143708645	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	48	104	0	0.533333	0	.	.	none	.	C3orf58	36	.	NM_173552	exon3	c.C1255A	p.R419S	GAACTGCGTGAAT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	209	91	225	0	0.435407	0	T|0.736;C|0.264	0.264	strong	.	VNN1	69	.	NM_004666	exon3	c.A392G	p.N131S	ATAGAGTTGTTCT	.	PASS	Atlas-SNP
HK2	3099	hgsc.bcm.edu	37	2	75099477	75099477	+	Missense_Mutation	SNP	A	A	T	rs2229621	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	355	226	188	0	0.63662	0	A|0.784;0|0.001	.	strong	.	HK2	85	.	NM_000189	exon4	c.A426T	p.Q142H	GCTACAAATCAAA	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	715990	715990	+	Missense_Mutation	SNP	G	G	A	rs7190775	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	47	23	0	0.979167	0	G|0.423;A|0.577	0.577	strong	.	WDR90	107	.	NM_145294	exon36	c.G4475A	p.R1492H	GTGGCCGCCCTGA	.	PASS	Atlas-SNP
UBA6	55236	hgsc.bcm.edu	37	4	68534392	68534392	+	Missense_Mutation	SNP	C	C	T	rs10010188	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	33	58	0	0.540984	0	C|0.849;T|0.151	0.151	strong	UBA6,colon,carcinoma,+1,1	UBA6	98	1	NM_018227	exon9	c.G670A	p.A224T	GATTTGCCTAAAA	.	PASS	Atlas-SNP
ARL5C	390790	hgsc.bcm.edu	37	17	37319029	37319029	+	Missense_Mutation	SNP	T	T	G	rs544198	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	80	129	0	0.503145	0	T|0.752;G|0.248	0.248	strong	.	ARL5C	3	.	NM_001143968	exon3	c.A190C	p.M64L	CCCACATGAAGAA	.	PASS	Atlas-SNP
TMEM144	55314	hgsc.bcm.edu	37	4	159161483	159161483	+	Missense_Mutation	SNP	A	A	T	rs62335898	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	79	150	0	0.467456	0	A|0.994;T|0.006	0.006	strong	.	TMEM144	34	.	NM_018342	exon10	c.A715T	p.I239F	AGTGGCATCTTTC	.	PASS	Atlas-SNP
MED9	55090	hgsc.bcm.edu	37	17	17394611	17394611	+	Silent	SNP	G	G	A	rs1242489	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	35	44	0	0.583333	0	G|0.779;A|0.221	0.221	strong	.	MED9	11	.	NM_018019	exon2	c.G243A	p.P81P	CAGCCCGGAGGTC	.	PASS	Atlas-SNP
NCKIPSD	51517	hgsc.bcm.edu	37	3	48716536	48716536	+	Missense_Mutation	SNP	G	G	A	rs75577765	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	71	121	0	0.47973	0	G|0.990;A|0.010	0.010	strong	.	NCKIPSD	52	.	NM_016453	exon10	c.C1651T	p.P551S	GGTCCGGCAGCTG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179631323	179631323	+	Missense_Mutation	SNP	C	C	T	rs149755500	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	2	106	0	0.0165289	0	C|0.999;T|0.001	0.001	strong	TTN_ENST00000360870,NS,carcinoma,-1,6	TTN	18412	6	NM_001267550	exon41	c.G9488A	p.R3163H	ACAGCACGCTGTT	.	scavenged	Atlas-SNP
PLG	5340	hgsc.bcm.edu	37	6	161132146	161132146	+	Silent	SNP	C	C	T	rs4757	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	286	140	278	0	0.48951	0	C|0.671;T|0.329	0.329	strong	.	PLG	150	.	NM_001168338	exon4	c.C330T	p.N110N	AAAGAACTACAGA	.	PASS	Atlas-SNP
SEMA5B	54437	hgsc.bcm.edu	37	3	122646828	122646828	+	Missense_Mutation	SNP	A	A	G	rs2276774	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	50	84	0	0.462963	0	A|0.858;G|0.142	0.142	strong	.	SEMA5B	303	.	NM_001256347	exon8	c.T821C	p.I274T	TTCTCAATAGTCC	.	PASS	Atlas-SNP
PPP1R36	145376	hgsc.bcm.edu	37	14	65031534	65031534	+	Missense_Mutation	SNP	C	C	T	rs6573560	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	50	81	0	0.471698	0	C|0.407;N|0.000	.	strong	.	.	.	.	NM_172365	exon4	c.C248T	p.T83I	CAGAAACTGATGG	.	PASS	Atlas-SNP
RPTOR	57521	hgsc.bcm.edu	37	17	78599562	78599562	+	Silent	SNP	C	C	G	rs17848685	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	44	105	0	0.488889	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
GNG13	51764	hgsc.bcm.edu	37	16	848755	848755	+	Silent	SNP	G	G	A	rs36073541	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	35	89	0	0.492958	0	G|0.950;A|0.050	0.050	strong	.	GNG13	8	.	NM_016541	exon3	c.C168T	p.N56N	CCATGGGTTGTTC	.	PASS	Atlas-SNP
COLEC12	81035	hgsc.bcm.edu	37	18	334742	334742	+	Missense_Mutation	SNP	C	C	T	rs2305027	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	45	83	0	0.391304	0	C|0.591;T|0.409	0.409	strong	.	COLEC12	121	.	NM_130386	exon6	c.G1816A	p.G606S	ACTTACCATTGTC	.	PASS	Atlas-SNP
GFRA4	64096	hgsc.bcm.edu	37	20	3640823	3640823	+	Silent	SNP	C	C	T	rs2853208	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	60	87	0	0.566038	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
PDIA5	10954	hgsc.bcm.edu	37	3	122880191	122880191	+	Silent	SNP	T	T	C	rs8935	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	44	92	0	0.382609	0	C|0.276;T|0.724	0.276	strong	.	PDIA5	66	.	NM_006810	exon16	c.T1368C	p.C456C	TGACTGTGTCAAA	.	PASS	Atlas-SNP
SLC7A13	157724	hgsc.bcm.edu	37	8	87241847	87241847	+	Silent	SNP	G	G	A	rs7814198	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	50	92	0	0.609756	0	G|0.644;A|0.356	0.356	strong	.	SLC7A13	97	.	NM_138817	exon1	c.C660T	p.G220G	TGCCCCGCCTGAA	.	PASS	Atlas-SNP
OR6C2	341416	hgsc.bcm.edu	37	12	55846623	55846623	+	Missense_Mutation	SNP	T	T	C	rs11171467	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	285	136	270	1	0.477193	0.0037037	T|0.865;C|0.135	0.135	strong	.	OR6C2	39	.	NM_054105	exon1	c.T626C	p.L209P	TCACCCTAGTTTG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	37	86	0	0.536232	0	T|0.554;C|0.446	0.446	strong	.	PARP10	57	.	NM_032789	exon5	c.A745G	p.I249V	CCAGGATGTCGTA	.	PASS	Atlas-SNP
WDR65	149465	hgsc.bcm.edu	37	1	43647424	43647424	+	Missense_Mutation	SNP	C	C	T	rs138300205	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	75	151	0	0.460123	0	C|0.990;T|0.010	0.010	strong	.	WDR65	76	.	NM_152498	exon3	c.C377T	p.T126M	CTCAGACGTCACC	.	PASS	Atlas-SNP
EFCAB12	90288	hgsc.bcm.edu	37	3	129130197	129130197	+	Missense_Mutation	SNP	T	T	C	rs9836111	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	20	35	0	0.384615	0	T|0.847;C|0.153	0.153	strong	.	.	.	.	NM_207307	exon5	c.A839G	p.H280R	ATATAATCTGGAG	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32557449	32557449	+	Missense_Mutation	SNP	G	G	A	rs187619904	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	238	21	196	1	0.0882353	0.00510204	G|0.988;A|0.012	0.012	strong	HLA-DRB1,extremity,malignant_melanoma,0,1	HLA-DRB1	41	1	NM_002124	exon1	c.C71T	p.S24F	AGTGGGGAGCTCA	.	scavenged	Atlas-SNP
RARS2	57038	hgsc.bcm.edu	37	6	88239266	88239266	+	Missense_Mutation	SNP	T	T	C	rs17850652	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	236	106	241	0	0.449153	0	T|0.911;C|0.089	0.089	strong	.	RARS2	61	.	NM_020320	exon10	c.A872G	p.K291R	ATTGTTTTCAGTA	.	PASS	Atlas-SNP
SLCO1B1	10599	hgsc.bcm.edu	37	12	21329738	21329738	+	Missense_Mutation	SNP	A	A	G	rs2306283	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	270	119	241	0	0.440741	0	A|0.422;G|0.578	0.578	strong	.	SLCO1B1	151	.	NM_006446	exon5	c.A388G	p.N130D	AATATCAATTCAT	.	PASS	Atlas-SNP
UGGT2	55757	hgsc.bcm.edu	37	13	96540172	96540172	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	237	3	228	0	0.0126582	0	.	.	none	UGGT2,NS,malignant_melanoma,-2,1	UGGT2	127	1	NM_020121	exon26	c.C3012T	p.G1004G	AAGCCTGCCCCTA	.	scavenged	Atlas-SNP
SLC1A6	6511	hgsc.bcm.edu	37	19	15063757	15063757	+	Silent	SNP	A	A	G	rs2229896	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	183	80	202	0	0.437158	0	T|0.131;G|0.183;C|0.054;A|0.632	0.183	strong	.	SLC1A6	111	.	NM_005071	exon8	c.T1482C	p.I494I	CACGGCAATGATG	.	PASS	Atlas-SNP
TRPC3	7222	hgsc.bcm.edu	37	4	122824052	122824052	+	Silent	SNP	C	C	T	rs11732666	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	231	100	223	0	0.4329	0	C|0.721;T|0.279	0.279	strong	.	TRPC3	201	.	NM_001130698	exon9	c.G2418A	p.R806R	CTGAAGCCTTCTC	.	PASS	Atlas-SNP
COL28A1	340267	hgsc.bcm.edu	37	7	7495735	7495735	+	Missense_Mutation	SNP	T	T	C	rs55745506	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	36	75	0	0.514286	0	T|0.729;C|0.271	0.271	strong	.	COL28A1	113	.	NM_001037763	exon16	c.A1311G	p.I437M	AGGTCCTATATCC	.	PASS	Atlas-SNP
FGD2	221472	hgsc.bcm.edu	37	6	36976637	36976637	+	Missense_Mutation	SNP	G	G	C	rs831510	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	90	158	0	0.478723	0	G|0.699;C|0.301	0.301	strong	FGD2,NS,carcinoma,0,1	FGD2	65	1	NM_173558	exon2	c.G96C	p.Q32H	AGGCCAGAGGCTA	.	PASS	Atlas-SNP
ZBTB12	221527	hgsc.bcm.edu	37	6	31868075	31868075	+	Silent	SNP	G	G	C	rs9267664	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	38	75	0	0.469136	0	G|0.924;C|0.076	0.076	strong	.	ZBTB12	25	.	NM_181842	exon2	c.C1008G	p.T336T	GCACTTGGTGCAC	.	PASS	Atlas-SNP
IBSP	3381	hgsc.bcm.edu	37	4	88732763	88732763	+	Missense_Mutation	SNP	A	A	G	rs17013181	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	22	41	0	0.407407	0	A|0.733;G|0.267	0.267	strong	.	IBSP	53	.	NM_004967	exon7	c.A655G	p.R219G	ACCGGAAGGCAGG	.	PASS	Atlas-SNP
XRCC1	7515	hgsc.bcm.edu	37	19	44047550	44047550	+	Silent	SNP	T	T	C	rs3547	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	23	56	0	0.479167	0	T|0.344;C|0.656	0.656	strong	.	XRCC1	47	.	NM_006297	exon17	c.A1896G	p.Q632Q	TCAGGCTTGCGGC	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954729	30954729	+	Missense_Mutation	SNP	G	G	C	rs111834205	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	28	120	2	0.243478	0.0166667	G|0.938;C|0.062	0.062	strong	MUC21,bladder,carcinoma,0,1	MUC21	98	1	NM_001010909	exon2	c.G777C	p.E259D	CTCTGAGTCCAGC	.	scavenged	Atlas-SNP
ZCCHC16	340595	hgsc.bcm.edu	37	X	111698440	111698440	+	Missense_Mutation	SNP	G	G	T	rs7474140	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	7	108	0	0.0402299	0	G|0.866;T|0.134	0.134	strong	.	ZCCHC16	66	.	NM_001004308	exon3	c.G484T	p.D162Y	CAGCAGGACCCTG	.	PASS	Atlas-SNP
GXYLT1	283464	hgsc.bcm.edu	37	12	42481732	42481732	+	Silent	SNP	G	G	A	rs7972986	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	49	51	0	1	0	G|0.820;A|0.180	0.180	strong	.	GXYLT1	47	.	NM_173601	exon8	c.C1179T	p.D393D	GATGTTGTCATCT	.	PASS	Atlas-SNP
MTCH2	23788	hgsc.bcm.edu	37	11	47640429	47640429	+	Missense_Mutation	SNP	G	G	C	rs1064608	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	40	17	43	0	0.425	0	G|0.727;C|0.273	0.273	strong	MTCH2,NS,carcinoma,0,1	MTCH2	25	1	NM_014342	exon13	c.C868G	p.P290A	CAAAGGGGACCTT	.	PASS	Atlas-SNP
CDH2	1000	hgsc.bcm.edu	37	18	25543387	25543387	+	Silent	SNP	G	G	A	rs1041985	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	144	135	0	1	0	G|0.706;A|0.294	0.294	strong	CDH2,colon,carcinoma,-2,2	CDH2	194	2	NM_001792	exon15	c.C2448T	p.A816A	GGGCTCGGCGTGG	.	PASS	Atlas-SNP
LRPPRC	10128	hgsc.bcm.edu	37	2	44209477	44209477	+	Silent	SNP	C	C	T	rs6741066	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	225	225	220	0	1	0	C|0.367;T|0.633	0.633	strong	LRPPRC,colon,carcinoma,0,1	LRPPRC	105	1	NM_133259	exon2	c.G246A	p.Q82Q	ATCAAACTGATTG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	37	20	36	0	0.540541	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
CILP2	148113	hgsc.bcm.edu	37	19	19656615	19656615	+	Silent	SNP	C	C	T	rs61744761	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	252	118	216	0	0.468254	0	C|0.845;T|0.155	0.155	strong	.	CILP2	84	.	NM_153221	exon8	c.C3261T	p.G1087G	TGACGGCTTCTCC	.	PASS	Atlas-SNP
ADAMTS17	170691	hgsc.bcm.edu	37	15	100636586	100636586	+	Silent	SNP	G	G	A	rs4965583	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	24	34	0	0.393443	0	G|0.801;A|0.199	0.199	strong	.	ADAMTS17	127	.	NM_139057	exon15	c.C2112T	p.G704G	GAAGTCGCCCTTC	.	PASS	Atlas-SNP
MSLN	10232	hgsc.bcm.edu	37	16	816414	816414	+	Missense_Mutation	SNP	G	G	A	rs150147307		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	65	122	0	0.424837	0	G|1.000;A|0.000	0.000	weak	.	MSLN	109	.	NM_005823	exon13	c.G1154A	p.R385H	ACATTCGCAAGTG	.	PASS	Atlas-SNP
ZGLP1	100125288	hgsc.bcm.edu	37	19	10415781	10415781	+	Missense_Mutation	SNP	T	T	C	rs2291473	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	164	172	0	0.993939	0	T|0.890;C|0.110	0.110	strong	.	ZGLP1	18	.	NM_001103167	exon4	c.A802G	p.I268V	CCTGAATGGGGTC	.	PASS	Atlas-SNP
PAX9	5083	hgsc.bcm.edu	37	14	37135752	37135752	+	Silent	SNP	C	C	T	rs12881240	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	59	107	0	0.460938	0	C|0.841;T|0.159	0.159	strong	PAX9,NS,carcinoma,0,1	PAX9	34	1	NM_006194	exon4	c.C717T	p.H239H	CCCGCACGCGGTG	.	PASS	Atlas-SNP
SDK1	221935	hgsc.bcm.edu	37	7	4189075	4189075	+	Silent	SNP	G	G	C	rs659182	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	90	66	0	0.978261	0	G|0.219;C|0.781	0.781	strong	.	SDK1	361	.	NM_152744	exon30	c.G4605C	p.A1535A	TGAGGCGACAGCA	.	PASS	Atlas-SNP
SLC5A9	200010	hgsc.bcm.edu	37	1	48697751	48697751	+	Silent	SNP	C	C	T	rs61997212	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	75	174	0	0.39267	0	C|0.877;T|0.123	0.123	strong	.	SLC5A9	82	.	NM_001135181	exon8	c.C900T	p.S300S	TGTGAGCGGGGAC	.	PASS	Atlas-SNP
TRIM58	25893	hgsc.bcm.edu	37	1	248028219	248028219	+	Silent	SNP	G	G	A	rs946696	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	56	62	0	0.949153	0	G|0.573;A|0.427	0.427	strong	TRIM58,NS,carcinoma,+1,1	TRIM58	143	1	NM_015431	exon3	c.G729A	p.P243P	GCGCCCGGCCCTG	.	PASS	Atlas-SNP
C6orf165	154313	hgsc.bcm.edu	37	6	88125542	88125542	+	Missense_Mutation	SNP	G	G	A	rs61731441	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	65	150	0	0.555556	0	G|0.892;A|0.108	0.108	strong	.	C6orf165	116	.	NM_001031743	exon5	c.G422A	p.R141H	TACTCCGCTCTGG	.	PASS	Atlas-SNP
OR2G3	81469	hgsc.bcm.edu	37	1	247769592	247769592	+	Silent	SNP	C	C	T	rs1151683	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	339	180	256	0	0.530973	0	C|0.736;T|0.264	0.264	strong	.	OR2G3	108	.	NM_001001914	exon1	c.C705T	p.H235H	AAGGCACAAAGCC	.	PASS	Atlas-SNP
AGL	178	hgsc.bcm.edu	37	1	100358103	100358103	+	Missense_Mutation	SNP	C	C	T	rs3753494	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	61	138	0	0.442029	0	C|0.869;T|0.131	0.131	strong	.	AGL	137	.	NM_000644	exon24	c.C3199T	p.P1067S	GATGTACCTTATA	.	PASS	Atlas-SNP
MLLT4	4301	hgsc.bcm.edu	37	6	168315978	168315978	+	Silent	SNP	G	G	C	rs3213590	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	183	83	168	0	0.453552	0	G|0.880;C|0.120	0.120	strong	.	MLLT4	351	.	NM_001040000	exon18	c.G2409C	p.V803V	ATTGGTGACCGAC	.	PASS	Atlas-SNP
MFHAS1	9258	hgsc.bcm.edu	37	8	8748058	8748058	+	Silent	SNP	C	C	T	rs146502253	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	24	53	0	0.545455	0	C|0.998;T|0.002	0.002	strong	.	MFHAS1	58	.	NM_004225	exon1	c.G2511A	p.K837K	CTTGCCCTTGGGT	.	PASS	Atlas-SNP
COL25A1	84570	hgsc.bcm.edu	37	4	109863370	109863370	+	Missense_Mutation	SNP	C	C	T	rs17531474	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	93	176	0	0.574074	0	C|0.939;T|0.061	0.061	strong	.	COL25A1	178	.	NM_001256074	exon7	c.G547A	p.V183I	CCTTGACGGTGAG	.	PASS	Atlas-SNP
PCSK4	54760	hgsc.bcm.edu	37	19	1487195	1487195	+	Missense_Mutation	SNP	G	G	A	rs36123574	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	29	49	0	0.74359	0	G|0.968;A|0.032	0.032	strong	.	PCSK4	44	.	NM_017573	exon7	c.C800T	p.T267M	TCCACCGTGCGGC	.	PASS	Atlas-SNP
EXOC4	60412	hgsc.bcm.edu	37	7	133692514	133692514	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	50	93	0	0.45045	0	.	.	none	.	EXOC4	118	.	NM_021807	exon17	c.T2613G	p.C871W	AATGTGTAGGAAC	.	PASS	Atlas-SNP
SSFA2	6744	hgsc.bcm.edu	37	2	182780307	182780307	+	Missense_Mutation	SNP	G	G	A	rs75716247	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	171	77	165	0	0.450292	0	G|0.938;A|0.062	0.062	strong	.	SSFA2	130	.	NM_001130445	exon11	c.G1940A	p.G647D	ATGTGGGTAAAAG	.	PASS	Atlas-SNP
C10orf62	414157	hgsc.bcm.edu	37	10	99350128	99350128	+	Silent	SNP	A	A	G	rs7093643	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	27	23	49	0	0.851852	0	A|0.704;G|0.296	0.296	strong	C10orf62,colon,carcinoma,0,1	C10orf62	14	1	NM_001009997	exon1	c.A474G	p.L158L	TCACCTAGAGTCC	.	PASS	Atlas-SNP
PRDM2	7799	hgsc.bcm.edu	37	1	14105639	14105639	+	Missense_Mutation	SNP	G	G	A	rs17350795	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	68	136	0	0.5	0	G|0.981;A|0.019	0.019	strong	.	PRDM2	147	.	NM_015866	exon8	c.G1349A	p.S450N	CTCCCAGTCTTGG	.	PASS	Atlas-SNP
TYRP1	7306	hgsc.bcm.edu	37	9	12698471	12698471	+	Silent	SNP	T	T	C	rs35866166	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	341	169	309	1	0.495601	0.00323625	T|0.958;C|0.042	0.042	strong	.	TYRP1	60	.	NM_000550	exon4	c.T729C	p.S243S	GCCTTCTTTCTCC	.	PASS	Atlas-SNP
MTHFD1	4522	hgsc.bcm.edu	37	14	64908845	64908845	+	Missense_Mutation	SNP	G	G	A	rs2236225	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	55	123	0	0.474138	0	G|0.641;N|0.000	.	strong	.	MTHFD1	61	.	NM_005956	exon20	c.G1958A	p.R653Q	CAGACCGGATCGC	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324152	31324152	+	Silent	SNP	A	A	G	rs1050628	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	26	80	0	0.481481	0	A|0.973;G|0.027	0.027	strong	.	HLA-B	54	.	NM_005514	exon3	c.T411C	p.H137H	CTGGTCATGCCCG	.	PASS	Atlas-SNP
CNGB3	54714	hgsc.bcm.edu	37	8	87660100	87660100	+	Missense_Mutation	SNP	T	T	C	rs13265557	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	79	198	0	0.417989	0	T|0.940;C|0.060	0.060	strong	.	CNGB3	176	.	NM_019098	exon8	c.A919G	p.I307V	GTATTATTGATGC	.	PASS	Atlas-SNP
TACC2	10579	hgsc.bcm.edu	37	10	123845211	123845211	+	Missense_Mutation	SNP	G	G	A	rs11200387	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	53	22	31	0	0.415094	0	G|0.826;A|0.174	0.174	strong	.	TACC2	271	.	NM_206862	exon4	c.G3196A	p.A1066T	GCGCCCGCCAGCC	.	PASS	Atlas-SNP
KRTAP1-1	81851	hgsc.bcm.edu	37	17	39197538	39197538	+	Missense_Mutation	SNP	G	G	T	rs146863522	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	48	113	0	0.271186	0	G|0.957;T|0.043	0.043	strong	KRTAP1-1,NS,NS,0,1	KRTAP1-1	23	1	NM_030967	exon1	c.C112A	p.R38S	AGCAGCGTGGCTG	.	scavenged	Atlas-SNP
MYCBPAP	84073	hgsc.bcm.edu	37	17	48608717	48608717	+	Silent	SNP	T	T	C	rs1064055	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	64	122	0	0.450704	0	T|0.195;C|0.805	0.805	strong	.	MYCBPAP	135	.	NM_032133	exon19	c.T2883C	p.T961T	GGTGACTGACCTG	.	PASS	Atlas-SNP
PCDHA4	56144	hgsc.bcm.edu	37	5	140188575	140188575	+	Silent	SNP	G	G	C	rs2879087	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	49	115	0	0.538462	0	G|0.413;C|0.587	0.587	strong	.	PCDHA4	419	.	NM_031500	exon1	c.G1803C	p.S601S	TGACTCGGGCTAC	.	PASS	Atlas-SNP
ZNF326	284695	hgsc.bcm.edu	37	1	90486412	90486412	+	Silent	SNP	T	T	G	rs2816881	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	310	140	326	0	0.451613	0	T|0.355;G|0.645	0.645	strong	.	ZNF326	60	.	NM_182976	exon10	c.T1236G	p.V412V	CAGTGTTTATATC	.	PASS	Atlas-SNP
RBL2	5934	hgsc.bcm.edu	37	16	53503943	53503943	+	Silent	SNP	C	C	G	rs11540358	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	146	162	1	0.986486	0.00617284	C|0.706;G|0.294	0.294	strong	.	RBL2	115	.	NM_005611	exon15	c.C2091G	p.R697R	TGGGCGCATGCCC	.	PASS	Atlas-SNP
CCDC144A	9720	hgsc.bcm.edu	37	17	16635980	16635980	+	Silent	SNP	G	G	A	rs61179727	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	215	106	204	0	0.493023	0	G|0.875;A|0.125	0.125	strong	.	CCDC144A	53	.	NM_014695	exon11	c.G2418A	p.E806E	TTCTGAGGTATTT	.	PASS	Atlas-SNP
RBMXL3	139804	hgsc.bcm.edu	37	X	114424148	114424148	+	Silent	SNP	G	G	A	rs62601525	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	126	95	0	0.926471	0	G|0.929;A|0.071	0.071	strong	.	RBMXL3	83	.	NM_001145346	exon1	c.G144A	p.S48S	CAAGTCGAGGGGC	.	PASS	Atlas-SNP
C20orf111	51526	hgsc.bcm.edu	37	20	42826350	42826350	+	Missense_Mutation	SNP	A	A	C	rs9346	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	33	51	0	0.478261	0	T|0.004;G|0.002	.	strong	.	C20orf111	28	.	NM_016470	exon4	c.T221G	p.V74G	GTTCTCACTGCTC	.	PASS	Atlas-SNP
CAPN3	825	hgsc.bcm.edu	37	15	42679977	42679977	+	Silent	SNP	C	C	T	rs144383442	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	129	217	0	0.941606	0	C|0.999;T|0.001	0.001	strong	CAPN3_ENST00000356316,NS,carcinoma,0,2	CAPN3	172	2	NM_000070	exon4	c.C525T	p.D175D	GGTGGACGTGGTT	.	PASS	Atlas-SNP
COLEC11	78989	hgsc.bcm.edu	37	2	3685163	3685163	+	Silent	SNP	T	T	C	rs34347618	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	102	161	1	0.534031	0.00621118	T|0.961;C|0.039	0.039	strong	COLEC11_ENST00000418971,colon,carcinoma,+1,4	COLEC11	93	4	NM_001255985	exon5	c.T285C	p.R95R	GGGTCGTCATGGA	.	scavenged	Atlas-SNP
PON1	5444	hgsc.bcm.edu	37	7	94946084	94946084	+	Missense_Mutation	SNP	A	A	T	rs854560	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	72	127	0	0.537313	0	A|0.717;T|0.283	0.283	strong	.	PON1	55	.	NM_000446	exon3	c.T163A	p.L55M	TCTCCAAGTCTTC	.	PASS	Atlas-SNP
MAPT	4137	hgsc.bcm.edu	37	17	44073889	44073889	+	Silent	SNP	A	A	G	rs1052553	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	36	154	2	0.313043	0.012987	A|0.865;G|0.135	0.135	strong	MAPT_ENST00000344290,NS,carcinoma,0,2	MAPT	135	2	NM_001123066	exon11	c.A1686G	p.A562A	GGTGGCAGTGGTC	.	scavenged	Atlas-SNP
GCDH	2639	hgsc.bcm.edu	37	19	13008607	13008607	+	Silent	SNP	G	G	T	rs1060218	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	29	74	0	0.42029	0	G|0.732;T|0.268	0.268	strong	GCDH_ENST00000457854,NS,carcinoma,+2,2	GCDH	76	2	NM_013976	exon11	c.C1173T	p.S391S	GGGGGGGAATGGG	.	PASS	Atlas-SNP
LRRC43	254050	hgsc.bcm.edu	37	12	122676013	122676013	+	Silent	SNP	A	A	C	rs11060167	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	69	139	0	0.552	0	A|0.675;C|0.325	0.325	strong	.	LRRC43	105	.	NM_001098519	exon6	c.A988C	p.R330R	GAACCCAGGCCCG	.	PASS	Atlas-SNP
CDR2L	30850	hgsc.bcm.edu	37	17	73000061	73000061	+	Silent	SNP	A	A	G	rs3744203	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	57	111	1	0.558824	0.00900901	A|0.528;G|0.472	0.472	strong	HUMPPA,NS,carcinoma,0,1	.	.	1	NM_014603	exon5	c.A1290G	p.E430E	GCTGGAACAGAGC	.	scavenged	Atlas-SNP
NAA40	79829	hgsc.bcm.edu	37	11	63713317	63713317	+	Silent	SNP	G	G	A	rs3740637	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	116	104	0	0.991453	0	G|0.756;A|0.244	0.244	strong	.	NAA40	13	.	NM_024771	exon2	c.G12A	p.K4K	GAGAAAGTCAAGC	.	PASS	Atlas-SNP
MOB3A	126308	hgsc.bcm.edu	37	19	2078409	2078409	+	Silent	SNP	A	A	G	rs2074893	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	42	42	70	0	1	0	A|0.578;G|0.422	0.422	strong	.	.	.	.	NM_130807	exon3	c.T151C	p.L51L	GGGGCAACTGCAC	.	PASS	Atlas-SNP
PTPRS	5802	hgsc.bcm.edu	37	19	5225802	5225802	+	Silent	SNP	G	G	A	rs10415592	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	66	99	0	0.515625	0	G|0.867;A|0.133	0.133	strong	PTPRS,NS,lymphoid_neoplasm,0,1	PTPRS	169	1	NM_002850	exon17	c.C2430T	p.A810A	GTAGGCGGCTACC	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103383417	103383417	+	Missense_Mutation	SNP	T	T	C	rs9554897	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	315	314	237	1	0.996825	0.00421941	C|0.312;N|0.000	0.312	strong	.	.	.	.	NM_001146197	exon4	c.A19630G	p.K6544E	TTTCTTTTACTGA	.	PASS	Atlas-SNP
ADAMTS10	81794	hgsc.bcm.edu	37	19	8651562	8651562	+	Silent	SNP	A	A	G	rs4476282	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	94	89	1	1	0.011236	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	.	scavenged	Atlas-SNP
EYA1	2138	hgsc.bcm.edu	37	8	72111599	72111599	+	Silent	SNP	A	A	G	rs10103397	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	21	46	0	0.477273	0	A|0.620;G|0.380	0.380	strong	.	EYA1	108	.	NM_000503	exon18	c.T1755C	p.H585H	CAAGGCATGGTGC	.	PASS	Atlas-SNP
WSCD2	9671	hgsc.bcm.edu	37	12	108641799	108641799	+	Silent	SNP	G	G	A	rs144706841	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	58	73	0	0.464	0	G|0.998;A|0.002	0.002	strong	.	WSCD2	125	.	NM_014653	exon9	c.G1377A	p.P459P	TGCCCCGTGGTGG	.	PASS	Atlas-SNP
HEATR2	54919	hgsc.bcm.edu	37	7	796430	796430	+	Silent	SNP	C	C	T	rs73036225	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	49	95	0	0.485149	0	C|0.850;T|0.150	0.150	strong	.	HEATR2	62	.	NM_017802	exon6	c.C1269T	p.S423S	CAGATCCGCAGAG	.	PASS	Atlas-SNP
PTPRK	5796	hgsc.bcm.edu	37	6	128388799	128388799	+	Silent	SNP	G	G	T	rs35030557	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	42	62	0	0.512195	0	T|0.314;G|0.686;C|0.000	0.314	strong	.	PTPRK	330	.	NM_001135648	exon12	c.C2022A	p.L674L	CGGGGGGAGTTCT	.	PASS	Atlas-SNP
PLA2R1	22925	hgsc.bcm.edu	37	2	160885432	160885432	+	Missense_Mutation	SNP	T	T	C	rs139957604	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	298	155	263	0	0.520134	0	T|0.999;C|0.001	0.001	strong	.	PLA2R1	153	.	NM_001195641	exon5	c.A884G	p.N295S	AGCTGATTGAGGC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179454394	179454394	+	Silent	SNP	A	A	G	rs1560221	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	219	118	194	1	0.538813	0.00515464	A|0.558;G|0.442	0.442	strong	.	TTN	18412	.	NM_001267550	exon304	c.T62058C	p.Y20686Y	CTTTAGATAGACA	.	PASS	Atlas-SNP
SYT10	341359	hgsc.bcm.edu	37	12	33579297	33579297	+	Silent	SNP	C	C	G	rs11052695	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	57	105	0	0.478992	0	C|0.867;G|0.133;T|0.000	0.133	strong	.	SYT10	109	.	NM_198992	exon2	c.G285C	p.T95T	TGGAAGCGTAGTG	.	PASS	Atlas-SNP
OR2L8	391190	hgsc.bcm.edu	37	1	248112915	248112915	+	Silent	SNP	A	A	G	rs77641372		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	205	97	204	0	0.473171	0	.	.	weak	OR2L8,right_upper_lobe,carcinoma,+1,1	OR2L8	92	1	NM_001001963	exon1	c.A756G	p.A252A	CTATGCACCTTTT	.	PASS	Atlas-SNP
FBLIM1	54751	hgsc.bcm.edu	37	1	16101217	16101217	+	Silent	SNP	C	C	T	rs41268337	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	72	130	0	0.507042	0	C|0.920;T|0.080	0.080	strong	.	FBLIM1	46	.	NM_001024215	exon6	c.C816T	p.C272C	GACCTGCGCCCGG	.	PASS	Atlas-SNP
PDCL3	79031	hgsc.bcm.edu	37	2	101192883	101192883	+	Silent	SNP	G	G	A	rs4618078	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	21	42	0	0.323077	0	G|0.975;A|0.025	0.025	strong	.	PDCL3	27	.	NM_024065	exon6	c.G645A	p.P215P	GAAGCCGATTGAA	.	PASS	Atlas-SNP
SON	6651	hgsc.bcm.edu	37	21	34922804	34922804	+	Missense_Mutation	SNP	C	C	T	rs201446136	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	41	71	0	0.476744	0	C|1.000;T|0.000	0.000	strong	SON_ENST00000300278,right_lower_lobe,carcinoma,0,2	SON	343	2	NM_032195	exon3	c.C1267T	p.P423S	TCTACCCCAGTGC	.	PASS	Atlas-SNP
PRCC	5546	hgsc.bcm.edu	37	1	156761540	156761540	+	Missense_Mutation	SNP	C	C	A	rs17850664	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	86	154	0	0.527607	0	C|0.993;A|0.007	0.007	strong	.	PRCC	39	.	NM_005973	exon4	c.C1135A	p.P379T	GTCCCCCCCCAGG	.	PASS	Atlas-SNP
PRKAR2B	5577	hgsc.bcm.edu	37	7	106685448	106685448	+	Silent	SNP	G	G	T	rs75385144	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	31	44	0	0.54386	0	G|0.707;T|0.293	0.293	strong	.	PRKAR2B	34	.	NM_002736	exon1	c.G96T	p.A32A	GTTCGCGCTGCAG	.	PASS	Atlas-SNP
NUFIP1	26747	hgsc.bcm.edu	37	13	45563215	45563215	+	Silent	SNP	A	A	G	rs116755008	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	145	312	0	0.873494	0	A|0.997;G|0.003	0.003	strong	.	NUFIP1	41	.	NM_012345	exon1	c.T357C	p.Y119Y	TCTCCAATACCAC	.	PASS	Atlas-SNP
WWP1	11059	hgsc.bcm.edu	37	8	87473473	87473473	+	Silent	SNP	T	T	C	rs201436587	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	63	88	0	0.512195	0	T|1.000;C|0.000	0.000	strong	.	WWP1	97	.	NM_007013	exon23	c.T2520C	p.N840N	AGACAATGAAGTA	.	PASS	Atlas-SNP
ZNF214	7761	hgsc.bcm.edu	37	11	7022531	7022531	+	Missense_Mutation	SNP	A	A	T	rs1156525	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	49	78	0	0.538462	0	A|0.424;C|0.004;T|0.572	0.572	strong	.	ZNF214	65	.	NM_013249	exon3	c.T383A	p.L128H	TTCCTGAGACTTT	.	PASS	Atlas-SNP
REG3A	5068	hgsc.bcm.edu	37	2	79385823	79385823	+	Missense_Mutation	SNP	T	T	G	rs201139260	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	20	132	5	0.10582	0.0378788	T|0.972;G|0.028	0.028	strong	REG3A,colon,carcinoma,-1,3	REG3A	76	3	NM_138938	exon2	c.A149C	p.H50P	TAGCAGTGGGAGC	.	scavenged	Atlas-SNP
KCNJ18	100134444	hgsc.bcm.edu	37	17	21318760	21318760	+	Missense_Mutation	SNP	G	G	T	rs74880280	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	25	127	0	0.179856	0	G|0.887;T|0.113	0.113	strong	.	.	.	.	NM_001194958	exon3	c.G106T	p.V36L	GGCAAGGTGCACA	.	PASS	Atlas-SNP
CCDC28A	25901	hgsc.bcm.edu	37	6	139097232	139097232	+	Missense_Mutation	SNP	C	C	T	rs2273510	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	53	91	0	0.464912	0	C|0.936;T|0.064	0.064	strong	.	CCDC28A	34	.	NM_015439	exon2	c.C245T	p.P82L	GCTGGCCGTGGTG	.	PASS	Atlas-SNP
OAS2	4939	hgsc.bcm.edu	37	12	113424893	113424893	+	Silent	SNP	C	C	G	rs2072138	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	196	162	1	0.975124	0.00617284	C|0.753;G|0.247	0.247	strong	OAS2_ENST00000449768,NS,carcinoma,+1,1	OAS2	86	1	NM_002535	exon2	c.C228G	p.T76T	TGGTACCCTTGTC	.	PASS	Atlas-SNP
SLC12A1	6557	hgsc.bcm.edu	37	15	48539587	48539587	+	Silent	SNP	T	T	C	rs6493311	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	73	167	0	0.462025	0	T|0.563;C|0.437	0.437	strong	.	SLC12A1	243	.	NM_001184832	exon13	c.T1614C	p.Y538Y	GGGATATGGGAAA	.	PASS	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	37	1	22163390	22163390	+	Silent	SNP	G	G	A	rs35444472	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	26	37	0	0.464286	0	A|0.098;C|0.000;G|0.902;T|0.000	0.098	strong	.	HSPG2	311	.	NM_005529	exon75	c.C10260T	p.H3420H	AGCACAGTGGAAC	.	PASS	Atlas-SNP
WDR88	126248	hgsc.bcm.edu	37	19	33647379	33647379	+	Missense_Mutation	SNP	T	T	C	rs11881580	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	64	91	0	0.496124	0	T|0.773;C|0.227	0.227	strong	.	WDR88	50	.	NM_173479	exon7	c.T928C	p.C310R	CGAAACTGTGGAG	.	PASS	Atlas-SNP
BEST1	7439	hgsc.bcm.edu	37	11	61730183	61730183	+	Silent	SNP	C	C	T	rs1800008	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	52	86	0	0.5	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
DNHD1	144132	hgsc.bcm.edu	37	11	6530297	6530297	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	274	3	263	0	0.0109489	0	.	.	none	DNHD1,rectum,carcinoma,0,6	DNHD1	198	6	NM_173589	exon4	c.C1108T	p.R370C	CTCTTACGCAAGT	.	scavenged	Atlas-SNP
PHAX	51808	hgsc.bcm.edu	37	5	125939409	125939409	+	Missense_Mutation	SNP	C	C	T	rs3734173	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	283	139	272	1	0.491166	0.00367647	C|0.935;T|0.065	0.065	strong	.	PHAX	20	.	NM_032177	exon2	c.C244T	p.R82C	TGGAAACGCAAAC	.	PASS	Atlas-SNP
MCM8	84515	hgsc.bcm.edu	37	20	5953815	5953815	+	Silent	SNP	A	A	G	rs34464794	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	65	124	0	0.464286	0	A|0.960;G|0.040	0.040	strong	MCM8_ENST00000378896,NS,carcinoma,+2,2	MCM8	125	2	NM_032485	exon12	c.A1368G	p.P456P	AGATCCAGGCCTA	.	PASS	Atlas-SNP
SNTA1	6640	hgsc.bcm.edu	37	20	32026766	32026766	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	46	96	0	0.469388	0	.	.	none	.	SNTA1	35	.	NM_003098	exon2	c.C377T	p.T126I	GCCTCTGTCTGGT	.	PASS	Atlas-SNP
SPTB	6710	hgsc.bcm.edu	37	14	65263347	65263347	+	Silent	SNP	C	C	T	rs229586	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	40	66	0	0.526316	0	C|0.746;T|0.254	0.254	strong	.	SPTB	378	.	NM_001024858	exon10	c.G1269A	p.L423L	CCGGGCCAGTTGC	.	PASS	Atlas-SNP
DBC1	1620	hgsc.bcm.edu	37	9	122001000	122001000	+	Silent	SNP	G	G	A	rs2274157	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	97	160	0	0.573964	0	A|0.392;C|0.004	0.392	strong	DBC1,NS,carcinoma,0,1	DBC1	194	1	NM_014618	exon5	c.C618T	p.S206S	GTCATAGCTGTTA	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225373072	225373072	+	Missense_Mutation	SNP	C	C	T	rs61851487	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	85	179	0	0.467033	0	C|0.848;T|0.152	0.152	strong	.	DNAH14	300	.	NM_001373	exon36	c.C5549T	p.T1850M	CATTAACGCTATT	.	PASS	Atlas-SNP
PTGES2	80142	hgsc.bcm.edu	37	9	130886050	130886050	+	Missense_Mutation	SNP	C	C	G	rs149102151	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	83	123	0	0.535484	0	C|0.995;G|0.005	0.005	strong	.	PTGES2	14	.	NM_025072	exon4	c.G617C	p.G206A	TTATTGCCGAACT	.	PASS	Atlas-SNP
CEP72	55722	hgsc.bcm.edu	37	5	639231	639231	+	Missense_Mutation	SNP	C	C	A	rs12522955	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	263	140	178	0	0.532319	0	C|0.877;A|0.123	0.123	strong	.	CEP72	53	.	NM_018140	exon8	c.C1234A	p.P412T	GCTCTACCCGGGA	.	PASS	Atlas-SNP
OR7C1	26664	hgsc.bcm.edu	37	19	14910210	14910210	+	Missense_Mutation	SNP	C	C	G	rs73004304	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	60	94	0	0.530973	0	C|0.801;G|0.199	0.199	strong	.	OR7C1	58	.	NM_198944	exon1	c.G739C	p.V247L	TGACCACTGAGAG	.	PASS	Atlas-SNP
UGT2B11	10720	hgsc.bcm.edu	37	4	70066376	70066376	+	Missense_Mutation	SNP	C	C	G	rs144149579	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	14	104	0	0.118644	0	C|0.959;G|0.041	0.041	strong	UGT2B11,trunk,malignant_melanoma,0,1	UGT2B11	92	1	NM_001073	exon6	c.G1372C	p.D458H	CTCGATCCAGGGG	.	scavenged	Atlas-SNP
TMC2	117532	hgsc.bcm.edu	37	20	2618140	2618140	+	Silent	SNP	T	T	C	rs6083915	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	74	66	0	1	0	T|0.247;C|0.753	0.753	strong	.	TMC2	121	.	NM_080751	exon19	c.T2406C	p.S802S	GAAGAGTCACAAA	.	PASS	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88536520	88536520	+	Silent	SNP	T	T	C	rs115476207	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	75	116	0	0.520833	0	T|0.673;C|0.327	0.327	strong	.	DSPP	174	.	NM_014208	exon5	c.T2706C	p.D902D	CAGTGATAGTGAC	.	PASS	Atlas-SNP
ABHD16A	7920	hgsc.bcm.edu	37	6	31656517	31656517	+	Silent	SNP	G	G	A	rs147830631	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	31	44	0	0.484375	0	G|1.000;A|0.000	0.000	weak	.	ABHD16A	34	.	NM_021160	exon14	c.C1233T	p.N411N	CTCCGCGTTGTTT	.	PASS	Atlas-SNP
SNAP47	116841	hgsc.bcm.edu	37	1	227954677	227954677	+	Missense_Mutation	SNP	C	C	T	rs17851681	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	40	87	0	0.412371	0	C|0.925;T|0.075	0.075	strong	.	SNAP47	42	.	NM_053052	exon4	c.C1141T	p.R381C	ATGGGCCGTACCC	.	PASS	Atlas-SNP
CNTNAP3	79937	hgsc.bcm.edu	37	9	39103775	39103775	+	Silent	SNP	C	C	G	rs72721583	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	515	258	448	0	0.500971	0	C|0.971;G|0.029	0.029	strong	.	CNTNAP3	82	.	NM_033655	exon16	c.G2502C	p.L834L	GATCCCCAGGTTC	.	PASS	Atlas-SNP
FASTKD3	79072	hgsc.bcm.edu	37	5	7867027	7867027	+	Silent	SNP	A	A	G	rs77130393	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	81	137	0	0.460227	0	A|0.984;G|0.016	0.016	strong	.	FASTKD3	88	.	NM_024091	exon2	c.T1170C	p.N390N	CACTGCATTGAGG	.	PASS	Atlas-SNP
TULP2	7288	hgsc.bcm.edu	37	19	49400634	49400634	+	Missense_Mutation	SNP	C	C	T	rs7260579	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	56	131	0	0.455285	0	C|0.804;T|0.196	0.196	strong	.	TULP2	60	.	NM_003323	exon3	c.G52A	p.A18T	TAGCAGCGAGCTC	.	PASS	Atlas-SNP
JAKMIP2	9832	hgsc.bcm.edu	37	5	147051261	147051261	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	3	142	0	0.0149254	0	.	.	none	JAKMIP2,caecum,carcinoma,0,1	JAKMIP2	154	1	NM_001270941	exon2	c.C109T	p.L37L	GATGCAGCTCTAT	.	scavenged	Atlas-SNP
OR2T4	127074	hgsc.bcm.edu	37	1	248525650	248525650	+	Silent	SNP	C	C	T	rs28602650	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	705	335	663	1	0.475177	0.0015083	C|0.791;T|0.209	0.209	strong	.	OR2T4	126	.	NM_001004696	exon1	c.C768T	p.T256T	CCTCACCATCCAC	.	PASS	Atlas-SNP
NUP107	57122	hgsc.bcm.edu	37	12	69115698	69115698	+	Silent	SNP	G	G	A	rs17851475	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	116	102	0	0.991453	0	G|0.782;A|0.218	0.218	strong	.	NUP107	88	.	NM_020401	exon16	c.G1389A	p.Q463Q	AGAACAGGAGATC	.	PASS	Atlas-SNP
CLCN1	1180	hgsc.bcm.edu	37	7	143016928	143016928	+	Silent	SNP	C	C	T	rs6962852	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	60	117	0	0.472441	0	C|0.646;T|0.354	0.354	strong	.	CLCN1	141	.	NM_000083	exon2	c.C261T	p.T87T	TTCTACCGTGGAC	.	PASS	Atlas-SNP
OR4C11	219429	hgsc.bcm.edu	37	11	55371807	55371807	+	Missense_Mutation	SNP	A	A	T	rs11230346	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	174	86	0	1	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
RAB39A	54734	hgsc.bcm.edu	37	11	107799426	107799426	+	Silent	SNP	C	C	A	rs77818165	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	36	70	0	0.580645	0	C|0.961;A|0.039	0.039	strong	.	.	.	.	NM_017516	exon1	c.C132A	p.T44T	CCCCACCGTCGGC	.	PASS	Atlas-SNP
MAST3	23031	hgsc.bcm.edu	37	19	18255359	18255359	+	Missense_Mutation	SNP	G	G	A	rs8108738	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	48	78	0	0.545455	0	G|0.504;A|0.496	0.496	strong	.	MAST3	83	.	NM_015016	exon22	c.G2581A	p.G861S	GATGCCGGCCGGG	.	PASS	Atlas-SNP
CD207	50489	hgsc.bcm.edu	37	2	71058226	71058226	+	Silent	SNP	C	C	T	rs2080390	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	243	154	151	0	0.633745	0	C|0.863;T|0.137	0.137	strong	.	CD207	47	.	NM_015717	exon6	c.G942A	p.T314T	AAGAAACGTTTTG	.	PASS	Atlas-SNP
TLE3	7090	hgsc.bcm.edu	37	15	70345626	70345626	+	Silent	SNP	C	C	T	rs1057865	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	115	149	0	0.566502	0	C|0.639;T|0.361	0.361	strong	.	TLE3	104	.	NM_005078	exon17	c.G1923A	p.T641T	GCGCACCGTGTTG	.	PASS	Atlas-SNP
ECH1	1891	hgsc.bcm.edu	37	19	39322087	39322087	+	Missense_Mutation	SNP	T	T	G	rs9419	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	38	62	0	0.567164	0	T|0.581;G|0.419	0.419	strong	.	ECH1	14	.	NM_001398	exon2	c.A122C	p.E41A	GAAGCCTCCTCTT	.	PASS	Atlas-SNP
OR6A2	8590	hgsc.bcm.edu	37	11	6816792	6816792	+	Missense_Mutation	SNP	T	T	C	rs61741824	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	250	115	183	0	0.46	0	T|0.981;C|0.019	0.019	strong	.	OR6A2	68	.	NM_003696	exon1	c.A148G	p.I50V	TCCTAATTGCCAT	.	PASS	Atlas-SNP
MB21D2	151963	hgsc.bcm.edu	37	3	192516430	192516430	+	Silent	SNP	C	C	T	rs3732388	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	35	45	0	0.522388	0	C|0.969;T|0.031	0.031	strong	.	MB21D2	75	.	NM_178496	exon2	c.G1221A	p.P407P	CTCTGCCGGGTCT	.	PASS	Atlas-SNP
NPAP1	23742	hgsc.bcm.edu	37	15	24923799	24923799	+	Missense_Mutation	SNP	A	A	C	rs34413216	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	36	59	0	0.571429	0	A|0.973;C|0.027	0.027	strong	.	.	.	.	NM_018958	exon1	c.A2785C	p.T929P	GGCTTAACATCTC	.	PASS	Atlas-SNP
KSR2	283455	hgsc.bcm.edu	37	12	118020115	118020115	+	Silent	SNP	G	G	A	rs11068551	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	43	69	0	0.425743	0	G|0.596;A|0.404	0.404	strong	.	KSR2	208	.	NM_173598	exon6	c.C1134T	p.L378L	GTTGCCGAGATCT	.	PASS	Atlas-SNP
TMEM177	80775	hgsc.bcm.edu	37	2	120438515	120438515	+	Missense_Mutation	SNP	G	G	C	rs11684353	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	231	118	171	0	0.510823	0	C|0.155;G|0.845;T|0.000	0.155	strong	.	TMEM177	26	.	NM_030577	exon2	c.G86C	p.G29A	TGTTTGGAGTTCC	.	PASS	Atlas-SNP
CASD1	64921	hgsc.bcm.edu	37	7	94180691	94180691	+	Silent	SNP	T	T	C	rs10280457	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	74	138	0	0.503401	0	T|0.879;C|0.121	0.121	strong	.	CASD1	70	.	NM_022900	exon15	c.T1857C	p.A619A	TCTGGCTTTGCAG	.	PASS	Atlas-SNP
PODXL2	50512	hgsc.bcm.edu	37	3	127379270	127379270	+	Silent	SNP	C	C	T	rs920232	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	65	136	0	0.448276	0	C|0.837;T|0.163	0.163	strong	.	PODXL2	53	.	NM_015720	exon3	c.C399T	p.T133T	AGACACCAGCCAG	.	PASS	Atlas-SNP
TNFSF13	8741	hgsc.bcm.edu	37	17	7462555	7462555	+	Missense_Mutation	SNP	G	G	A	rs11552708	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	76	131	0	0.481013	0	G|0.857;A|0.143	0.143	strong	.	TNFSF13	12	.	NM_001198623	exon1	c.G199A	p.G67R	CTGCAGGGGACAG	.	PASS	Atlas-SNP
KLHL31	401265	hgsc.bcm.edu	37	6	53517035	53517035	+	Silent	SNP	G	G	A	rs3823111	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	48	115	0	0.494845	0	G|0.903;A|0.097	0.097	strong	KLHL31,NS,carcinoma,-2,1	KLHL31	48	1	NM_001003760	exon3	c.C1266T	p.Y422Y	CGCGGCGTACACG	.	PASS	Atlas-SNP
TMEM132C	92293	hgsc.bcm.edu	37	12	129028586	129028586	+	Silent	SNP	C	C	T	rs73426420	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	60	66	0	0.631579	0	C|0.848;T|0.152	0.152	strong	.	TMEM132C	142	.	NM_001136103	exon3	c.C1059T	p.S353S	GGGCAGCGGCGGA	.	PASS	Atlas-SNP
CROCC	9696	hgsc.bcm.edu	37	1	17275337	17275337	+	Missense_Mutation	SNP	C	C	T	rs143866013	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	276	33	309	0	0.119565	0	C|0.900;T|0.100	0.100	strong	CROCC,NS,haematopoietic_neoplasm,0,6	CROCC	185	6	NM_014675	exon19	c.C2752T	p.R918W	GTGCAACGGCAGC	.	PASS	Atlas-SNP
KIAA2018	205717	hgsc.bcm.edu	37	3	113376107	113376107	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	13	106	1	0.0822785	0.00943396	.	.	none	KIAA2018,colon,carcinoma,0,1	KIAA2018	180	1	NM_001009899	exon7	c.G4422A	p.Q1474Q	TTGTTGCTGTTGC	.	scavenged	Atlas-SNP
SPTBN5	51332	hgsc.bcm.edu	37	15	42149506	42149506	+	Missense_Mutation	SNP	G	G	C	rs12442525	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	54	86	0	1	0	G|0.462;C|0.538	0.538	strong	.	SPTBN5	171	.	NM_016642	exon51	c.C8446G	p.Q2816E	AGGCCTGGGCCTG	.	PASS	Atlas-SNP
HLA-G	3135	hgsc.bcm.edu	37	6	29797406	29797406	+	Silent	SNP	G	G	A	rs79264452		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	8	105	0	0.0551724	0	.	.	weak	HLA-G,NS,carcinoma,0,1	HLA-G	90	1	NM_002127	exon5	c.G831A	p.E277E	TGGAGAGGAGCAG	.	scavenged	Atlas-SNP
LILRA4	23547	hgsc.bcm.edu	37	19	54848684	54848684	+	Silent	SNP	G	G	A	rs8105624	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	73	148	0	0.486667	0	G|0.821;A|0.179	0.179	strong	.	LILRA4	91	.	NM_012276	exon5	c.C939T	p.D313D	CAGGATGTCCAGG	.	PASS	Atlas-SNP
SLC5A4	6527	hgsc.bcm.edu	37	22	32651306	32651306	+	Missense_Mutation	SNP	G	G	A	rs16990065	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	78	132	0	0.506494	0	G|0.968;A|0.032	0.032	strong	.	SLC5A4	82	.	NM_014227	exon1	c.C11T	p.T4M	CTAACCGTACTGG	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1017974	1017974	+	Missense_Mutation	SNP	C	C	G	rs200353019	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	397	14	336	6	0.0352645	0.0178571	.	.	weak	MUC6_ENST00000421673,colon,carcinoma,0,2	MUC6	408	2	NM_005961	exon31	c.G4827C	p.Q1609H	TGTGGTCTGAGGG	.	scavenged	Atlas-SNP
KIAA1683	80726	hgsc.bcm.edu	37	19	18376518	18376518	+	Missense_Mutation	SNP	T	T	A	rs61740751	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	202	98	213	0	0.485149	0	A|0.041;G|0.000;T|0.959	0.041	strong	.	KIAA1683	190	.	NM_001145304	exon3	c.A1832T	p.Q611L	TGTTTCTGGGTGC	.	PASS	Atlas-SNP
ACPT	93650	hgsc.bcm.edu	37	19	51297825	51297825	+	Missense_Mutation	SNP	G	G	A	rs55716643	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	36	67	0	0.418605	0	G|0.751;A|0.249	0.249	strong	.	ACPT	43	.	NM_033068	exon9	c.G973A	p.A325T	AATCCCGCCAAAG	.	PASS	Atlas-SNP
SIGLEC9	27180	hgsc.bcm.edu	37	19	51630485	51630485	+	Missense_Mutation	SNP	C	C	A	rs273688	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	2	95	0	0.0181818	0	C|0.895;A|0.105	0.105	strong	SIGLEC9,NS,carcinoma,+1,1	SIGLEC9	85	1	NM_001198558	exon4	c.C947A	p.A316D	ATGCAGCTGAATT	.	scavenged	Atlas-SNP
RYR2	6262	hgsc.bcm.edu	37	1	237617757	237617757	+	Silent	SNP	C	C	T	rs3765097	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	55	102	0	0.470085	0	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	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60892545	60892545	+	Missense_Mutation	SNP	C	C	T	rs2427282	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	54	107	0	0.524272	0	C|0.984;T|0.016	0.016	strong	.	LAMA5	268	.	NM_005560	exon55	c.G7367A	p.R2456H	GCGAGGCGCTCCA	.	PASS	Atlas-SNP
MAGEE1	57692	hgsc.bcm.edu	37	X	75649430	75649430	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	64	48	0	0.914286	0	.	.	none	.	MAGEE1	236	.	NM_020932	exon1	c.G1107A	p.P369P	TGTGCCGCCCACC	.	PASS	Atlas-SNP
OR5H6	79295	hgsc.bcm.edu	37	3	97983981	97983981	+	Missense_Mutation	SNP	G	G	A	rs9871143	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	85	172	1	0.482955	0.00581395	G|0.610;A|0.390	0.390	strong	OR5H6,NS,adenoma,0,2	OR5H6	89	2	NM_001005479	exon1	c.G853A	p.D285N	GCAGATGACCAAG	.	scavenged	Atlas-SNP
KLHDC7B	113730	hgsc.bcm.edu	37	22	50987175	50987175	+	Missense_Mutation	SNP	G	G	T	rs116500907	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	12	10	14	0	0.833333	0	G|0.958;T|0.042	0.042	strong	.	KLHDC7B	39	.	NM_138433	exon1	c.G580T	p.V194L	TGGGGGGTGGTGG	.	PASS	Atlas-SNP
KHDC1L	100129128	hgsc.bcm.edu	37	6	73934037	73934037	+	Silent	SNP	C	C	A	rs190736560	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	65	82	0	0.492424	0	C|0.997;A|0.003	0.003	strong	.	KHDC1L	22	.	NM_001126063	exon2	c.G147T	p.L49L	GCTGTGCAGCTCA	.	PASS	Atlas-SNP
PVR	5817	hgsc.bcm.edu	37	19	45150614	45150614	+	Missense_Mutation	SNP	G	G	A	rs1058402	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	55	91	0	0.539216	0	G|0.931;A|0.069	0.069	strong	.	PVR	23	.	NM_001135769	exon2	c.G199A	p.A67T	ACTTGGGCGCGGC	.	PASS	Atlas-SNP
GSTT2	2953	hgsc.bcm.edu	37	22	24323227	24323227	+	Splice_Site	SNP	G	G	A	rs76498342	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	925	269	457	0	0.290811	0	G|0.873;A|0.127	0.127	strong	.	GSTT2	3	.	NM_000854	exon2	c.200+1G>A	.	CGAAAGGTGCCCT	.	PASS	Atlas-SNP
CCDC164	92749	hgsc.bcm.edu	37	2	26676395	26676395	+	Missense_Mutation	SNP	G	G	T	rs12623642	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	70	125	0	0.530303	0	G|0.875;T|0.125	0.125	strong	.	CCDC164	84	.	NM_145038	exon14	c.G1897T	p.V633F	GCCTTCGTCATGG	.	PASS	Atlas-SNP
PDGFRA	5156	hgsc.bcm.edu	37	4	55130078	55130078	+	Silent	SNP	T	T	C	rs2229307	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	27	37	0	0.5625	0	T|0.828;C|0.172	0.172	strong	.	PDGFRA	1583	.	NM_006206	exon4	c.T612C	p.N204N	ATTTAATGTTTAT	.	PASS	Atlas-SNP
PLA2R1	22925	hgsc.bcm.edu	37	2	160808075	160808075	+	Missense_Mutation	SNP	C	C	T	rs3828323	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	185	193	0	0.994624	0	C|0.679;T|0.321	0.321	strong	.	PLA2R1	153	.	NM_001195641	exon24	c.G3316A	p.G1106S	TTACACCGTGTCC	.	PASS	Atlas-SNP
CA11	770	hgsc.bcm.edu	37	19	49143533	49143533	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	41	74	0	0.418367	0	.	.	none	.	CA11	29	.	NM_001217	exon4	c.G290A	p.R97Q	GTTCCCCGGAGCT	.	PASS	Atlas-SNP
TBP	6908	hgsc.bcm.edu	37	6	170871058	170871058	+	Silent	SNP	G	G	A	rs113440919		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	7	67	2	0.1	0.0298507	G|0.500;A|0.500	0.500	weak	TBP,caecum,carcinoma,0,1	TBP	58	1	NM_003194	exon3	c.G234A	p.Q78Q	GCAGCAGCAGCAG	.	scavenged	Atlas-SNP
UCHL1	7345	hgsc.bcm.edu	37	4	41259633	41259633	+	Missense_Mutation	SNP	C	C	A	rs5030732	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	18	13	43	0	0.722222	0	C|0.758;A|0.242	0.242	strong	.	UCHL1	19	.	NM_004181	exon3	c.C53A	p.S18Y	TGCTGTCCCGGCT	.	PASS	Atlas-SNP
ZNF17	7565	hgsc.bcm.edu	37	19	57932027	57932027	+	Silent	SNP	C	C	T	rs2158009	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	34	19	41	0	0.558824	0	C|0.820;T|0.180	0.180	strong	.	ZNF17	49	.	NM_006959	exon3	c.C1167T	p.N389N	ATGCAACGAATGT	.	PASS	Atlas-SNP
GPC1	2817	hgsc.bcm.edu	37	2	241405608	241405608	+	Silent	SNP	A	A	G	rs1042841	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	258	112	233	0	0.434109	0	A|0.901;G|0.099	0.099	strong	.	GPC1	32	.	NM_002081	exon9	c.A1578G	p.G526G	GGAAGGACAGAAG	.	PASS	Atlas-SNP
BTNL8	79908	hgsc.bcm.edu	37	5	180338368	180338368	+	Missense_Mutation	SNP	A	A	G	rs2276995	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	207	206	218	1	0.995169	0.00458716	A|0.529;G|0.471	0.471	strong	BTNL8,colon,carcinoma,-2,1	BTNL8	114	1	NM_001159708	exon3	c.A427G	p.T143A	TCCATCACGGGAT	.	PASS	Atlas-SNP
ELMSAN1	91748	hgsc.bcm.edu	37	14	74203789	74203789	+	Missense_Mutation	SNP	G	G	A	rs17782124	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	64	98	0	0.516129	0	G|0.856;A|0.144	0.144	strong	.	.	.	.	NM_194278	exon3	c.C1661T	p.P554L	TGTTCAGGACCCT	.	PASS	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39135084	39135084	+	Missense_Mutation	SNP	A	A	G	rs8064733	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	28	66	0	0.444444	0	A|0.654;G|0.346	0.346	strong	.	KRT40	27	.	NM_182497	exon8	c.T1168C	p.W390R	GGCCCCAGTACGT	.	PASS	Atlas-SNP
MANBA	4126	hgsc.bcm.edu	37	4	103553372	103553372	+	Missense_Mutation	SNP	C	C	T	rs75826658	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	238	101	224	0	0.42437	0	C|0.986;T|0.014	0.014	strong	.	MANBA	78	.	NM_005908	exon17	c.G2482A	p.V828I	ACCAAACAAAGGG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	85	113	0	0.524691	0	G|0.542;A|0.458	0.458	strong	.	BBS12	63	.	NM_001178007	exon3	c.G1157A	p.R386Q	GCATGCGGCTTCA	.	PASS	Atlas-SNP
CPZ	8532	hgsc.bcm.edu	37	4	8605818	8605818	+	Silent	SNP	C	C	T	rs6852001	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	54	57	0	0.72	0	C|0.812;T|0.188	0.188	strong	CPZ,NS,carcinoma,0,1	CPZ	95	1	NM_001014447	exon4	c.C612T	p.C204C	CCGCTGCGCCCAC	.	PASS	Atlas-SNP
FNDC1	84624	hgsc.bcm.edu	37	6	159654829	159654829	+	Silent	SNP	G	G	A	rs638551	bycluster;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	25	17	45	0	0.68	0	G|0.789;A|0.211	0.211	strong	.	FNDC1	250	.	NM_032532	exon11	c.G3285A	p.A1095A	CCCCGCGCACGCC	.	PASS	Atlas-SNP
FOXP4	116113	hgsc.bcm.edu	37	6	41533579	41533579	+	Silent	SNP	C	C	A	rs2104506	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	240	128	184	0	0.533333	0	C|0.647;A|0.353	0.353	strong	FOXP4_ENST00000373060,NS,carcinoma,0,2	FOXP4	83	2	NM_001012427	exon2	c.C81A	p.A27A	GCAAGCCGATGGC	.	PASS	Atlas-SNP
CD33	945	hgsc.bcm.edu	37	19	51738917	51738917	+	Missense_Mutation	SNP	G	G	A	rs35112940	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	45	90	0	0.445545	0	G|0.866;A|0.134	0.134	strong	.	CD33	55	.	NM_001772	exon6	c.G910A	p.G304R	ACCACAGGGTCAG	.	PASS	Atlas-SNP
SLCO1B7	338821	hgsc.bcm.edu	37	12	21200089	21200089	+	Missense_Mutation	SNP	A	A	G	rs11045681	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	102	164	0	0.507463	0	A|0.896;G|0.104	0.104	strong	.	SLCO1B7	85	.	NM_001009562	exon7	c.A932G	p.Y311C	TTACTTATATCAT	.	PASS	Atlas-SNP
PRDM2	7799	hgsc.bcm.edu	37	1	14107135	14107135	+	Missense_Mutation	SNP	C	C	G	rs116238585	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	65	138	0	0.445205	0	C|0.984;G|0.016	0.016	strong	.	PRDM2	147	.	NM_015866	exon8	c.C2845G	p.P949A	TCATCACCTGCCC	.	PASS	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	37	10	16932490	16932490	+	Missense_Mutation	SNP	G	G	T	rs1801238	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	30	63	0	0.428571	0	G|0.977;T|0.023	0.023	strong	.	CUBN	515	.	NM_001081	exon55	c.C8635A	p.L2879I	TGGCTAGCAGGGC	.	PASS	Atlas-SNP
C12orf45	121053	hgsc.bcm.edu	37	12	105380152	105380152	+	Missense_Mutation	SNP	A	A	C	rs1129593	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	45	117	0	0.412844	0	A|0.606;C|0.394	0.394	strong	.	C12orf45	14	.	NM_152318	exon1	c.A22C	p.K8Q	AAGCCCAAGGCTA	.	PASS	Atlas-SNP
OR5T2	219464	hgsc.bcm.edu	37	11	55999737	55999737	+	Missense_Mutation	SNP	G	G	C	rs7121880	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	87	147	0	0.514793	0	G|0.930;C|0.070	0.070	strong	.	OR5T2	107	.	NM_001004746	exon1	c.C925G	p.H309D	TGTCATGGTCCGA	.	PASS	Atlas-SNP
NFU1	27247	hgsc.bcm.edu	37	2	69659126	69659126	+	Missense_Mutation	SNP	A	A	T	rs4453725	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	67	72	0	0.632075	0	A|0.636;T|0.364	0.364	strong	NFU1,NS,carcinoma,0,1	NFU1	19	1	NM_001002755	exon2	c.T74A	p.M25K	TTCAACATATGAC	.	PASS	Atlas-SNP
MTOR	2475	hgsc.bcm.edu	37	1	11182093	11182093	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	278	3	243	1	0.0107914	0.00411523	.	.	none	MTOR,right_lower_lobe,carcinoma,-1,1	MTOR	327	1	NM_004958	exon48	c.G6753A	p.R2251R	GTAGTCCCGGATG	.	scavenged	Atlas-SNP
MRPS9	64965	hgsc.bcm.edu	37	2	105665808	105665808	+	Silent	SNP	C	C	T	rs11538197	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	65	103	0	0.492424	0	C|0.797;T|0.203	0.203	strong	.	MRPS9	32	.	NM_182640	exon2	c.C315T	p.D105D	TATTGACGTAAGT	.	PASS	Atlas-SNP
IKBKAP	8518	hgsc.bcm.edu	37	9	111659483	111659483	+	Missense_Mutation	SNP	T	T	G	rs2230793	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	196	85	172	0	0.433673	0	T|0.728;G|0.272	0.272	strong	IKBKAP,NS,carcinoma,+2,1	IKBKAP	122	1	NM_003640	exon23	c.A2446C	p.I816L	GGTCTATTTTATT	.	PASS	Atlas-SNP
TREML2	79865	hgsc.bcm.edu	37	6	41166025	41166025	+	Silent	SNP	G	G	A	rs113267424	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	6	87	0	0.06	0	G|0.996;A|0.004	0.004	strong	TREML2,caecum,carcinoma,0,1	TREML2	41	1	NM_024807	exon2	c.C198T	p.G66G	GGCAAAGCCAGGC	.	scavenged	Atlas-SNP
PEG3	5178	hgsc.bcm.edu	37	19	57335022	57335022	+	Silent	SNP	G	G	A	rs1860565	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	37	70	0	0.45679	0	G|0.798;A|0.202	0.202	strong	.	PEG3	414	.	NM_001146184	exon4	c.C420T	p.S140S	GTCGTCGCTGGTC	.	PASS	Atlas-SNP
TSEN54	283989	hgsc.bcm.edu	37	17	73519758	73519758	+	Missense_Mutation	SNP	C	C	G	rs150169668	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	65	130	0	0.481481	0	C|0.991;G|0.009	0.009	strong	.	TSEN54	27	.	NM_207346	exon10	c.C1328G	p.S443C	AGAAGTCTGGGGG	.	PASS	Atlas-SNP
CASS4	57091	hgsc.bcm.edu	37	20	55028167	55028167	+	Silent	SNP	G	G	A	rs2870738	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	22	37	0	0.488889	0	G|0.681;A|0.319	0.319	strong	.	CASS4	121	.	NM_020356	exon5	c.G1935A	p.R645R	AAATAGGGCAAAT	.	PASS	Atlas-SNP
PCDHB7	56129	hgsc.bcm.edu	37	5	140554562	140554562	+	Missense_Mutation	SNP	A	A	T	rs2910314	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	35	79	0	0.318182	0	A|0.899;T|0.101	0.101	strong	.	PCDHB7	231	.	NM_018940	exon1	c.A2146T	p.R716W	AGGAGCAGGGCGG	.	PASS	Atlas-SNP
ZNF773	374928	hgsc.bcm.edu	37	19	58017758	58017758	+	Missense_Mutation	SNP	G	G	C	rs55823456	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	57	87	0	0.491379	0	G|0.790;C|0.210	0.210	strong	.	ZNF773	62	.	NM_198542	exon4	c.G295C	p.A99P	GCAGCTGCTGAGC	.	PASS	Atlas-SNP
ELF5	2001	hgsc.bcm.edu	37	11	34502345	34502345	+	Silent	SNP	T	T	C	rs2231828	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	194	193	1	1	0.00518135	T|0.745;C|0.255	0.255	strong	.	ELF5	21	.	NM_198381	exon6	c.A675G	p.T225T	TTCATATGTCATT	.	PASS	Atlas-SNP
GPR133	283383	hgsc.bcm.edu	37	12	131590404	131590404	+	Silent	SNP	G	G	A	rs4759544	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	16	10	26	0	0.625	0	G|0.798;A|0.202	0.202	strong	.	GPR133	136	.	NM_198827	exon17	c.G1881A	p.P627P	CGAGCCGGGCACG	.	PASS	Atlas-SNP
NPHP4	261734	hgsc.bcm.edu	37	1	5935096	5935096	+	Missense_Mutation	SNP	C	C	T	rs183885357	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	33	61	0	0.458333	0	C|0.996;T|0.004	0.004	strong	.	NPHP4	119	.	NM_015102	exon21	c.G2882A	p.R961H	TTCGTGCGTTCCC	.	PASS	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	37	1	22169926	22169926	+	Silent	SNP	G	G	A	rs62642513	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	62	110	0	0.449275	0	G|0.935;A|0.065	0.065	strong	.	HSPG2	311	.	NM_005529	exon66	c.C8622T	p.H2874H	TGGGCCGTGGACC	.	PASS	Atlas-SNP
POTEM	641455	hgsc.bcm.edu	37	14	19990641	19990641	+	Silent	SNP	C	C	T	rs2845178	bycluster;by2hit2allele;byhapmap	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	690	153	809	0	0.221739	0	C|1.000;|0.000	.	weak	POTEM_ENST00000551509,NS,carcinoma,0,2	POTEM	51	2	NM_001145442	exon10	c.G1434A	p.K478K	AAGTTGCTTCTGA	.	scavenged	Atlas-SNP
ADAMTS17	170691	hgsc.bcm.edu	37	15	100794363	100794363	+	Silent	SNP	C	C	T	rs4369638	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	46	95	0	0.522727	0	C|0.238;T|0.762	0.762	strong	.	ADAMTS17	127	.	NM_139057	exon7	c.G1053A	p.K351K	TTCATCCTTGTGT	.	PASS	Atlas-SNP
RBM19	9904	hgsc.bcm.edu	37	12	114377835	114377835	+	Missense_Mutation	SNP	A	A	G	rs2290788	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	31	97	0	0.402597	0	A|0.832;G|0.168	0.168	strong	.	RBM19	117	.	NM_001146699	exon15	c.T1868C	p.I623T	GCAGTGATTCCGC	.	PASS	Atlas-SNP
KLHL36	79786	hgsc.bcm.edu	37	16	84695490	84695490	+	Silent	SNP	C	C	T	rs12928590	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	32	54	0	0.615385	0	C|0.807;T|0.193	0.193	strong	.	KLHL36	51	.	NM_024731	exon5	c.C1602T	p.H534H	GCTGCACGCCAAC	.	PASS	Atlas-SNP
FRG2B	441581	hgsc.bcm.edu	37	10	135438951	135438951	+	Silent	SNP	G	G	A	rs200483318	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	354	138	369	1	0.38983	0.00271003	.	.	weak	.	FRG2B	47	.	NM_001080998	exon4	c.C489T	p.A163A	TCCTAGGGCCCGA	.	PASS	Atlas-SNP
ZNF682	91120	hgsc.bcm.edu	37	19	20133846	20133846	+	Missense_Mutation	SNP	C	C	T	rs7255165	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	57	122	0	0.401408	0	C|0.801;T|0.199	0.199	strong	.	ZNF682	51	.	NM_033196	exon3	c.G193A	p.V65M	TCTTCACATTCCA	.	PASS	Atlas-SNP
XPNPEP2	7512	hgsc.bcm.edu	37	X	128880614	128880614	+	Silent	SNP	T	T	C	rs3747343	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	191	179	0	0.940887	0	T|0.456;C|0.544	0.544	strong	.	XPNPEP2	84	.	NM_003399	exon6	c.T447C	p.P149P	GATTCCTGCTGGA	.	PASS	Atlas-SNP
SLC47A1	55244	hgsc.bcm.edu	37	17	19474875	19474875	+	Missense_Mutation	SNP	C	C	T	rs111653425	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	92	170	0	0.528736	0	C|0.995;T|0.005	0.005	strong	.	SLC47A1	55	.	NM_018242	exon15	c.C1394T	p.A465V	AAAAAGCCTGTCA	.	PASS	Atlas-SNP
FRAS1	80144	hgsc.bcm.edu	37	4	79421011	79421011	+	Silent	SNP	G	G	T	rs11933630	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	243	127	202	1	0.522634	0.00495049	G|0.885;T|0.115	0.115	strong	.	FRAS1	779	.	NM_025074	exon61	c.G9252T	p.R3084R	CACGCGGGATGGC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	34	81	0	0.419753	0	C|0.598;A|0.402	0.402	strong	.	RSU1	31	.	NM_012425	exon5	c.G351T	p.T117T	GTTGTACGTCAAG	.	PASS	Atlas-SNP
CYP39A1	51302	hgsc.bcm.edu	37	6	46563779	46563779	+	Missense_Mutation	SNP	C	C	T	rs147961800	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	316	143	324	1	0.452532	0.00308642	C|0.999;T|0.001	0.001	strong	CYP39A1,caecum,carcinoma,-1,1	CYP39A1	41	1	NM_016593	exon8	c.G1010A	p.R337H	TTTAAACGAATGG	.	PASS	Atlas-SNP
ANO1	55107	hgsc.bcm.edu	37	11	69934085	69934085	+	Silent	SNP	G	G	A	rs10898112	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	158	112	0	0.993711	0	G|0.801;A|0.199	0.199	strong	.	ANO1	156	.	NM_018043	exon2	c.G336A	p.S112S	AGGCTCGGGGGAG	.	PASS	Atlas-SNP
ETAA1	54465	hgsc.bcm.edu	37	2	67632125	67632125	+	Missense_Mutation	SNP	C	C	T	rs3770655	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	62	129	1	0.31	0.00775194	C|0.244;T|0.756	0.756	strong	ETAA1,NS,carcinoma,-1,2	ETAA1	88	2	NM_019002	exon5	c.C2311T	p.P771S	GTTCTTCCAGGAA	.	scavenged	Atlas-SNP
POTEF	728378	hgsc.bcm.edu	37	2	130832545	130832545	+	Missense_Mutation	SNP	C	C	T	rs199777567	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	73	217	0	0.503448	0	C|0.993;T|0.007	0.007	strong	.	POTEF	140	.	NM_001099771	exon17	c.G2500A	p.V834M	TGGCCACGTACAT	.	PASS	Atlas-SNP
UCP2	7351	hgsc.bcm.edu	37	11	73689104	73689104	+	Missense_Mutation	SNP	G	G	A	rs660339	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	52	80	0	0.5	0	G|0.573;T|0.004	.	strong	.	UCP2	24	.	NM_003355	exon4	c.C164T	p.A55V	GCGCTGGCTGTAG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179451420	179451420	+	Missense_Mutation	SNP	G	G	A	rs2042996	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	250	127	235	0	0.508	0	G|0.553;N|0.000	.	strong	.	TTN	18412	.	NM_001267550	exon308	c.C64208T	p.T21403I	TAACTAGTGATGT	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31323128	31323128	+	Silent	SNP	A	A	G	rs41551014		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	47	100	0	0.265537	0	.	.	weak	.	HLA-B	54	.	NM_005514	exon4	c.T861C	p.H287H	CCCCTCATGCTGT	.	PASS	Atlas-SNP
BAI2	576	hgsc.bcm.edu	37	1	32221913	32221913	+	Silent	SNP	G	G	A	rs4949223	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	69	100	0	0.547619	0	G|0.896;A|0.104	0.104	strong	.	BAI2	128	.	NM_001703	exon4	c.C525T	p.P175P	GGCAGCGGGCGCC	.	PASS	Atlas-SNP
WDPCP	51057	hgsc.bcm.edu	37	2	63660902	63660902	+	Missense_Mutation	SNP	C	C	T	rs17617459	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	73	74	0	0.640351	0	C|0.970;T|0.030	0.030	strong	.	WDPCP	79	.	NM_015910	exon9	c.G802A	p.G268S	CATAACCCAGGAG	.	PASS	Atlas-SNP
WRN	7486	hgsc.bcm.edu	37	8	30924557	30924557	+	Silent	SNP	C	C	T	rs1800389	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	74	116	0	0.496644	0	C|0.321;T|0.679	0.679	strong	.	WRN	116	.	NM_000553	exon6	c.C513T	p.C171C	GAAATGCACAGAG	.	PASS	Atlas-SNP
OR2T4	127074	hgsc.bcm.edu	37	1	248525193	248525193	+	Missense_Mutation	SNP	C	C	T	rs77270073		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	876	225	797	2	0.256849	0.00250941	.	.	weak	OR2T4,NS,carcinoma,-1,2	OR2T4	126	2	NM_001004696	exon1	c.C311T	p.A104V	ACATGGCGTACAT	.	scavenged	Atlas-SNP
TRHDE	29953	hgsc.bcm.edu	37	12	73014917	73014917	+	Silent	SNP	A	A	G	rs7139238	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	43	78	0	0.518072	0	A|0.784;G|0.216	0.216	strong	.	TRHDE	194	.	NM_013381	exon14	c.A2364G	p.T788T	AACAACATATATC	.	PASS	Atlas-SNP
MOGAT2	80168	hgsc.bcm.edu	37	11	75428958	75428958	+	Missense_Mutation	SNP	A	A	G	rs554202	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	220	109	181	0	0.495455	0	A|0.591;G|0.408	0.408	strong	.	MOGAT2	49	.	NM_025098	exon1	c.A25G	p.M9V	TTGTTTATGCCGT	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239601	31239601	+	Missense_Mutation	SNP	C	C	T	rs281860337	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	25	73	0	0.510204	0	T|0.034;C|0.966	0.034	weak	.	HLA-C	92	.	NM_002117	exon2	c.G118A	p.G40S	CGCGGCCGGGCCG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9057896	9057896	+	Missense_Mutation	SNP	G	G	C	rs12984471	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	205	205	175	0	1	0	G|0.760;C|0.240	0.240	strong	.	MUC16	4315	.	NM_024690	exon3	c.C29550G	p.D9850E	GGTATCGTCCACA	.	PASS	Atlas-SNP
MSH3	4437	hgsc.bcm.edu	37	5	80109479	80109479	+	Missense_Mutation	SNP	T	T	G	rs41545019	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	229	120	196	1	0.524017	0.00510204	T|0.997;G|0.003	0.003	strong	.	MSH3	129	.	NM_002439	exon20	c.T2732G	p.L911W	TTGCATTGATTAC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	67	101	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
HLA-C	3107	hgsc.bcm.edu	37	6	31239378	31239378	+	Missense_Mutation	SNP	T	T	G	rs1131123	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	117	116	0	0.983193	0	T|0.538;G|0.462	0.462	strong	.	HLA-C	92	.	NM_002117	exon2	c.A341C	p.D114A	TCACCGTCCTCGC	.	PASS	Atlas-SNP
RAD54B	25788	hgsc.bcm.edu	37	8	95399331	95399331	+	Silent	SNP	G	G	A	rs28605692	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	226	96	216	0	0.424779	0	G|0.975;A|0.025	0.025	strong	.	RAD54B	88	.	NM_012415	exon11	c.C1866T	p.G622G	TAGCAAGCCTTTG	.	PASS	Atlas-SNP
DMGDH	29958	hgsc.bcm.edu	37	5	78338202	78338202	+	Missense_Mutation	SNP	T	T	C	rs77116243	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	204	96	177	0	0.470588	0	T|0.990;C|0.010	0.010	strong	.	DMGDH	88	.	NM_013391	exon7	c.A1097G	p.N366S	ACAACATTGATGA	.	PASS	Atlas-SNP
EFCAB6	64800	hgsc.bcm.edu	37	22	44178103	44178103	+	Silent	SNP	T	T	C	rs74957153	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	58	110	0	0.495726	0	T|0.921;C|0.079	0.079	strong	.	EFCAB6	177	.	NM_022785	exon3	c.A96G	p.V32V	TGAATATACTCTA	.	PASS	Atlas-SNP
C9orf139	401563	hgsc.bcm.edu	37	9	139929435	139929435	+	Missense_Mutation	SNP	A	A	G	rs12337910	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	34	78	0	0.523077	0	A|0.906;G|0.094	0.094	strong	.	C9orf139	12	.	NM_207511	exon3	c.A502G	p.K168E	GAAAGAAAAGGGC	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31237786	31237786	+	Silent	SNP	A	A	T	rs41556617	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	68	297	1	0.985507	0.003367	A|0.263;T|0.737	0.737	strong	.	HLA-C	92	.	NM_002117	exon5	c.T972A	p.L324L	AGCTCCAAGGACA	.	PASS	Atlas-SNP
NIN	51199	hgsc.bcm.edu	37	14	51204996	51204996	+	Silent	SNP	C	C	T	rs11376	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	294	128	264	1	0.435374	0.00378788	C|0.452;T|0.548	0.548	strong	.	NIN	475	.	NM_020921	exon27	c.G5637A	p.Q1879Q	TTCCAACTGACGG	.	PASS	Atlas-SNP
OSBPL10	114884	hgsc.bcm.edu	37	3	31725316	31725316	+	Silent	SNP	G	G	A	rs2278959	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	74	120	0	0.471338	0	G|0.754;A|0.246	0.246	strong	.	OSBPL10	160	.	NM_017784	exon8	c.C1536T	p.H512H	GTGTTCGTGACAG	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954978	30954978	+	Silent	SNP	C	C	T	rs149178110	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	29	85	1	0.216418	0.0117647	C|0.924;T|0.076	0.076	strong	MUC21,NS,carcinoma,+1,1	MUC21	98	1	NM_001010909	exon2	c.C1026T	p.A342A	TGGGGCCAGCACA	.	scavenged	Atlas-SNP
SYT10	341359	hgsc.bcm.edu	37	12	33579408	33579408	+	Silent	SNP	A	A	T	rs10844596	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	32	53	0	0.507937	0	A|0.868;T|0.132	0.132	strong	.	SYT10	109	.	NM_198992	exon2	c.T174A	p.A58A	AACGACAGCTAAC	.	PASS	Atlas-SNP
SIRT5	23408	hgsc.bcm.edu	37	6	13599303	13599303	+	Silent	SNP	C	C	T	rs3757261	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	49	71	0	0.485149	0	C|0.829;T|0.171	0.171	strong	SIRT5_ENST00000379262,caecum,carcinoma,0,2	SIRT5	45	2	NM_012241	exon8	c.C657T	p.H219H	ACCTCACGTCGTG	.	PASS	Atlas-SNP
TMEM123	114908	hgsc.bcm.edu	37	11	102272839	102272839	+	Missense_Mutation	SNP	C	C	A	rs11547915	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	428	172	426	1	0.401869	0.00234742	C|0.963;A|0.037	0.037	strong	.	TMEM123	16	.	NM_052932	exon3	c.G256T	p.V86F	TGGTGACCGTTGT	.	PASS	Atlas-SNP
NOTCH4	4855	hgsc.bcm.edu	37	6	32189032	32189032	+	Silent	SNP	T	T	C	rs415929	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	44	80	0	0.463158	0	T|0.703;C|0.297	0.297	strong	.	NOTCH4	201	.	NM_004557	exon4	c.A522G	p.T174T	GGGGTATGTGGCC	.	PASS	Atlas-SNP
ANKRD26	22852	hgsc.bcm.edu	37	10	27381349	27381349	+	Silent	SNP	T	T	C	rs2297145	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	65	24	64	0	0.369231	0	T|0.691;C|0.309	0.309	strong	.	ANKRD26	179	.	NM_014915	exon4	c.A624G	p.V208V	CTTATCTACTGCA	.	PASS	Atlas-SNP
SMC6	79677	hgsc.bcm.edu	37	2	17884495	17884495	+	Missense_Mutation	SNP	C	C	T	rs1065381	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	37	100	0	0.402174	0	C|0.738;T|0.262	0.262	strong	.	SMC6	102	.	NM_001142286	exon19	c.G2071A	p.A691T	CAAGGGCAGATAA	.	PASS	Atlas-SNP
FMN1	342184	hgsc.bcm.edu	37	15	33357262	33357262	+	Missense_Mutation	SNP	A	A	G	rs2306277	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	91	166	0	0.491892	0	G|0.444;N|0.000	0.444	strong	FMN1_ENST00000334528,NS,carcinoma,0,1	FMN1	174	1	NM_001103184	exon2	c.T1388C	p.L463P	TCAGTCAGGCTGT	.	PASS	Atlas-SNP
SLX4	84464	hgsc.bcm.edu	37	16	3639827	3639827	+	Missense_Mutation	SNP	G	G	A	rs3810813	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	37	19	48	0	0.513514	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
PTCH1	5727	hgsc.bcm.edu	37	9	98238379	98238379	+	Silent	SNP	A	A	G	rs1805155	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	43	17	36	0	0.395349	0	A|0.874;G|0.126	0.126	strong	.	PTCH1	1850	.	NM_000264	exon12	c.T1665C	p.N555N	TGTGACATTGCTG	.	PASS	Atlas-SNP
BRCA1	672	hgsc.bcm.edu	37	17	41244435	41244435	+	Missense_Mutation	SNP	T	T	C	rs16941	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	241	110	213	0	0.456432	0	T|0.716;C|0.284	0.284	strong	.	BRCA1	304	.	NM_007300	exon10	c.A3113G	p.E1038G	CTGGCTTCTTTAA	.	PASS	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	37	1	22159774	22159774	+	Silent	SNP	G	G	A	rs2229486	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	57	82	0	0.522936	0	T|0.000;G|0.907;C|0.000;A|0.093	0.093	strong	.	HSPG2	311	.	NM_005529	exon80	c.C11082T	p.P3694P	TGAGTCGGGCCGG	.	PASS	Atlas-SNP
CAV2	858	hgsc.bcm.edu	37	7	116146074	116146074	+	Missense_Mutation	SNP	C	C	G	rs8940	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	261	120	208	0	0.45977	0	C|0.830;G|0.170	0.170	strong	.	CAV2	10	.	NM_001233	exon3	c.C388G	p.Q130E	TCAGTGCAGACAA	.	PASS	Atlas-SNP
MYOM1	8736	hgsc.bcm.edu	37	18	3215156	3215156	+	Silent	SNP	C	C	G	rs1662316	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	56	101	0	0.54902	0	C|0.891;G|0.109	0.109	strong	.	MYOM1	192	.	NM_003803	exon2	c.G66C	p.V22V	GCTGCGCACGTCC	.	PASS	Atlas-SNP
ACTN2	88	hgsc.bcm.edu	37	1	236925844	236925844	+	Silent	SNP	G	G	A	rs12063382	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	60	96	0	0.483871	0	G|0.832;A|0.168	0.168	strong	.	ACTN2	191	.	NM_001103	exon21	c.G2610A	p.S870S	CTACTCGGGCCCA	.	PASS	Atlas-SNP
MTRR	4552	hgsc.bcm.edu	37	5	7897061	7897061	+	Silent	SNP	T	T	C	rs6874544	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	379	189	370	1	0.498681	0.0027027	T|0.981;C|0.019	0.019	strong	.	MTRR	74	.	NM_024010	exon13	c.T1842C	p.Y614Y	GGATTATCTATTC	.	PASS	Atlas-SNP
DGCR6	8214	hgsc.bcm.edu	37	22	18898468	18898468	+	Missense_Mutation	SNP	G	G	A	rs139729355	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	46	105	0	0.45098	0	G|0.997;A|0.003	0.003	strong	.	DGCR6	12	.	NM_005675	exon4	c.G440A	p.R147Q	TGGACCGGAAGGT	.	PASS	Atlas-SNP
SBNO2	22904	hgsc.bcm.edu	37	19	1122201	1122201	+	Silent	SNP	G	G	A	rs62131221	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	52	106	0	0.481481	0	G|0.909;A|0.091	0.091	strong	.	SBNO2	112	.	NM_014963	exon11	c.C1086T	p.G362G	CTGGCCGCCGGCC	.	PASS	Atlas-SNP
C10orf62	414157	hgsc.bcm.edu	37	10	99350017	99350017	+	Missense_Mutation	SNP	G	G	C	rs7093840	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	20	18	37	0	0.9	0	G|0.706;C|0.294	0.294	strong	.	C10orf62	14	.	NM_001009997	exon1	c.G363C	p.E121D	TGATGAGGCCACG	.	PASS	Atlas-SNP
GALNT14	79623	hgsc.bcm.edu	37	2	31348076	31348076	+	Missense_Mutation	SNP	G	G	A	rs41280621	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	29	57	0	0.508772	0	G|0.994;A|0.006	0.006	strong	.	GALNT14	103	.	NM_001253826	exon2	c.C173T	p.A58V	TGAGGCGCCCAAG	.	PASS	Atlas-SNP
SIM2	6493	hgsc.bcm.edu	37	21	38117308	38117308	+	Missense_Mutation	SNP	C	C	A	rs2073601	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	81	115	0	0.591241	0	C|0.777;A|0.223	0.223	strong	.	SIM2	55	.	NM_005069	exon10	c.C1447A	p.L483M	AGCACACTGCCAG	.	PASS	Atlas-SNP
IFI44L	10964	hgsc.bcm.edu	37	1	79095581	79095581	+	Missense_Mutation	SNP	T	T	C	rs987495	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	49	94	0	0.515789	0	T|0.785;G|0.001	.	strong	IFI44L,NS,carcinoma,-1,1	IFI44L	93	1	NM_006820	exon4	c.T704C	p.I235T	CTGATATCACCAG	.	PASS	Atlas-SNP
HNF4G	3174	hgsc.bcm.edu	37	8	76468282	76468282	+	Missense_Mutation	SNP	G	G	A	rs1805098	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	127	168	0	1	0	G|0.338;A|0.662	0.662	strong	.	HNF4G	111	.	NM_004133	exon6	c.G681A	p.M227I	CATGATGTATAAA	.	PASS	Atlas-SNP
PPARG	5468	hgsc.bcm.edu	37	3	12393125	12393125	+	Missense_Mutation	SNP	C	C	G	rs1801282	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	137	156	0	0.992754	0	C|0.921;G|0.079	0.079	strong	.	PPARG	49	.	NM_015869	exon1	c.C34G	p.P12A	ATTGACCCAGAAA	.	PASS	Atlas-SNP
OPA1	4976	hgsc.bcm.edu	37	3	193364872	193364872	+	Silent	SNP	A	A	C	rs78767626	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	31	19	36	0	0.612903	0	A|0.971;C|0.029	0.029	strong	.	OPA1	79	.	NM_130837	exon19	c.A1773C	p.A591A	AAAGGCACACCAA	.	PASS	Atlas-SNP
SIK3	23387	hgsc.bcm.edu	37	11	116728630	116728630	+	Missense_Mutation	SNP	G	G	C	rs12225230	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	181	74	149	0	0.40884	0	G|0.841;C|0.159	0.159	strong	.	SIK3	112	.	NM_025164	exon20	c.C3233G	p.P1078R	GATTCAGGGTCCC	.	PASS	Atlas-SNP
FBXO34	55030	hgsc.bcm.edu	37	14	55818403	55818403	+	Missense_Mutation	SNP	T	T	C	rs35070799	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	220	110	185	0	0.5	0	T|0.945;C|0.055	0.055	strong	.	FBXO34	61	.	NM_017943	exon2	c.T1295C	p.V432A	ATGCTGTTGATTG	.	PASS	Atlas-SNP
NEUROD1	4760	hgsc.bcm.edu	37	2	182543455	182543455	+	Missense_Mutation	SNP	T	T	C	rs1801262	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	148	104	2	0.993289	0.0192308	T|0.295;C|0.705	0.705	strong	NEUROD1,NS,adenoma,0,1	NEUROD1	67	1	NM_002500	exon2	c.A133G	p.T45A	TCATGGTTTCGAG	.	scavenged	Atlas-SNP
PGAM2	5224	hgsc.bcm.edu	37	7	44104896	44104896	+	Nonsense_Mutation	SNP	C	C	T	rs10250779	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	66	103	0	0.511628	0	C|0.997;T|0.003	0.003	strong	.	PGAM2	20	.	NM_000290	exon1	c.G233A	p.W78X	GGCAGCCACATCT	.	PASS	Atlas-SNP
DLC1	10395	hgsc.bcm.edu	37	8	12958025	12958025	+	Silent	SNP	C	C	A	rs3739298	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	15	32	0	0.5	0	C|0.703;A|0.297	0.297	strong	.	DLC1	411	.	NM_182643	exon9	c.G1821T	p.A607A	GGGGGGCGCGTGG	.	PASS	Atlas-SNP
PDE6C	5146	hgsc.bcm.edu	37	10	95381773	95381773	+	Missense_Mutation	SNP	T	T	A	rs701865	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	6	79	0	0.125	0	A|0.403;N|0.000	0.403	strong	.	PDE6C	97	.	NM_006204	exon4	c.T808A	p.S270T	GTTAGATCATATC	.	PASS	Atlas-SNP
TBC1D1	23216	hgsc.bcm.edu	37	4	38054737	38054737	+	Missense_Mutation	SNP	C	C	T	rs58983546	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	340	164	316	0	0.482353	0	C|0.910;T|0.090	0.090	strong	.	TBC1D1	94	.	NM_001253912	exon13	c.C2083T	p.R695C	TCCTACCGTAATG	.	PASS	Atlas-SNP
AJUBA	84962	hgsc.bcm.edu	37	14	23444084	23444084	+	Silent	SNP	C	C	T	rs61737805	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	51	85	0	0.421488	0	C|0.953;T|0.047	0.047	strong	.	.	.	.	NM_032876	exon6	c.G1386A	p.K462K	TGCACACTTAGGA	.	PASS	Atlas-SNP
POM121L12	285877	hgsc.bcm.edu	37	7	53103673	53103673	+	Silent	SNP	C	C	A	rs1184320	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	12	6	15	0	0.5	0	C|0.563;A|0.437	0.437	strong	.	POM121L12	146	.	NM_182595	exon1	c.C309A	p.P103P	CCTTCCCGGGGAG	.	PASS	Atlas-SNP
MICA	100507436	hgsc.bcm.edu	37	6	31379043	31379043	+	Missense_Mutation	SNP	A	A	G	rs41560824	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	79	145	0	0.509677	0	A|0.977;G|0.023	0.023	strong	.	MICA	21	.	NM_001177519	exon3	c.A520G	p.M174V	GATGCCATGAAGA	.	PASS	Atlas-SNP
ZNF618	114991	hgsc.bcm.edu	37	9	116770785	116770785	+	Silent	SNP	G	G	A	rs3748182	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	111	104	0	0.991071	0	G|0.655;A|0.345	0.345	strong	.	ZNF618	184	.	NM_133374	exon8	c.G609A	p.T203T	GGCCACGGACGAG	.	PASS	Atlas-SNP
KIF24	347240	hgsc.bcm.edu	37	9	34306410	34306410	+	Missense_Mutation	SNP	C	C	A	rs17350674	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	238	93	258	1	0.390756	0.00387597	C|0.891;A|0.109	0.109	strong	.	KIF24	64	.	NM_194313	exon3	c.G653T	p.W218L	TCAGTCCAAGGAT	.	PASS	Atlas-SNP
SP110	3431	hgsc.bcm.edu	37	2	231077112	231077112	+	Missense_Mutation	SNP	G	G	A	rs28930679	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	241	104	246	1	0.431535	0.00406504	G|0.797;A|0.203	0.203	strong	.	SP110	105	.	NM_001185015	exon6	c.C635T	p.A212V	TCTTCCGCATTCA	.	PASS	Atlas-SNP
CCDC135	84229	hgsc.bcm.edu	37	16	57756643	57756643	+	Missense_Mutation	SNP	C	C	T	rs3809611	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	43	67	0	0.5	0	C|0.781;T|0.218	0.218	strong	CCDC135,NS,carcinoma,-1,1	CCDC135	97	1	NM_032269	exon10	c.C1298T	p.P433L	GCTGCCCGAACGG	.	PASS	Atlas-SNP
PGM2	55276	hgsc.bcm.edu	37	4	37836302	37836302	+	Silent	SNP	T	T	C	rs3752683	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	306	157	297	0	0.513072	0	T|0.651;C|0.349	0.349	strong	.	PGM2	45	.	NM_018290	exon3	c.T312C	p.S104S	GATCAGTTTTGAC	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	716273	716273	+	Missense_Mutation	SNP	T	T	C	rs11866949	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	125	63	89	0	0.504	0	T|0.694;C|0.306	0.306	strong	.	WDR90	107	.	NM_145294	exon37	c.T4663C	p.C1555R	CACCCCTGCACAG	.	PASS	Atlas-SNP
WDR11	55717	hgsc.bcm.edu	37	10	122665459	122665459	+	Silent	SNP	C	C	G	rs3740307	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	53	111	0	0.407692	0	C|0.885;G|0.115	0.115	strong	WDR11,NS,carcinoma,0,1	WDR11	95	1	NM_018117	exon27	c.C3363G	p.V1121V	ACAAGTCAATCAG	.	PASS	Atlas-SNP
MYH6	4624	hgsc.bcm.edu	37	14	23874507	23874507	+	Silent	SNP	G	G	T	rs2277473	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	56	108	0	0.459016	0	A|0.000;C|0.007	.	strong	.	MYH6	274	.	NM_002471	exon5	c.C427A	p.R143R	TGCCCCGGTAGGC	.	PASS	Atlas-SNP
MOCOS	55034	hgsc.bcm.edu	37	18	33831189	33831189	+	Missense_Mutation	SNP	C	C	A	rs594445	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	31	69	0	0.5	0	C|0.776;A|0.224	0.224	strong	.	MOCOS	84	.	NM_017947	exon11	c.C2107A	p.H703N	CCTTGTCATTTGA	.	PASS	Atlas-SNP
VEPH1	79674	hgsc.bcm.edu	37	3	156983375	156983375	+	Silent	SNP	C	C	T	rs75175345	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	60	143	0	0.387097	0	C|0.989;T|0.011	0.011	strong	.	VEPH1	129	.	NM_001167912	exon13	c.G2205A	p.R735R	TTTCCACCTTTTG	.	PASS	Atlas-SNP
IQCE	23288	hgsc.bcm.edu	37	7	2649777	2649777	+	Missense_Mutation	SNP	C	C	T	rs1061566	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	237	97	166	0	0.409283	0	C|0.919;T|0.081	0.081	strong	.	IQCE	66	.	NM_152558	exon22	c.C2069T	p.T690M	TGCCCACGAAGAA	.	PASS	Atlas-SNP
ADAMTS16	170690	hgsc.bcm.edu	37	5	5146377	5146377	+	Missense_Mutation	SNP	T	T	C	rs1019747	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	54	68	0	0.556701	0	T|0.532;C|0.468	0.468	strong	.	ADAMTS16	543	.	NM_139056	exon3	c.T310C	p.S104P	AAAGGCTCCAGGC	.	PASS	Atlas-SNP
PPP2R3A	5523	hgsc.bcm.edu	37	3	135721781	135721781	+	Missense_Mutation	SNP	C	C	G	rs34901937	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	51	125	0	0.439655	0	C|0.945;G|0.055	0.055	strong	.	PPP2R3A	114	.	NM_002718	exon2	c.C1441G	p.P481A	AATCTACCTAAGG	.	PASS	Atlas-SNP
CAP2	10486	hgsc.bcm.edu	37	6	17514088	17514088	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	2	99	0	0.0166667	0	.	.	none	CAP2,NS,carcinoma,0,1	CAP2	61	1	NM_006366	exon7	c.G539A	p.R180H	ATTTGCGTCATGT	.	scavenged	Atlas-SNP
CDC5L	988	hgsc.bcm.edu	37	6	44413463	44413463	+	Silent	SNP	T	T	A	rs2273666	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	88	136	0	0.49162	0	T|0.878;A|0.122	0.122	strong	.	CDC5L	86	.	NM_001253	exon15	c.T2163A	p.L721L	TTTGCTTGGGGGT	.	PASS	Atlas-SNP
LPCAT3	10162	hgsc.bcm.edu	37	12	7092665	7092665	+	Missense_Mutation	SNP	A	A	G	rs34196984	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	45	98	1	0.511364	0.0102041	A|0.979;G|0.021	0.021	strong	LPCAT3,right_upper_lobe,carcinoma,+2,1	LPCAT3	33	1	NM_005768	exon2	c.T187C	p.F63L	TGTAGAAAAGGTA	.	scavenged	Atlas-SNP
CEP104	9731	hgsc.bcm.edu	37	1	3745924	3745924	+	Missense_Mutation	SNP	G	G	A	rs2275831	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	21	41	0	0.477273	0	G|0.873;A|0.127	0.127	strong	.	CEP104	79	.	NM_014704	exon15	c.C2057T	p.A686V	GTAGCCGCTTTTC	.	PASS	Atlas-SNP
UBR2	23304	hgsc.bcm.edu	37	6	42532102	42532102	+	Silent	SNP	C	C	T	rs3749897	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	70	192	0	0.454545	0	C|0.559;G|0.000;T|0.440	0.440	strong	.	UBR2	134	.	NM_001184801	exon1	c.C45T	p.S15S	CCGGAGCTTGCTG	.	PASS	Atlas-SNP
SORBS1	10580	hgsc.bcm.edu	37	10	97141487	97141487	+	Silent	SNP	G	G	A	rs61739184	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	72	86	0	0.911392	0	G|0.974;A|0.026	0.026	strong	SORBS1,NS,carcinoma,0,1	SORBS1	185	1	NM_001034955	exon16	c.C1674T	p.Y558Y	ATATTCGTAAATG	.	PASS	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	37	10	129905429	129905429	+	Missense_Mutation	SNP	C	C	T	rs7918199	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	352	158	262	0	0.448864	0	C|0.914;T|0.086	0.086	strong	MKI67,NS,carcinoma,0,1	MKI67	363	1	NM_002417	exon13	c.G4675A	p.V1559M	TCTGCACTGGAGT	.	PASS	Atlas-SNP
ATP13A2	23400	hgsc.bcm.edu	37	1	17313343	17313343	+	Silent	SNP	G	G	A	rs9435659	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	104	101	0	0.990476	0	G|0.606;A|0.394	0.394	strong	.	ATP13A2	85	.	NM_022089	exon27	c.C3192T	p.A1064A	GGACACGGCTGCA	.	PASS	Atlas-SNP
H2AFY	9555	hgsc.bcm.edu	37	5	134670741	134670741	+	Silent	SNP	C	C	T	rs3733728	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	342	163	293	0	0.476608	0	C|0.963;T|0.037	0.037	strong	.	H2AFY	61	.	NM_138610	exon9	c.G1044A	p.T348T	GTACACCGTTTTG	.	PASS	Atlas-SNP
NFIA	4774	hgsc.bcm.edu	37	1	61869783	61869783	+	Silent	SNP	G	G	A	rs2236059	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	212	209	201	0	0.985849	0	G|0.699;A|0.301	0.301	strong	.	NFIA	76	.	NM_001145512	exon9	c.G1218A	p.P406P	AAGTCCGCATGCA	.	PASS	Atlas-SNP
PIK3AP1	118788	hgsc.bcm.edu	37	10	98469507	98469507	+	Missense_Mutation	SNP	C	C	A	rs3748229	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	52	82	0	0.962963	0	C|0.621;A|0.379	0.379	strong	PIK3AP1,caecum,carcinoma,+2,1	PIK3AP1	111	1	NM_152309	exon2	c.G247T	p.A83S	GCAAGGCGGGCTT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	63	51	0	1	0	A|0.572;G|0.428	0.428	strong	.	PNPLA5	46	.	NM_138814	exon6	c.T856C	p.W286R	CCTTCCAGCGTTG	.	PASS	Atlas-SNP
POLQ	10721	hgsc.bcm.edu	37	3	121228960	121228960	+	Missense_Mutation	SNP	G	G	A	rs487848	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	255	117	269	1	0.458824	0.00371747	G|0.889;A|0.111	0.111	strong	.	POLQ	273	.	NM_199420	exon11	c.C1742T	p.A581V	TCAATCGCTCCAA	.	PASS	Atlas-SNP
MAOA	4128	hgsc.bcm.edu	37	X	43571197	43571197	+	Silent	SNP	A	A	C	rs1800464	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	79	60	0	0.822917	0	A|0.740;0|0.061	.	strong	.	MAOA	48	.	NM_000240	exon4	c.A385C	p.R129R	CTGTGGAGGACAA	.	PASS	Atlas-SNP
FLYWCH1	84256	hgsc.bcm.edu	37	16	2983138	2983138	+	Silent	SNP	C	C	T	rs2074363	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	44	53	0	0.977778	0	C|0.877;T|0.123	0.123	strong	.	FLYWCH1	27	.	NM_020912	exon5	c.C801T	p.A267A	ACAGGCCCGGCCC	.	PASS	Atlas-SNP
GEMIN5	25929	hgsc.bcm.edu	37	5	154307070	154307070	+	Missense_Mutation	SNP	G	G	C	rs35522740	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	79	133	0	0.490683	0	G|0.979;C|0.021	0.021	strong	.	GEMIN5	120	.	NM_015465	exon7	c.C955G	p.R319G	ATTTCCGTCTCCA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	216	102	263	0	0.472222	0	G|0.653;A|0.347	0.347	strong	.	TTC3	182	.	NM_001001894	exon40	c.G5115A	p.K1705K	AGCAAAGGTAAGT	.	PASS	Atlas-SNP
PRTG	283659	hgsc.bcm.edu	37	15	55964778	55964778	+	Missense_Mutation	SNP	C	C	G	rs149494002	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	66	128	0	0.434211	0	C|0.994;G|0.006	0.006	strong	.	PRTG	110	.	NM_173814	exon11	c.G1906C	p.V636L	ACCTCACAGAAAT	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31322910	31322910	+	Missense_Mutation	SNP	G	G	A	rs74189305	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	8	117	0	0.0597015	0	.	.	weak	HLA-B,NS,carcinoma,-1,7	HLA-B	54	7	NM_005514	exon5	c.C986T	p.A329V	ATCACAGCAGCGA	.	scavenged	Atlas-SNP
ATRN	8455	hgsc.bcm.edu	37	20	3624848	3624848	+	Silent	SNP	C	C	T	rs34398666	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	80	167	0	0.479042	0	C|0.897;T|0.103	0.103	strong	.	ATRN	118	.	NM_139321	exon28	c.C4098T	p.A1366A	CAAAGCCGCTGTC	.	PASS	Atlas-SNP
GTF2E1	2960	hgsc.bcm.edu	37	3	120500065	120500065	+	Silent	SNP	C	C	T	rs17243695	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	146	63	138	0	0.431507	0	C|0.990;T|0.010	0.010	strong	.	GTF2E1	52	.	NM_005513	exon5	c.C1068T	p.S356S	AGAAAGCGAGACC	.	PASS	Atlas-SNP
FLVCR2	55640	hgsc.bcm.edu	37	14	76045963	76045963	+	Silent	SNP	C	C	G	rs2287017	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	42	75	0	0.567568	0	C|0.621;G|0.379	0.379	strong	.	FLVCR2	39	.	NM_017791	exon1	c.C648G	p.S216S	CTGCTCCGTGGCT	.	PASS	Atlas-SNP
FBXO30	84085	hgsc.bcm.edu	37	6	146125793	146125793	+	Missense_Mutation	SNP	A	A	T	rs3811102	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	178	94	127	0	0.52809	0	A|0.672;T|0.328	0.328	strong	.	FBXO30	56	.	NM_032145	exon2	c.T1749A	p.H583Q	CCTCAAATGGCGG	.	PASS	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	37	10	16918972	16918972	+	Silent	SNP	A	A	G	rs1801241	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	46	113	0	0.484211	0	A|0.814;G|0.186	0.186	strong	CUBN,NS,carcinoma,0,1	CUBN	515	1	NM_001081	exon57	c.T9030C	p.A3010A	CGGCCCAGCGATG	.	PASS	Atlas-SNP
MERTK	10461	hgsc.bcm.edu	37	2	112765973	112765973	+	Silent	SNP	A	A	G	rs1131244	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	74	69	0	1	0	A|0.458;G|0.542	0.542	strong	.	MERTK	112	.	NM_006343	exon14	c.A1881G	p.S627S	CTCTTCACAGCGG	.	PASS	Atlas-SNP
KRTAP5-5	439915	hgsc.bcm.edu	37	11	1651169	1651169	+	Silent	SNP	T	T	C	rs71454095	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	30	30	55	1	1	0.0181818	T|0.509;C|0.491	0.491	strong	KRTAP5-5,rectum,carcinoma,0,2	KRTAP5-5	86	2	NM_001001480	exon1	c.T99C	p.S33S	TGGCTCTGGCTGT	.	scavenged	Atlas-SNP
MKX	283078	hgsc.bcm.edu	37	10	27964470	27964470	+	Silent	SNP	G	G	A	rs2253230	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	195	88	199	0	0.451282	0	G|0.693;A|0.307	0.307	strong	.	MKX	43	.	NM_001242702	exon6	c.C852T	p.N284N	GGATCCGTTTTCC	.	PASS	Atlas-SNP
TTC17	55761	hgsc.bcm.edu	37	11	43472746	43472746	+	Silent	SNP	C	C	T	rs11551137	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	38	63	0	0.463415	0	C|0.929;T|0.071	0.071	strong	.	TTC17	112	.	NM_018259	exon21	c.C2961T	p.L987L	AAATCTCGGCAAA	.	PASS	Atlas-SNP
OR8J3	81168	hgsc.bcm.edu	37	11	55904751	55904751	+	Silent	SNP	T	T	C	rs1947923	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	70	124	0	0.429448	0	T|0.925;C|0.075	0.075	strong	.	OR8J3	112	.	NM_001004064	exon1	c.A444G	p.T148T	GAGGTATGTGAGG	.	PASS	Atlas-SNP
SBNO2	22904	hgsc.bcm.edu	37	19	1110829	1110829	+	Silent	SNP	G	G	A	rs2302109	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	235	113	199	0	0.480851	0	G|0.461;A|0.539	0.539	strong	.	SBNO2	112	.	NM_014963	exon26	c.C2943T	p.N981N	CAGGGCGTTCTGC	.	PASS	Atlas-SNP
KIAA1683	80726	hgsc.bcm.edu	37	19	18375846	18375846	+	Missense_Mutation	SNP	G	G	A	rs2277921	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	34	16	25	0	0.470588	0	G|0.734;A|0.266	0.266	strong	KIAA1683_ENST00000392413,right_lower_lobe,carcinoma,+1,2	KIAA1683	190	2	NM_001145304	exon3	c.C2504T	p.P835L	GCCATCGGCGGCA	.	PASS	Atlas-SNP
ITGAD	3681	hgsc.bcm.edu	37	16	31418869	31418869	+	Silent	SNP	A	A	G	rs62001041	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	55	124	0	0.482456	0	A|0.961;G|0.039	0.039	strong	.	ITGAD	154	.	NM_005353	exon8	c.A738G	p.R246R	GGCCCGAAAAAGT	.	PASS	Atlas-SNP
ZNF248	57209	hgsc.bcm.edu	37	10	38120720	38120720	+	Silent	SNP	C	C	T	rs1779132	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	34	78	0	0.404762	0	C|0.937;T|0.063	0.063	strong	.	ZNF248	61	.	NM_001267597	exon6	c.G1563A	p.K521K	ATTACACTTATAT	.	PASS	Atlas-SNP
UPK3B	80761	hgsc.bcm.edu	37	7	76144483	76144483	+	Missense_Mutation	SNP	A	A	G	rs1636632	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	35	141	0	0.364583	0	A|0.673;G|0.327	0.327	strong	.	UPK3B	15	.	NM_030570	exon4	c.A878G	p.Q293R	GGCTGCAAGCCTG	.	PASS	Atlas-SNP
KIDINS220	57498	hgsc.bcm.edu	37	2	8871342	8871342	+	Missense_Mutation	SNP	C	C	A	rs1044280	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	68	106	0	0.478873	0	C|0.762;A|0.238	0.238	strong	.	KIDINS220	136	.	NM_020738	exon30	c.G4824T	p.Q1608H	TTCAAGCTGGGAG	.	PASS	Atlas-SNP
GGT1	2678	hgsc.bcm.edu	37	22	25023419	25023419	+	Silent	SNP	C	C	T	rs202087650	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	303	10	231	8	0.0330033	0.034632	C|0.989;T|0.011	0.011	strong	GGT1,NS,carcinoma,0,2	GGT1	68	2	NM_013430	exon12	c.C1041T	p.S347S	GACCTCCGAGTTC	.	scavenged	Atlas-SNP
STK32B	55351	hgsc.bcm.edu	37	4	5448429	5448429	+	Missense_Mutation	SNP	A	A	G	rs3733182	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	56	90	0	0.54902	0	A|0.824;G|0.176	0.176	strong	STK32B,right_upper_lobe,carcinoma,-1,2	STK32B	87	2	NM_018401	exon7	c.A592G	p.R198G	ATGGACAGAGGCC	.	PASS	Atlas-SNP
OR12D2	26529	hgsc.bcm.edu	37	6	29364643	29364643	+	Missense_Mutation	SNP	T	T	C	rs4987411	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	290	129	276	1	0.444828	0.00362319	T|0.630;C|0.370	0.370	strong	.	OR12D2	42	.	NM_013936	exon1	c.T167C	p.L56P	ATTCCCTTATGTA	.	PASS	Atlas-SNP
SYT8	90019	hgsc.bcm.edu	37	11	1858262	1858262	+	Missense_Mutation	SNP	C	C	T	rs484955	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	52	86	0	0.485981	0	C|0.863;T|0.137	0.137	strong	SYT8,colon,carcinoma,0,1	SYT8	29	1	NM_138567	exon8	c.C908T	p.T303M	AGGGCACGGCGGC	.	PASS	Atlas-SNP
DLEC1	9940	hgsc.bcm.edu	37	3	38151731	38151731	+	Silent	SNP	T	T	C	rs12630114	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	38	46	0	0.542857	0	C|0.467;N|0.000	0.467	strong	.	DLEC1	278	.	NM_007337	exon23	c.T3402C	p.Y1134Y	TGAGTATTTCGGG	.	PASS	Atlas-SNP
GJA9	81025	hgsc.bcm.edu	37	1	39340862	39340862	+	Silent	SNP	A	A	G	rs874243	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	290	287	263	0	0.989655	0	G|0.140;N|0.000	0.140	strong	.	GJA9	55	.	NM_030772	exon2	c.T909C	p.S303S	TACAGAAGATGAA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	196	187	0	0.98	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
FAM86B1	85002	hgsc.bcm.edu	37	8	12044264	12044264	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	320	27	297	0	0.084375	0	.	.	none	FAM86B1,NS,carcinoma,+2,1	FAM86B1	7	1	NM_001083537	exon4	c.G319A	p.A107T	GGGCGGCATCCCA	.	scavenged	Atlas-SNP
VAT1	10493	hgsc.bcm.edu	37	17	41174025	41174025	+	Silent	SNP	A	A	C	rs2070835	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	46	87	0	0.442308	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
FAT2	2196	hgsc.bcm.edu	37	5	150945699	150945699	+	Silent	SNP	G	G	A	rs10085060	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	217	217	267	0	1	0	G|0.529;A|0.471	0.471	strong	.	FAT2	465	.	NM_001447	exon1	c.C2794T	p.L932L	CCTTCAGCCTGTT	.	PASS	Atlas-SNP
FRAS1	80144	hgsc.bcm.edu	37	4	79205699	79205699	+	Missense_Mutation	SNP	T	T	A	rs12504081	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	438	434	446	1	0.990868	0.00224215	T|0.661;A|0.339	0.339	strong	.	FRAS1	779	.	NM_001166133	exon13	c.T1396A	p.L466I	CTCTGTTTAGGTA	.	PASS	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	37	1	240371075	240371075	+	Missense_Mutation	SNP	C	C	T	rs71646825	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	12	61	0	0.16	0	C|0.820;T|0.180	0.180	strong	.	FMN2	451	.	NM_020066	exon5	c.C2963T	p.P988L	TACCCCCTCCTCC	.	PASS	Atlas-SNP
TULP4	56995	hgsc.bcm.edu	37	6	158910743	158910743	+	Missense_Mutation	SNP	G	G	A	rs61742077	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	74	132	0	0.486842	0	G|0.996;A|0.004	0.004	strong	.	TULP4	137	.	NM_020245	exon9	c.G1610A	p.S537N	GAGCTAGCAAATC	.	PASS	Atlas-SNP
TMC3	342125	hgsc.bcm.edu	37	15	81665021	81665021	+	Missense_Mutation	SNP	T	T	A	rs76902501	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	215	117	192	0	0.544186	0	T|0.950;A|0.050	0.050	strong	.	TMC3	112	.	NM_001080532	exon2	c.A147T	p.Q49H	GAAGATTTGTTCC	.	PASS	Atlas-SNP
SLC35A3	23443	hgsc.bcm.edu	37	1	100472604	100472604	+	Silent	SNP	A	A	G	rs534252	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	55	21	46	0	0.381818	0	A|0.755;G|0.245	0.245	strong	.	SLC35A3	25	.	NM_001271685	exon4	c.A483G	p.L161L	TCAGTTAAAAATT	.	PASS	Atlas-SNP
PPP2R2C	5522	hgsc.bcm.edu	37	4	6325086	6325086	+	Silent	SNP	G	G	A	rs3796403	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	372	369	373	1	0.991935	0.00268097	G|0.407;A|0.593	0.593	strong	.	PPP2R2C	63	.	NM_181876	exon9	c.C1287T	p.I429I	GGCGGCGATGGCA	.	PASS	Atlas-SNP
PNPLA5	150379	hgsc.bcm.edu	37	22	44282307	44282307	+	Silent	SNP	G	G	A	rs739232	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	54	47	0	1	0	G|0.598;A|0.402	0.402	strong	.	PNPLA5	46	.	NM_138814	exon6	c.C825T	p.D275D	GTTTCCGTCAGCC	.	PASS	Atlas-SNP
ACADM	34	hgsc.bcm.edu	37	1	76227022	76227022	+	Silent	SNP	A	A	G	rs1061337	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	45	94	0	0.424528	0	A|0.777;G|0.223	0.223	strong	.	ACADM	50	.	NM_001127328	exon11	c.A1173G	p.V391V	TCCTGTAGAAAAA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9056941	9056941	+	Missense_Mutation	SNP	A	A	G	rs10410136	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	151	116	1	1	0.00862069	A|0.797;G|0.203	0.203	strong	.	MUC16	4315	.	NM_024690	exon3	c.T30505C	p.F10169L	TCCTAAATCCAGA	.	PASS	Atlas-SNP
FRS3	10817	hgsc.bcm.edu	37	6	41739173	41739173	+	Silent	SNP	C	C	T	rs35310379	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	35	60	0	0.486111	0	C|0.931;T|0.069	0.069	strong	.	FRS3	53	.	NM_006653	exon7	c.G663A	p.P221P	GGCCTGCGGGAGG	.	PASS	Atlas-SNP
PLA2G15	23659	hgsc.bcm.edu	37	16	68289739	68289739	+	Silent	SNP	C	C	T	rs76404867	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	85	120	0	0.505952	0	C|0.987;T|0.013	0.013	strong	.	PLA2G15	30	.	NM_012320	exon5	c.C573T	p.P191P	GGGCCCCGTGGTG	.	PASS	Atlas-SNP
GPR75-ASB3	100302652	hgsc.bcm.edu	37	2	53941579	53941579	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	2	87	0	0.0181818	0	.	.	none	ASB3,colon,carcinoma,0,1	.	.	1	NM_001164165	exon7	c.G1036A	p.A346T	CCTGGGCGTCTGG	.	scavenged	Atlas-SNP
UTRN	7402	hgsc.bcm.edu	37	6	145093052	145093052	+	Silent	SNP	A	A	G	rs80110270	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	19	11	17	0	0.578947	0	A|0.969;G|0.031	0.031	strong	UTRN,NS,carcinoma,+1,1	UTRN	327	1	NM_007124	exon58	c.A8505G	p.T2835T	TCAAACACAGACC	.	PASS	Atlas-SNP
RICTOR	253260	hgsc.bcm.edu	37	5	38955796	38955796	+	Missense_Mutation	SNP	G	G	A	rs2043112	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	70	155	0	0.469799	0	G|0.620;N|0.000	.	strong	.	RICTOR	182	.	NM_152756	exon26	c.C2510T	p.S837F	TATTTGGAGTTGT	.	PASS	Atlas-SNP
RFC5	5985	hgsc.bcm.edu	37	12	118465820	118465820	+	Silent	SNP	T	T	C	rs5745873	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	29	69	0	0.491525	0	T|0.884;C|0.116	0.116	strong	.	RFC5	35	.	NM_007370	exon9	c.T856C	p.L286L	ATACACTTGTTTG	.	PASS	Atlas-SNP
MBD1	4152	hgsc.bcm.edu	37	18	47800179	47800179	+	Missense_Mutation	SNP	G	G	C	rs125555	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	29	53	0	0.508772	0	G|0.819;C|0.181	0.181	strong	.	MBD1	228	.	NM_001204137	exon13	c.C1276G	p.P426A	AAGGTGGGGGCGA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	142	325	2	0.986111	0.00615385	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
DSP	1832	hgsc.bcm.edu	37	6	7581032	7581032	+	Missense_Mutation	SNP	C	C	T	rs28763967	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	28	72	0	0.345679	0	C|0.992;T|0.008	0.008	strong	.	DSP	306	.	NM_004415	exon23	c.C4609T	p.R1537C	CTGACACGCCTGA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	101	88	0	1	0	G|0.630;A|0.370	0.370	strong	.	TSPYL4	18	.	NM_021648	exon1	c.C717T	p.H239H	CTGCATGTGGAGC	.	PASS	Atlas-SNP
TUSC1	286319	hgsc.bcm.edu	37	9	25677698	25677698	+	Missense_Mutation	SNP	A	A	C	rs72631815	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	24	15	37	0	0.625	0	A|0.795;C|0.205	0.205	strong	.	TUSC1	7	.	NM_001004125	exon1	c.T622G	p.S208A	GCCCAGAGGGCTC	.	PASS	Atlas-SNP
BCAM	4059	hgsc.bcm.edu	37	19	45322744	45322744	+	Missense_Mutation	SNP	A	A	G	rs1135062	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	68	111	0	0.468966	0	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	.	PASS	Atlas-SNP
FPGT	8790	hgsc.bcm.edu	37	1	74670172	74670172	+	Silent	SNP	A	A	G	rs12046751	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	72	117	0	0.537313	0	A|0.697;G|0.303	0.303	strong	.	FPGT	77	.	NM_003838	exon4	c.A441G	p.K147K	ATTAAAACTAGCC	.	PASS	Atlas-SNP
PACSIN2	11252	hgsc.bcm.edu	37	22	43289473	43289473	+	Silent	SNP	G	G	A	rs5759013	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	58	47	0	0.983051	0	G|0.724;A|0.276	0.276	strong	PACSIN2,NS,carcinoma,-2,1	PACSIN2	48	1	NM_007229	exon3	c.C207T	p.L69L	CTCCACGAGCTGC	.	PASS	Atlas-SNP
CCHCR1	54535	hgsc.bcm.edu	37	6	31116210	31116210	+	Silent	SNP	G	G	A	rs130071	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	204	102	129	0	0.5	0	G|0.746;A|0.254	0.254	strong	.	CCHCR1	68	.	NM_001105564	exon10	c.C1552T	p.L518L	GCCTCAGCTGCTC	.	PASS	Atlas-SNP
SNX19	399979	hgsc.bcm.edu	37	11	130784694	130784694	+	Missense_Mutation	SNP	C	C	T	rs61736758	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	54	80	0	0.54	0	C|0.845;T|0.155	0.155	strong	.	SNX19	84	.	NM_014758	exon1	c.G1141A	p.G381S	CTTTGCCCAGTTC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179579212	179579212	+	Silent	SNP	T	T	C	rs2562838	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	80	89	0	0.551724	0	T|0.582;C|0.418	0.418	strong	.	TTN	18412	.	NM_001267550	exon91	c.A26289G	p.E8763E	AATGGGTTCAGCG	.	PASS	Atlas-SNP
ARID3A	1820	hgsc.bcm.edu	37	19	966693	966693	+	Silent	SNP	C	C	T	rs6510986	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	46	46	41	0	1	0	C|0.233;T|0.767	0.767	strong	.	ARID3A	35	.	NM_005224	exon7	c.C1320T	p.A440A	TGTGGCCGCACAG	.	PASS	Atlas-SNP
CHRM3	1131	hgsc.bcm.edu	37	1	240071447	240071447	+	Silent	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	3	112	0	0.0198676	0	.	.	none	CHRM3,NS,carcinoma,+2,1	CHRM3	118	1	NM_000740	exon5	c.T696C	p.T232T	CATTACTTTTGGC	.	scavenged	Atlas-SNP
OR8H3	390152	hgsc.bcm.edu	37	11	55890609	55890609	+	Missense_Mutation	SNP	C	C	T	rs61743026	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	248	101	249	0	0.407258	0	C|0.950;T|0.050	0.050	strong	.	OR8H3	92	.	NM_001005201	exon1	c.C761T	p.T254I	ATGGAACTATGAT	.	PASS	Atlas-SNP
SWT1	54823	hgsc.bcm.edu	37	1	185171869	185171869	+	Missense_Mutation	SNP	A	A	G	rs6698109	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	165	165	189	1	1	0.00529101	A|0.699;G|0.301	0.301	strong	.	SWT1	88	.	NM_017673	exon11	c.A1607G	p.H536R	TATTACACTTATC	.	PASS	Atlas-SNP
TMEM230	29058	hgsc.bcm.edu	37	20	5086939	5086939	+	Silent	SNP	A	A	T	rs6116651	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	34	89	0	0.404762	0	A|0.852;T|0.148	0.148	strong	.	.	.	.	NM_001009923	exon4	c.T306A	p.P102P	GATCTTAGGAGGG	.	PASS	Atlas-SNP
SIK1	150094	hgsc.bcm.edu	37	21	44846016	44846016	+	Missense_Mutation	SNP	C	C	T	rs3746951	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	43	27	50	0	0.627907	0	C|0.827;T|0.173	0.173	strong	.	SIK1	65	.	NM_173354	exon2	c.G43A	p.G15S	CCTGACCCTGGCC	.	PASS	Atlas-SNP
NCOR2	9612	hgsc.bcm.edu	37	12	124957627	124957627	+	Silent	SNP	C	C	T	rs10846679	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	35	64	0	0.486111	0	C|0.889;T|0.111	0.111	strong	.	NCOR2	475	.	NM_006312	exon6	c.G462A	p.P154P	AGTGTGCGGGGGG	.	PASS	Atlas-SNP
PCDHB8	56128	hgsc.bcm.edu	37	5	140558212	140558212	+	Missense_Mutation	SNP	A	A	C	rs76032682	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	471	141	226	0	0.299363	0	C|1.000;|0.000	1.000	weak	.	PCDHB8	199	.	NM_019120	exon1	c.A597C	p.K199N	GGACAAAGCGCTG	.	PASS	Atlas-SNP
WDR19	57728	hgsc.bcm.edu	37	4	39216221	39216221	+	Silent	SNP	C	C	T	rs2167494	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	52	129	0	0.419355	0	C|0.721;T|0.279	0.279	strong	.	WDR19	96	.	NM_025132	exon10	c.C891T	p.C297C	TTTCAGCATTAAA	.	PASS	Atlas-SNP
MCCC1	56922	hgsc.bcm.edu	37	3	182759360	182759360	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	2	171	0	0.0107527	0	.	.	none	MCCC1,NS,carcinoma,+1,1	MCCC1	87	1	NM_020166	exon11	c.G1262A	p.R421Q	CCTTGCCGTACTC	.	scavenged	Atlas-SNP
OR10AG1	282770	hgsc.bcm.edu	37	11	55735579	55735579	+	Silent	SNP	A	A	G	rs61896166	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	37	66	0	0.406593	0	A|0.947;G|0.053	0.053	strong	.	OR10AG1	100	.	NM_001005491	exon1	c.T361C	p.L121L	ACTGCAAAGGCTT	.	PASS	Atlas-SNP
BARD1	580	hgsc.bcm.edu	37	2	215674224	215674224	+	Missense_Mutation	SNP	G	G	A	rs1048108	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	35	60	1	0.714286	0.0166667	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	.	scavenged	Atlas-SNP
JAKMIP3	282973	hgsc.bcm.edu	37	10	133954011	133954011	+	Silent	SNP	C	C	T	rs2818387	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	181	176	1	0.994505	0.00568182	C|0.497;T|0.503	0.503	strong	.	JAKMIP3	69	.	NM_001105521	exon9	c.C1401T	p.D467D	ATCCGACGGCTCC	.	PASS	Atlas-SNP
SETD1B	23067	hgsc.bcm.edu	37	12	122255284	122255284	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	2	50	0	0.0298507	0	.	.	none	SETD1B_ENST00000267197,colon,carcinoma,-1,1	SETD1B	105	1	NM_015048	exon8	c.C2986T	p.R996X	TCCGAGCGAGAGC	.	scavenged	Atlas-SNP
MOK	5891	hgsc.bcm.edu	37	14	102695693	102695693	+	Missense_Mutation	SNP	T	T	C	rs2236493	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	54	85	0	0.54	0	T|0.713;C|0.287	0.287	strong	RAGE,NS,carcinoma,0,1	.	.	1	NM_014226	exon12	c.A1193G	p.Q398R	TCCTTCTGCGGAT	.	PASS	Atlas-SNP
HS6ST3	266722	hgsc.bcm.edu	37	13	97484830	97484830	+	Missense_Mutation	SNP	A	A	G	rs9516771	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	57	95	0	0.522936	0	A|0.962;G|0.038	0.038	strong	HS6ST3,NS,carcinoma,0,1	HS6ST3	54	1	NM_153456	exon2	c.A794G	p.K265R	CTTGGAAAACCTC	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40367862	40367862	+	Silent	SNP	T	T	C	rs77793281	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	37	78	0	0.274074	0	T|0.333;C|0.667	0.667	strong	.	FCGBP	416	.	NM_003890	exon29	c.A13098G	p.P4366P	GCTGGCTGGGCAG	.	PASS	Atlas-SNP
NCKAP5	344148	hgsc.bcm.edu	37	2	133542585	133542585	+	Missense_Mutation	SNP	C	C	G	rs17325719	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	62	108	0	0.430556	0	C|0.892;G|0.108	0.108	strong	.	NCKAP5	322	.	NM_207363	exon14	c.G1799C	p.S600T	GAAGGACTTTTCT	.	PASS	Atlas-SNP
NEDD4L	23327	hgsc.bcm.edu	37	18	55816791	55816791	+	Silent	SNP	G	G	A	rs4149601	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	62	119	0	0.521008	0	G|0.696;A|0.304	0.304	strong	.	NEDD4L	126	.	NM_001144968	exon1	c.G24A	p.Q8Q	TGAGCAGGTAACA	.	PASS	Atlas-SNP
CCHCR1	54535	hgsc.bcm.edu	37	6	31110391	31110391	+	Missense_Mutation	SNP	G	G	C	rs1576	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	22	43	0	0.488889	0	G|0.722;C|0.278	0.278	strong	.	CCHCR1	68	.	NM_001105564	exon18	c.C2594G	p.S865C	GGATTGGAGCTGG	.	PASS	Atlas-SNP
OR5AS1	219447	hgsc.bcm.edu	37	11	55798761	55798761	+	Silent	SNP	T	T	C	rs61889974	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	40	58	0	0.506329	0	T|0.948;C|0.052	0.052	strong	OR5AS1,NS,carcinoma,0,1	OR5AS1	121	1	NM_001001921	exon1	c.T867C	p.I289I	AATAATTTATAGT	.	PASS	Atlas-SNP
OR2T2	401992	hgsc.bcm.edu	37	1	248616401	248616401	+	Silent	SNP	G	G	A	rs77680148	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	980	693	913	1	0.707143	0.00109529	G|0.913;A|0.087	0.087	strong	.	OR2T2	73	.	NM_001004136	exon1	c.G303A	p.Q101Q	AGTTCAGATCTTC	.	PASS	Atlas-SNP
PRDM2	7799	hgsc.bcm.edu	37	1	14107164	14107164	+	Silent	SNP	C	C	T	rs115572434	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	68	132	0	0.427673	0	C|0.984;T|0.016	0.016	strong	.	PRDM2	147	.	NM_015866	exon8	c.C2874T	p.S958S	TTCATCCGGTCAG	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954999	30954999	+	Missense_Mutation	SNP	G	G	C	rs141934200	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	29	80	0	0.252174	0	G|0.975;C|0.026	0.026	strong	MUC21,NS,carcinoma,0,1	MUC21	98	1	NM_001010909	exon2	c.G1047C	p.E349D	CTCTGAGTCCAGC	.	PASS	Atlas-SNP
PALM	5064	hgsc.bcm.edu	37	19	731144	731144	+	Missense_Mutation	SNP	A	A	G	rs1050457	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	41	157	0	0.362832	0	A|0.468;G|0.532	0.532	strong	.	PALM	26	.	NM_002579	exon5	c.A319G	p.T107A	CCAGCCACTGCCA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	42	89	0	0.506024	0	G|0.753;A|0.247	0.247	strong	.	PTX4	46	.	NM_001013658	exon2	c.C259T	p.R87W	GTGACCGGTTGAC	.	PASS	Atlas-SNP
OR2A2	442361	hgsc.bcm.edu	37	7	143807515	143807515	+	Missense_Mutation	SNP	T	T	G	rs2961149	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	56	128	0	0.427481	0	T|0.584;G|0.416	0.416	strong	.	OR2A2	48	.	NM_001005480	exon1	c.T840G	p.F280L	TGTCTTTAATCCA	.	PASS	Atlas-SNP
SPDYE1	285955	hgsc.bcm.edu	37	7	44047066	44047066	+	Missense_Mutation	SNP	T	T	C	rs79154079		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	218	121	194	0	0.555046	0	.	.	weak	.	SPDYE1	29	.	NM_175064	exon5	c.T832C	p.C278R	CGCCGTTGCATGA	.	PASS	Atlas-SNP
TNFRSF10C	8794	hgsc.bcm.edu	37	8	22974325	22974325	+	Silent	SNP	G	G	A	rs11780493	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	130	127	0	0.872483	0	G|0.382;A|0.618	0.618	strong	.	TNFRSF10C	30	.	NM_003841	exon5	c.G561A	p.P187P	CAGCCCGGGGACT	.	PASS	Atlas-SNP
TRAPPC9	83696	hgsc.bcm.edu	37	8	141461185	141461185	+	Silent	SNP	A	A	G	rs3735802	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	69	69	0	1	0	A|0.436;G|0.564	0.564	strong	.	TRAPPC9	114	.	NM_031466	exon2	c.T582C	p.F194F	CTTCTCAAAGGTC	.	PASS	Atlas-SNP
ZBBX	79740	hgsc.bcm.edu	37	3	167034814	167034814	+	Silent	SNP	T	T	C	rs13068132	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	277	123	249	0	0.444043	0	T|0.678;C|0.322	0.322	strong	ZBBX_ENST00000455345,NS,carcinoma,0,2	ZBBX	299	2	NM_024687	exon14	c.A1173G	p.L391L	TATCTTTAGAGAT	.	PASS	Atlas-SNP
DGKB	1607	hgsc.bcm.edu	37	7	14620536	14620536	+	Silent	SNP	C	C	A	rs61753128	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	60	98	0	0.428571	0	.	.	weak	.	DGKB	166	.	NM_145695	exon18	c.G1563T	p.L521L	AAGAGGCAGAATC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179430997	179430997	+	Missense_Mutation	SNP	G	G	A	rs3731746	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	97	186	0	0.477833	0	T|0.000;G|0.681;N|0.000;A|0.318	0.318	strong	.	TTN	18412	.	NM_001267550	exon326	c.C79862T	p.T26621M	TCAGGCGTTGGAC	.	PASS	Atlas-SNP
PCDHA1	56147	hgsc.bcm.edu	37	5	140166734	140166734	+	Missense_Mutation	SNP	C	C	T	rs144952734		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	207	4	172	0	0.0193237	0	C|1.000;T|0.000	0.000	weak	PCDHA1_ENST00000504120,colon,carcinoma,-1,2	PCDHA1	387	2	NM_031411	exon1	c.C859T	p.R287C	ATTTCTCGTGACA	.	scavenged	Atlas-SNP
PRR5-ARHGAP8	553158	hgsc.bcm.edu	37	22	45258457	45258457	+	Silent	SNP	A	A	G	rs8881	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	27	46	0	0.519231	0	A|0.917;G|0.083	0.083	strong	.	PRR5-ARHGAP8	53	.	NM_181334	exon15	c.A1650G	p.A550A	GATGGCAGCCAGA	.	PASS	Atlas-SNP
EGFL8	80864	hgsc.bcm.edu	37	6	32134510	32134510	+	Missense_Mutation	SNP	G	G	A	rs3096697	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	53	104	0	0.427419	0	G|0.830;A|0.170	0.170	strong	.	EGFL8	15	.	NM_030652	exon4	c.G257A	p.R86K	AGGTGAGGCGGGA	.	PASS	Atlas-SNP
NOP56	10528	hgsc.bcm.edu	37	20	2635212	2635212	+	Missense_Mutation	SNP	A	A	G	rs2273137	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	43	93	0	0.421569	0	A|0.909;G|0.091	0.091	strong	.	NOP56	73	.	NM_006392	exon4	c.A361G	p.I121V	GCTGAGATCCTGC	.	PASS	Atlas-SNP
PHYHIP	9796	hgsc.bcm.edu	37	8	22084503	22084503	+	Silent	SNP	C	C	T	rs11547656	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	33	34	0	0.515625	0	T|0.357;G|0.000;C|0.642	0.357	strong	.	PHYHIP	24	.	NM_014759	exon3	c.G201A	p.P67P	GGGCAGCGGCACT	.	PASS	Atlas-SNP
DVL2	1856	hgsc.bcm.edu	37	17	7132556	7132556	+	Silent	SNP	C	C	T	rs222837	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	136	110	0	0.985507	0	C|0.365;T|0.635	0.635	strong	.	DVL2	49	.	NM_004422	exon8	c.G855A	p.Q285Q	ATTGCTCTGGCCA	.	PASS	Atlas-SNP
C17orf97	400566	hgsc.bcm.edu	37	17	263417	263417	+	Silent	SNP	C	C	T	rs113554843	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	214	45	95	0	0.21028	0	C|0.915;T|0.085	0.085	strong	.	C17orf97	76	.	NM_001013672	exon2	c.C783T	p.A261A	CGAGGCCCTCAAG	.	PASS	Atlas-SNP
ABCB6	10058	hgsc.bcm.edu	37	2	220081416	220081416	+	Missense_Mutation	SNP	G	G	A	rs57467915	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	178	84	142	0	0.47191	0	G|0.992;A|0.008	0.008	strong	.	ABCB6	76	.	NM_005689	exon3	c.C826T	p.R276W	GTGCCCGTTCCAA	.	PASS	Atlas-SNP
FCN2	2220	hgsc.bcm.edu	37	9	137778402	137778402	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	2	120	0	0.0107527	0	.	.	none	FCN2,NS,carcinoma,0,1	FCN2	55	1	NM_004108	exon7	c.G686A	p.G229D	TGGAGGGCAGTGC	.	scavenged	Atlas-SNP
OR5R1	219479	hgsc.bcm.edu	37	11	56185347	56185347	+	Missense_Mutation	SNP	T	T	C	rs7111634	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	46	25	40	0	0.543478	0	T|0.952;C|0.048	0.048	strong	OR5R1,right_upper_lobe,carcinoma,-1,3	OR5R1	83	3	NM_001004744	exon1	c.A362G	p.D121G	TAGCAATCGTAGG	.	PASS	Atlas-SNP
STAG3	10734	hgsc.bcm.edu	37	7	99799845	99799845	+	Silent	SNP	T	T	A	rs1043915	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	117	53	121	0	0.452991	0	T|0.679;A|0.321	0.321	strong	.	STAG3	121	.	NM_012447	exon24	c.T2445A	p.I815I	GATGATTGTTGGG	.	PASS	Atlas-SNP
PRF1	5551	hgsc.bcm.edu	37	10	72358655	72358655	+	Silent	SNP	G	G	A	rs885821	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	222	108	215	0	0.486486	0	G|0.861;A|0.139	0.139	strong	.	PRF1	64	.	NM_001083116	exon3	c.C822T	p.A274A	GGCTTCGGCAGAG	.	PASS	Atlas-SNP
PDLIM1	9124	hgsc.bcm.edu	37	10	96997820	96997820	+	Silent	SNP	A	A	G	rs1049814	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	79	159	0	0.963415	0	A|0.818;G|0.182	0.182	strong	.	PDLIM1	33	.	NM_020992	exon7	c.T852C	p.Y284Y	GCACACATAACAC	.	PASS	Atlas-SNP
VPREB1	7441	hgsc.bcm.edu	37	22	22599674	22599674	+	Silent	SNP	C	C	T	rs5995719	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	20	7	22	0	0.35	0	C|0.808;T|0.192	0.192	strong	VPREB1,NS,carcinoma,+1,1	VPREB1	20	1	NM_007128	exon2	c.C363T	p.S121S	CCGCAGCTCGGAG	.	scavenged	Atlas-SNP
KIF26B	55083	hgsc.bcm.edu	37	1	245704130	245704130	+	Missense_Mutation	SNP	G	G	C	rs61754898	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	295	135	231	1	0.457627	0.004329	G|0.865;C|0.135	0.135	strong	KIF26B_ENST00000407071,NS,carcinoma,0,1	KIF26B	343	1	NM_018012	exon5	c.G1228C	p.A410P	TCTTCCGCTGCCG	.	PASS	Atlas-SNP
PLCG1	5335	hgsc.bcm.edu	37	20	39792063	39792063	+	Missense_Mutation	SNP	A	A	G	rs2228246	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	70	84	0	0.530303	0	A|0.883;G|0.117	0.117	strong	.	PLCG1	111	.	NM_182811	exon9	c.A835G	p.S279G	ATGCTCAGCTTCC	.	PASS	Atlas-SNP
IL3	3562	hgsc.bcm.edu	37	5	131396478	131396478	+	Missense_Mutation	SNP	C	C	T	rs40401	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	68	100	0	0.539683	0	C|0.616;N|0.000	.	strong	IL3,NS,carcinoma,0,1	IL3	28	1	NM_000588	exon1	c.C79T	p.P27S	ACAACGCCCTTGA	.	PASS	Atlas-SNP
KCNB2	9312	hgsc.bcm.edu	37	8	73850203	73850203	+	Silent	SNP	G	G	A	rs11782118	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	56	119	0	0.5	0	G|0.686;A|0.314	0.314	strong	.	KCNB2	228	.	NM_004770	exon3	c.G2613A	p.V871V	TGCTGTGAGTGAA	.	PASS	Atlas-SNP
AKAP9	10142	hgsc.bcm.edu	37	7	91726927	91726927	+	Silent	SNP	A	A	C	rs1063243	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	78	219	0	0.421622	0	A|0.588;C|0.412	0.412	strong	AKAP9_ENST00000356239,NS,carcinoma,-1,2	AKAP9	788	2	NM_005751	exon42	c.A10426C	p.R3476R	AGTGATAGAACTA	.	PASS	Atlas-SNP
CCHCR1	54535	hgsc.bcm.edu	37	6	31110789	31110789	+	Silent	SNP	T	T	C	rs1265084	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	229	95	172	0	0.414847	0	T|0.973;C|0.027	0.027	strong	.	CCHCR1	68	.	NM_001105564	exon17	c.A2442G	p.S814S	AGATGCTGAACAC	.	PASS	Atlas-SNP
ITGA2B	3674	hgsc.bcm.edu	37	17	42463054	42463054	+	Missense_Mutation	SNP	G	G	C	rs76066357	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	43	25	56	0	0.581395	0	G|0.991;C|0.009	0.009	strong	.	ITGA2B	88	.	NM_000419	exon4	c.C439G	p.L147V	TTTCTAGGACGTT	.	PASS	Atlas-SNP
SELP	6403	hgsc.bcm.edu	37	1	169562904	169562904	+	Silent	SNP	C	C	T	rs6128	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	51	60	1	0.515152	0.0166667	C|0.687;T|0.313	0.313	strong	SELP,NS,carcinoma,-1,2	SELP	132	2	NM_003005	exon14	c.G2346A	p.T782T	ACCTATCGTAGAA	.	scavenged	Atlas-SNP
STK31	56164	hgsc.bcm.edu	37	7	23757162	23757162	+	Missense_Mutation	SNP	G	G	C	rs6945306	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	267	266	262	2	0.996255	0.00763359	G|0.742;C|0.258	0.258	strong	.	STK31	175	.	NM_031414	exon4	c.G213C	p.Q71H	CCCCCAGGCCAGT	.	PASS	Atlas-SNP
KRTAP5-5	439915	hgsc.bcm.edu	37	11	1651540	1651540	+	Missense_Mutation	SNP	C	C	G	rs61867581	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	92	67	0	0.989247	0	C|0.492;G|0.508	0.508	strong	KRTAP5-5,NS,carcinoma,-1,1	KRTAP5-5	86	1	NM_001001480	exon1	c.C470G	p.S157C	CCCAGTCCAGCTG	.	PASS	Atlas-SNP
SYNE3	161176	hgsc.bcm.edu	37	14	95906321	95906321	+	Missense_Mutation	SNP	G	G	A	rs9671369	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	35	19	36	0	0.542857	0	G|0.638;A|0.362	0.362	strong	SYNE3_ENST00000334258,NS,carcinoma,0,3	SYNE3	130	3	NM_152592	exon11	c.C2003T	p.T668M	TTTTGCGTGGTCA	.	PASS	Atlas-SNP
C15orf41	84529	hgsc.bcm.edu	37	15	36946303	36946303	+	Missense_Mutation	SNP	C	C	G	rs3784678	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	163	133	0	1	0	C|0.492;G|0.508	0.508	strong	.	C15orf41	24	.	NM_001130010	exon4	c.C217G	p.L73V	AGGTACCTGAATG	.	PASS	Atlas-SNP
HR	55806	hgsc.bcm.edu	37	8	21978469	21978469	+	Silent	SNP	A	A	G	rs57903149	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	65	112	0	0.454545	0	A|0.895;G|0.105	0.105	strong	.	HR	71	.	NM_018411	exon11	c.T2370C	p.D790D	GCGGTCATCCTGC	.	PASS	Atlas-SNP
DAD1	1603	hgsc.bcm.edu	37	14	23044004	23044004	+	Silent	SNP	C	C	T	rs1051154	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	51	96	0	0.439655	0	C|0.901;T|0.099	0.099	strong	.	DAD1	8	.	NM_001344	exon2	c.G341A	p.X114X	ATGAGTCAGCCAA	.	PASS	Atlas-SNP
FERMT1	55612	hgsc.bcm.edu	37	20	6064731	6064731	+	Silent	SNP	C	C	T	rs2232079	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	63	34	57	0	0.539683	0	C|0.861;T|0.139	0.139	strong	FERMT1,NS,carcinoma,0,2	FERMT1	106	2	NM_017671	exon13	c.G1674A	p.A558A	CTGCCACGCCTGG	.	PASS	Atlas-SNP
GPANK1	7918	hgsc.bcm.edu	37	6	31631907	31631907	+	Silent	SNP	G	G	A	rs928814	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	71	103	0	0.47651	0	G|0.935;A|0.065	0.065	strong	.	GPANK1	19	.	NM_001199238	exon3	c.C349T	p.L117L	CTGGCAGGTCCCC	.	PASS	Atlas-SNP
MICAL2	9645	hgsc.bcm.edu	37	11	12229655	12229655	+	Silent	SNP	T	T	G	rs2279390	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	223	223	198	0	1	0	G|0.341;N|0.000	0.341	strong	.	MICAL2	114	.	NM_014632	exon5	c.T558G	p.V186V	GAAGGTTCTAGAG	.	PASS	Atlas-SNP
SDPR	8436	hgsc.bcm.edu	37	2	192701393	192701393	+	Silent	SNP	A	A	G	rs10167187	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	129	126	1	0.992308	0.00793651	A|0.407;G|0.593	0.593	strong	.	SDPR	67	.	NM_004657	exon2	c.T534C	p.G178G	CACGGCACCGGAA	.	PASS	Atlas-SNP
CENPJ	55835	hgsc.bcm.edu	37	13	25466955	25466955	+	Silent	SNP	T	T	C	rs3742165	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	341	335	357	0	0.982405	0	T|0.531;C|0.469	0.469	strong	.	CENPJ	116	.	NM_018451	exon10	c.A3042G	p.E1014E	TTTGGTTTCCTTT	.	PASS	Atlas-SNP
IRAK1	3654	hgsc.bcm.edu	37	X	153284483	153284483	+	Silent	SNP	G	G	A	rs1059701	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	137	86	50	0	0.627737	0	0|0.004;T|0.000;G|0.457;A|0.540	0.540	strong	.	IRAK1	107	.	NM_001569	exon4	c.C483T	p.V161V	GCTTGGGACCAGG	.	PASS	Atlas-SNP
PTPRE	5791	hgsc.bcm.edu	37	10	129866449	129866449	+	Silent	SNP	C	C	G	rs7100666	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	68	80	0	0.596491	0	C|0.880;G|0.120	0.120	strong	PTPRE_ENST00000306042,NS,carcinoma,0,4	PTPRE	132	4	NM_006504	exon12	c.C906G	p.P302P	CTGGCCCGACTTC	.	PASS	Atlas-SNP
GPRC5B	51704	hgsc.bcm.edu	37	16	19883991	19883991	+	Silent	SNP	C	C	T	rs146958511	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	52	102	0	0.52	0	C|0.998;T|0.002	0.002	strong	.	GPRC5B	54	.	NM_016235	exon2	c.G177A	p.V59V	CGCCTCCACCACA	.	PASS	Atlas-SNP
DOK6	220164	hgsc.bcm.edu	37	18	67365668	67365668	+	Silent	SNP	A	A	G	rs4426448	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	61	113	0	0.438849	0	A|0.522;G|0.478	0.478	strong	.	DOK6	56	.	NM_152721	exon5	c.A438G	p.T146T	GCCTACACCAAAC	.	PASS	Atlas-SNP
MED24	9862	hgsc.bcm.edu	37	17	38179492	38179492	+	Silent	SNP	A	A	G	rs2302777	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	56	117	0	0.378378	0	A|0.706;G|0.294	0.294	strong	.	MED24	89	.	NM_014815	exon20	c.T2142C	p.I714I	GGCAAAAATGTCC	.	PASS	Atlas-SNP
C17orf97	400566	hgsc.bcm.edu	37	17	263615	263615	+	Silent	SNP	C	C	T	rs75457484	byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	206	26	159	1	0.126214	0.00628931	C|0.960;T|0.040	0.040	strong	C17orf97_ENST00000360127,NS,carcinoma,0,1	C17orf97	76	1	NM_001013672	exon2	c.C981T	p.P327P	CCACCCCGACCCC	.	scavenged	Atlas-SNP
PARP2	10038	hgsc.bcm.edu	37	14	20824181	20824181	+	Silent	SNP	T	T	C	rs3093930	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	97	183	1	0.563953	0.00546448	T|0.445;C|0.555	0.555	strong	.	PARP2	92	.	NM_005484	exon11	c.T1131C	p.Y377Y	AAGTTATGAGTTC	.	PASS	Atlas-SNP
SPEG	10290	hgsc.bcm.edu	37	2	220354108	220354108	+	Missense_Mutation	SNP	A	A	G	rs55760516	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	47	97	0	0.460784	0	A|0.648;G|0.352	0.352	strong	.	SPEG	272	.	NM_005876	exon36	c.A8368G	p.R2790G	ACCTCAAGGCCAG	.	PASS	Atlas-SNP
EFCAB12	90288	hgsc.bcm.edu	37	3	129140499	129140499	+	Missense_Mutation	SNP	T	T	C	rs3774787	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	43	83	0	0.387387	0	T|0.857;C|0.143	0.143	strong	.	.	.	.	NM_207307	exon2	c.A197G	p.E66G	TGATCCTCCTTGC	.	PASS	Atlas-SNP
ZNF860	344787	hgsc.bcm.edu	37	3	32031622	32031622	+	Missense_Mutation	SNP	T	T	C	rs13087612	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	262	87	286	0	0.332061	0	T|0.621;C|0.379	0.379	strong	ZNF860_ENST00000360311,NS,carcinoma,0,2	ZNF860	96	2	NM_001137674	exon2	c.T1051C	p.F351L	AAGGCTTTCAGGC	.	PASS	Atlas-SNP
FRY	10129	hgsc.bcm.edu	37	13	32776603	32776603	+	Silent	SNP	T	T	C	rs2428249	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	62	107	0	0.939394	0	T|0.634;C|0.366	0.366	strong	.	FRY	312	.	NM_023037	exon31	c.T3957C	p.L1319L	GTCACTTGCCCTC	.	PASS	Atlas-SNP
XIAP	331	hgsc.bcm.edu	37	X	123034511	123034511	+	Missense_Mutation	SNP	A	A	C	rs5956583	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	451	310	268	0	0.687361	0	A|0.624;0|0.022	.	strong	.	XIAP	56	.	NM_001204401	exon6	c.A1268C	p.Q423P	GTATGCAAGATGA	.	PASS	Atlas-SNP
HPCAL4	51440	hgsc.bcm.edu	37	1	40150156	40150156	+	Silent	SNP	G	G	A	rs9662128	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	45	93	0	0.381356	0	G|0.645;A|0.355	0.355	strong	HPCAL4,NS,carcinoma,0,1	HPCAL4	20	1	NM_016257	exon2	c.C120T	p.S40S	GATGCCGCTGGGG	.	PASS	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39138712	39138712	+	Silent	SNP	G	G	A	rs4243257	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	28	42	0	0.5	0	G|0.652;A|0.348	0.348	strong	.	KRT40	27	.	NM_182497	exon5	c.C534T	p.Y178Y	ACTCTCGTACCTT	.	PASS	Atlas-SNP
UBASH3A	53347	hgsc.bcm.edu	37	21	43824123	43824123	+	Silent	SNP	G	G	C	rs2277799	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	67	139	0	0.503759	0	G|0.601;C|0.399	0.399	strong	.	UBASH3A	72	.	NM_018961	exon1	c.G69C	p.S23S	CCCCTCGCTCCTG	.	PASS	Atlas-SNP
MAP3K19	80122	hgsc.bcm.edu	37	2	135745129	135745129	+	Missense_Mutation	SNP	G	G	A	rs16831235	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	230	114	210	1	0.495652	0.0047619	G|0.865;A|0.135	0.135	strong	.	.	.	.	NM_025052	exon7	c.C1313T	p.T438I	AGTACAGTACACT	.	PASS	Atlas-SNP
ADAMTS7	11173	hgsc.bcm.edu	37	15	79058968	79058968	+	Silent	SNP	T	T	C	rs112827102	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	41	79	0	0.386792	0	T|0.935;C|0.065	0.065	strong	.	ADAMTS7	142	.	NM_014272	exon19	c.A3285G	p.T1095T	TGGGGGTGTCCGG	.	PASS	Atlas-SNP
TAS2R16	50833	hgsc.bcm.edu	37	7	122634843	122634843	+	Silent	SNP	C	C	T	rs1204014	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	72	118	1	0.507042	0.00847458	C|0.884;T|0.116	0.116	strong	TAS2R16,right_lower_lobe,carcinoma,-1,2	TAS2R16	57	2	NM_016945	exon1	c.G846A	p.T282T	TTTCAACGTAGGG	.	scavenged	Atlas-SNP
SIGLEC1	6614	hgsc.bcm.edu	37	20	3682242	3682242	+	Silent	SNP	C	C	T	rs45472900	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	74	116	0	0.528571	0	C|0.947;T|0.053	0.053	strong	.	SIGLEC1	210	.	NM_023068	exon6	c.G1275A	p.A425A	AAGTCCCGCCTGG	.	PASS	Atlas-SNP
OR1S2	219958	hgsc.bcm.edu	37	11	57971201	57971201	+	Silent	SNP	G	G	A	rs11229280	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	254	102	202	1	0.401575	0.00495049	G|0.585;A|0.415	0.415	strong	OR1S2,NS,carcinoma,-2,3	OR1S2	119	3	NM_001004459	exon1	c.C453T	p.A151A	GAACCTGGCCCGC	.	scavenged	Atlas-SNP
TACSTD2	4070	hgsc.bcm.edu	37	1	59042181	59042181	+	Missense_Mutation	SNP	G	G	T	rs14008	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	53	98	0	0.449153	0	G|0.865;T|0.135	0.135	strong	.	TACSTD2	6	.	NM_002353	exon1	c.C648A	p.D216E	ATCCACGTCACCG	.	PASS	Atlas-SNP
PFAS	5198	hgsc.bcm.edu	37	17	8166498	8166498	+	Silent	SNP	G	G	A	rs34778863	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	43	87	0	0.52439	0	G|0.973;A|0.027	0.027	strong	.	PFAS	91	.	NM_012393	exon13	c.G1482A	p.K494K	ACAGAAGATGAAC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	62	149	0	0.378049	0	C|0.670;T|0.330	0.330	strong	.	PLD2	138	.	NM_001243108	exon17	c.C1730T	p.T577I	CTCCCACATACCC	.	PASS	Atlas-SNP
ENDOV	284131	hgsc.bcm.edu	37	17	78389478	78389478	+	Missense_Mutation	SNP	G	G	A	rs35549084	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	77	139	0	0.475309	0	G|0.972;A|0.028	0.028	strong	.	ENDOV	26	.	NM_173627	exon2	c.G85A	p.V29I	CACGTCGTAGACC	.	PASS	Atlas-SNP
ABCA2	20	hgsc.bcm.edu	37	9	139916879	139916879	+	Missense_Mutation	SNP	C	C	T	rs34039859	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	181	93	170	0	0.513812	0	C|0.958;T|0.042	0.042	strong	.	ABCA2	113	.	NM_212533	exon6	c.G581A	p.R194H	AGGAAACGCCAGA	.	PASS	Atlas-SNP
RGS1	5996	hgsc.bcm.edu	37	1	192544940	192544940	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	3	87	0	0.026087	0	.	.	none	RGS1_ENST00000367459,NS,carcinoma,+2,1	RGS1	75	1	NM_002922	exon1	c.C18T	p.I6I	AGCCATCTCCACT	.	scavenged	Atlas-SNP
CCDC66	285331	hgsc.bcm.edu	37	3	56653427	56653427	+	Missense_Mutation	SNP	T	T	C	rs61747994	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	233	123	193	0	0.527897	0	T|0.952;C|0.048	0.048	strong	.	CCDC66	145	.	NM_001141947	exon16	c.T2507C	p.L836S	CAGAATTATCATC	.	PASS	Atlas-SNP
USP4	7375	hgsc.bcm.edu	37	3	49343175	49343175	+	Silent	SNP	G	G	A	rs2230929	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	227	119	191	0	0.524229	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
DOCK6	57572	hgsc.bcm.edu	37	19	11326125	11326125	+	Silent	SNP	C	C	T	rs2304154	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	43	102	0	0.457447	0	C|0.497;T|0.503	0.503	strong	.	DOCK6	104	.	NM_020812	exon32	c.G4044A	p.P1348P	ATTCTCCGGATTC	.	PASS	Atlas-SNP
STOML2	30968	hgsc.bcm.edu	37	9	35101776	35101776	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	183	2	138	0	0.010929	0	.	.	none	STOML2,NS,carcinoma,-1,1	STOML2	27	1	NM_013442	exon5	c.C375T	p.A125A	GGTGACGGCATAC	.	scavenged	Atlas-SNP
AKAP13	11214	hgsc.bcm.edu	37	15	86122654	86122654	+	Missense_Mutation	SNP	T	T	C	rs2061821	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	190	190	179	0	1	0	T|0.388;C|0.612	0.612	strong	.	AKAP13	394	.	NM_007200	exon7	c.T1355C	p.M452T	TGGTCATGGAGCC	.	PASS	Atlas-SNP
SACS	26278	hgsc.bcm.edu	37	13	23929095	23929095	+	Silent	SNP	T	T	C	rs1536365	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	84	126	0	0.595745	0	T|0.909;C|0.091	0.091	strong	.	SACS	871	.	NM_014363	exon8	c.A1656G	p.L552L	GCTGAATAGAGGC	.	PASS	Atlas-SNP
TYR	7299	hgsc.bcm.edu	37	11	89017961	89017961	+	Missense_Mutation	SNP	G	G	A	rs1126809	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	263	261	258	0	0.992395	0	G|0.831;A|0.169	0.169	strong	TYR,NS,carcinoma,+1,1	TYR	130	1	NM_000372	exon4	c.G1205A	p.R402Q	GGCTCCGAAGGCA	.	PASS	Atlas-SNP
KIAA1462	57608	hgsc.bcm.edu	37	10	30317838	30317838	+	Silent	SNP	A	A	G	rs7920686	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	81	101	0	1	0	A|0.470;G|0.530	0.530	strong	.	KIAA1462	162	.	NM_020848	exon3	c.T1239C	p.P413P	AGTGACAGGTCGG	.	PASS	Atlas-SNP
STON1	11037	hgsc.bcm.edu	37	2	48822381	48822381	+	Silent	SNP	G	G	A	rs2140551	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	97	89	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
TMCO4	255104	hgsc.bcm.edu	37	1	20009737	20009737	+	Silent	SNP	G	G	A	rs10917514	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	223	105	256	1	0.470852	0.00390625	G|0.888;A|0.112	0.112	strong	.	TMCO4	46	.	NM_181719	exon16	c.C1701T	p.S567S	GTCTCCGGATATG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9070402	9070402	+	Missense_Mutation	SNP	G	G	T	rs12150888	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	332	330	287	2	0.993976	0.00696864	G|0.815;T|0.185	0.185	strong	MUC16_ENST00000397910,NS,carcinoma,+2,3	MUC16	4315	3	NM_024690	exon3	c.C17044A	p.P5682T	TTACGGGCTCTGG	.	PASS	Atlas-SNP
ZSWIM4	65249	hgsc.bcm.edu	37	19	13941255	13941255	+	Silent	SNP	G	G	A	rs138305620	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	41	25	25	0	0.609756	0	G|0.999;A|0.001	0.001	strong	.	ZSWIM4	69	.	NM_023072	exon13	c.G2361A	p.A787A	CGAGGCGGCCTAC	.	PASS	Atlas-SNP
ZNF418	147686	hgsc.bcm.edu	37	19	58437623	58437623	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	89	16	109	0	0.179775	0	.	.	none	.	ZNF418	76	.	NM_133460	exon4	c.T1926C	p.T642T	TTCTCCAGTGTGT	.	PASS	Atlas-SNP
CELSR1	9620	hgsc.bcm.edu	37	22	46787694	46787694	+	Missense_Mutation	SNP	A	A	G	rs6008794	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	32	84	0	0.405063	0	A|0.696;G|0.304	0.304	strong	.	CELSR1	242	.	NM_014246	exon15	c.T5984C	p.L1995P	TGGGCTAGGAGCT	.	PASS	Atlas-SNP
PRSS55	203074	hgsc.bcm.edu	37	8	10390452	10390452	+	Missense_Mutation	SNP	C	C	T	rs4406360	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	32	105	0	0.367816	0	C|0.668;T|0.332	0.332	strong	.	PRSS55	67	.	NM_001197020	exon4	c.C635T	p.A212V	TGAAAGCGCCAAT	.	PASS	Atlas-SNP
RLN3	117579	hgsc.bcm.edu	37	19	14141666	14141666	+	Missense_Mutation	SNP	G	G	T	rs78161395	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	70	119	0	0.466667	0	G|0.865;T|0.135	0.135	strong	.	RLN3	10	.	NM_080864	exon2	c.G335T	p.G112V	CCCCTGGGGTTCT	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13830749	13830749	+	Silent	SNP	A	A	G	rs368456533		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	59	107	0	0.536364	0	.	.	weak	.	DNAH5	868	.	NM_001369	exon36	c.T6018C	p.C2006C	GTCTGAACAATTG	.	PASS	Atlas-SNP
EPB49	2039	hgsc.bcm.edu	37	8	21929924	21929924	+	Missense_Mutation	SNP	A	A	G	rs113027572	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	48	19	72	0	0.395833	0	A|0.976;C|0.000;G|0.024;T|0.000	0.024	strong	.	EPB49	35	.	NM_001978	exon9	c.A692G	p.K231R	AGATGAAGGCTCT	.	PASS	Atlas-SNP
GALNT9	50614	hgsc.bcm.edu	37	12	132862976	132862976	+	Silent	SNP	G	G	A	rs28503969	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	72	171	0	0.507042	0	G|0.670;A|0.330	0.330	strong	.	GALNT9	74	.	NM_001122636	exon2	c.C279T	p.G93G	GCCCAGGCCTCCT	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238909	31238909	+	Missense_Mutation	SNP	G	G	T	rs1050686	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	206	52	250	0	0.252427	0	T|0.500;G|0.500	0.500	weak	.	HLA-C	92	.	NM_002117	exon3	c.C560A	p.T187K	ACGCACGTGCCCT	.	PASS	Atlas-SNP
PIEZO2	63895	hgsc.bcm.edu	37	18	10696227	10696227	+	Silent	SNP	C	C	T	rs2277860	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	143	133	0	1	0	C|0.712;T|0.288	0.288	strong	.	.	.	.	NM_022068	exon43	c.G6696A	p.P2232P	CAAAAACGGCCCC	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239543	31239543	+	Missense_Mutation	SNP	C	C	T	rs1050428	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	49	123	0	0.462264	0	T|0.107;C|0.893	0.107	strong	HLA-C_ENST00000383329,colon,carcinoma,-1,2	HLA-C	92	2	NM_002117	exon2	c.G176A	p.R59Q	TCGAACCGCACGA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9090531	9090531	+	Silent	SNP	T	T	C	rs12976721	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	337	334	301	0	0.991098	0	T|0.772;C|0.228	0.228	strong	MUC16_ENST00000397910,NS,carcinoma,0,2	MUC16	4315	2	NM_024690	exon1	c.A1284G	p.E428E	TTCTGTTTCCTTT	.	PASS	Atlas-SNP
TRPM1	4308	hgsc.bcm.edu	37	15	31330313	31330313	+	Silent	SNP	A	A	G	rs12913672	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	33	86	0	0.407407	0	A|0.799;G|0.201	0.201	strong	.	TRPM1	183	.	NM_001252020	exon18	c.T2424C	p.Y808Y	ATCATCATATGTG	.	PASS	Atlas-SNP
KRT81	3887	hgsc.bcm.edu	37	12	52681437	52681437	+	Silent	SNP	A	A	G	rs3187034	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	42	136	0	0.368421	0	A|0.668;G|0.332	0.332	strong	KRT81,NS,carcinoma,0,1	KRT81	46	1	NM_002281	exon6	c.T969C	p.N323N	CAGCTCATTGATC	.	PASS	Atlas-SNP
REG3A	5068	hgsc.bcm.edu	37	2	79385787	79385787	+	Missense_Mutation	SNP	G	G	A	rs77686105	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	215	35	131	0	0.162791	0	G|0.894;A|0.106	0.106	strong	.	REG3A	76	.	NM_138938	exon2	c.C185T	p.T62I	GCATCTGTCCAGG	.	PASS	Atlas-SNP
ZNF768	79724	hgsc.bcm.edu	37	16	30536918	30536918	+	Missense_Mutation	SNP	C	C	G	rs10871453	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	100	163	0	0.497512	0	C|0.640;G|0.360	0.360	strong	.	ZNF768	28	.	NM_024671	exon2	c.G543C	p.E181D	CTTTTCCTCGGGG	.	PASS	Atlas-SNP
KIAA1468	57614	hgsc.bcm.edu	37	18	59936142	59936142	+	Silent	SNP	C	C	T	rs17645999	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	91	200	0	0.526012	0	C|0.849;T|0.151	0.151	strong	.	KIAA1468	93	.	NM_020854	exon20	c.C2721T	p.V907V	TACAGTCCCCATT	.	PASS	Atlas-SNP
CD109	135228	hgsc.bcm.edu	37	6	74497152	74497152	+	Missense_Mutation	SNP	G	G	A	rs5023688	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	43	94	0	0.425743	0	G|0.598;A|0.402	0.402	strong	.	CD109	170	.	NM_133493	exon21	c.G2533A	p.V845I	GATGCTGTCACCC	.	PASS	Atlas-SNP
C16orf96	342346	hgsc.bcm.edu	37	16	4625938	4625938	+	Missense_Mutation	SNP	A	A	T	rs2450386	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	29	60	0	0.381579	0	A|0.865;T|0.135	0.135	strong	C16orf96,NS,carcinoma,0,1	C16orf96	28	1	NM_001145011	exon5	c.A1457T	p.D486V	GCAAGGATGGGGT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	82	131	0	0.557823	0	A|0.619;G|0.381	0.381	strong	.	SLC44A5	231	.	NM_152697	exon24	c.T2076C	p.S692S	TTCTGTAGATCCA	.	PASS	Atlas-SNP
USP53	54532	hgsc.bcm.edu	37	4	120181724	120181724	+	Silent	SNP	A	A	G	rs35372126	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	180	96	180	0	0.533333	0	A|0.753;G|0.247	0.247	strong	.	USP53	69	.	NM_019050	exon10	c.A738G	p.T246T	TGTTACAATTGGT	.	PASS	Atlas-SNP
JAG2	3714	hgsc.bcm.edu	37	14	105617042	105617042	+	Missense_Mutation	SNP	C	C	T	rs1057744	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	87	88	0	0.988636	0	C|0.423;T|0.577	0.577	strong	JAG2,NS,carcinoma,0,1	JAG2	69	1	NM_002226	exon12	c.G1501A	p.E501K	CACACTCGTCTCG	.	PASS	Atlas-SNP
CCDC88C	440193	hgsc.bcm.edu	37	14	91883129	91883129	+	Silent	SNP	G	G	A	rs45437097	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	59	143	0	0.495798	0	G|0.855;A|0.145	0.145	strong	.	CCDC88C	192	.	NM_001080414	exon2	c.C114T	p.Y38Y	ATCCATGTACATA	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324549	31324549	+	Missense_Mutation	SNP	T	T	C	rs1050570	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	71	74	0	0.47973	0	T|0.668;C|0.332	0.332	strong	HLA-B,NS,lymphoid_neoplasm,0,2	HLA-B	54	2	NM_005514	exon2	c.A259G	p.N87D	GTGTGTTCCGGTC	.	PASS	Atlas-SNP
YTHDC2	64848	hgsc.bcm.edu	37	5	112929013	112929013	+	Missense_Mutation	SNP	T	T	A	rs1132528	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	74	79	0	1	0	T|0.393;A|0.607	0.607	strong	.	YTHDC2	118	.	NM_022828	exon29	c.T4226A	p.L1409Q	AACCTCTGGTTGG	.	PASS	Atlas-SNP
KRTAP5-5	439915	hgsc.bcm.edu	37	11	1651550	1651550	+	Silent	SNP	C	C	T	rs61867582	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	94	62	0	1	0	C|0.478;T|0.522	0.522	strong	.	KRTAP5-5	86	.	NM_001001480	exon1	c.C480T	p.C160C	CTGCTGCAAGCCC	.	PASS	Atlas-SNP
MOXD1	26002	hgsc.bcm.edu	37	6	132722527	132722527	+	Silent	SNP	G	G	A	rs77906164	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	8	4	8	0	0.5	0	G|0.888;A|0.112	0.112	strong	.	MOXD1	136	.	NM_015529	exon1	c.C39T	p.L13L	CCCGGGGAGCAGC	.	PASS	Atlas-SNP
CHIA	27159	hgsc.bcm.edu	37	1	111854895	111854895	+	Missense_Mutation	SNP	G	G	A	rs41282494	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	60	149	0	0.425532	0	G|0.881;A|0.119	0.119	strong	.	CHIA	115	.	NM_201653	exon4	c.G139A	p.D47N	AACATCGACCCCT	.	PASS	Atlas-SNP
COLEC12	81035	hgsc.bcm.edu	37	18	334994	334994	+	Missense_Mutation	SNP	A	A	G	rs2305025	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	31	12	29	0	0.387097	0	A|0.363;G|0.637	0.637	strong	COLEC12,NS,carcinoma,0,1	COLEC12	121	1	NM_130386	exon6	c.T1564C	p.S522P	CACTGGAGCCCTG	.	PASS	Atlas-SNP
OSGIN1	29948	hgsc.bcm.edu	37	16	83999033	83999033	+	Silent	SNP	A	A	G	rs173776	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	22	11	26	0	0.5	0	A|0.701;G|0.299	0.299	strong	.	OSGIN1	33	.	NM_182981	exon6	c.A855G	p.S285S	GGCCTCAGACCCT	.	PASS	Atlas-SNP
NAALADL2	254827	hgsc.bcm.edu	37	3	174814920	174814920	+	Missense_Mutation	SNP	A	A	G	rs9836841	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	70	111	0	0.507246	0	A|0.617;G|0.383	0.383	strong	.	NAALADL2	86	.	NM_207015	exon2	c.A384G	p.I128M	AAAAATACTTTGC	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239016	31239016	+	Silent	SNP	G	G	A	rs1050373	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	58	254	0	0.302083	0	G|0.918;A|0.083	0.083	strong	.	HLA-C	92	.	NM_002117	exon3	c.C453T	p.N151N	GTCCTCGTTCAGG	.	PASS	Atlas-SNP
SVEP1	79987	hgsc.bcm.edu	37	9	113192655	113192655	+	Missense_Mutation	SNP	T	T	G	rs2986671	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	107	185	0	0.532338	0	T|0.723;G|0.277	0.277	strong	SVEP1,NS,carcinoma,-1,3	SVEP1	326	3	NM_153366	exon33	c.A5429C	p.E1810A	GTGACTTCGGCAC	.	PASS	Atlas-SNP
MB21D1	115004	hgsc.bcm.edu	37	6	74150048	74150048	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	4	190	0	0.02	0	.	.	none	MB21D1,NS,carcinoma,0,1	MB21D1	33	1	NM_138441	exon3	c.G998A	p.S333N	TGGGTGCTAGCAG	.	scavenged	Atlas-SNP
PCDHGA11	56105	hgsc.bcm.edu	37	5	140802456	140802456	+	Silent	SNP	G	G	A	rs62378455	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	172	80	154	0	0.465116	0	G|0.963;A|0.037	0.037	strong	.	PCDHGA11	128	.	NM_032091	exon1	c.G1662A	p.L554L	CGTGCTGGACCAG	.	PASS	Atlas-SNP
RARRES1	5918	hgsc.bcm.edu	37	3	158428642	158428642	+	Silent	SNP	G	G	A	rs2307064	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	433	207	411	1	0.47806	0.00243309	G|0.814;A|0.186	0.186	strong	.	RARRES1	22	.	NM_206963	exon3	c.C420T	p.T140T	ATTGATGGTTGGT	.	PASS	Atlas-SNP
SCAP	22937	hgsc.bcm.edu	37	3	47459679	47459679	+	Missense_Mutation	SNP	C	C	T	rs12487736	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	44	73	0	0.586667	0	C|0.531;T|0.469	0.469	strong	.	SCAP	88	.	NM_012235	exon16	c.G2392A	p.V798I	CGCAGACGTGGCC	.	PASS	Atlas-SNP
CROCC	9696	hgsc.bcm.edu	37	1	17282573	17282573	+	Silent	SNP	G	G	A	rs2273114	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	94	220	1	0.52514	0.00454545	G|0.854;A|0.146	0.146	strong	.	CROCC	185	.	NM_014675	exon25	c.G3786A	p.G1262G	GGCCGGGGAGCTG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	287	135	254	0	0.470383	0	C|0.532;T|0.468	0.468	strong	.	ALPK2	487	.	NM_052947	exon5	c.G2428A	p.G810S	GGTCACCAGCCTC	.	PASS	Atlas-SNP
ATP13A2	23400	hgsc.bcm.edu	37	1	17319011	17319011	+	Silent	SNP	G	G	A	rs2076603	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	213	211	216	0	0.99061	0	G|0.467;C|0.000;A|0.533	0.533	strong	.	ATP13A2	85	.	NM_022089	exon17	c.C1815T	p.P605P	AAGTGGGGGTCTC	.	PASS	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	37	10	129906364	129906364	+	Missense_Mutation	SNP	G	G	A	rs4750685	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	221	112	237	0	0.506787	0	G|0.915;A|0.085	0.085	strong	MKI67,NS,carcinoma,0,1	MKI67	363	1	NM_002417	exon13	c.C3740T	p.T1247I	ATTTTAGTGGTTT	.	PASS	Atlas-SNP
TPMT	7172	hgsc.bcm.edu	37	6	18139228	18139228	+	Missense_Mutation	SNP	C	C	T	rs1800460	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	65	223	0	0.349462	0	C|0.974;T|0.026	0.026	strong	.	TPMT	17	.	NM_000367	exon6	c.G460A	p.A154T	CTAATGCTCCTCT	.	PASS	Atlas-SNP
TRIM45	80263	hgsc.bcm.edu	37	1	117656088	117656088	+	Missense_Mutation	SNP	A	A	G	rs1289658	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	57	118	0	0.475	0	A|0.549;G|0.451	0.451	strong	.	TRIM45	55	.	NM_025188	exon5	c.T1487C	p.M496T	CTCACCATCACAG	.	PASS	Atlas-SNP
PCDHA4	56144	hgsc.bcm.edu	37	5	140187048	140187048	+	Silent	SNP	G	G	C	rs3822349	bycluster;byfrequency;byhapmap	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	22	90	0	0.30137	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
TMEM70	54968	hgsc.bcm.edu	37	8	74893653	74893653	+	Missense_Mutation	SNP	G	G	A	rs77410280	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	202	98	154	0	0.485149	0	G|0.989;A|0.011	0.011	strong	.	TMEM70	12	.	NM_017866	exon3	c.G580A	p.V194M	AGTACAGTGTTTC	.	PASS	Atlas-SNP
EIF2B4	8890	hgsc.bcm.edu	37	2	27590415	27590415	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	28	64	0	0.451613	0	.	.	none	.	EIF2B4	48	.	NM_172195	exon8	c.A854G	p.Q285R	CGGCACTGAGTCA	.	PASS	Atlas-SNP
HAS1	3036	hgsc.bcm.edu	37	19	52217128	52217128	+	Missense_Mutation	SNP	G	G	A	rs34682338	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	5	3	5	0	0.6	0	G|0.995;A|0.005	0.005	strong	HAS1,lower_third,carcinoma,0,1	HAS1	61	1	NM_001523	exon5	c.C1289T	p.A430V	AGCAGCGCCCAAG	.	scavenged	Atlas-SNP
LURAP1L	286343	hgsc.bcm.edu	37	9	12821695	12821695	+	Missense_Mutation	SNP	T	T	C	rs61755264	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	49	73	0	0.485149	0	T|0.992;C|0.008	0.008	strong	.	.	.	.	NM_203403	exon2	c.T623C	p.I208T	CCCTCATAGAGGA	.	PASS	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152283267	152283267	+	Silent	SNP	T	T	A	rs11581451	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	91	147	1	0.517045	0.00680272	T|0.993;A|0.007	0.007	strong	FLG,NS,carcinoma,-2,1	FLG	900	1	NM_002016	exon3	c.A4095T	p.A1365A	GCTGTCTGCTGAC	.	scavenged	Atlas-SNP
KRTAP3-3	85293	hgsc.bcm.edu	37	17	39150167	39150167	+	Silent	SNP	G	G	A	rs12452295	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	236	115	244	0	0.487288	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
RHOT2	89941	hgsc.bcm.edu	37	16	722331	722331	+	Missense_Mutation	SNP	C	C	T	rs3177338	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	73	72	63	0	0.986301	0	C|0.469;T|0.531	0.531	strong	.	RHOT2	35	.	NM_138769	exon15	c.C1273T	p.R425C	GGGGCCCGTGGAG	.	PASS	Atlas-SNP
LOXL1	4016	hgsc.bcm.edu	37	15	74219582	74219582	+	Missense_Mutation	SNP	G	G	A	rs3825942	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	10	7	11	0	0.7	0	G|0.767;A|0.233	0.233	strong	.	LOXL1	25	.	NM_005576	exon1	c.G458A	p.G153D	ACGGGGGCTCCGC	.	PASS	Atlas-SNP
AATK	9625	hgsc.bcm.edu	37	17	79093211	79093211	+	Silent	SNP	G	G	A	rs201255728	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	15	7	22	0	0.466667	0	G|0.999;A|0.001	0.001	strong	.	AATK	102	.	NM_001080395	exon13	c.C4053T	p.H1351H	AGACACGTGCGTG	.	PASS	Atlas-SNP
SON	6651	hgsc.bcm.edu	37	21	34925697	34925697	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	214	4	200	1	0.0186916	0.005	.	.	none	SON_ENST00000300278,NS,carcinoma,0,2	SON	343	2	NM_032195	exon3	c.C4160T	p.S1387L	AGCCTTCGGTTGT	.	scavenged	Atlas-SNP
ALOX15B	247	hgsc.bcm.edu	37	17	7950952	7950952	+	Silent	SNP	C	C	A	rs9898751	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	104	85	0	1	0	C|0.565;A|0.435	0.435	strong	ALOX15B,NS,carcinoma,0,2	ALOX15B	66	2	NM_001141	exon12	c.C1650A	p.S550S	CTGCTCCGCCAAG	.	PASS	Atlas-SNP
IL3RA	3563	hgsc.bcm.edu	37	X	1471062	1471062	+	Missense_Mutation	SNP	G	G	C	rs201651258		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	107	253	0	0.930435	0	.	.	weak	.	IL3RA	49	.	NM_002183	exon5	c.G368C	p.S123T	GCTGCAGCTGGGC	.	PASS	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	37	7	48313510	48313510	+	Missense_Mutation	SNP	A	A	G	rs17547830	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	84	133	0	0.545455	0	A|0.781;G|0.219	0.219	strong	.	ABCA13	1192	.	NM_152701	exon17	c.A4247G	p.H1416R	AAGGTCATCTTCA	.	PASS	Atlas-SNP
NPEPL1	79716	hgsc.bcm.edu	37	20	57282190	57282190	+	Silent	SNP	G	G	A	rs41310841	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	161	68	173	0	0.42236	0	G|0.947;A|0.053	0.053	strong	NPEPL1,NS,carcinoma,0,1	NPEPL1	36	1	NM_024663	exon7	c.G834A	p.P278P	CATGCCGGGGATG	.	PASS	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240804	39240804	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	9	31	0	0.140625	0	.	.	none	KRTAP4-7,caecum,carcinoma,0,1	KRTAP4-7	49	1	NM_033061	exon1	c.C346A	p.R116S	TGCTGCCGCCCCT	.	scavenged	Atlas-SNP
TMPO	7112	hgsc.bcm.edu	37	12	98927830	98927830	+	Missense_Mutation	SNP	C	C	G	rs17459334	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	50	97	0	0.480769	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
OR14C36	127066	hgsc.bcm.edu	37	1	248512498	248512498	+	Missense_Mutation	SNP	A	A	G	rs28448343	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	178	94	147	0	0.52809	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
OR1N2	138882	hgsc.bcm.edu	37	9	125316033	125316033	+	Silent	SNP	T	T	C	rs1341042	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	246	105	177	0	0.426829	0	T|0.470;C|0.530	0.530	strong	.	OR1N2	51	.	NM_001004457	exon1	c.T585C	p.Y195Y	TTTCTATTGTGAT	.	PASS	Atlas-SNP
OR8D4	338662	hgsc.bcm.edu	37	11	123777302	123777302	+	Missense_Mutation	SNP	T	T	G	rs17127947	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	261	134	229	0	0.51341	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
KIAA0556	23247	hgsc.bcm.edu	37	16	27752099	27752099	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	38	59	0	0.481013	0	.	.	none	.	KIAA0556	348	.	NM_015202	exon15	c.G2481T	p.Q827H	ACCCCAGAGGGCA	.	PASS	Atlas-SNP
PCDHB8	56128	hgsc.bcm.edu	37	5	140558345	140558345	+	Missense_Mutation	SNP	G	G	C	rs2950844	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	467	156	187	0	0.334047	0	G|0.884;C|0.116	0.116	strong	.	PCDHB8	199	.	NM_019120	exon1	c.G730C	p.E244Q	GAATTTGAGCAGC	.	PASS	Atlas-SNP
ZNF326	284695	hgsc.bcm.edu	37	1	90493026	90493026	+	Silent	SNP	G	G	A	rs10922744	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	67	116	0	0.475177	0	A|0.588;G|0.412	0.588	strong	.	ZNF326	60	.	NM_182976	exon12	c.G1515A	p.E505E	AGATGAGGAAGAA	.	PASS	Atlas-SNP
FLJ44635	0	hgsc.bcm.edu	37	X	71379881	71379881	+	Missense_Mutation	SNP	G	G	A	rs6624600	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	125	128	1	0.976562	0.0078125	G|0.566;A|0.434	0.434	strong	.	FLJ44635	13	.	NM_207422	exon2	c.G202A	p.E68K	GGTACCGAAAGCA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	132	116	0	1	0	A|0.754;C|0.002	.	strong	.	HIVEP1	242	.	NM_002114	exon4	c.A2146G	p.T716A	GTCACCACGTCAA	.	PASS	Atlas-SNP
TRIM5	85363	hgsc.bcm.edu	37	11	5688940	5688940	+	Missense_Mutation	SNP	C	C	T	rs11038628	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	61	100	0	0.586538	0	C|0.821;T|0.179	0.179	strong	.	TRIM5	111	.	NM_033093	exon5	c.G746A	p.G249D	TCCACACCCTAGG	.	PASS	Atlas-SNP
ERAP2	64167	hgsc.bcm.edu	37	5	96232142	96232142	+	Silent	SNP	T	T	A	rs2548538	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	247	111	212	0	0.449393	0	T|0.450;A|0.550	0.550	strong	.	ERAP2	77	.	NM_001130140	exon8	c.T1305A	p.P435P	CCGCCCTATCTCC	.	PASS	Atlas-SNP
OR1S1	219959	hgsc.bcm.edu	37	11	57982229	57982229	+	Missense_Mutation	SNP	A	A	G	rs1966836	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	74	128	0	0.425287	0	G|0.613;N|0.000	0.613	strong	.	OR1S1	139	.	NM_001004458	exon1	c.A13G	p.S5G	ACTTTTAGTTCCT	.	PASS	Atlas-SNP
ITGB1	3688	hgsc.bcm.edu	37	10	33217110	33217110	+	Silent	SNP	G	G	A	rs2230394	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	267	112	246	0	0.419476	0	T|0.047;G|0.667;C|0.138;A|0.148	0.148	strong	.	ITGB1	156	.	NM_002211	exon5	c.C459T	p.Y153Y	CATTGAGTAAGAC	.	PASS	Atlas-SNP
SPTB	6710	hgsc.bcm.edu	37	14	65249052	65249052	+	Missense_Mutation	SNP	C	C	G	rs17245552	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	103	153	0	0.575419	0	C|0.925;G|0.075	0.075	strong	.	SPTB	378	.	NM_001024858	exon19	c.G4222C	p.G1408R	CCTTGCCCGGGTC	.	PASS	Atlas-SNP
MICAL1	64780	hgsc.bcm.edu	37	6	109768295	109768295	+	Silent	SNP	G	G	A	rs910730	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	50	55	0	0.526316	0	G|0.464;A|0.536	0.536	strong	.	MICAL1	79	.	NM_022765	exon17	c.C2208T	p.Y736Y	CTGCTCGTAGCCA	.	PASS	Atlas-SNP
C21orf91	54149	hgsc.bcm.edu	37	21	19169218	19169218	+	Missense_Mutation	SNP	G	G	C	rs2824495	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	44	87	0	0.478261	0	G|0.749;C|0.251	0.251	strong	.	C21orf91	21	.	NM_017447	exon3	c.C345G	p.N115K	CTGGGGGTTTTTA	.	PASS	Atlas-SNP
GPR146	115330	hgsc.bcm.edu	37	7	1097394	1097394	+	Silent	SNP	T	T	C	rs11767527	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	15	42	0	0.384615	0	T|0.898;C|0.102	0.102	strong	GPR146,NS,carcinoma,0,3	GPR146	20	3	NM_138445	exon1	c.T243C	p.P81P	GGCCCCTGTGCAC	.	PASS	Atlas-SNP
SLC2A13	114134	hgsc.bcm.edu	37	12	40499347	40499347	+	Silent	SNP	G	G	A	rs7305377	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	22	49	0	0.468085	0	G|0.909;A|0.091	0.091	strong	.	SLC2A13	91	.	NM_052885	exon1	c.C264T	p.S88S	CAGCGCGGAGAAG	.	PASS	Atlas-SNP
UBQLNL	143630	hgsc.bcm.edu	37	11	5536309	5536309	+	Missense_Mutation	SNP	G	G	C	rs12223282	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	84	132	0	0.556291	0	G|0.966;C|0.034	0.034	strong	.	UBQLNL	74	.	NM_145053	exon1	c.C1363G	p.Q455E	TCCACTGTTCACT	.	PASS	Atlas-SNP
ARHGEF40	55701	hgsc.bcm.edu	37	14	21553057	21553057	+	Missense_Mutation	SNP	T	T	C	rs943992	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	191	89	189	0	0.465969	0	T|0.922;C|0.078	0.078	strong	.	ARHGEF40	84	.	NM_018071	exon18	c.T3935C	p.M1312T	CAGAGATGTTTGT	.	PASS	Atlas-SNP
ZNF443	10224	hgsc.bcm.edu	37	19	12540971	12540971	+	Missense_Mutation	SNP	T	T	A	rs56416307	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	248	206	298	0	0.830645	0	T|0.500;A|0.500	0.500	strong	.	ZNF443	63	.	NM_005815	exon4	c.A2015T	p.X672L	GAATGCTAGTGAG	.	PASS	Atlas-SNP
SPTBN1	6711	hgsc.bcm.edu	37	2	54858435	54858435	+	Missense_Mutation	SNP	C	C	T	rs377200533		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	56	113	0	0.482759	0	.	.	weak	.	SPTBN1	378	.	NM_003128	exon16	c.C3251T	p.A1084V	AGACAGCGATCGC	.	PASS	Atlas-SNP
OR5H1	26341	hgsc.bcm.edu	37	3	97851661	97851661	+	Missense_Mutation	SNP	G	G	T	rs200721525	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	682	11	522	4	0.016129	0.00766284	G|0.982;T|0.018	0.018	strong	OR5H1,NS,carcinoma,0,7	OR5H1	71	7	NM_001005338	exon1	c.G120T	p.M40I	CATCATGGGGAAT	.	scavenged	Atlas-SNP
CCDC88B	283234	hgsc.bcm.edu	37	11	64120835	64120835	+	Silent	SNP	C	C	T	rs61746624	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	60	103	0	0.447761	0	C|0.993;T|0.007	0.007	strong	.	CCDC88B	89	.	NM_032251	exon22	c.C3700T	p.L1234L	ACACAGCTGCGAA	.	PASS	Atlas-SNP
SLC9A1	6548	hgsc.bcm.edu	37	1	27480757	27480757	+	Silent	SNP	A	A	G	rs34306208	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	79	90	0	1	0	A|0.711;G|0.289	0.289	strong	.	SLC9A1	68	.	NM_003047	exon1	c.T69C	p.V23V	CAAAGCAACCACC	.	PASS	Atlas-SNP
HHAT	55733	hgsc.bcm.edu	37	1	210577884	210577884	+	Missense_Mutation	SNP	G	G	A	rs2294851	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	112	61	0	0.982456	0	G|0.875;A|0.125	0.125	strong	HHAT,NS,carcinoma,0,1	HHAT	66	1	NM_001170587	exon5	c.G548A	p.S183N	ACACCAGCTTCAG	.	PASS	Atlas-SNP
FHAD1	114827	hgsc.bcm.edu	37	1	15668319	15668319	+	Missense_Mutation	SNP	G	G	A	rs12126178	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	201	97	158	0	0.482587	0	G|0.930;A|0.070	0.070	strong	FHAD1_ENST00000375999,NS,carcinoma,0,2	FHAD1	78	2	NM_052929	exon15	c.G1994A	p.R665Q	CTGAACGAGGAGA	.	PASS	Atlas-SNP
ARHGAP32	9743	hgsc.bcm.edu	37	11	128839550	128839550	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	26	65	0	0.440678	0	.	.	none	.	ARHGAP32	307	.	NM_001142685	exon22	c.C5516A	p.A1839D	TGGTGGGCTCTGT	.	PASS	Atlas-SNP
ADAMTSL4	54507	hgsc.bcm.edu	37	1	150525425	150525425	+	Missense_Mutation	SNP	G	G	A	rs41317513	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	69	97	0	0.492857	0	G|0.974;A|0.026	0.026	strong	.	ADAMTSL4	101	.	NM_019032	exon5	c.G130A	p.E44K	GGCCCCGAAGGTG	.	PASS	Atlas-SNP
DIEXF	27042	hgsc.bcm.edu	37	1	210004332	210004332	+	Missense_Mutation	SNP	G	G	A	rs61747285	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	162	143	1	1	0.00699301	G|0.875;A|0.125	0.125	strong	DIEXF,NS,carcinoma,+1,1	DIEXF	97	1	NM_014388	exon3	c.G332A	p.G111D	ATGGTGGTAGCGA	.	PASS	Atlas-SNP
PION	54103	hgsc.bcm.edu	37	7	76991935	76991935	+	Missense_Mutation	SNP	C	C	T	rs1527263	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	73	168	0	0.459119	0	C|0.675;N|0.000	.	strong	PION,colon,carcinoma,+1,4	PION	74	4	NM_017439	exon13	c.G914A	p.G305E	ATTTGTCCCCAAG	.	PASS	Atlas-SNP
VPS41	27072	hgsc.bcm.edu	37	7	38796570	38796570	+	Silent	SNP	G	G	A	rs2240350	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	23	64	0	0.425926	0	G|0.643;A|0.357	0.357	strong	.	VPS41	102	.	NM_014396	exon19	c.C1563T	p.D521D	GTTCTTGTCATAG	.	PASS	Atlas-SNP
POPDC3	64208	hgsc.bcm.edu	37	6	105609468	105609468	+	Missense_Mutation	SNP	C	C	T	rs11961225	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	208	101	193	0	0.485577	0	C|0.962;T|0.038	0.038	strong	POPDC3,right_lower_lobe,carcinoma,-1,1	POPDC3	47	1	NM_022361	exon2	c.G317A	p.R106Q	AATTCTCGGGCAA	.	PASS	Atlas-SNP
ZNF556	80032	hgsc.bcm.edu	37	19	2877365	2877365	+	Missense_Mutation	SNP	C	C	T	rs10421121	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	57	156	0	0.495652	0	C|0.889;T|0.111	0.111	strong	.	ZNF556	73	.	NM_024967	exon4	c.C409T	p.R137C	CATCTGCGCAAGA	.	PASS	Atlas-SNP
ZNF333	84449	hgsc.bcm.edu	37	19	14817548	14817548	+	Silent	SNP	T	T	A	rs6511961	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	68	84	0	1	0	T|0.274;A|0.726	0.726	strong	.	ZNF333	76	.	NM_032433	exon7	c.T474A	p.T158T	GCCTACTCTGGGC	.	PASS	Atlas-SNP
ATF7IP	55729	hgsc.bcm.edu	37	12	14649196	14649196	+	Silent	SNP	A	A	G	rs61754409	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	95	214	0	0.505319	0	A|0.946;G|0.054	0.054	strong	.	ATF7IP	136	.	NM_018179	exon14	c.A3312G	p.T1104T	AACCACATATGTT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	113	52	115	0	0.460177	0	T|0.566;A|0.434	0.434	strong	.	TIMELESS	107	.	NM_003920	exon12	c.A1363T	p.I455L	GAGATATGTCCAT	.	PASS	Atlas-SNP
PLP1	5354	hgsc.bcm.edu	37	X	103042882	103042882	+	Silent	SNP	T	T	C	rs1126707	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	115	89	0	0.958333	0	T|0.774;C|0.226	0.226	strong	.	PLP1	37	.	NM_001128834	exon5	c.T609C	p.D203D	TGCTGATGCCAGA	.	PASS	Atlas-SNP
CENPF	1063	hgsc.bcm.edu	37	1	214826196	214826196	+	Missense_Mutation	SNP	G	G	A	rs335524	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	61	106	0	0.429577	0	G|0.532;T|0.002	.	strong	.	CENPF	321	.	NM_016343	exon16	c.G8186A	p.R2729Q	CATACCGAGAGAA	.	PASS	Atlas-SNP
IL17RC	84818	hgsc.bcm.edu	37	3	9974809	9974809	+	Silent	SNP	G	G	A	rs76999397	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	19	68	0	0.422222	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
LILRB3	11025	hgsc.bcm.edu	37	19	54725019	54725019	+	Silent	SNP	G	G	A	rs78279726	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	76	97	0	1	0	G|0.702;A|0.298	0.298	strong	.	LILRB3	67	.	NM_006864	exon5	c.C891T	p.Y297Y	TGCACCGTAGCAC	.	PASS	Atlas-SNP
SPATA2	9825	hgsc.bcm.edu	37	20	48524827	48524827	+	Silent	SNP	A	A	G	rs2769982	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	56	115	0	0.486957	0	A|0.584;G|0.416	0.416	strong	.	SPATA2	36	.	NM_006038	exon2	c.T201C	p.Y67Y	CACCTCATAGAAC	.	PASS	Atlas-SNP
MLXIP	22877	hgsc.bcm.edu	37	12	122623000	122623000	+	Silent	SNP	T	T	C	rs4758686	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	58	93	0	0.568627	0	T|0.472;C|0.528	0.528	strong	.	MLXIP	46	.	NM_014938	exon14	c.T2286C	p.T762T	GAAGACTGTGGAG	.	PASS	Atlas-SNP
PALD1	27143	hgsc.bcm.edu	37	10	72289778	72289778	+	Missense_Mutation	SNP	C	C	T	rs2275060	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	28	60	0	0.41791	0	C|0.843;N|0.001	.	strong	.	.	.	.	NM_014431	exon4	c.C422T	p.S141L	GCCTCTCAGGGTT	.	PASS	Atlas-SNP
GCOM1	145781	hgsc.bcm.edu	37	15	57918069	57918069	+	Silent	SNP	A	A	G	rs2069133	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	54	140	0	0.428571	0	A|0.516;G|0.484	0.484	strong	.	GCOM1	66	.	NM_001018090	exon5	c.A504G	p.A168A	CTTGGCATCAGAT	.	PASS	Atlas-SNP
ZBTB7B	51043	hgsc.bcm.edu	37	1	154987526	154987526	+	Silent	SNP	C	C	T	rs11264295	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	48	71	0	0.461538	0	C|0.487;T|0.513	0.513	strong	ZBTB7B,NS,carcinoma,0,1	ZBTB7B	69	1	NM_001252406	exon4	c.C492T	p.I164I	GGAGATCCCGTGT	.	PASS	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	37	1	22182115	22182115	+	Missense_Mutation	SNP	G	G	A	rs2229474	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	28	82	0	0.538462	0	G|0.994;A|0.006	0.006	strong	.	HSPG2	311	.	NM_005529	exon46	c.C5755T	p.R1919C	GCAGGCGCAGGAT	.	PASS	Atlas-SNP
ACSM5	54988	hgsc.bcm.edu	37	16	20442608	20442608	+	Missense_Mutation	SNP	C	C	A	rs79364355	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	42	130	0	0.25	0	C|0.500;A|0.500	0.500	weak	ACSM5,NS,NS,0,1	ACSM5	101	1	NM_017888	exon10	c.C1273A	p.P425T	ATCAGACCCACTC	.	PASS	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	37	10	129917560	129917560	+	Missense_Mutation	SNP	T	T	C	rs2071498	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	191	188	0	0.994792	0	T|0.378;C|0.622	0.622	strong	.	MKI67	363	.	NM_001145966	exon5	c.A311G	p.N104S	CTTCCATTCTGAA	.	PASS	Atlas-SNP
TRPV2	51393	hgsc.bcm.edu	37	17	16336992	16336992	+	Silent	SNP	C	C	G	rs14039	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	47	92	0	0.5	0	T|0.000;G|0.355;C|0.645	0.355	strong	TRPV2,NS,carcinoma,0,1	TRPV2	74	1	NM_016113	exon13	c.C2094G	p.P698P	CAGCCCCGATGAG	.	PASS	Atlas-SNP
MYEOV2	150678	hgsc.bcm.edu	37	2	241066325	241066325	+	Silent	SNP	A	A	C	rs12614632	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	62	70	0	0.5	0	A|0.814;C|0.186	0.186	strong	.	MYEOV2	20	.	NM_138336	exon5	c.T414G	p.A138A	GTCCAAAGCTGCC	.	PASS	Atlas-SNP
YARS2	51067	hgsc.bcm.edu	37	12	32908237	32908237	+	Missense_Mutation	SNP	C	C	A	rs11539445	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	50	81	0	0.45045	0	C|0.856;A|0.144	0.144	strong	.	YARS2	33	.	NM_001040436	exon1	c.G572T	p.G191V	AAGTGACCCCCCA	.	PASS	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	37	8	3072107	3072107	+	Silent	SNP	G	G	C	rs73183587	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	230	118	193	0	0.513043	0	G|0.909;C|0.091	0.091	strong	.	CSMD1	1469	.	NM_033225	exon30	c.C4779G	p.G1593G	CTTATAGCCAGAG	.	PASS	Atlas-SNP
MYO1G	64005	hgsc.bcm.edu	37	7	45005249	45005249	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	40	61	0	0.412371	0	.	.	none	.	MYO1G	86	.	NM_033054	exon17	c.G2368A	p.A790T	AGAGTGCGTGGCA	.	PASS	Atlas-SNP
SIGLEC11	114132	hgsc.bcm.edu	37	19	50453317	50453317	+	Silent	SNP	C	C	T	rs9304690	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	132	71	116	0	0.537879	0	C|0.803;T|0.197	0.197	strong	SIGLEC11,colon,carcinoma,0,1	SIGLEC11	70	1	NM_052884	exon11	c.G2007A	p.S669S	GATCTCCGAGTAC	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144997656	144997656	+	Silent	SNP	C	C	T	rs7016416	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	23	11	15	0	0.478261	0	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
ALX4	60529	hgsc.bcm.edu	37	11	44286566	44286566	+	Silent	SNP	G	G	A	rs3802805	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	63	118	0	0.456522	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
CPA5	93979	hgsc.bcm.edu	37	7	130007388	130007388	+	Missense_Mutation	SNP	G	G	T	rs17854248	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	360	176	320	0	0.488889	0	G|0.810;T|0.190	0.190	strong	.	CPA5	61	.	NM_080385	exon11	c.G1014T	p.E338D	GCTGGAGCCCGTT	.	PASS	Atlas-SNP
ZNF571	51276	hgsc.bcm.edu	37	19	38056574	38056574	+	Missense_Mutation	SNP	T	T	A	rs28512414	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	17	36	0	0.326923	0	T|0.733;A|0.267	0.267	strong	.	ZNF571	54	.	NM_016536	exon4	c.A756T	p.E252D	CTTACATTCATAT	.	PASS	Atlas-SNP
ECI2	10455	hgsc.bcm.edu	37	6	4133855	4133855	+	Missense_Mutation	SNP	C	C	T	rs3177253	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	235	115	210	1	0.489362	0.0047619	C|0.821;T|0.179	0.179	strong	.	ECI2	59	.	NM_206836	exon2	c.G141A	p.M47I	TTGATTCATTGAA	.	PASS	Atlas-SNP
PRRT3	285368	hgsc.bcm.edu	37	3	9990800	9990800	+	Missense_Mutation	SNP	G	G	C	rs59465469	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	51	20	38	0	0.392157	0	G|0.675;C|0.325	0.325	strong	PRRT3,NS,carcinoma,0,1	PRRT3	35	1	NM_207351	exon2	c.C1000G	p.R334G	ACGGCCGATCAGG	.	PASS	Atlas-SNP
SLC25A46	91137	hgsc.bcm.edu	37	5	110079450	110079450	+	Silent	SNP	T	T	C	rs17446534	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	298	138	289	0	0.463087	0	T|0.938;C|0.062	0.062	strong	.	SLC25A46	33	.	NM_138773	exon3	c.T346C	p.L116L	AATGTATTGGCAC	.	PASS	Atlas-SNP
NINL	22981	hgsc.bcm.edu	37	20	25484623	25484623	+	Missense_Mutation	SNP	G	G	A	rs13044759	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	274	140	205	0	0.510949	0	G|0.973;A|0.027	0.027	strong	.	NINL	148	.	NM_025176	exon7	c.C826T	p.R276W	TAACCCGAGTGGA	.	PASS	Atlas-SNP
STPG2	285555	hgsc.bcm.edu	37	4	99027184	99027184	+	Missense_Mutation	SNP	T	T	C	rs2903150	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	116	115	116	0	0.991379	0	T|0.617;C|0.383	0.383	strong	.	.	.	.	NM_174952	exon5	c.A532G	p.I178V	TCTTGATGTTAAC	.	PASS	Atlas-SNP
WDR81	124997	hgsc.bcm.edu	37	17	1630208	1630208	+	Missense_Mutation	SNP	C	C	T	rs57207396	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	39	69	0	0.481481	0	C|0.727;G|0.000;T|0.272	0.272	strong	.	WDR81	180	.	NM_001163809	exon1	c.C1955T	p.P652L	ACAGGCCGGTGGC	.	PASS	Atlas-SNP
LILRB4	11006	hgsc.bcm.edu	37	19	55179377	55179377	+	Missense_Mutation	SNP	T	T	G	rs149600113		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	257	5	217	1	0.0194553	0.00460829	.	.	weak	LILRB4,NS,carcinoma,0,1	LILRB4	86	1	NM_006847	exon12	c.T1254G	p.F418L	CAGCTTTACCCTC	.	scavenged	Atlas-SNP
COL6A3	1293	hgsc.bcm.edu	37	2	238267717	238267717	+	Silent	SNP	C	C	T	rs2646254	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	271	114	222	0	0.420664	0	C|0.720;T|0.280	0.280	strong	.	COL6A3	608	.	NM_004369	exon20	c.G6369A	p.L2123L	ACCAGGCAATCCT	.	PASS	Atlas-SNP
C6orf170	221322	hgsc.bcm.edu	37	6	121638682	121638682	+	Missense_Mutation	SNP	G	G	A	rs75540618	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	532	225	512	1	0.422932	0.00195312	G|0.954;A|0.046	0.046	strong	C6orf170,rectum,carcinoma,+1,6	C6orf170	146	6	NM_152730	exon3	c.C454T	p.R152C	CTGTGCGGTAACT	.	PASS	Atlas-SNP
WNT9B	7484	hgsc.bcm.edu	37	17	44949945	44949945	+	Missense_Mutation	SNP	A	A	G	rs118185468	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	49	115	0	0.526882	0	A|0.997;G|0.003	0.003	strong	.	WNT9B	37	.	NM_003396	exon2	c.A140G	p.Q47R	CGGCACAGGGCGG	.	PASS	Atlas-SNP
C2orf71	388939	hgsc.bcm.edu	37	2	29295016	29295016	+	Silent	SNP	A	A	G	rs10200693	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	186	86	180	0	0.462366	0	A|0.660;G|0.340	0.340	strong	.	C2orf71	146	.	NM_001029883	exon1	c.T2112C	p.N704N	GATGGCATTTGGA	.	PASS	Atlas-SNP
C4A	720	hgsc.bcm.edu	37	6	31996966	31996966	+	Missense_Mutation	SNP	G	G	A	rs2746414	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	272	43	360	0	0.158088	0	G|0.716;A|0.284	0.284	strong	.	C4A	15	.	NM_007293	exon28	c.G3527A	p.S1176N	AGGCAAGCTCATT	.	PASS	Atlas-SNP
ADCY8	114	hgsc.bcm.edu	37	8	131922027	131922027	+	Silent	SNP	T	T	G	rs12545028	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	245	124	174	0	0.506122	0	T|0.866;G|0.134	0.134	strong	.	ADCY8	291	.	NM_001115	exon6	c.A1567C	p.R523R	ACTTCCTTAGTCC	.	PASS	Atlas-SNP
NCOA6	23054	hgsc.bcm.edu	37	20	33342629	33342629	+	Missense_Mutation	SNP	G	G	C	rs148359628	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	144	76	152	0	0.527778	0	G|0.999;C|0.001	0.001	strong	.	NCOA6	219	.	NM_014071	exon8	c.C1571G	p.A524G	GGATTGGCCTGTC	.	PASS	Atlas-SNP
CHTF18	63922	hgsc.bcm.edu	37	16	839269	839269	+	Missense_Mutation	SNP	G	G	A	rs77682584	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	204	97	162	0	0.47549	0	G|0.900;A|0.100	0.100	strong	.	CHTF18	52	.	NM_022092	exon3	c.G346A	p.E116K	TCGGAGGAGATGG	.	PASS	Atlas-SNP
GHRL	51738	hgsc.bcm.edu	37	3	10328453	10328453	+	Missense_Mutation	SNP	T	T	A	rs4684677	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	65	89	0	0.550847	0	T|0.950;A|0.050	0.050	strong	.	GHRL	8	.	NM_016362	exon4	c.A269T	p.Q90L	TGGTACTGAACCC	.	PASS	Atlas-SNP
IP6K3	117283	hgsc.bcm.edu	37	6	33694659	33694659	+	Silent	SNP	G	G	A	rs34252064	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	86	101	0	0.540881	0	G|0.901;A|0.099	0.099	strong	.	IP6K3	52	.	NM_001142883	exon5	c.C438T	p.S146S	GGGCTCGGACCTC	.	PASS	Atlas-SNP
ZNF76	7629	hgsc.bcm.edu	37	6	35259397	35259397	+	Missense_Mutation	SNP	C	C	T	rs33959228	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	85	121	0	0.586207	0	C|0.989;T|0.011	0.011	strong	.	ZNF76	37	.	NM_003427	exon9	c.C814T	p.R272C	AACATCCGCAAGG	.	PASS	Atlas-SNP
FAM194A	131831	hgsc.bcm.edu	37	3	150421419	150421419	+	Silent	SNP	G	G	A	rs17281287	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	52	77	0	0.52	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
AQPEP	0	hgsc.bcm.edu	37	5	115338958	115338958	+	Missense_Mutation	SNP	G	G	T	rs17138632	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	62	102	0	0.476923	0	G|0.972;T|0.028	0.028	strong	FLJ90650,NS,carcinoma,0,1	.	.	1	NM_173800	exon12	c.G1918T	p.V640F	ATGCAAGTTTCAG	.	PASS	Atlas-SNP
CES5A	221223	hgsc.bcm.edu	37	16	55880480	55880480	+	Missense_Mutation	SNP	A	A	C	rs11860456	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	88	167	0	0.465608	0	A|0.672;C|0.328	0.328	strong	.	CES5A	206	.	NM_001190158	exon14	c.T1698G	p.D566E	CCAAAAATCCACC	.	PASS	Atlas-SNP
RNLS	55328	hgsc.bcm.edu	37	10	90342837	90342837	+	Missense_Mutation	SNP	C	C	G	rs2296545	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	93	151	0	0.978947	0	C|0.532;G|0.468	0.468	strong	RNLS_ENST00000331772,NS,carcinoma,0,2	RNLS	45	2	NM_001031709	exon1	c.G111C	p.E37D	TGAGTCCTCAGCC	.	PASS	Atlas-SNP
ANK3	288	hgsc.bcm.edu	37	10	61965625	61965625	+	Silent	SNP	A	A	G	rs2297979	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	75	135	0	0.490196	0	A|0.830;G|0.170	0.170	strong	ANK3,NS,carcinoma,0,1	ANK3	703	1	NM_020987	exon11	c.T1218C	p.I406I	GCAGGCAATATGA	.	PASS	Atlas-SNP
ZNF710	374655	hgsc.bcm.edu	37	15	90623052	90623052	+	Silent	SNP	T	T	C	rs2970357	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	33	61	0	0.478261	0	T|0.409;C|0.591	0.591	strong	.	ZNF710	50	.	NM_198526	exon5	c.T1986C	p.N662N	CTACAATGTGCTA	.	PASS	Atlas-SNP
COL16A1	1307	hgsc.bcm.edu	37	1	32164206	32164206	+	Silent	SNP	T	T	G	rs2228550	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	64	64	60	0	1	0	T|0.396;G|0.604	0.604	strong	.	COL16A1	137	.	NM_001856	exon5	c.A268C	p.R90R	ATACTCTTCTGGA	.	PASS	Atlas-SNP
ARHGEF3	50650	hgsc.bcm.edu	37	3	56835761	56835761	+	Silent	SNP	G	G	A	rs3732508	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	67	148	0	0.452703	0	G|0.677;A|0.323	0.323	strong	ARHGEF3_ENST00000296315,NS,carcinoma,0,2	ARHGEF3	128	2	NM_019555	exon1	c.C66T	p.P22P	GGCCGGGGGTAGC	.	PASS	Atlas-SNP
DDX11	1663	hgsc.bcm.edu	37	12	31249861	31249861	+	Missense_Mutation	SNP	C	C	G	rs2075322	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	151	64	163	0	0.423841	0	C|0.436;G|0.564	0.564	strong	.	DDX11	188	.	NM_030653	exon17	c.C1699G	p.Q567E	CACATCCAAGGCT	.	PASS	Atlas-SNP
OR52E2	119678	hgsc.bcm.edu	37	11	5080844	5080844	+	Missense_Mutation	SNP	T	T	C	rs16909440	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	77	91	0	1	0	C|0.306;N|0.000	0.306	strong	.	OR52E2	63	.	NM_001005164	exon1	c.A14G	p.N5S	GTGTCATTGGGAA	.	PASS	Atlas-SNP
GAK	2580	hgsc.bcm.edu	37	4	843508	843508	+	Missense_Mutation	SNP	C	C	T	rs1134921	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	211	102	218	0	0.483412	0	C|0.900;T|0.100	0.100	strong	.	GAK	104	.	NM_005255	exon28	c.G3889A	p.D1297N	AGGCGTCATTCAG	.	PASS	Atlas-SNP
YEATS2	55689	hgsc.bcm.edu	37	3	183432983	183432983	+	Silent	SNP	C	C	T	rs3736535	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	225	120	203	0	0.533333	0	C|0.804;T|0.196	0.196	strong	.	YEATS2	111	.	NM_018023	exon2	c.C33T	p.T11T	AGAAACCGACCCT	.	PASS	Atlas-SNP
KRTAP1-3	81850	hgsc.bcm.edu	37	17	39190953	39190953	+	Missense_Mutation	SNP	G	G	C	rs78298475	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	181	29	171	0	0.160221	0	C|1.000;|0.000	1.000	weak	KRTAP1-3,NS,carcinoma,0,1	KRTAP1-3	18	1	NM_030966	exon1	c.C121G	p.Q41E	TGGTCTGGCAGCA	.	PASS	Atlas-SNP
TADA1	117143	hgsc.bcm.edu	37	1	166829522	166829522	+	Missense_Mutation	SNP	C	C	T	rs2272792	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	53	137	0	0.417323	0	C|0.971;T|0.029	0.029	strong	.	TADA1	32	.	NM_053053	exon6	c.G593A	p.R198Q	CGTAACCGATAAG	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	44	130	0	0.357724	0	T|0.741;C|0.259	0.259	strong	.	EFCAB7	45	.	NM_032437	exon6	c.T785C	p.M262T	AGTTAATGGAGCC	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103410912	103410912	+	Silent	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	46	65	0	0.438095	0	.	.	none	.	.	.	.	NM_001146197	exon2	c.C246T	p.C82C	TTTGGGGCAACTG	.	PASS	Atlas-SNP
MADCAM1	8174	hgsc.bcm.edu	37	19	501725	501725	+	Missense_Mutation	SNP	G	G	A	rs62130833	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	62	100	0	0.590476	0	G|0.717;A|0.283	0.283	strong	.	MADCAM1	29	.	NM_130760	exon4	c.G724A	p.D242N	TCTCCCGACACCA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	223	92	196	1	0.412556	0.00510204	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	.	scavenged	Atlas-SNP
CD276	80381	hgsc.bcm.edu	37	15	73996066	73996066	+	Missense_Mutation	SNP	G	G	A	rs11574483	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	2	120	0	0.0143885	0	G|0.889;A|0.111	0.111	strong	CD276,NS,carcinoma,0,1	CD276	29	1	NM_001024736	exon5	c.G800A	p.R267H	CCCTGCGCTGCTC	.	scavenged	Atlas-SNP
MOV10L1	54456	hgsc.bcm.edu	37	22	50584201	50584201	+	Silent	SNP	A	A	C	rs2272838	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	31	65	0	0.455882	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
MUC21	394263	hgsc.bcm.edu	37	6	30955024	30955024	+	Missense_Mutation	SNP	A	A	G	rs77433662	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	7	87	0	0.07	0	A|0.999;G|0.001	0.001	weak	MUC21,NS,carcinoma,-1,5	MUC21	98	5	NM_001010909	exon2	c.A1072G	p.S358G	GGGGCCAGCACAG	.	PASS	Atlas-SNP
SEPT4	5414	hgsc.bcm.edu	37	17	56598439	56598439	+	Silent	SNP	T	T	C	rs1057068	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	237	236	248	1	0.995781	0.00403226	T|0.629;C|0.371	0.371	strong	.	SEPT4	48	.	NM_001256782	exon11	c.A1242G	p.T414T	CTCCCGTGTCACA	.	PASS	Atlas-SNP
CYTB	0	hgsc.bcm.edu	37	MT	14798	14798	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	38	38	17	0	1	0	.	.	none	.	.	.	.	ENST00000361789	exon1	c.T52C	p.F18L	CACTCATTCATCG	.	PASS	Atlas-SNP
ZNF318	24149	hgsc.bcm.edu	37	6	43323852	43323852	+	Missense_Mutation	SNP	C	C	A	rs34541323	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	44	46	0	1	0	A|0.037;C|0.962;G|0.000	0.037	strong	.	ZNF318	175	.	NM_014345	exon4	c.G1220T	p.S407I	TCCTGGCTGGAGC	.	PASS	Atlas-SNP
SLC5A4	6527	hgsc.bcm.edu	37	22	32650200	32650200	+	Missense_Mutation	SNP	C	C	T	rs2235171	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	60	94	0	0.495868	0	C|0.919;T|0.081	0.081	strong	.	SLC5A4	82	.	NM_014227	exon2	c.G136A	p.A46T	GCATCGCCTGAGC	.	PASS	Atlas-SNP
ZZEF1	23140	hgsc.bcm.edu	37	17	3966064	3966064	+	Silent	SNP	A	A	G	rs781825	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	40	16	56	0	0.4	0	A|0.487;G|0.513	0.513	strong	.	ZZEF1	195	.	NM_015113	exon30	c.T4866C	p.C1622C	TTTCTGACAGGTC	.	PASS	Atlas-SNP
PDIK1L	149420	hgsc.bcm.edu	37	1	26448849	26448849	+	Silent	SNP	T	T	C	rs17356867	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	59	115	0	0.483607	0	T|0.836;C|0.164	0.164	strong	.	PDIK1L	19	.	NM_001243532	exon3	c.T807C	p.Y269Y	GAGTTATGTAAAA	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29821089	29821089	+	Silent	SNP	C	C	T	rs17756919	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	20	59	0	0.338983	0	C|0.659;T|0.341	0.341	strong	.	SVIL	226	.	NM_021738	exon9	c.G1851A	p.V617V	CCTCTCCACCCGT	.	PASS	Atlas-SNP
OR12D2	26529	hgsc.bcm.edu	37	6	29364815	29364815	+	Missense_Mutation	SNP	C	C	G	rs2073154	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	307	124	253	0	0.403909	0	C|0.628;G|0.372	0.372	strong	.	OR12D2	42	.	NM_013936	exon1	c.C339G	p.F113L	GTTGTTCGCCGTG	.	PASS	Atlas-SNP
PODN	127435	hgsc.bcm.edu	37	1	53544513	53544513	+	Missense_Mutation	SNP	C	C	T	rs12567021	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	66	101	0	0.709677	0	C|0.972;T|0.028	0.028	strong	.	PODN	86	.	NM_153703	exon8	c.C1475T	p.T492M	TGCACACGCTGCC	.	PASS	Atlas-SNP
CRTAM	56253	hgsc.bcm.edu	37	11	122742050	122742050	+	Silent	SNP	T	T	C	rs34242434	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	166	188	0	1	0	T|0.878;C|0.122	0.122	strong	.	CRTAM	50	.	NM_019604	exon10	c.T1125C	p.N375N	GGAAAATGTACAA	.	PASS	Atlas-SNP
KNTC1	9735	hgsc.bcm.edu	37	12	123105143	123105143	+	Silent	SNP	C	C	T	rs2270775	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	46	71	0	0.547619	0	C|0.748;T|0.252	0.252	strong	.	KNTC1	182	.	NM_014708	exon60	c.C6267T	p.H2089H	AAGACACCAGCAA	.	PASS	Atlas-SNP
ZNF646	9726	hgsc.bcm.edu	37	16	31088347	31088347	+	Silent	SNP	G	G	A	rs749671	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	45	85	0	0.46875	0	G|0.646;A|0.354	0.354	strong	.	ZNF646	133	.	NM_014699	exon2	c.G702A	p.E234E	TGCTGAGGAGGAG	.	PASS	Atlas-SNP
OR8I2	120586	hgsc.bcm.edu	37	11	55861484	55861484	+	Missense_Mutation	SNP	A	A	C	rs61887096	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	71	160	0	0.525926	0	A|0.948;C|0.052	0.052	strong	OR8I2,right_upper_lobe,carcinoma,-1,2	OR8I2	119	2	NM_001003750	exon1	c.A701C	p.Q234P	GCAGGCAGAAGGC	.	PASS	Atlas-SNP
CCDC129	223075	hgsc.bcm.edu	37	7	31692409	31692409	+	Missense_Mutation	SNP	C	C	G	rs34177136	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	275	140	216	0	0.509091	0	C|0.997;G|0.003	0.003	strong	.	CCDC129	127	.	NM_001257967	exon15	c.C3131G	p.P1044R	ATTGTCCTGTTGG	.	PASS	Atlas-SNP
ZNF735	730291	hgsc.bcm.edu	37	7	63680098	63680098	+	Silent	SNP	C	C	T	rs4479992	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	42	68	0	0.5	0	C|0.803;T|0.197	0.197	strong	.	.	.	.	NM_001159524	exon4	c.C669T	p.N223N	CTTTAACCACTCC	.	PASS	Atlas-SNP
GOLGA6A	342096	hgsc.bcm.edu	37	15	74365093	74365093	+	Silent	SNP	G	G	T	rs148069128	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	18	81	0	0.272727	0	G|0.992;T|0.008	0.008	strong	GOLGA6A,colon,carcinoma,0,1	GOLGA6A	28	1	NM_001038640	exon13	c.C1491A	p.L497L	TCCAGGGAGAGCC	.	PASS	Atlas-SNP
ZNF385C	201181	hgsc.bcm.edu	37	17	40189830	40189830	+	Silent	SNP	C	C	T	rs60110245	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	49	70	0	0.49	0	C|0.898;T|0.102	0.102	strong	.	ZNF385C	7	.	NM_001242704	exon2	c.G87A	p.P29P	GTCCAGCGGGGGC	.	PASS	Atlas-SNP
ZNF419	79744	hgsc.bcm.edu	37	19	58002924	58002924	+	Missense_Mutation	SNP	G	G	A	rs145680611	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	264	95	187	0	0.359848	0	G|0.983;A|0.017	0.017	strong	ZNF419_ENST00000424930,colon,carcinoma,0,8	ZNF419	134	8	NM_001098494	exon3	c.G161A	p.R54H	TCTACCGCAATGT	.	PASS	Atlas-SNP
SNTN	132203	hgsc.bcm.edu	37	3	63645410	63645410	+	Missense_Mutation	SNP	A	A	G	rs73111385	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	168	83	118	0	0.494048	0	A|0.973;G|0.027	0.027	strong	.	SNTN	17	.	NM_001080537	exon3	c.A155G	p.K52R	TGAGGAAGTGCTC	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56204977	56204977	+	Silent	SNP	C	C	T	rs3809971	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	275	132	248	1	0.48	0.00403226	C|0.526;T|0.474	0.474	strong	.	ALPK2	487	.	NM_052947	exon5	c.G2442A	p.T814T	AAAACACGTTCCT	.	PASS	Atlas-SNP
PRICKLE4	29964	hgsc.bcm.edu	37	6	41754718	41754718	+	Missense_Mutation	SNP	G	G	A	rs149565703	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	40	78	0	0.412371	0	G|0.998;A|0.002	0.002	strong	.	PRICKLE4	29	.	NM_013397	exon8	c.G1006A	p.D336N	CCCAAGGACACCC	.	PASS	Atlas-SNP
VPS41	27072	hgsc.bcm.edu	37	7	38807169	38807169	+	Silent	SNP	C	C	G	rs149665930	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	56	38	47	0	0.678571	0	C|0.993;G|0.007	0.007	strong	.	VPS41	102	.	NM_014396	exon15	c.G1215C	p.L405L	CTCCACCAGGTGA	.	PASS	Atlas-SNP
GGT5	2687	hgsc.bcm.edu	37	22	24622648	24622648	+	Missense_Mutation	SNP	T	T	C	rs2275984	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	81	104	0	0.987805	0	T|0.687;C|0.313	0.313	strong	.	GGT5	61	.	NM_001099781	exon7	c.A989G	p.K330R	TGCCCCTTGGCAA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9074265	9074265	+	Missense_Mutation	SNP	G	G	A	rs10406209	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	358	356	286	1	0.994413	0.0034965	G|0.826;A|0.174	0.174	strong	.	MUC16	4315	.	NM_024690	exon3	c.C13181T	p.T4394I	GCTCCAGTAGGAC	.	PASS	Atlas-SNP
NDNF	79625	hgsc.bcm.edu	37	4	121958091	121958091	+	Silent	SNP	T	T	G	rs3733558	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	85	170	0	0.541401	0	T|0.535;G|0.465	0.465	strong	NDNF,NS,carcinoma,0,1	NDNF	72	1	NM_024574	exon4	c.A1035C	p.L345L	ATCTTTTAGCTCG	.	PASS	Atlas-SNP
EPDR1	54749	hgsc.bcm.edu	37	7	37988589	37988589	+	Silent	SNP	C	C	T	rs2044831	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	75	74	100	0	0.986667	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
PRDM2	7799	hgsc.bcm.edu	37	1	14108988	14108988	+	Silent	SNP	A	A	G	rs61747665	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	53	21	64	0	0.396226	0	A|0.983;G|0.017	0.017	strong	.	PRDM2	147	.	NM_015866	exon8	c.A4698G	p.K1566K	ATCCAAAAAACCA	.	PASS	Atlas-SNP
RNASE6	6039	hgsc.bcm.edu	37	14	21250124	21250124	+	Missense_Mutation	SNP	G	G	A	rs1045922	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	270	138	197	0	0.511111	0	G|0.764;A|0.236	0.236	strong	.	RNASE6	7	.	NM_005615	exon2	c.G266A	p.R89Q	ATCGTCGGCACAA	.	PASS	Atlas-SNP
HIST1H2AB	8335	hgsc.bcm.edu	37	6	26033506	26033506	+	Silent	SNP	G	G	A	rs2230655	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	131	122	1	1	0.00819672	G|0.222;A|0.778	0.778	strong	.	HIST1H2AB	18	.	NM_003513	exon1	c.C291T	p.L97L	CCCCAAGAGTTTA	.	PASS	Atlas-SNP
LBH	81606	hgsc.bcm.edu	37	2	30480466	30480466	+	Silent	SNP	G	G	A	rs372905950		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	34	68	0	0.492754	0	.	.	weak	.	LBH	14	.	NM_030915	exon3	c.G297A	p.A99A	GACAGCGAAAGAA	.	PASS	Atlas-SNP
IRS4	8471	hgsc.bcm.edu	37	X	107979437	107979437	+	Silent	SNP	G	G	A	rs73253702	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	92	61	0	0.92	0	G|0.942;A|0.058	0.058	strong	.	IRS4	253	.	NM_003604	exon1	c.C138T	p.T46T	CGACCCGGTCCCA	.	PASS	Atlas-SNP
INPP4B	8821	hgsc.bcm.edu	37	4	143033778	143033778	+	Silent	SNP	T	T	C	rs3822141	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	82	146	0	0.522293	0	C|0.057;T|0.943	0.057	strong	.	INPP4B	132	.	NM_003866	exon23	c.A2193G	p.L731L	AATCTGTAGAGGT	.	PASS	Atlas-SNP
ESYT3	83850	hgsc.bcm.edu	37	3	138191232	138191232	+	Missense_Mutation	SNP	G	G	A	rs10935282	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	67	43	0	0.985294	0	G|0.622;A|0.378	0.378	strong	.	ESYT3	64	.	NM_031913	exon18	c.G1768A	p.G590R	GAGCTGGGGAGCC	.	PASS	Atlas-SNP
TBC1D15	64786	hgsc.bcm.edu	37	12	72307637	72307637	+	Silent	SNP	C	C	G	rs11178983	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	92	49	80	0	0.532609	0	C|0.947;G|0.053	0.053	strong	.	TBC1D15	99	.	NM_022771	exon13	c.C1383G	p.S461S	ACTTTCCCCTCTT	.	PASS	Atlas-SNP
AHSP	51327	hgsc.bcm.edu	37	16	31539934	31539934	+	Silent	SNP	G	G	T	rs17677	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	33	56	0	0.559322	0	G|0.755;T|0.245	0.245	strong	.	AHSP	10	.	NM_016633	exon3	c.G231T	p.L77L	CACTCTGGCCAAC	.	PASS	Atlas-SNP
FAM118A	55007	hgsc.bcm.edu	37	22	45728370	45728370	+	Missense_Mutation	SNP	G	G	A	rs6007594	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	216	95	241	0	0.439815	0	G|0.536;A|0.464	0.464	strong	FAM118A,NS,carcinoma,0,1	FAM118A	32	1	NM_017911	exon6	c.G716A	p.R239H	CCCTTCGTGATCA	.	PASS	Atlas-SNP
POLE	5426	hgsc.bcm.edu	37	12	133212582	133212582	+	Silent	SNP	G	G	A	rs5744990	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	34	83	0	0.507463	0	G|0.862;A|0.138	0.138	strong	.	POLE	416	.	NM_006231	exon42	c.C5707T	p.L1903L	TTGTCAGAGAATG	.	PASS	Atlas-SNP
COL4A6	1288	hgsc.bcm.edu	37	X	107417730	107417730	+	Silent	SNP	G	G	A	rs5973851	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	72	56	0	0.935065	0	G|0.712;A|0.288	0.288	strong	.	COL4A6	270	.	NM_001847	exon31	c.C3081T	p.G1027G	AGGTAAGCCCCGG	.	PASS	Atlas-SNP
DYSF	8291	hgsc.bcm.edu	37	2	71747923	71747923	+	Silent	SNP	C	C	T	rs36122356	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	72	134	0	0.380952	0	C|0.930;T|0.070	0.070	strong	.	DYSF	536	.	NM_001130982	exon12	c.C1038T	p.H346H	AGGGCACGCCTAT	.	PASS	Atlas-SNP
OR9Q2	219957	hgsc.bcm.edu	37	11	57958775	57958775	+	Silent	SNP	C	C	T	rs7120468	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	81	144	0	0.6	0	C|0.651;T|0.349	0.349	strong	OR9Q2,NS,carcinoma,0,1	OR9Q2	78	1	NM_001005283	exon1	c.C813T	p.D271D	GGGAGACCGAGTG	.	PASS	Atlas-SNP
DDC	1644	hgsc.bcm.edu	37	7	50611751	50611751	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	192	95	179	0	0.494792	0	.	.	none	.	DDC	100	.	NM_001082971	exon2	c.G33A	p.K11K	CATCTCCTTCCCT	.	PASS	Atlas-SNP
ZNF667	63934	hgsc.bcm.edu	37	19	56954103	56954103	+	Silent	SNP	C	C	A	rs7253217	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	16	28	0	0.444444	0	C|0.825;A|0.175	0.175	strong	.	ZNF667	95	.	NM_022103	exon5	c.G261T	p.G87G	TTTAGACCCCGAG	.	PASS	Atlas-SNP
OR4N2	390429	hgsc.bcm.edu	37	14	20295763	20295763	+	Silent	SNP	C	C	T	rs11621854	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	212	208	220	0	0.981132	0	C|0.764;T|0.236	0.236	strong	.	OR4N2	125	.	NM_001004723	exon1	c.C156T	p.D52D	GTCAGACCCTGGG	.	PASS	Atlas-SNP
UGCG	7357	hgsc.bcm.edu	37	9	114688677	114688677	+	Silent	SNP	G	G	A	rs17853855	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	33	100	0	0.407407	0	G|0.980;A|0.020	0.020	strong	.	UGCG	32	.	NM_003358	exon5	c.G459A	p.T153T	AGATACGCTTACT	.	PASS	Atlas-SNP
ZNF443	10224	hgsc.bcm.edu	37	19	12541543	12541543	+	Silent	SNP	A	A	G	rs79866505	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	36	65	0	0.473684	0	A|0.948;G|0.052	0.052	strong	.	ZNF443	63	.	NM_005815	exon4	c.T1443C	p.L481L	TTTCCCAAGTTTG	.	PASS	Atlas-SNP
CASC5	57082	hgsc.bcm.edu	37	15	40913840	40913840	+	Missense_Mutation	SNP	G	G	T	rs2412541	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	113	231	1	0.991228	0.004329	G|0.315;N|0.000	.	strong	CASC5_ENST00000346991,NS,carcinoma,-1,2	CASC5	269	2	NM_170589	exon11	c.G1456T	p.A486S	AATTATGCTAAAA	.	PASS	Atlas-SNP
PRTG	283659	hgsc.bcm.edu	37	15	55912875	55912875	+	Missense_Mutation	SNP	T	T	A	rs1438914	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	64	113	0	0.447552	0	T|0.504;A|0.496	0.496	strong	.	PRTG	110	.	NM_173814	exon19	c.A3184T	p.I1062L	CTTGTATCTTCTT	.	PASS	Atlas-SNP
TAF1C	9013	hgsc.bcm.edu	37	16	84213254	84213254	+	Missense_Mutation	SNP	C	C	T	rs4150173	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	40	58	0	0.481928	0	C|0.991;T|0.009	0.009	strong	.	TAF1C	60	.	NM_005679	exon14	c.G1903A	p.G635S	TGCAGCCGGCAGT	.	PASS	Atlas-SNP
ARFGAP3	26286	hgsc.bcm.edu	37	22	43195147	43195147	+	Silent	SNP	A	A	G	rs1128013	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	59	47	0	1	0	A|0.557;G|0.443	0.443	strong	.	ARFGAP3	48	.	NM_014570	exon15	c.T1431C	p.S477S	CAGCACACTGGAC	.	PASS	Atlas-SNP
ZNF445	353274	hgsc.bcm.edu	37	3	44489880	44489880	+	Missense_Mutation	SNP	T	T	C	rs11710965	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	267	125	288	0	0.468165	0	T|0.903;C|0.097	0.097	strong	.	ZNF445	91	.	NM_181489	exon8	c.A1283G	p.Y428C	TAGTCATAGTGGT	.	PASS	Atlas-SNP
TTYH1	57348	hgsc.bcm.edu	37	19	54946784	54946784	+	Silent	SNP	A	A	G	rs3745420	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	100	158	0	0.534759	0	A|0.569;G|0.431	0.431	strong	TTYH1_ENST00000376531,NS,carcinoma,0,2	TTYH1	78	2	NM_020659	exon11	c.A1188G	p.L396L	CCTGCTACTCTTC	.	PASS	Atlas-SNP
DOK2	9046	hgsc.bcm.edu	37	8	21766900	21766900	+	Silent	SNP	G	G	A	rs17853066	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	66	119	0	0.6	0	G|0.869;A|0.131	0.131	strong	.	DOK2	51	.	NM_003974	exon5	c.C1161T	p.A387A	CTGCCCGGCTGGC	.	PASS	Atlas-SNP
LILRB3	11025	hgsc.bcm.edu	37	19	54721049	54721049	+	Silent	SNP	A	A	G	rs60566950	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	281	6	271	1	0.0213523	0.00369004	A|0.980;G|0.020	0.020	strong	LILRB3,NS,carcinoma,0,1	LILRB3	67	1	NM_001081450	exon13	c.T1812C	p.L604L	CCGTCTAAGGGTC	.	scavenged	Atlas-SNP
GABRG2	2566	hgsc.bcm.edu	37	5	161522556	161522556	+	Silent	SNP	C	C	T	rs11135176	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	157	63	112	0	0.401274	0	C|0.912;T|0.088	0.088	strong	.	GABRG2	142	.	NM_198904	exon3	c.C315T	p.N105N	AGTGAACGCTATC	.	PASS	Atlas-SNP
ARHGEF39	84904	hgsc.bcm.edu	37	9	35665153	35665153	+	Missense_Mutation	SNP	C	C	A	rs45567235	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	25	65	0	0.641026	0	C|0.927;A|0.073	0.073	strong	.	.	.	.	NM_032818	exon1	c.G14T	p.C5F	CCGGGGCAGGAGA	.	PASS	Atlas-SNP
LGALS3	3958	hgsc.bcm.edu	37	14	55611839	55611839	+	Missense_Mutation	SNP	A	A	T	rs11125	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	41	132	0	0.405941	0	A|0.943;T|0.057	0.057	strong	.	LGALS3	10	.	NM_002306	exon6	c.A603T	p.Q201H	GATACAAGTACTG	.	PASS	Atlas-SNP
MAGEB10	139422	hgsc.bcm.edu	37	X	27839981	27839981	+	Silent	SNP	A	A	C	rs139940961	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	84	75	0	0.954545	0	A|0.986;C|0.014	0.014	strong	.	MAGEB10	107	.	NM_182506	exon3	c.A558C	p.L186L	AGATCTAGGCTGT	.	PASS	Atlas-SNP
C20orf111	51526	hgsc.bcm.edu	37	20	42825929	42825929	+	Silent	SNP	C	C	T	rs8268	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	64	116	0	0.432432	0	C|0.766;T|0.234	0.234	strong	.	C20orf111	28	.	NM_016470	exon4	c.G642A	p.V214V	GGAATACACTTCC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	197	101	201	0	0.51269	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
NYNRIN	57523	hgsc.bcm.edu	37	14	24878485	24878485	+	Silent	SNP	G	G	A	rs12897153	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	62	93	0	0.563636	0	G|0.895;A|0.105	0.105	strong	.	NYNRIN	120	.	NM_025081	exon4	c.G1485A	p.P495P	TGAGCCGGGGGAT	.	PASS	Atlas-SNP
CYP3A43	64816	hgsc.bcm.edu	37	7	99459256	99459256	+	Silent	SNP	C	C	T	rs17342647	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	218	105	232	1	0.481651	0.00431034	C|0.936;T|0.064	0.064	strong	.	CYP3A43	52	.	NM_057096	exon11	c.C1047T	p.A349A	CGATGCCCTGGTA	.	PASS	Atlas-SNP
CACNA1H	8912	hgsc.bcm.edu	37	16	1261219	1261219	+	Silent	SNP	A	A	G	rs2753326	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	170	169	182	0	0.994118	0	A|0.288;G|0.712	0.712	strong	.	CACNA1H	317	.	NM_021098	exon22	c.A4275G	p.S1425S	GATATCATCACTC	.	PASS	Atlas-SNP
HIST1H2BA	255626	hgsc.bcm.edu	37	6	25727517	25727517	+	Silent	SNP	G	G	A	rs9358872	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	59	59	57	0	1	0	G|0.713;A|0.287	0.287	strong	.	HIST1H2BA	25	.	NM_170610	exon1	c.G381A	p.K127K	CTCCAAGTAAGCC	.	PASS	Atlas-SNP
KIAA1614	57710	hgsc.bcm.edu	37	1	180905694	180905694	+	Silent	SNP	C	C	T	rs3795503	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	59	109	0	0.468254	0	C|0.696;T|0.304	0.304	strong	.	KIAA1614	75	.	NM_020950	exon5	c.C2649T	p.N883N	CAACAACAGCGCA	.	PASS	Atlas-SNP
APPL2	55198	hgsc.bcm.edu	37	12	105583877	105583877	+	Missense_Mutation	SNP	G	G	A	rs2272495	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	50	95	0	0.438596	0	G|0.817;A|0.183	0.183	strong	.	APPL2	69	.	NM_001251904	exon15	c.C1316T	p.A439V	GCTGTTGCTTTGG	.	PASS	Atlas-SNP
ADIPOR2	79602	hgsc.bcm.edu	37	12	1893077	1893077	+	Silent	SNP	C	C	A	rs35854772	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	59	188	0	0.364198	0	C|0.873;A|0.127	0.127	strong	.	ADIPOR2	30	.	NM_024551	exon7	c.C870A	p.I290I	TGGAATCATTCCT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	81	117	0	0.987805	0	G|0.661;A|0.339	0.339	strong	.	GBP3	53	.	NM_018284	exon6	c.C673T	p.R225W	ACTTCCGGATACA	.	PASS	Atlas-SNP
PKD1L1	168507	hgsc.bcm.edu	37	7	47851623	47851623	+	Missense_Mutation	SNP	C	C	T	rs73692834	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	64	98	0	0.598131	0	C|0.871;T|0.129	0.129	strong	.	PKD1L1	328	.	NM_138295	exon50	c.G7373A	p.R2458Q	CTGAGTCGGGACA	.	PASS	Atlas-SNP
NFKBIA	4792	hgsc.bcm.edu	37	14	35873770	35873770	+	Silent	SNP	G	G	A	rs1957106	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	56	91	0	0.528302	0	G|0.770;A|0.230	0.230	strong	.	NFKBIA	28	.	NM_020529	exon1	c.C81T	p.D27D	GCGGTCGTCCAGT	.	PASS	Atlas-SNP
FAM108A1	81926	hgsc.bcm.edu	37	19	1880950	1880950	+	Missense_Mutation	SNP	T	T	C	rs4807160	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	37	121	1	0.420455	0.00826446	T|0.372;C|0.628	0.628	strong	FAM108A1,NS,carcinoma,0,1	FAM108A1	29	1	NM_031213	exon3	c.A430G	p.K144E	AGCTCTTGCCCAG	.	scavenged	Atlas-SNP
NLRP2	55655	hgsc.bcm.edu	37	19	55512137	55512137	+	Silent	SNP	C	C	A	rs12768	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	60	64	0	1	0	T|0.004;G|0.004	.	strong	.	NLRP2	161	.	NM_017852	exon13	c.C3060A	p.I1020I	GAAAATCGATGAC	.	PASS	Atlas-SNP
NCOA6	23054	hgsc.bcm.edu	37	20	33342623	33342623	+	Missense_Mutation	SNP	G	G	A	rs144477396	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	80	162	0	0.526316	0	G|0.999;A|0.001	0.001	strong	.	NCOA6	219	.	NM_014071	exon8	c.C1577T	p.P526L	AAGTTCGGATTGG	.	PASS	Atlas-SNP
RPTOR	57521	hgsc.bcm.edu	37	17	78820374	78820374	+	Silent	SNP	G	G	A	rs2589156	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	60	74	0	0.588235	0	G|0.895;A|0.105	0.105	strong	RPTOR,NS,carcinoma,0,1	RPTOR	122	1	NM_001163034	exon11	c.G1314A	p.Q438Q	CCTGCAGGTGAGT	.	PASS	Atlas-SNP
ZNF418	147686	hgsc.bcm.edu	37	19	58439306	58439306	+	Silent	SNP	G	G	A	rs7253514	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	356	162	303	0	0.455056	0	G|0.704;A|0.296	0.296	strong	.	ZNF418	76	.	NM_133460	exon4	c.C243T	p.A81A	AGAGTGGGCCTTC	.	PASS	Atlas-SNP
PLXNC1	10154	hgsc.bcm.edu	37	12	94642023	94642023	+	Silent	SNP	C	C	T	rs2230756	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	79	155	0	0.420213	0	C|0.932;T|0.068	0.068	strong	.	PLXNC1	135	.	NM_005761	exon14	c.C2613T	p.N871N	CTTCAACATTTCC	.	PASS	Atlas-SNP
USP35	57558	hgsc.bcm.edu	37	11	77920563	77920563	+	Silent	SNP	G	G	T	rs2510045	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	76	132	0	0.487179	0	G|0.761;T|0.239	0.239	strong	.	USP35	179	.	NM_020798	exon10	c.G1662T	p.P554P	CTCTCCGCCCGAG	.	PASS	Atlas-SNP
CHIA	27159	hgsc.bcm.edu	37	1	111854938	111854938	+	Missense_Mutation	SNP	G	G	T	rs41282496	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	133	68	126	0	0.511278	0	G|0.882;T|0.118	0.118	strong	.	CHIA	115	.	NM_201653	exon4	c.G182T	p.R61M	CTGGGAGGCAGAA	.	PASS	Atlas-SNP
DNAJC6	9829	hgsc.bcm.edu	37	1	65860687	65860687	+	Silent	SNP	A	A	C	rs4582839	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	52	68	0	1	0	A|0.300;C|0.700	0.700	strong	.	DNAJC6	104	.	NM_001256864	exon13	c.A2010C	p.P670P	CCAGCCAACAAGA	.	PASS	Atlas-SNP
HLA-DPB1	3115	hgsc.bcm.edu	37	6	33048661	33048661	+	Missense_Mutation	SNP	A	A	G	rs1042151	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	45	21	27	0	0.466667	0	A|0.776;G|0.224	0.224	strong	HLA-DPB1,NS,lymphoid_neoplasm,0,1	HLA-DPB1	28	1	NM_002121	exon2	c.A313G	p.M105V	GACAGGATGTGCA	.	scavenged	Atlas-SNP
DACT1	51339	hgsc.bcm.edu	37	14	59112475	59112475	+	Silent	SNP	C	C	T	rs863091	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	99	51	74	0	0.515152	0	C|0.743;T|0.257	0.257	strong	.	DACT1	119	.	NM_016651	exon4	c.C1134T	p.V378V	TTGTGTCAGAGCC	.	PASS	Atlas-SNP
STEAP1B	256227	hgsc.bcm.edu	37	7	22533235	22533235	+	Missense_Mutation	SNP	T	T	C	rs62619778	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	301	113	308	0	0.375415	0	T|0.936;C|0.064	0.064	strong	.	STEAP1B	22	.	NM_001164460	exon3	c.A305G	p.H102R	TGTTGATGGGAAG	.	PASS	Atlas-SNP
GGT1	2678	hgsc.bcm.edu	37	22	25016911	25016911	+	Missense_Mutation	SNP	C	C	T	rs199703506	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	408	12	361	6	0.0294118	0.0166205	C|0.996;T|0.004	0.004	strong	GGT1,NS,carcinoma,0,1	GGT1	68	1	NM_013430	exon9	c.C607T	p.R203W	GTGCTTCGGGAGG	.	scavenged	Atlas-SNP
PGBD1	84547	hgsc.bcm.edu	37	6	28270047	28270047	+	Missense_Mutation	SNP	C	C	G	rs6456811	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	61	142	0	0.406667	0	C|0.779;G|0.221	0.221	strong	.	PGBD1	106	.	NM_001184743	exon7	c.C2416G	p.H806D	AATGCTCATCTGT	.	PASS	Atlas-SNP
IQGAP2	10788	hgsc.bcm.edu	37	5	75906851	75906851	+	Missense_Mutation	SNP	T	T	C	rs7722711	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	49	85	0	0.475728	0	T|0.924;C|0.076	0.076	strong	IQGAP2,NS,carcinoma,0,1	IQGAP2	186	1	NM_006633	exon13	c.T1364C	p.V455A	GAGTTGTAGCTGT	.	PASS	Atlas-SNP
CA5A	763	hgsc.bcm.edu	37	16	87921846	87921846	+	Silent	SNP	T	T	A	rs72816311	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	82	165	0	0.445652	0	T|0.825;A|0.175	0.175	strong	.	CA5A	32	.	NM_001739	exon7	c.A807T	p.A269A	ACCAAGTGCAGAA	.	PASS	Atlas-SNP
LINS	55180	hgsc.bcm.edu	37	15	101113950	101113950	+	Silent	SNP	A	A	G	rs12592868	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	196	85	189	1	0.433673	0.00529101	A|0.609;G|0.391	0.391	strong	LINS,NS,carcinoma,0,1	LINS	62	1	NM_001040616	exon5	c.T1128C	p.S376S	ATCTGGACTAGTG	.	scavenged	Atlas-SNP
PIEZO2	63895	hgsc.bcm.edu	37	18	10691357	10691357	+	Silent	SNP	G	G	A	rs3748421	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	67	61	0	1	0	G|0.718;A|0.282	0.282	strong	.	.	.	.	NM_022068	exon44	c.C6876T	p.A2292A	AAGCTGGGCAACC	.	PASS	Atlas-SNP
STOM	2040	hgsc.bcm.edu	37	9	124103523	124103523	+	Missense_Mutation	SNP	A	A	G	rs41273438	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	216	114	193	0	0.527778	0	A|0.971;G|0.029	0.029	strong	STOM,NS,carcinoma,-1,1	STOM	15	1	NM_004099	exon7	c.T824C	p.M275T	TGCAGCATATCTA	.	PASS	Atlas-SNP
FAM181B	220382	hgsc.bcm.edu	37	11	82443817	82443817	+	Silent	SNP	G	G	A	rs2291793	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	24	8	35	0	0.333333	0	G|0.745;A|0.255	0.255	strong	.	FAM181B	14	.	NM_175885	exon1	c.C955T	p.L319L	GGTACAGTAGGTT	.	PASS	Atlas-SNP
PAPSS1	9061	hgsc.bcm.edu	37	4	108575955	108575955	+	Missense_Mutation	SNP	G	G	A	rs35176475	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	254	115	189	1	0.452756	0.00529101	G|0.986;A|0.014	0.014	strong	PAPSS1,colon,carcinoma,+1,1	PAPSS1	57	1	NM_005443	exon8	c.C997T	p.R333C	CACGGCGGCCCTC	.	scavenged	Atlas-SNP
ZSWIM2	151112	hgsc.bcm.edu	37	2	187693155	187693155	+	Missense_Mutation	SNP	A	A	T	rs10195758	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	58	88	0	0.504348	0	A|0.819;T|0.181	0.181	strong	.	ZSWIM2	119	.	NM_182521	exon9	c.T1458A	p.D486E	TTTATAATCATAG	.	PASS	Atlas-SNP
OR13H1	347468	hgsc.bcm.edu	37	X	130678467	130678467	+	Silent	SNP	A	A	G	rs499030	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	179	179	134	0	1	0	A|0.297;G|0.703	0.703	strong	.	OR13H1	41	.	NM_001004486	exon1	c.A420G	p.V140V	CCCAGTATGTGTC	.	PASS	Atlas-SNP
ALDH1B1	219	hgsc.bcm.edu	37	9	38396002	38396002	+	Missense_Mutation	SNP	C	C	T	rs2228093	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	33	42	0	0.540984	0	C|0.831;A|0.001	.	strong	ALDH1B1,NS,carcinoma,+1,1	ALDH1B1	50	1	NM_000692	exon2	c.C257T	p.A86V	GGGAAGCCTTCCG	.	PASS	Atlas-SNP
PALD1	27143	hgsc.bcm.edu	37	10	72293713	72293713	+	Silent	SNP	C	C	T	rs12764399	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	176	79	160	0	0.448864	0	C|0.893;T|0.107	0.107	strong	.	.	.	.	NM_014431	exon8	c.C906T	p.H302H	TGCCCACGGGCCT	.	PASS	Atlas-SNP
C1orf141	400757	hgsc.bcm.edu	37	1	67561087	67561087	+	Missense_Mutation	SNP	A	A	C	rs145227724	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	41	75	0	0.44086	0	A|0.999;C|0.001	0.001	strong	.	C1orf141	58	.	NM_001276351	exon7	c.T434G	p.M145R	TCGTTCATCTGTG	.	PASS	Atlas-SNP
MYOM3	127294	hgsc.bcm.edu	37	1	24406535	24406535	+	Missense_Mutation	SNP	G	G	A	rs35446243	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	91	47	60	0	0.516484	0	G|0.869;A|0.131	0.131	strong	.	MYOM3	131	.	NM_152372	exon20	c.C2557T	p.P853S	GGCCTGGGGTGAC	.	PASS	Atlas-SNP
ZCCHC6	79670	hgsc.bcm.edu	37	9	88940359	88940359	+	Missense_Mutation	SNP	C	C	T	rs41310053	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	63	108	0	0.463235	0	C|0.997;T|0.003	0.003	strong	.	ZCCHC6	105	.	NM_024617	exon12	c.G1679A	p.R560Q	TAGAACCGCAGCA	.	PASS	Atlas-SNP
TOP1MT	116447	hgsc.bcm.edu	37	8	144392368	144392368	+	Missense_Mutation	SNP	G	G	A	rs2293925	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	50	28	38	0	0.56	0	G|0.617;A|0.383	0.383	strong	.	TOP1MT	63	.	NM_052963	exon13	c.C1573T	p.R525W	GGAGCCGCCTCTT	.	PASS	Atlas-SNP
CHTF18	63922	hgsc.bcm.edu	37	16	840599	840599	+	Missense_Mutation	SNP	C	C	T	rs59706474	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	23	46	0	0.469388	0	C|0.947;T|0.053	0.053	strong	.	CHTF18	52	.	NM_022092	exon7	c.C827T	p.A276V	AAGACGCCTCCAG	.	PASS	Atlas-SNP
VDAC1	7416	hgsc.bcm.edu	37	5	133328003	133328003	+	Silent	SNP	A	A	G	rs142141751	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	75	153	0	0.480769	0	A|0.997;G|0.003	0.003	strong	.	VDAC1	17	.	NM_003374	exon3	c.T111C	p.N37N	CAATCCATTCTCA	.	PASS	Atlas-SNP
C16orf59	80178	hgsc.bcm.edu	37	16	2512523	2512523	+	Silent	SNP	G	G	A	rs3810794	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	36	64	0	0.529412	0	G|0.724;A|0.276	0.276	strong	.	C16orf59	13	.	NM_025108	exon7	c.G858A	p.S286S	GCTCTCGGCAGGT	.	PASS	Atlas-SNP
PLXDC1	57125	hgsc.bcm.edu	37	17	37243927	37243927	+	Silent	SNP	A	A	G	rs12602945	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	32	56	0	0.470588	0	A|0.747;G|0.253	0.253	strong	PLXDC1,NS,carcinoma,0,1	PLXDC1	45	1	NM_020405	exon8	c.T840C	p.Y280Y	GCGGTGATATTCA	.	PASS	Atlas-SNP
TAS2R19	259294	hgsc.bcm.edu	37	12	11175087	11175087	+	Silent	SNP	G	G	A	rs12313469	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	41	83	0	0.471264	0	G|0.536;A|0.464	0.464	strong	TAS2R19,NS,carcinoma,-2,1	TAS2R19	30	1	NM_176888	exon1	c.C84T	p.A28A	TACTAGGGCTATG	.	PASS	Atlas-SNP
SMYD1	150572	hgsc.bcm.edu	37	2	88396123	88396123	+	Silent	SNP	C	C	G	rs2970912	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	78	183	0	0.490566	0	C|0.650;G|0.350	0.350	strong	.	SMYD1	95	.	NM_198274	exon6	c.C708G	p.L236L	TGAGCTCCGGGCC	.	PASS	Atlas-SNP
TLR8	51311	hgsc.bcm.edu	37	X	12939112	12939112	+	Silent	SNP	G	G	C	rs2407992	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	161	153	0	0.96988	0	0|0.007;C|0.613	0.613	strong	.	TLR8	134	.	NM_138636	exon2	c.G1953C	p.L651L	TAGGCTGAAGCAC	.	PASS	Atlas-SNP
MATN2	4147	hgsc.bcm.edu	37	8	98943545	98943545	+	Silent	SNP	A	A	G	rs2290471	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	30	39	0	0.5	0	A|0.787;G|0.213	0.213	strong	MATN2_ENST00000520016,NS,carcinoma,+1,2	MATN2	165	2	NM_002380	exon3	c.A507G	p.T169T	CGTGACAGATGGG	.	PASS	Atlas-SNP
MMP10	4319	hgsc.bcm.edu	37	11	102651313	102651313	+	Missense_Mutation	SNP	G	G	C	rs17435959	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	65	123	0	0.481481	0	G|0.926;C|0.074	0.074	strong	.	MMP10	44	.	NM_002425	exon1	c.C10G	p.L4V	ATGCAAGATGCAT	.	PASS	Atlas-SNP
OR52N2	390077	hgsc.bcm.edu	37	11	5842310	5842310	+	Missense_Mutation	SNP	T	T	G	rs8181529	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	332	157	259	0	0.472892	0	T|0.455;G|0.545	0.545	strong	OR52N2,NS,carcinoma,-1,1	OR52N2	58	1	NM_001005174	exon1	c.T745G	p.S249A	ATGTGTTCCATTG	.	PASS	Atlas-SNP
PCDHAC2	56134	hgsc.bcm.edu	37	5	140347398	140347398	+	Silent	SNP	C	C	T	rs12153295	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	47	72	0	0.573171	0	C|0.881;T|0.119	0.119	strong	.	PCDHAC2	142	.	NM_031883	exon1	c.C1047T	p.C349C	TCACTGCAAGGTG	.	PASS	Atlas-SNP
DEPDC5	9681	hgsc.bcm.edu	37	22	32205632	32205632	+	Silent	SNP	A	A	C	rs5998135	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	60	24	76	0	0.4	0	A|0.906;C|0.094	0.094	strong	.	DEPDC5	266	.	NM_001242897	exon19	c.A1323C	p.T441T	TGATACATGTGAG	.	PASS	Atlas-SNP
ZNF839	55778	hgsc.bcm.edu	37	14	102805556	102805556	+	Silent	SNP	C	C	T	rs199523800	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	196	87	194	0	0.443878	0	C|0.998;T|0.002	0.002	weak	.	ZNF839	41	.	NM_018335	exon7	c.C1923T	p.A641A	TTTGGCCGCTGGT	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954491	30954491	+	Missense_Mutation	SNP	C	C	T	rs34126344	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	9	70	0	0.062069	0	C|0.943;T|0.057	0.057	strong	MUC21,rectum,carcinoma,0,1	MUC21	98	1	NM_001010909	exon2	c.C539T	p.A180V	GCACAGCCACCAA	.	scavenged	Atlas-SNP
FAM169B	283777	hgsc.bcm.edu	37	15	99023968	99023968	+	Silent	SNP	T	T	G	rs4528551	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	51	93	0	0.463636	0	T|0.666;G|0.334	0.334	strong	.	FAM169B	23	.	NM_182562	exon4	c.A45C	p.L15L	GGCGTTTAGAATG	.	PASS	Atlas-SNP
LAMA3	3909	hgsc.bcm.edu	37	18	21481233	21481233	+	Silent	SNP	C	C	G	rs1154226	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	81	63	0	0.975904	0	C|0.807;G|0.193	0.193	strong	LAMA3_ENST00000269217,NS,adenoma,0,2	LAMA3	397	2	NM_198129	exon48	c.C6147G	p.A2049A	CCAAGCCAAGCAG	.	PASS	Atlas-SNP
TCP10	6953	hgsc.bcm.edu	37	6	167796319	167796319	+	Missense_Mutation	SNP	T	T	C	rs17855833	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	80	152	0	0.479042	0	T|0.758;C|0.242	0.242	strong	.	TCP10	35	.	NM_004610	exon2	c.A43G	p.S15G	CATTGCTGTCCTC	.	PASS	Atlas-SNP
KBTBD13	390594	hgsc.bcm.edu	37	15	65369242	65369242	+	Missense_Mutation	SNP	G	G	A	rs138484272	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	53	25	51	0	0.471698	0	G|0.996;A|0.004	0.004	strong	.	KBTBD13	9	.	NM_001101362	exon1	c.G89A	p.G30D	ACTGTGGCTTCTT	.	PASS	Atlas-SNP
EPHX2	2053	hgsc.bcm.edu	37	8	27401964	27401964	+	Silent	SNP	A	A	C	rs1126452	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	73	118	0	0.52518	0	A|0.594;C|0.406	0.406	strong	EPHX2,NS,carcinoma,+2,1	EPHX2	57	1	NM_001979	exon19	c.A1593C	p.P531P	CAGGCCAACCGAG	.	PASS	Atlas-SNP
DQX1	165545	hgsc.bcm.edu	37	2	74746322	74746322	+	Silent	SNP	A	A	T	rs6546909	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	237	162	138	0	0.683544	0	A|0.580;T|0.420	0.420	strong	.	DQX1	95	.	NM_133637	exon11	c.T1842A	p.L614L	TAGGAGAAGGTAA	.	PASS	Atlas-SNP
ERC2	26059	hgsc.bcm.edu	37	3	56330368	56330368	+	Silent	SNP	C	C	T	rs56227347	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	212	110	147	0	0.518868	0	C|0.949;T|0.051	0.051	strong	.	ERC2	221	.	NM_015576	exon3	c.G753A	p.A251A	GTGCTCCGCTCCT	.	PASS	Atlas-SNP
MDM1	56890	hgsc.bcm.edu	37	12	68708979	68708979	+	Silent	SNP	G	G	A	rs139553308	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	171	79	163	0	0.461988	0	G|0.991;A|0.009	0.009	strong	.	MDM1	74	.	NM_017440	exon9	c.C1248T	p.I416I	TTCCACGATATTT	.	PASS	Atlas-SNP
PRAMEF2	65122	hgsc.bcm.edu	37	1	12921136	12921136	+	Silent	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	2	142	1	0.0125786	0.00704225	.	.	none	PRAMEF2,pharynx,carcinoma,0,1	PRAMEF2	85	1	NM_023014	exon4	c.C927T	p.D309D	AGAGGACTTGAAG	.	scavenged	Atlas-SNP
KIAA1109	84162	hgsc.bcm.edu	37	4	123192383	123192383	+	Silent	SNP	T	T	C	rs45574236	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	271	121	258	1	0.446494	0.00387597	T|0.716;C|0.284	0.284	strong	KIAA1109,NS,carcinoma,0,1	KIAA1109	424	1	NM_015312	exon45	c.T7704C	p.D2568D	TGTAGATATGGCT	.	PASS	Atlas-SNP
IFNE	338376	hgsc.bcm.edu	37	9	21481556	21481556	+	Missense_Mutation	SNP	T	T	G	rs1125488	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	253	123	200	0	0.486166	0	T|0.945;G|0.055	0.055	strong	.	IFNE	16	.	NM_176891	exon1	c.A138C	p.Q46H	CAAGGTTTGCAAC	.	PASS	Atlas-SNP
KIAA0753	9851	hgsc.bcm.edu	37	17	6515387	6515387	+	Missense_Mutation	SNP	A	A	G	rs2289642	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	265	112	218	0	0.422642	0	A|0.342;G|0.658	0.658	strong	.	KIAA0753	63	.	NM_014804	exon8	c.T1397C	p.L466P	TCTTCCAGAACTA	.	PASS	Atlas-SNP
ADA	100	hgsc.bcm.edu	37	20	43254298	43254298	+	Silent	SNP	C	C	T	rs61737144	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	193	98	139	1	0.507772	0.00719424	C|0.960;T|0.040	0.040	strong	ADA,caecum,carcinoma,0,1	ADA	42	1	NM_000022	exon5	c.G390A	p.V130V	TAGGGCCACCACC	.	scavenged	Atlas-SNP
ATAD3C	219293	hgsc.bcm.edu	37	1	1390866	1390866	+	Silent	SNP	A	A	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	153	5	111	1	0.0326797	0.00900901	.	.	none	ATAD3C,NS,carcinoma,+1,1	ATAD3C	23	1	NM_001039211	exon5	c.A405G	p.R135R	CAGTCGACCCCAG	.	scavenged	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954749	30954749	+	Missense_Mutation	SNP	G	G	A	rs146145256	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	21	125	0	0.160305	0	G|0.976;A|0.023	0.023	strong	.	MUC21	98	.	NM_001010909	exon2	c.G797A	p.G266E	CCAGTGGGGCCGG	.	PASS	Atlas-SNP
PTEN	5728	hgsc.bcm.edu	37	10	89690819	89690819	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	72	60	162	0	0.833333	0	.	.	none	PTEN,NS,malignant_melanoma,-2,3	PTEN	3652	3	NM_000314	exon4	c.T226G	p.Y76D	AGACATTATGACA	.	PASS	Atlas-SNP
LGALS14	56891	hgsc.bcm.edu	37	19	40199914	40199914	+	Missense_Mutation	SNP	C	C	G	rs10755	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	65	116	0	0.590909	0	C|0.331;G|0.668	0.668	strong	LGALS14,NS,carcinoma,0,1	LGALS14	38	1	NM_203471	exon5	c.C468G	p.F156L	AGTCTTCAGAGAT	.	PASS	Atlas-SNP
TMEM247	388946	hgsc.bcm.edu	37	2	46707884	46707884	+	Missense_Mutation	SNP	A	A	G	rs201742486		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	14	123	0	0.115702	0	.	.	weak	ENSG00000187600_ENST00000434431,NS,carcinoma,0,2	.	.	2	NM_001145051	exon2	c.A458G	p.Q153R	TGCAGCAAGAGGC	.	PASS	Atlas-SNP
SH3TC2	79628	hgsc.bcm.edu	37	5	148408101	148408101	+	Silent	SNP	A	A	G	rs1432793	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	71	42	51	0	0.591549	0	A|0.535;G|0.465	0.465	strong	SH3TC2_ENST00000394358,NS,carcinoma,0,2	SH3TC2	178	2	NM_024577	exon11	c.T1194C	p.G398G	CTTGAAACCTTCA	.	PASS	Atlas-SNP
SLC5A5	6528	hgsc.bcm.edu	37	19	17999239	17999239	+	Silent	SNP	C	C	T	rs45602038	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	36	68	0	0.413793	0	C|0.979;T|0.021	0.021	strong	.	SLC5A5	67	.	NM_000453	exon13	c.C1626T	p.C542C	GCTGTGCGGAGCC	.	PASS	Atlas-SNP
POTEG	404785	hgsc.bcm.edu	37	14	19571357	19571357	+	Missense_Mutation	SNP	T	T	C	rs2845206	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	9	83	0	0.183673	0	T|0.500;C|0.500	0.500	strong	POTEG,NS,carcinoma,0,3	POTEG	118	3	NM_001005356	exon7	c.T1136C	p.L379S	AAGACTTAAAGCT	.	scavenged	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9071878	9071878	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	152	2	145	0	0.0131579	0	.	.	none	MUC16_ENST00000397910,NS,carcinoma,+2,3	MUC16	4315	3	NM_024690	exon3	c.C15568T	p.P5190S	GTCTAGGAGTCAA	.	scavenged	Atlas-SNP
PZP	5858	hgsc.bcm.edu	37	12	9316773	9316773	+	Missense_Mutation	SNP	T	T	C	rs3213831	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	171	170	166	0	0.994152	0	T|0.582;C|0.418	0.418	strong	.	PZP	422	.	NM_002864	exon20	c.A2570G	p.N857S	CTCTCATTTCCAC	.	PASS	Atlas-SNP
SMYD4	114826	hgsc.bcm.edu	37	17	1704297	1704297	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	48	97	0	0.440367	0	.	.	none	.	SMYD4	50	.	NM_052928	exon5	c.A391G	p.R131G	GTGCTCTGTTAAT	.	PASS	Atlas-SNP
MRGPRX4	117196	hgsc.bcm.edu	37	11	18194964	18194964	+	Missense_Mutation	SNP	A	A	G	rs1869788	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	123	56	135	0	0.455285	0	A|0.673;G|0.327	0.327	strong	.	MRGPRX4	68	.	NM_054032	exon1	c.A161G	p.Y54C	TGGGCTACCGCAT	.	PASS	Atlas-SNP
NEK10	152110	hgsc.bcm.edu	37	3	27332177	27332177	+	Silent	SNP	T	T	C	rs674303	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	164	131	0	1	0	T|0.619;C|0.381	0.381	strong	.	NEK10	271	.	NM_199347	exon20	c.A1674G	p.G558G	ATCCTTTCCAAAT	.	PASS	Atlas-SNP
ROBO4	54538	hgsc.bcm.edu	37	11	124767067	124767067	+	Missense_Mutation	SNP	T	T	C	rs59648931	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	149	149	128	0	1	0	T|0.646;C|0.354	0.354	strong	.	ROBO4	130	.	NM_019055	exon2	c.A161G	p.Q54R	GAGGCTTGGCAGC	.	PASS	Atlas-SNP
CHRNA4	1137	hgsc.bcm.edu	37	20	61981104	61981104	+	Silent	SNP	C	C	T	rs1044397	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	39	28	31	0	0.717949	0	C|0.587;T|0.413	0.413	strong	.	CHRNA4	98	.	NM_000744	exon5	c.G1659A	p.A553A	GGGCGGCGCTTTG	.	PASS	Atlas-SNP
ELL2	22936	hgsc.bcm.edu	37	5	95234377	95234377	+	Silent	SNP	C	C	T	rs3777203	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	312	134	323	1	0.429487	0.00309598	C|0.691;T|0.309	0.309	strong	.	ELL2	63	.	NM_012081	exon8	c.G1092A	p.P364P	GGGCAGCGGGAGG	.	PASS	Atlas-SNP
ATP1A1	476	hgsc.bcm.edu	37	1	116937809	116937809	+	Missense_Mutation	SNP	A	A	G	rs77217304	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	208	102	171	0	0.490385	0	A|0.977;G|0.023	0.023	strong	.	ATP1A1	87	.	NM_001160233	exon13	c.A1738G	p.I580V	TTCCCTATCGATA	.	PASS	Atlas-SNP
PJA2	9867	hgsc.bcm.edu	37	5	108714681	108714681	+	Silent	SNP	A	A	G	rs35039318	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	323	153	256	0	0.473684	0	A|0.962;G|0.038	0.038	strong	.	PJA2	53	.	NM_014819	exon4	c.T507C	p.D169D	ATCTGGATCATAA	.	PASS	Atlas-SNP
KRTAP5-1	387264	hgsc.bcm.edu	37	11	1605992	1605992	+	Missense_Mutation	SNP	G	G	C	rs60899198	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	13	115	2	0.114035	0.0173913	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
DNAH8	1769	hgsc.bcm.edu	37	6	38800164	38800164	+	Missense_Mutation	SNP	G	G	A	rs9357283	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	72	150	0	0.496552	0	G|0.840;A|0.160	0.160	strong	DNAH8_ENST00000359357,NS,carcinoma,0,1	DNAH8	1239	1	NM_001206927	exon31	c.G4255A	p.E1419K	TCTGTGGAAGTTT	.	PASS	Atlas-SNP
TCP11L1	55346	hgsc.bcm.edu	37	11	33079580	33079580	+	Missense_Mutation	SNP	A	A	G	rs2273549	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	40	76	0	0.470588	0	A|0.857;G|0.143	0.143	strong	.	TCP11L1	40	.	NM_001145541	exon5	c.A533G	p.K178R	TTTCCAAGCTGGC	.	PASS	Atlas-SNP
PEAK1	0	hgsc.bcm.edu	37	15	77450964	77450964	+	Missense_Mutation	SNP	C	C	T	rs12909704	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	95	200	0	0.549133	0	C|0.760;T|0.240	0.240	strong	.	.	.	.	NM_024776	exon6	c.G3212A	p.R1071K	CAGCCCCTGCCAT	.	PASS	Atlas-SNP
STK10	6793	hgsc.bcm.edu	37	5	171523512	171523512	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	7	47	0	0.112903	0	.	.	none	.	STK10	100	.	NM_005990	exon8	c.C923T	p.A308V	GCCTCAGCCACCA	.	PASS	Atlas-SNP
DHX57	90957	hgsc.bcm.edu	37	2	39050141	39050141	+	Silent	SNP	A	A	C	rs3770681	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	102	89	0	0.990291	0	A|0.422;C|0.578	0.578	strong	.	DHX57	127	.	NM_198963	exon17	c.T3285G	p.S1095S	AAACGGAGACTTA	.	PASS	Atlas-SNP
PNP	4860	hgsc.bcm.edu	37	14	20940606	20940606	+	Missense_Mutation	SNP	G	G	A	rs1049564	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	155	91	129	0	0.587097	0	G|0.786;A|0.214	0.214	strong	PNP,NS,carcinoma,0,1	PNP	21	1	NM_000270	exon2	c.G151A	p.G51S	GACTACGGTGAAA	.	PASS	Atlas-SNP
KRT39	390792	hgsc.bcm.edu	37	17	39116728	39116728	+	Missense_Mutation	SNP	G	G	A	rs17843021	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	78	109	0	0.530612	0	G|0.868;A|0.132	0.132	strong	.	KRT39	53	.	NM_213656	exon6	c.C1022T	p.T341M	GTCTCCGTTAGGA	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1029320	1029320	+	Missense_Mutation	SNP	C	C	T	rs11604757	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	41	25	39	0	0.609756	0	C|0.945;T|0.055	0.055	strong	.	MUC6	408	.	NM_005961	exon10	c.G1183A	p.G395R	AGTGTCCGGGGCA	.	PASS	Atlas-SNP
PTCHD3	374308	hgsc.bcm.edu	37	10	27702169	27702169	+	Silent	SNP	C	C	T	rs6482625	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	156	85	121	0	0.544872	0	C|0.765;T|0.235	0.235	strong	.	PTCHD3	140	.	NM_001034842	exon1	c.G1011A	p.V337V	GCTCTGCACGTCG	.	PASS	Atlas-SNP
ITGA10	8515	hgsc.bcm.edu	37	1	145533175	145533175	+	Silent	SNP	T	T	C	rs11590105	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	48	62	0	0.516129	0	T|0.762;C|0.238	0.238	strong	.	ITGA10	131	.	NM_003637	exon11	c.T1270C	p.L424L	CCTGCATTGCAGA	.	PASS	Atlas-SNP
FCGR3A	2214	hgsc.bcm.edu	37	1	161518214	161518214	+	Missense_Mutation	SNP	T	T	C	rs2290834	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	582	257	356	2	0.441581	0.00561798	.	.	weak	FCGR3A,NS,carcinoma,+2,2	FCGR3A	38	2	NM_000569	exon3	c.A424G	p.I142V	CACCGATATGGAC	.	scavenged	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9049149	9049149	+	Missense_Mutation	SNP	G	G	A	rs12461007	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	232	230	168	1	0.991379	0.00595238	G|0.783;A|0.217	0.217	strong	.	MUC16	4315	.	NM_024690	exon5	c.C32482T	p.P10828S	GTGCAGGATGCGT	.	PASS	Atlas-SNP
BOD1L1	259282	hgsc.bcm.edu	37	4	13604418	13604418	+	Missense_Mutation	SNP	G	G	C	rs17745712	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	254	123	236	0	0.484252	0	G|0.848;C|0.152	0.152	strong	.	.	.	.	NM_148894	exon10	c.C4106G	p.A1369G	TGGTGAGCTTCTG	.	PASS	Atlas-SNP
AADACL2	344752	hgsc.bcm.edu	37	3	151463421	151463421	+	Missense_Mutation	SNP	G	G	T	rs1972977	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	111	109	91	0	0.981982	0	G|0.306;T|0.694	0.694	strong	.	AADACL2	102	.	NM_207365	exon4	c.G556T	p.A186S	TGCATTGCGGGAG	.	PASS	Atlas-SNP
STIL	6491	hgsc.bcm.edu	37	1	47717189	47717189	+	Silent	SNP	A	A	G	rs2758735	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	202	202	201	0	1	0	G|0.406;A|0.594	0.406	strong	.	STIL	91	.	NM_001048166	exon17	c.T3486C	p.P1162P	CTGTTCAGGTATG	.	PASS	Atlas-SNP
TECR	9524	hgsc.bcm.edu	37	19	14676578	14676578	+	Silent	SNP	C	C	T	rs61732092	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	20	43	0	0.454545	0	C|0.904;T|0.096	0.096	strong	.	TECR	22	.	NM_138501	exon13	c.C822T	p.G274G	GGTGGGCTTCACC	.	PASS	Atlas-SNP
MTR	4548	hgsc.bcm.edu	37	1	237048500	237048500	+	Missense_Mutation	SNP	A	A	G	rs1805087	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	84	38	76	0	0.452381	0	A|0.786;G|0.214	0.214	strong	MTR,rectum,carcinoma,+1,1	MTR	127	1	NM_000254	exon26	c.A2756G	p.D919G	GACAGGACCATTA	.	PASS	Atlas-SNP
MSH5	4439	hgsc.bcm.edu	37	6	31709045	31709045	+	Missense_Mutation	SNP	C	C	T	rs28381349	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	52	111	0	0.419355	0	C|0.957;T|0.043	0.043	strong	.	MSH5	108	.	NM_172165	exon3	c.C253T	p.L85F	GAGAGCCTCAAGC	.	PASS	Atlas-SNP
TBC1D10B	26000	hgsc.bcm.edu	37	16	30380872	30380872	+	Missense_Mutation	SNP	C	C	G	rs71389465	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	61	112	0	0.455224	0	C|0.956;G|0.044	0.044	strong	.	TBC1D10B	32	.	NM_015527	exon1	c.G633C	p.E211D	GGGGTCCTCAGGA	.	PASS	Atlas-SNP
ST14	6768	hgsc.bcm.edu	37	11	130079574	130079574	+	Silent	SNP	C	C	T	rs116956726	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	44	23	41	0	0.522727	0	C|0.993;T|0.007	0.007	strong	.	ST14	82	.	NM_021978	exon19	c.C2424T	p.P808P	GGGACCCCTGTCC	.	PASS	Atlas-SNP
TENC1	23371	hgsc.bcm.edu	37	12	53454193	53454193	+	Silent	SNP	G	G	A	rs73099915	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	29	56	0	0.414286	0	G|0.965;A|0.035	0.035	strong	.	TENC1	148	.	NM_015319	exon19	c.G2652A	p.S884S	AGAGTCGCTGGAG	.	PASS	Atlas-SNP
TRAK2	66008	hgsc.bcm.edu	37	2	202252539	202252539	+	Missense_Mutation	SNP	G	G	A	rs2244438	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	205	104	178	0	0.507317	0	G|0.722;A|0.278	0.278	strong	.	TRAK2	62	.	NM_015049	exon13	c.C1583T	p.T528I	CTCTCTGTCGGGG	.	PASS	Atlas-SNP
TET1	80312	hgsc.bcm.edu	37	10	70332672	70332672	+	Missense_Mutation	SNP	T	T	A	rs12773594	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	35	79	0	0.402299	0	T|0.854;A|0.146	0.146	strong	.	TET1	255	.	NM_030625	exon2	c.T577A	p.S193T	TTTTGGTCCCAAA	.	PASS	Atlas-SNP
LTF	4057	hgsc.bcm.edu	37	3	46484964	46484964	+	Silent	SNP	G	G	A	rs1042073	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	162	73	142	0	0.450617	0	G|0.597;A|0.403	0.403	strong	.	LTF	98	.	NM_002343	exon13	c.C1623T	p.N541N	TCTCTCGTTGCTG	.	PASS	Atlas-SNP
TBPL2	387332	hgsc.bcm.edu	37	14	55903716	55903716	+	Missense_Mutation	SNP	C	C	A	rs45612333	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	85	130	0	0.491329	0	C|0.933;A|0.067	0.067	strong	.	TBPL2	27	.	NM_199047	exon2	c.G171T	p.R57S	GGGAGACCTGGGT	.	PASS	Atlas-SNP
REV1	51455	hgsc.bcm.edu	37	2	100019496	100019496	+	Silent	SNP	A	A	G	rs2305354	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	105	114	0	1	0	A|0.402;G|0.598	0.598	strong	.	REV1	100	.	NM_016316	exon20	c.T3240C	p.I1080I	TGAACCAATGGTT	.	PASS	Atlas-SNP
GLDN	342035	hgsc.bcm.edu	37	15	51689772	51689772	+	Missense_Mutation	SNP	G	G	A	rs17648128	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	142	141	138	0	0.992958	0	G|0.690;A|0.310	0.310	strong	.	GLDN	54	.	NM_181789	exon6	c.G794A	p.S265N	AGCCAAGCATGTT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	173	80	145	0	0.462428	0	T|0.002;G|0.001	.	strong	.	NLRC5	186	.	NM_032206	exon21	c.C3313A	p.Q1105K	TTCCGTCAGCGCT	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1080391	1080391	+	Missense_Mutation	SNP	G	G	A	rs41521547	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	108	52	95	0	0.481481	0	G|0.947;A|0.053	0.053	strong	.	MUC2	614	.	NM_002457	exon8	c.G1111A	p.E371K	GACTGCGAGCAGT	.	PASS	Atlas-SNP
OR8K1	390157	hgsc.bcm.edu	37	11	56113764	56113764	+	Missense_Mutation	SNP	G	G	A	rs17614327	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	185	99	173	0	0.535135	0	G|0.952;A|0.048	0.048	strong	.	OR8K1	93	.	NM_001002907	exon1	c.G250A	p.A84T	GTCATTGCCCCGA	.	PASS	Atlas-SNP
FANCA	2175	hgsc.bcm.edu	37	16	89825065	89825065	+	Silent	SNP	G	G	A	rs17226980	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	105	48	80	0	0.457143	0	G|0.933;A|0.067	0.067	strong	.	FANCA	99	.	NM_000135	exon30	c.C2901T	p.S967S	AGCCGAGGACTCA	.	PASS	Atlas-SNP
DYRK4	8798	hgsc.bcm.edu	37	12	4705317	4705317	+	Silent	SNP	C	C	T	rs3741925	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	42	93	0	0.488372	0	C|0.758;T|0.242	0.242	strong	.	DYRK4	75	.	NM_003845	exon5	c.C285T	p.V95V	ACAGGTCCTGCAT	.	PASS	Atlas-SNP
DSG4	147409	hgsc.bcm.edu	37	18	28968959	28968959	+	Silent	SNP	C	C	T	rs9956865	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	98	98	124	1	1	0.00806452	C|0.195;T|0.805	0.805	strong	.	DSG4	343	.	NM_001134453	exon5	c.C495T	p.S165S	AGCCAGCATTGAA	.	PASS	Atlas-SNP
GPR101	83550	hgsc.bcm.edu	37	X	136113464	136113464	+	Missense_Mutation	SNP	C	C	A	rs1190736	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	76	76	42	0	1	0	C|0.690;A|0.310	0.310	strong	.	GPR101	96	.	NM_054021	exon1	c.G370T	p.V124L	ACACCACGACAAT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	249	80	328	0	0.321285	0	C|0.611;G|0.389	0.389	strong	.	PPA2	23	.	NM_176869	exon9	c.G846C	p.K282N	ATTACACTTCTTC	.	PASS	Atlas-SNP
FAM200A	221786	hgsc.bcm.edu	37	7	99145845	99145845	+	Silent	SNP	C	C	T	rs10238965	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	274	123	248	0	0.448905	0	C|0.566;T|0.434	0.434	strong	.	FAM200A	27	.	NM_145111	exon2	c.G186A	p.L62L	CGATGACAATAAG	.	PASS	Atlas-SNP
LRFN2	57497	hgsc.bcm.edu	37	6	40400288	40400288	+	Missense_Mutation	SNP	C	C	T	rs61731040	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	56	109	0	0.466667	0	C|0.890;T|0.110	0.110	strong	.	LRFN2	133	.	NM_020737	exon2	c.G565A	p.A189T	CCTCGGCGATGTG	.	PASS	Atlas-SNP
EGFR	1956	hgsc.bcm.edu	37	7	55224507	55224507	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	78	174	0	0.440678	0	.	.	none	EGFR_ENST00000344576,NS,malignant_melanoma,0,2	EGFR	20426	2	NM_201283	exon10	c.A1189C	p.T397P	CTGAAAACCGTAA	.	PASS	Atlas-SNP
OR2T2	401992	hgsc.bcm.edu	37	1	248616408	248616408	+	Missense_Mutation	SNP	C	C	T	rs73147579	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	993	701	901	1	0.705942	0.00110988	C|0.875;T|0.125	0.125	strong	OR2T2,NS,carcinoma,-2,1	OR2T2	73	1	NM_001004136	exon1	c.C310T	p.L104F	ATCTTCCTCTACC	.	PASS	Atlas-SNP
ASTN2	23245	hgsc.bcm.edu	37	9	119739015	119739015	+	Silent	SNP	G	G	A	rs10983437	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	102	55	81	0	0.539216	0	G|0.856;A|0.144	0.144	strong	.	ASTN2	307	.	NM_014010	exon7	c.C1488T	p.H496H	ACACAGGTGTCTG	.	PASS	Atlas-SNP
FAM83F	113828	hgsc.bcm.edu	37	22	40417820	40417820	+	Missense_Mutation	SNP	A	A	G	rs5995794	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	42	14	43	0	0.333333	0	A|0.766;G|0.234	0.234	strong	FAM83F,NS,carcinoma,0,1	FAM83F	29	1	NM_138435	exon4	c.A1306G	p.R436G	CCCGCCAGGCGCT	.	scavenged	Atlas-SNP
ARHGAP31	57514	hgsc.bcm.edu	37	3	119128398	119128398	+	Silent	SNP	G	G	A	rs2305249	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	216	215	162	0	0.99537	0	G|0.813;A|0.187	0.187	strong	ARHGAP31,colon,NS,+1,2	ARHGAP31	175	2	NM_020754	exon11	c.G1701A	p.P567P	AGCACCGGGGACA	.	PASS	Atlas-SNP
BTBD10	84280	hgsc.bcm.edu	37	11	13441126	13441126	+	Silent	SNP	A	A	G	rs7114113	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	266	132	211	0	0.496241	0	A|0.855;G|0.145	0.145	strong	.	BTBD10	43	.	NM_032320	exon4	c.T465C	p.N155N	TTTTGCATTTTCA	.	PASS	Atlas-SNP
TIRAP	114609	hgsc.bcm.edu	37	11	126162468	126162468	+	Missense_Mutation	SNP	G	G	A	rs3802813	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	51	105	0	0.504951	0	G|0.936;A|0.064	0.064	strong	.	TIRAP	37	.	NM_148910	exon5	c.G164A	p.S55N	AGGACAGCCCACT	.	PASS	Atlas-SNP
RPL32	6161	hgsc.bcm.edu	37	3	12877704	12877704	+	Silent	SNP	G	G	A	rs6497	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	12	3	8	0	0.25	0	G|0.971;A|0.029	0.029	strong	RPL32,NS,carcinoma,0,1	RPL32	11	1	NM_001007073	exon4	c.C297T	p.I99I	GTGAGCGATCTCG	.	scavenged	Atlas-SNP
IL27RA	9466	hgsc.bcm.edu	37	19	14162740	14162740	+	Silent	SNP	A	A	G	rs148749814	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	91	181	0	0.5	0	A|0.999;G|0.001	0.001	strong	.	IL27RA	56	.	NM_004843	exon13	c.A1671G	p.K557K	GGAGAAAGTTCCT	.	PASS	Atlas-SNP
SEC14L3	266629	hgsc.bcm.edu	37	22	30856121	30856121	+	Missense_Mutation	SNP	G	G	A	rs35764129	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	90	43	77	0	0.477778	0	G|0.965;A|0.035	0.035	strong	.	SEC14L3	46	.	NM_174975	exon12	c.C1090T	p.R364C	CGAAGCGTAGGAC	.	PASS	Atlas-SNP
DNAH3	55567	hgsc.bcm.edu	37	16	20966273	20966273	+	Missense_Mutation	SNP	G	G	A	rs12924551	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	157	179	0	0.987421	0	G|0.926;A|0.074	0.074	strong	DNAH3_ENST00000261383,NS,carcinoma,+1,4	DNAH3	1142	4	NM_017539	exon55	c.C10933T	p.R3645C	AGGAGCGCAACAG	.	PASS	Atlas-SNP
MAGI3	260425	hgsc.bcm.edu	37	1	114196495	114196495	+	Silent	SNP	A	A	G	rs2359173	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	51	104	0	0.481132	0	A|0.804;G|0.196	0.196	strong	.	MAGI3	181	.	NM_152900	exon15	c.A2484G	p.T828T	TTCAACACAGAAT	.	PASS	Atlas-SNP
CLEC12A	160364	hgsc.bcm.edu	37	12	10137557	10137557	+	Missense_Mutation	SNP	A	A	C	rs479499	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	81	54	0	1	0	A|0.302;C|0.698	0.698	strong	.	CLEC12A	65	.	NM_001207010	exon7	c.A760C	p.K254Q	TATAAAAAAAGAA	.	PASS	Atlas-SNP
UBR4	23352	hgsc.bcm.edu	37	1	19499560	19499560	+	Missense_Mutation	SNP	T	T	C	rs16862578	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	81	114	0	0.582734	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
ASB5	140458	hgsc.bcm.edu	37	4	177137988	177137988	+	Silent	SNP	C	C	T	rs6827525	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	262	116	258	1	0.442748	0.00387597	C|0.504;T|0.496	0.496	strong	.	ASB5	88	.	NM_080874	exon6	c.G843A	p.R281R	CAATATCCTTTCC	.	PASS	Atlas-SNP
AUTS2	26053	hgsc.bcm.edu	37	7	70239034	70239034	+	Silent	SNP	C	C	T	rs139965676		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	45	69	0	0.46875	0	C|1.000;T|0.000	0.000	weak	AUTS2,NS,carcinoma,0,1	AUTS2	173	1	NM_015570	exon12	c.C1851T	p.V617V	CGATGTCGCTGCT	.	PASS	Atlas-SNP
NFKBIA	4792	hgsc.bcm.edu	37	14	35871232	35871232	+	Missense_Mutation	SNP	C	C	T	rs142970414	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	75	202	0	0.407609	0	C|1.000;T|0.000	0.000	strong	.	NFKBIA	28	.	NM_020529	exon6	c.G941A	p.R314H	GTCAGACGCTGGC	.	PASS	Atlas-SNP
PION	54103	hgsc.bcm.edu	37	7	76990178	76990178	+	Silent	SNP	C	C	G	rs4727366	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	85	132	1	0.521472	0.00757576	C|0.688;G|0.312	0.312	strong	PION,caecum,carcinoma,0,1	PION	74	1	NM_017439	exon14	c.G990C	p.G330G	GTGTGACCCAACA	.	scavenged	Atlas-SNP
DAGLA	747	hgsc.bcm.edu	37	11	61511794	61511794	+	Missense_Mutation	SNP	C	C	G	rs117050893	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	93	37	78	0	0.397849	0	C|0.994;G|0.006	0.006	strong	.	DAGLA	109	.	NM_006133	exon20	c.C2962G	p.L988V	ATCTCACTCTCGC	.	PASS	Atlas-SNP
SLAMF1	6504	hgsc.bcm.edu	37	1	160616703	160616703	+	Missense_Mutation	SNP	G	G	T	rs2295612	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	182	180	173	1	0.989011	0.00578035	G|0.877;T|0.123	0.123	strong	SLAMF1,colon,carcinoma,0,1	SLAMF1	74	1	NM_003037	exon1	c.C33A	p.F11L	CAGCACGAAGGTC	.	PASS	Atlas-SNP
GRIK3	2899	hgsc.bcm.edu	37	1	37356579	37356579	+	Silent	SNP	G	G	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	222	105	168	0	0.472973	0	.	.	none	.	GRIK3	195	.	NM_000831	exon2	c.C234A	p.T78T	GGTCAAGGTTGTG	.	PASS	Atlas-SNP
PI4KA	5297	hgsc.bcm.edu	37	22	21066789	21066789	+	Silent	SNP	A	A	G	rs5996654	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	337	277	329	2	0.821958	0.00607903	A|0.618;G|0.382	0.382	strong	PI4KA_ENST00000255882,NS,carcinoma,0,1	PI4KA	313	1	NM_058004	exon50	c.T5787C	p.T1929T	GGCCAGAGTGGAC	.	PASS	Atlas-SNP
MGAT4C	25834	hgsc.bcm.edu	37	12	86373221	86373221	+	Missense_Mutation	SNP	G	G	C	rs17855890	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	181	93	147	0	0.513812	0	G|0.927;C|0.073	0.073	strong	.	MGAT4C	110	.	NM_013244	exon7	c.C1283G	p.T428S	AAGTAAGTAGAAC	.	PASS	Atlas-SNP
SYCE1	93426	hgsc.bcm.edu	37	10	135369532	135369532	+	Missense_Mutation	SNP	T	T	C	rs3747881	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	94	30	66	0	0.319149	0	T|0.851;C|0.149	0.149	strong	.	SYCE1	81	.	NM_001143763	exon9	c.A548G	p.K183R	ATCTCCTTTGCCA	.	PASS	Atlas-SNP
TMEM200A	114801	hgsc.bcm.edu	37	6	130761957	130761957	+	Silent	SNP	A	A	G	rs3813359	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	95	41	111	0	0.431579	0	A|0.770;G|0.230	0.230	strong	.	TMEM200A	108	.	NM_001258277	exon3	c.A390G	p.P130P	TGGCCCATTCACC	.	PASS	Atlas-SNP
GDA	9615	hgsc.bcm.edu	37	9	74840668	74840668	+	Missense_Mutation	SNP	G	G	A	rs61752956	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	169	72	167	0	0.426035	0	G|0.986;A|0.014	0.014	strong	.	GDA	113	.	NM_004293	exon8	c.G790A	p.V264M	ACATCTGTGTATG	.	PASS	Atlas-SNP
NUCB1	4924	hgsc.bcm.edu	37	19	49407660	49407660	+	Silent	SNP	G	G	A	rs1058483	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	36	82	0	0.356436	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
RCAN3	11123	hgsc.bcm.edu	37	1	24861704	24861704	+	Missense_Mutation	SNP	G	G	A	rs196432	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	190	93	154	0	0.489474	0	G|0.515;A|0.485	0.485	strong	RCAN3,colon,carcinoma,0,1	RCAN3	22	1	NM_001251982	exon3	c.G491A	p.R164Q	CCAGACGAGGCGC	.	PASS	Atlas-SNP
TBC1D4	9882	hgsc.bcm.edu	37	13	76055820	76055820	+	Silent	SNP	G	G	C	rs7327548	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	77	89	0	1	0	G|0.616;C|0.384	0.384	strong	.	TBC1D4	142	.	NM_014832	exon1	c.C84G	p.P28P	CTTCCCGGGGCCG	.	PASS	Atlas-SNP
KPRP	448834	hgsc.bcm.edu	37	1	152732106	152732106	+	Missense_Mutation	SNP	A	A	T	rs17612167	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	217	111	167	0	0.511521	0	A|0.835;T|0.165	0.165	strong	.	KPRP	152	.	NM_001025231	exon2	c.A42T	p.Q14H	GCTCCAACAGTGC	.	PASS	Atlas-SNP
CEACAM18	729767	hgsc.bcm.edu	37	19	51983673	51983673	+	Missense_Mutation	SNP	G	G	A	rs61743859	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	121	120	97	0	0.991736	0	G|0.806;A|0.194	0.194	strong	.	CEACAM18	96	.	NM_001080405	exon3	c.G322A	p.V108M	ACTGTCGTGGCCC	.	PASS	Atlas-SNP
BNIPL	149428	hgsc.bcm.edu	37	1	151011325	151011325	+	Missense_Mutation	SNP	C	C	T	rs61751619	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	65	108	0	0.550847	0	C|0.909;T|0.091	0.091	strong	BNIPL,colon,carcinoma,-1,1	BNIPL	45	1	NM_138278	exon4	c.C256T	p.R86C	CGCAAGCGTCTTT	.	PASS	Atlas-SNP
EMILIN3	90187	hgsc.bcm.edu	37	20	39991144	39991144	+	Silent	SNP	A	A	G	rs41307177	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	40	12	53	0	0.3	0	A|0.888;G|0.112	0.112	strong	EMILIN3,rectum,carcinoma,0,1	EMILIN3	63	1	NM_052846	exon4	c.T1065C	p.L355L	GCCATCAAGGCTC	.	PASS	Atlas-SNP
ALG2	85365	hgsc.bcm.edu	37	9	101980707	101980707	+	Silent	SNP	A	A	G	rs62562374	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	95	185	0	0.505319	0	A|0.998;C|0.000;G|0.002	0.002	strong	.	ALG2	37	.	NM_033087	exon2	c.T760C	p.L254L	ATGTCAATCTTCC	.	PASS	Atlas-SNP
SLC30A9	10463	hgsc.bcm.edu	37	4	42022464	42022464	+	Silent	SNP	C	C	A	rs15857	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	121	105	0	0.975806	0	C|0.359;A|0.641	0.641	strong	.	SLC30A9	58	.	NM_006345	exon4	c.C366A	p.G122G	GTATGGCTCAAAG	.	PASS	Atlas-SNP
DNA2	1763	hgsc.bcm.edu	37	10	70225504	70225504	+	Silent	SNP	G	G	T	rs3758626	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	69	35	74	0	0.507246	0	G|0.672;T|0.328	0.328	strong	.	DNA2	76	.	NM_001080449	exon4	c.C507A	p.A169A	ATTTATGGCTTTT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	230	92	212	1	0.4	0.00471698	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
HELZ2	85441	hgsc.bcm.edu	37	20	62200576	62200576	+	Missense_Mutation	SNP	G	G	A	rs6090457	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	41	20	42	0	0.487805	0	G|0.840;A|0.160	0.160	strong	.	.	.	.	NM_001037335	exon5	c.C1013T	p.S338L	GTTGGTGAGATGG	.	PASS	Atlas-SNP
RECQL5	9400	hgsc.bcm.edu	37	17	73625286	73625286	+	Silent	SNP	G	G	A	rs820190	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	130	61	107	0	0.469231	0	G|0.746;A|0.254	0.254	strong	.	RECQL5	77	.	NM_004259	exon16	c.C2217T	p.S739S	AAGGGAGCTGCCC	.	PASS	Atlas-SNP
TMEM200C	645369	hgsc.bcm.edu	37	18	5891637	5891637	+	Silent	SNP	C	C	A	rs28656885	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	26	63	0	0.371429	0	C|0.642;A|0.358	0.358	strong	.	TMEM200C	30	.	NM_001080209	exon1	c.G426T	p.P142P	GGAGGACGGGGAG	.	PASS	Atlas-SNP
BCR	613	hgsc.bcm.edu	37	22	23631801	23631801	+	Silent	SNP	T	T	C	rs2227939	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	150	72	146	0	0.48	0	T|0.659;C|0.341	0.341	strong	.	BCR	74	.	NM_021574	exon13	c.T2700C	p.N900N	CATCAATAAGGAA	.	PASS	Atlas-SNP
KDM6B	23135	hgsc.bcm.edu	37	17	7750010	7750010	+	Missense_Mutation	SNP	G	G	C	rs79548905	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	87	35	75	0	0.402299	0	G|0.981;C|0.019	0.019	strong	.	KDM6B	95	.	NM_001080424	exon8	c.G663C	p.E221D	GGAGGAGGGCCTC	.	PASS	Atlas-SNP
RPRD1B	58490	hgsc.bcm.edu	37	20	36668874	36668874	+	Silent	SNP	G	G	A	rs2273353	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	159	80	159	2	0.503145	0.0125786	G|0.747;A|0.253	0.253	strong	RPRD1B,NS,carcinoma,+1,2	RPRD1B	25	2	NM_021215	exon2	c.G189A	p.A63A	TTTAGCGAATGAT	.	scavenged	Atlas-SNP
HLA-E	3133	hgsc.bcm.edu	37	6	30457732	30457732	+	Silent	SNP	T	T	C	rs1059510	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	215	111	166	0	0.516279	0	T|0.287;C|0.713	0.713	strong	.	HLA-E	35	.	NM_005516	exon2	c.T294C	p.N98N	AGTGAATCTGCGG	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31237833	31237833	+	Missense_Mutation	SNP	T	T	C	rs1050180	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	97	304	0	1	0	T|0.255;C|0.740;A|0.005	0.740	strong	.	HLA-C	92	.	NM_002117	exon5	c.A925G	p.M309V	TGCCCATGATGGG	.	PASS	Atlas-SNP
ERAP1	51752	hgsc.bcm.edu	37	5	96122210	96122210	+	Missense_Mutation	SNP	C	C	T	rs10050860	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	143	76	105	0	0.531469	0	C|0.855;T|0.145	0.145	strong	.	ERAP1	59	.	NM_001198541	exon12	c.G1723A	p.D575N	CCATGTCGGATTT	.	PASS	Atlas-SNP
C2orf54	79919	hgsc.bcm.edu	37	2	241831005	241831005	+	Silent	SNP	C	C	T	rs10195453	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	96	96	72	0	1	0	C|0.497;T|0.503	0.503	strong	.	C2orf54	14	.	NM_001085437	exon2	c.G690A	p.R230R	GAGGATCCTTCTC	.	PASS	Atlas-SNP
PCDHGA5	56110	hgsc.bcm.edu	37	5	140744395	140744395	+	Silent	SNP	T	T	C	rs57308563	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	187	86	137	0	0.459893	0	T|0.882;C|0.118	0.118	strong	PCDHGA5_ENST00000518069,NS,carcinoma,0,1	PCDHGA5	215	1	NM_032054	exon1	c.T498C	p.S166S	GAACTCTCTCCGG	.	PASS	Atlas-SNP
XPC	7508	hgsc.bcm.edu	37	3	14190078	14190078	+	Missense_Mutation	SNP	C	C	T	rs200148127	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	207	3	176	0	0.0144928	0	.	.	weak	XPC,colon,carcinoma,0,1	XPC	60	1	NM_004628	exon13	c.G2404A	p.G802S	AGTAGCCGCCATG	.	scavenged	Atlas-SNP
ARHGEF25	115557	hgsc.bcm.edu	37	12	58009372	58009372	+	Silent	SNP	G	G	A	rs2277323	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	52	83	0	0.5	0	G|0.818;A|0.182	0.182	strong	ARHGEF25,NS,carcinoma,0,1	ARHGEF25	111	1	NM_001111270	exon13	c.G1233A	p.L411L	GCTGCTGTCTTCC	.	PASS	Atlas-SNP
CDSN	1041	hgsc.bcm.edu	37	6	31084435	31084435	+	Silent	SNP	G	G	A	rs1062470	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	32	31	23	0	0.96875	0	G|0.569;A|0.431	0.431	strong	.	CDSN	48	.	NM_001264	exon2	c.C957T	p.Y319Y	CACAGGGTAGATT	.	PASS	Atlas-SNP
LY6G6F	259215	hgsc.bcm.edu	37	6	31675501	31675501	+	Missense_Mutation	SNP	G	G	A	rs9267547	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	197	98	156	0	0.497462	0	G|0.854;A|0.146	0.146	strong	LY6G6F,NS,lymphoid_neoplasm,0,1	LY6G6F	23	1	NM_001003693	exon2	c.G319A	p.A107T	TGGTGCGCTGTGC	.	PASS	Atlas-SNP
PTPRC	5788	hgsc.bcm.edu	37	1	198704294	198704294	+	Silent	SNP	C	C	T	rs7540378	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	99	199	0	0.510309	0	C|0.817;T|0.183	0.183	strong	.	PTPRC	229	.	NM_002838	exon23	c.C2316T	p.G772G	AGAGGGCACTCGG	.	PASS	Atlas-SNP
KRTAP10-5	386680	hgsc.bcm.edu	37	21	45999753	45999753	+	Missense_Mutation	SNP	C	C	G	rs464424	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	31	54	0	0.659574	0	C|0.913;G|0.087	0.087	strong	.	KRTAP10-5	43	.	NM_198694	exon1	c.G703C	p.V235L	TGGGCACGCAGCA	.	PASS	Atlas-SNP
TBX1	6899	hgsc.bcm.edu	37	22	19750773	19750773	+	Silent	SNP	T	T	C	rs41298814	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	57	105	0	0.452381	0	T|0.808;C|0.192	0.192	strong	.	TBX1	62	.	NM_080647	exon4	c.T420C	p.F140F	GATGTTTCCCACC	.	PASS	Atlas-SNP
FAM196A	642938	hgsc.bcm.edu	37	10	128974220	128974220	+	Missense_Mutation	SNP	G	G	A	rs11594560	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	188	92	167	0	0.489362	0	G|0.829;A|0.171	0.171	strong	.	FAM196A	55	.	NM_001039762	exon4	c.C440T	p.A147V	TCTTTCGCATCTG	.	PASS	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240692	39240692	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	7	44	1	0.142857	0.0227273	.	.	none	KRTAP4-9_ENST00000377734,colon,carcinoma,0,2	KRTAP4-7	49	2	NM_033061	exon1	c.G234C	p.R78S	CCCTAGGTGCTGC	.	scavenged	Atlas-SNP
OR5M9	390162	hgsc.bcm.edu	37	11	56230069	56230069	+	Missense_Mutation	SNP	T	T	C	rs1945237	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	138	74	155	0	0.536232	0	T|0.951;C|0.049	0.049	strong	.	OR5M9	75	.	NM_001004743	exon1	c.A809G	p.K270R	ACCATTTTGCCCT	.	PASS	Atlas-SNP
GPR146	115330	hgsc.bcm.edu	37	7	1097895	1097895	+	Silent	SNP	A	A	G	rs61910751	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	49	20	28	0	0.408163	0	A|0.893;G|0.106;T|0.000	0.106	strong	.	GPR146	20	.	NM_138445	exon1	c.A744G	p.P248P	GACGCCACACTAT	.	PASS	Atlas-SNP
MARCH2	51257	hgsc.bcm.edu	37	19	8486884	8486884	+	Missense_Mutation	SNP	G	G	A	rs1133893	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	52	22	43	0	0.423077	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
STAT2	6773	hgsc.bcm.edu	37	12	56740738	56740738	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	48	77	0	0.48	0	.	.	none	.	STAT2	70	.	NM_005419	exon20	c.C1726T	p.R576C	TGATGCGTCTGGA	.	PASS	Atlas-SNP
ANKRD35	148741	hgsc.bcm.edu	37	1	145561116	145561116	+	Silent	SNP	G	G	A	rs11578772	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	73	106	0	0.503448	0	G|0.922;A|0.078	0.078	strong	.	ANKRD35	96	.	NM_144698	exon10	c.G804A	p.Q268Q	GCCCCAGGCAGGT	.	PASS	Atlas-SNP
OR8G5	219865	hgsc.bcm.edu	37	11	124135619	124135619	+	Silent	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	311	22	260	0	0.0707396	0	.	.	none	.	.	.	.	NM_001005198	exon1	c.T897C	p.S299S	ATCATCTGTCAGC	.	PASS	Atlas-SNP
GPR98	84059	hgsc.bcm.edu	37	5	90012379	90012379	+	Missense_Mutation	SNP	G	G	A	rs13157270	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	189	88	234	1	0.465608	0.0042735	G|0.950;A|0.050	0.050	strong	.	GPR98	605	.	NM_032119	exon43	c.G9280A	p.V3094I	CTCTACGTCCAGG	.	PASS	Atlas-SNP
FLNC	2318	hgsc.bcm.edu	37	7	128481578	128481578	+	Missense_Mutation	SNP	A	A	C	rs34972246	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	72	109	0	0.431138	0	A|0.996;C|0.004	0.004	strong	.	FLNC	339	.	NM_001127487	exon13	c.A2078C	p.D693A	CCATTGATGCTCG	.	PASS	Atlas-SNP
C12orf54	121273	hgsc.bcm.edu	37	12	48884610	48884610	+	Missense_Mutation	SNP	C	C	T	rs61940778	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	134	67	108	0	0.5	0	C|0.954;T|0.046	0.046	strong	.	C12orf54	11	.	NM_152319	exon6	c.C184T	p.R62W	GATGCTCGGATTC	.	PASS	Atlas-SNP
SRRM1	10250	hgsc.bcm.edu	37	1	24993374	24993374	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	140	4	161	1	0.0285714	0.00621118	.	.	none	SRRM1,bladder,carcinoma,0,2	SRRM1	81	2	NM_005839	exon13	c.C1697A	p.P566H	CCCCTCCTCCTCG	.	scavenged	Atlas-SNP
ATG4B	23192	hgsc.bcm.edu	37	2	242610172	242610172	+	Missense_Mutation	SNP	A	A	G	rs138274580	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	148	60	119	0	0.405405	0	A|0.945;G|0.055	0.055	strong	.	ATG4B	35	.	NM_178326	exon11	c.A989G	p.N330S	ACTTCAATGATTG	.	PASS	Atlas-SNP
EVC2	132884	hgsc.bcm.edu	37	4	5690902	5690902	+	Missense_Mutation	SNP	T	T	C	rs4689278	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	78	62	0	1	0	T|0.776;C|0.224	0.224	strong	EVC2,NS,carcinoma,0,1	EVC2	202	1	NM_147127	exon5	c.A688G	p.S230G	TCTTGCTAAAAGC	.	PASS	Atlas-SNP
KCNV2	169522	hgsc.bcm.edu	37	9	2718534	2718534	+	Silent	SNP	C	C	G	rs12237048	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	36	91	0	0.537313	0	C|0.535;G|0.465	0.465	strong	KCNV2,NS,carcinoma,0,2	KCNV2	72	2	NM_133497	exon1	c.C795G	p.A265A	GGTGGCCTCCAGC	.	PASS	Atlas-SNP
ZNF490	57474	hgsc.bcm.edu	37	19	12692001	12692001	+	Silent	SNP	G	G	A	rs3745651	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	37	22	30	0	0.594595	0	G|0.688;A|0.312	0.312	strong	.	ZNF490	42	.	NM_020714	exon5	c.C888T	p.H296H	CCTTTCGTGGGTT	.	PASS	Atlas-SNP
PLEKHH3	79990	hgsc.bcm.edu	37	17	40822678	40822678	+	Silent	SNP	C	C	T	rs2277618	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	46	103	0	0.522727	0	C|0.843;T|0.157	0.157	strong	.	PLEKHH3	49	.	NM_024927	exon10	c.G1467A	p.G489G	TCTCCACCCGGAG	.	PASS	Atlas-SNP
CYP1B1	1545	hgsc.bcm.edu	37	2	38298139	38298139	+	Missense_Mutation	SNP	T	T	C	rs1800440	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	177	86	176	0	0.485876	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
TCP10	6953	hgsc.bcm.edu	37	6	167796309	167796309	+	Missense_Mutation	SNP	C	C	T	rs17855834	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	166	78	156	0	0.46988	0	C|0.757;T|0.243	0.243	strong	TCP10,NS,carcinoma,-1,1	TCP10	35	1	NM_004610	exon2	c.G53A	p.G18E	ATCTCCCCGGCAT	.	PASS	Atlas-SNP
FLYWCH1	84256	hgsc.bcm.edu	37	16	2983483	2983483	+	Silent	SNP	C	C	G	rs2074362	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	100	49	83	0	0.49	0	C|0.704;G|0.296	0.296	strong	.	FLYWCH1	27	.	NM_020912	exon5	c.C1146G	p.L382L	GACTCTCACCAGG	.	PASS	Atlas-SNP
FTL	2512	hgsc.bcm.edu	37	19	49469087	49469087	+	Silent	SNP	T	T	C	rs2230267	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	77	72	0	0.974684	0	T|0.480;C|0.520	0.520	strong	.	FTL	19	.	NM_000146	exon2	c.T163C	p.L55L	CGCGAATTGGCCG	.	PASS	Atlas-SNP
REG3A	5068	hgsc.bcm.edu	37	2	79385786	79385786	+	Silent	SNP	T	T	C	rs76653007	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	213	35	133	0	0.164319	0	T|0.894;C|0.106	0.106	strong	.	REG3A	76	.	NM_138938	exon2	c.A186G	p.T62T	TGCATCTGTCCAG	.	PASS	Atlas-SNP
BSN	8927	hgsc.bcm.edu	37	3	49690496	49690496	+	Silent	SNP	C	C	T	rs11709525	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	57	116	1	0.467213	0.00862069	C|0.731;G|0.000;T|0.269	0.269	strong	BSN,NS,carcinoma,0,1	BSN	272	1	NM_003458	exon5	c.C3507T	p.S1169S	ACCCTCCGGCAGC	.	scavenged	Atlas-SNP
OR2AG2	338755	hgsc.bcm.edu	37	11	6790106	6790106	+	Missense_Mutation	SNP	T	T	C	rs7102536	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	110	99	0	1	0	T|0.137;C|0.863	0.863	strong	.	OR2AG2	55	.	NM_001004490	exon1	c.A83G	p.Y28C	GTAGCATAGAGCA	.	PASS	Atlas-SNP
PCDHGA6	56109	hgsc.bcm.edu	37	5	140755387	140755387	+	Silent	SNP	C	C	T	rs62378422	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	103	52	88	0	0.504854	0	C|0.918;T|0.082	0.082	strong	.	PCDHGA6	219	.	NM_018919	exon1	c.C1737T	p.P579P	GGCGCCCCGCTCC	.	PASS	Atlas-SNP
NRSN2	80023	hgsc.bcm.edu	37	20	330408	330408	+	Missense_Mutation	SNP	C	C	G	rs11556643	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	79	84	0	1	0	C|0.879;G|0.121	0.121	strong	.	NRSN2	20	.	NM_024958	exon3	c.C121G	p.L41V	ACTGCTCTCAGCG	.	PASS	Atlas-SNP
CATSPER4	378807	hgsc.bcm.edu	37	1	26527884	26527884	+	Silent	SNP	G	G	A	rs41310785	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	246	123	225	0	0.5	0	G|0.947;A|0.053	0.053	strong	.	CATSPER4	59	.	NM_198137	exon9	c.G1239A	p.E413E	CCAGGAGCAGGAG	.	PASS	Atlas-SNP
POU6F2	11281	hgsc.bcm.edu	37	7	39379325	39379325	+	Missense_Mutation	SNP	C	C	T	rs2074936	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	12	5	13	0	0.416667	0	C|0.764;T|0.236	0.236	strong	POU6F2,NS,NS,0,1	POU6F2	117	1	NM_007252	exon6	c.C596T	p.P199L	CTCCCCCGTCAAC	.	PASS	Atlas-SNP
GLIS1	148979	hgsc.bcm.edu	37	1	53995515	53995515	+	Silent	SNP	G	G	A	rs12021912	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	141	70	133	0	0.496454	0	G|0.915;A|0.085	0.085	strong	.	GLIS1	52	.	NM_147193	exon4	c.C906T	p.A302A	GCTGAAGGCCTTC	.	PASS	Atlas-SNP
TAB1	10454	hgsc.bcm.edu	37	22	39813800	39813800	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	131	68	108	0	0.519084	0	.	.	none	.	TAB1	36	.	NM_153497	exon5	c.G496A	p.A166T	GGAGGGGCCATGG	.	PASS	Atlas-SNP
ASB18	401036	hgsc.bcm.edu	37	2	237149941	237149941	+	Missense_Mutation	SNP	C	C	T	rs6756597	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	183	76	179	0	0.415301	0	C|0.535;T|0.465	0.465	strong	.	ASB18	34	.	NM_212556	exon2	c.G310A	p.A104T	ACGTGGCTGGAGA	.	PASS	Atlas-SNP
MCM3AP	8888	hgsc.bcm.edu	37	21	47692531	47692531	+	Silent	SNP	T	T	C	rs17182739	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	200	95	196	0	0.475	0	T|0.959;C|0.041	0.041	strong	MCM3AP,colon,carcinoma,-2,1	MCM3AP	146	1	NM_003906	exon8	c.A2409G	p.E803E	CTCCGCTTCGCTG	.	PASS	Atlas-SNP
CDHR3	222256	hgsc.bcm.edu	37	7	105662690	105662690	+	Silent	SNP	T	T	C	rs10258293	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	410	199	403	0	0.485366	0	T|0.839;C|0.161	0.161	strong	.	CDHR3	153	.	NM_152750	exon14	c.T1872C	p.N624N	TTCCAATGTCACA	.	PASS	Atlas-SNP
ZNF234	10780	hgsc.bcm.edu	37	19	44660967	44660967	+	Silent	SNP	A	A	G	rs12609635	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	79	49	70	0	0.620253	0	A|0.448;G|0.552	0.552	strong	.	ZNF234	132	.	NM_006630	exon6	c.A798G	p.G266G	ATGTGGAAGGGCC	.	PASS	Atlas-SNP
PABPC1	26986	hgsc.bcm.edu	37	8	101727716	101727716	+	Missense_Mutation	SNP	C	C	T	rs201157005	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	5	80	2	0.0625	0.025	C|0.940;T|0.060	0.060	strong	PABPC1,NS,carcinoma,-1,1	PABPC1	76	1	NM_002568	exon4	c.G617A	p.R206H	TTAAGGCGCTCAT	.	scavenged	Atlas-SNP
PCSK7	9159	hgsc.bcm.edu	37	11	117097952	117097952	+	Silent	SNP	C	C	T	rs2306473	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	112	61	104	0	0.544643	0	C|0.788;T|0.212	0.212	strong	PCSK7,NS,carcinoma,0,1	PCSK7	59	1	NM_004716	exon5	c.G690A	p.T230T	ACATCGCGTGCCA	.	PASS	Atlas-SNP
IGSF21	84966	hgsc.bcm.edu	37	1	18692089	18692089	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	97	150	0	0.5	0	.	.	none	.	IGSF21	87	.	NM_032880	exon6	c.C913T	p.L305F	GCCCTGCTCACCT	.	PASS	Atlas-SNP
PTPRZ1	5803	hgsc.bcm.edu	37	7	121653250	121653250	+	Missense_Mutation	SNP	G	G	A	rs61732005	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	226	103	191	0	0.455752	0	G|0.926;A|0.074	0.074	strong	.	PTPRZ1	605	.	NM_002851	exon12	c.G4150A	p.D1384N	CACAGAGATGGTT	.	PASS	Atlas-SNP
PRKCB	5579	hgsc.bcm.edu	37	16	24104188	24104188	+	Silent	SNP	C	C	T	rs3729896	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	78	37	72	0	0.474359	0	C|0.960;T|0.040	0.040	strong	.	PRKCB	383	.	NM_212535	exon6	c.C606T	p.P202P	GATTCCCGATCCC	.	PASS	Atlas-SNP
DIS3	22894	hgsc.bcm.edu	37	13	73349359	73349359	+	Missense_Mutation	SNP	G	G	C	rs7332388	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	309	146	277	0	0.472492	0	G|0.526;C|0.474	0.474	strong	DIS3,colon,carcinoma,+1,1	DIS3	103	1	NM_014953	exon6	c.C977G	p.T326R	CGTTCTGTCTCTT	.	PASS	Atlas-SNP
TLK1	9874	hgsc.bcm.edu	37	2	171910313	171910313	+	Silent	SNP	C	C	T	rs11553951	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	58	142	0	0.483333	0	C|0.814;T|0.186	0.186	strong	.	TLK1	134	.	NM_012290	exon8	c.G690A	p.Q230Q	CAGGTCCTGGATT	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	28	53	0	0.35	0	T|0.655;C|0.345	0.345	strong	.	ARHGAP25	175	.	NM_001007231	exon10	c.T1670C	p.M557T	AGAGGATGGTCCA	.	PASS	Atlas-SNP
SLC9C2	284525	hgsc.bcm.edu	37	1	173516903	173516903	+	Silent	SNP	A	A	G	rs10494490	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	127	51	153	0	0.401575	0	A|0.637;G|0.363	0.363	strong	SLC9A11,NS,carcinoma,-2,1	.	.	1	NM_178527	exon13	c.T1482C	p.N494N	CATATCATTATGT	.	PASS	Atlas-SNP
CDRT15	146822	hgsc.bcm.edu	37	17	14140080	14140080	+	Missense_Mutation	SNP	C	C	T	rs17679866	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	225	100	204	0	0.444444	0	C|0.921;T|0.079	0.079	strong	.	CDRT15	20	.	NM_001007530	exon1	c.G71A	p.R24Q	CATCGTCGGAAAA	.	PASS	Atlas-SNP
FNDC9	408263	hgsc.bcm.edu	37	5	156770209	156770209	+	Silent	SNP	G	G	A	rs10214194	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	114	53	105	0	0.464912	0	G|0.764;A|0.236	0.236	strong	.	FNDC9	22	.	NM_001001343	exon2	c.C336T	p.S112S	CCAAAGGGAGATC	.	PASS	Atlas-SNP
MEF2D	4209	hgsc.bcm.edu	37	1	156450740	156450740	+	Silent	SNP	G	G	A	rs1925950	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	145	115	0	1	0	G|0.452;A|0.548	0.548	strong	.	MEF2D	43	.	NM_005920	exon4	c.C282T	p.N94N	GCAGCCGTTGAAG	.	PASS	Atlas-SNP
PASK	23178	hgsc.bcm.edu	37	2	242080119	242080119	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	483	211	426	0	0.436853	0	.	.	none	.	PASK	230	.	NM_001252122	exon3	c.T246G	p.I82M	TGTACAAATATTC	.	PASS	Atlas-SNP
RFPL4A	342931	hgsc.bcm.edu	37	19	56273293	56273293	+	Missense_Mutation	SNP	G	G	A	rs75204738	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	648	112	561	2	0.17284	0.00356506	G|0.500;A|0.500	0.500	strong	ENSG00000188683,NS,carcinoma,0,1	RFPL4A	8	1	NM_001145014	exon2	c.G127A	p.D43N	GAGCCCGATGGGG	.	scavenged	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	37	22	38164106	38164106	+	Silent	SNP	C	C	T	rs4821708	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	128	127	100	0	0.992188	0	C|0.739;T|0.261	0.261	strong	TRIOBP_ENST00000344404,NS,carcinoma,0,1	TRIOBP	262	1	NM_001039141	exon19	c.C6498T	p.Y2166Y	GGCCTACCAGGAA	.	PASS	Atlas-SNP
LRCH4	4034	hgsc.bcm.edu	37	7	100175010	100175010	+	Missense_Mutation	SNP	C	C	T	rs140761835	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	28	20	34	0	0.714286	0	C|0.991;T|0.009	0.009	strong	LRCH4,caecum,carcinoma,+1,1	LRCH4	53	1	NM_002319	exon11	c.G1181A	p.R394Q	TCCTCCCGCCTGA	.	PASS	Atlas-SNP
PSG2	5670	hgsc.bcm.edu	37	19	43585111	43585111	+	Missense_Mutation	SNP	C	C	G	rs149579909	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	164	76	117	0	0.463415	0	C|0.920;G|0.080	0.080	strong	PSG2,NS,carcinoma,0,2	PSG2	84	2	NM_031246	exon2	c.G352C	p.G118R	AGGATCCTGCGTC	.	PASS	Atlas-SNP
TMEM132B	114795	hgsc.bcm.edu	37	12	125900095	125900095	+	Silent	SNP	T	T	A	rs3809261	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	136	63	91	0	0.463235	0	T|0.901;A|0.099	0.099	strong	.	TMEM132B	207	.	NM_052907	exon3	c.T963A	p.G321G	AGCAGGTGTGAAG	.	PASS	Atlas-SNP
OR5H1	26341	hgsc.bcm.edu	37	3	97851968	97851968	+	Missense_Mutation	SNP	C	C	T	rs139235176	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	603	46	483	2	0.0762852	0.00414079	C|0.989;T|0.011	0.011	strong	OR5H1,colon,carcinoma,0,1	OR5H1	71	1	NM_001005338	exon1	c.C427T	p.R143W	TGCATCCGGCTAT	.	scavenged	Atlas-SNP
GAN	8139	hgsc.bcm.edu	37	16	81398635	81398635	+	Silent	SNP	C	C	T	rs2608555	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	107	52	102	0	0.485981	0	C|0.800;T|0.200	0.200	strong	.	GAN	59	.	NM_022041	exon8	c.C1293T	p.Y431Y	CTCCTACGGAAAG	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30955929	30955929	+	Silent	SNP	C	C	A	rs2517416	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	48	65	0	0.585366	0	C|0.857;A|0.143	0.143	strong	.	MUC21	98	.	NM_001010909	exon3	c.C1659A	p.S553S	AGTATCCTCGATA	.	PASS	Atlas-SNP
STIM2	57620	hgsc.bcm.edu	37	4	27024524	27024524	+	Missense_Mutation	SNP	G	G	A	rs147362228	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	64	90	0	0.507937	0	G|0.999;A|0.001	0.001	strong	.	STIM2	77	.	NM_001169118	exon13	c.G2171A	p.R724K	TTGCCAGAATAAG	.	PASS	Atlas-SNP
OLFML1	283298	hgsc.bcm.edu	37	11	7507182	7507182	+	Missense_Mutation	SNP	A	A	G	rs118163706	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	228	113	228	1	0.495614	0.00438596	A|0.959;G|0.041	0.041	strong	.	OLFML1	54	.	NM_198474	exon1	c.A76G	p.T26A	CAGTGTACCCAGG	.	PASS	Atlas-SNP
ZNF645	158506	hgsc.bcm.edu	37	X	22291732	22291732	+	Silent	SNP	C	C	T	rs6629461	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	83	72	0	0.965116	0	C|0.774;T|0.226	0.226	strong	.	ZNF645	67	.	NM_152577	exon1	c.C624T	p.I208I	GGATATCCAGGCT	.	PASS	Atlas-SNP
METTL21C	196541	hgsc.bcm.edu	37	13	103339363	103339363	+	Missense_Mutation	SNP	C	C	G	rs148307139	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	28	87	0	0.424242	0	C|0.999;G|0.001	0.001	strong	METTL21C,NS,carcinoma,0,1	METTL21C	23	1	NM_001010977	exon3	c.G327C	p.L109F	GAAATTCAATTCC	.	PASS	Atlas-SNP
ADAMTS14	140766	hgsc.bcm.edu	37	10	72520254	72520254	+	Missense_Mutation	SNP	C	C	T	rs61736607	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	62	26	71	0	0.419355	0	C|0.944;T|0.056	0.056	strong	.	ADAMTS14	148	.	NM_139155	exon22	c.C3326T	p.P1109L	CAGACCCTGGCCC	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144993324	144993324	+	Silent	SNP	C	C	T	rs6984820	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	115	46	125	0	0.4	0	C|0.730;T|0.270	0.270	strong	.	PLEC	1144	.	NM_201380	exon32	c.G11076A	p.T3692T	CACCTGCGTGGTC	.	PASS	Atlas-SNP
CACNA1B	774	hgsc.bcm.edu	37	9	140777299	140777299	+	Missense_Mutation	SNP	G	G	T	rs71238527	bycluster;byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	194	45	104	0	0.231959	0	G|0.947;T|0.053	0.053	strong	.	CACNA1B	266	.	NM_001243812	exon3	c.G494T	p.G165V	GGAACGGCTGGAA	.	PASS	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	37	6	32017242	32017242	+	Missense_Mutation	SNP	C	C	T	rs61745920	byfrequency	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	154	72	126	0	0.467532	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
CYB5A	1528	hgsc.bcm.edu	37	18	71928150	71928150	+	Silent	SNP	C	C	T	rs7238987	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	83	47	75	0	0.566265	0	C|0.860;T|0.140	0.140	strong	.	CYB5A	9	.	NM_148923	exon3	c.G288A	p.P96P	ACTTACCGGAGGC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	129	61	107	0	0.472868	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
RYR1	6261	hgsc.bcm.edu	37	19	38949904	38949904	+	Silent	SNP	C	C	T	rs3745847	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	217	217	165	0	1	0	C|0.386;T|0.614	0.614	strong	.	RYR1	708	.	NM_001042723	exon19	c.C2286T	p.P762P	CTGCCCCGTGCAG	.	PASS	Atlas-SNP
OR5AC2	81050	hgsc.bcm.edu	37	3	97806944	97806944	+	Missense_Mutation	SNP	T	T	C	rs80220955	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	47	13	41	0	0.276596	0	T|0.824;C|0.176	0.176	strong	.	OR5AC2	64	.	NM_054106	exon1	c.T928C	p.X310Q	AGGAAGTAAACAG	.	PASS	Atlas-SNP
ZNF25	219749	hgsc.bcm.edu	37	10	38241067	38241067	+	Missense_Mutation	SNP	A	A	C	rs1208606	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	212	89	189	0	0.419811	0	A|0.939;C|0.061	0.061	strong	.	ZNF25	66	.	NM_145011	exon6	c.T1359G	p.N453K	CTCAGCATTCCTC	.	PASS	Atlas-SNP
TARBP1	6894	hgsc.bcm.edu	37	1	234582651	234582651	+	Missense_Mutation	SNP	T	T	C	rs4920246	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	245	245	208	0	1	0	T|0.703;C|0.297	0.297	strong	.	TARBP1	111	.	NM_005646	exon12	c.A2032G	p.S678G	TGGTACTAAACTT	.	PASS	Atlas-SNP
C5orf60	285679	hgsc.bcm.edu	37	5	179072006	179072006	+	Silent	SNP	A	A	G	rs13153811	by2hit2allele	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	230	81	245	1	0.352174	0.00408163	.	.	weak	C5orf60,NS,carcinoma,0,1	C5orf60	24	1	NM_001142306	exon1	c.T16C	p.L6L	CAGGCAACTGAGC	.	scavenged	Atlas-SNP
CD248	57124	hgsc.bcm.edu	37	11	66083263	66083263	+	Silent	SNP	C	C	T	rs78560344	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	74	43	49	0	0.581081	0	C|0.994;T|0.006	0.006	strong	CD248,NS,carcinoma,-1,1	CD248	69	1	NM_020404	exon1	c.G1236A	p.P412P	GAAGCTCGGTCTA	.	PASS	Atlas-SNP
OR51I1	390063	hgsc.bcm.edu	37	11	5462085	5462085	+	Silent	SNP	G	G	A	rs11037444	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	174	86	160	0	0.494253	0	G|0.801;A|0.199	0.199	strong	.	OR51I1	66	.	NM_001005288	exon1	c.C660T	p.Y220Y	CAATGCGTAGGAA	.	PASS	Atlas-SNP
C7orf57	136288	hgsc.bcm.edu	37	7	48081095	48081095	+	Missense_Mutation	SNP	G	G	T	rs10951942	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	35	35	25	0	1	0	G|0.632;T|0.368	0.368	strong	C7orf57_ENST00000348904,colon,carcinoma,-1,2	C7orf57	59	2	NM_001100159	exon3	c.G220T	p.A74S	AAGCTCGCGAAAC	.	PASS	Atlas-SNP
PLEKHM1	9842	hgsc.bcm.edu	37	17	43552921	43552921	+	Silent	SNP	C	C	T	rs12452273	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	243	116	216	0	0.477366	0	C|0.865;T|0.135	0.135	strong	.	PLEKHM1	69	.	NM_014798	exon4	c.G468A	p.R156R	AGCATCCCGGAGC	.	PASS	Atlas-SNP
ZDHHC20	253832	hgsc.bcm.edu	37	13	21955582	21955582	+	Missense_Mutation	SNP	C	C	T	rs185661667	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	57	37	46	0	0.649123	0	C|0.998;T|0.002	0.002	strong	.	ZDHHC20	36	.	NM_153251	exon11	c.G1048A	p.V350I	ATTTGACGATGCC	.	PASS	Atlas-SNP
KIAA1522	57648	hgsc.bcm.edu	37	1	33235626	33235626	+	Silent	SNP	G	G	A	rs3737995	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	56	98	0	0.682927	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
NDNF	79625	hgsc.bcm.edu	37	4	121958187	121958187	+	Silent	SNP	A	A	G	rs3822230	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	247	116	226	0	0.469636	0	A|0.538;G|0.462	0.462	strong	NDNF,NS,carcinoma,0,2	NDNF	72	2	NM_024574	exon4	c.T939C	p.D313D	AAATACATCAAAG	.	PASS	Atlas-SNP
POT1	25913	hgsc.bcm.edu	37	7	124493081	124493081	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	126	2	109	0	0.015873	0	.	.	none	POT1_ENST00000357628,NS,carcinoma,+1,4	POT1	186	4	NM_015450	exon10	c.G814A	p.G272S	CCCGACCGTAACT	.	scavenged	Atlas-SNP
NBAS	51594	hgsc.bcm.edu	37	2	15542352	15542352	+	Missense_Mutation	SNP	C	C	T	rs16862653	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	450	192	388	1	0.426667	0.00257732	C|0.924;T|0.076	0.076	strong	.	NBAS	246	.	NM_015909	exon26	c.G3011A	p.R1004Q	TCATTTCGTTCAC	.	PASS	Atlas-SNP
OR5D18	219438	hgsc.bcm.edu	37	11	55587212	55587212	+	Missense_Mutation	SNP	A	A	G	rs7948629	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	274	135	223	1	0.492701	0.00448431	A|0.964;G|0.036	0.036	strong	.	OR5D18	121	.	NM_001001952	exon1	c.A107G	p.Y36C	CCATCTACAATGT	.	PASS	Atlas-SNP
PTK2	5747	hgsc.bcm.edu	37	8	141900790	141900790	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	272	4	256	0	0.0147059	0	.	.	none	PTK2_ENST00000395218,NS,carcinoma,0,5	PTK2	311	5	NM_005607	exon3	c.C113T	p.S38L	GTACTCGAATTTG	.	scavenged	Atlas-SNP
ZSWIM2	151112	hgsc.bcm.edu	37	2	187692983	187692983	+	Missense_Mutation	SNP	T	T	C	rs17856918	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	225	100	229	0	0.444444	0	T|0.813;C|0.187	0.187	strong	.	ZSWIM2	119	.	NM_182521	exon9	c.A1630G	p.M544V	TGGTCATCCGGCT	.	PASS	Atlas-SNP
OR8S1	341568	hgsc.bcm.edu	37	12	48919660	48919660	+	Silent	SNP	G	G	A	rs35367885	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	90	206	0	0.48913	0	G|0.692;A|0.308	0.308	strong	.	OR8S1	47	.	NM_001005203	exon1	c.G246A	p.L82L	GATGCTGGAGAAC	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	36	34	77	0	0.944444	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
TIMELESS	8914	hgsc.bcm.edu	37	12	56815922	56815922	+	Missense_Mutation	SNP	C	C	T	rs774047	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	104	41	103	0	0.394231	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
SLC28A1	9154	hgsc.bcm.edu	37	15	85476441	85476441	+	Silent	SNP	G	G	A	rs2305367	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	80	80	85	0	1	0	G|0.569;A|0.431	0.431	strong	.	SLC28A1	118	.	NM_004213	exon13	c.G1149A	p.K383K	CTCCAAGCTGGTC	.	PASS	Atlas-SNP
LAMB4	22798	hgsc.bcm.edu	37	7	107746265	107746265	+	Silent	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	48	121	0	0.403361	0	.	.	none	.	LAMB4	253	.	NM_007356	exon8	c.A867G	p.G289G	CACCATTCCAGGA	.	PASS	Atlas-SNP
FJX1	24147	hgsc.bcm.edu	37	11	35641312	35641312	+	Silent	SNP	G	G	A	rs3740799	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	11	3	9	0	0.272727	0	G|0.896;A|0.104	0.104	strong	FJX1_ENST00000317811,NS,carcinoma,0,4	FJX1	32	4	NM_014344	exon1	c.G1128A	p.L376L	CGTCCTGGAGCTG	.	scavenged	Atlas-SNP
MOV10L1	54456	hgsc.bcm.edu	37	22	50582630	50582630	+	Silent	SNP	G	G	A	rs11704548	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	49	98	0	0.445455	0	G|0.952;A|0.048	0.048	strong	.	MOV10L1	238	.	NM_018995	exon18	c.G2463A	p.P821P	ACAGCCGGCCACC	.	PASS	Atlas-SNP
UBE2E3	10477	hgsc.bcm.edu	37	2	181846844	181846844	+	Silent	SNP	A	A	T	rs61738651		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	203	189	181	0	0.931035	0	A|0.985;T|0.015	0.015	weak	.	UBE2E3	26	.	NM_006357	exon2	c.A75T	p.R25R	CCAGCGAGACCCA	.	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-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	31	66	0	0.462687	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
TRIOBP	11078	hgsc.bcm.edu	37	22	38120095	38120095	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	309	6	272	2	0.0194175	0.00735294	.	.	none	TRIOBP_ENST00000344404,NS,carcinoma,0,2	TRIOBP	262	2	NM_001039141	exon7	c.G1532A	p.R511K	ATCCCAGAGCCTC	.	scavenged	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225534219	225534219	+	Missense_Mutation	SNP	T	T	C	rs7527925	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	278	135	253	0	0.485611	0	T|0.500;C|0.500	0.500	strong	.	DNAH14	300	.	NM_001373	exon69	c.T10880C	p.V3627A	GCACTGTAATCAT	.	PASS	Atlas-SNP
RBM19	9904	hgsc.bcm.edu	37	12	114374887	114374887	+	Missense_Mutation	SNP	T	T	C	rs2290787	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	160	76	139	0	0.475	0	A|0.076;C|0.019;T|0.905	0.019	strong	RBM19,NS,carcinoma,0,1	RBM19	117	1	NM_001146699	exon16	c.A1993G	p.T665A	GGGCTGTGCTGGA	.	PASS	Atlas-SNP
SYT7	9066	hgsc.bcm.edu	37	11	61291922	61291922	+	Silent	SNP	A	A	G	rs10897167	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	147	73	130	0	0.496599	0	A|0.836;G|0.164	0.164	strong	.	SYT7	39	.	NM_001252065	exon7	c.T930C	p.I310I	CTCCCCAATGGGG	.	PASS	Atlas-SNP
MERTK	10461	hgsc.bcm.edu	37	2	112755001	112755001	+	Missense_Mutation	SNP	A	A	G	rs2230515	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	118	113	1	1	0.00884956	A|0.415;G|0.584	0.584	strong	.	MERTK	112	.	NM_006343	exon10	c.A1552G	p.I518V	GGGTTGATTTTAT	.	PASS	Atlas-SNP
IL4R	3566	hgsc.bcm.edu	37	16	27373964	27373964	+	Missense_Mutation	SNP	T	T	C	rs1805012	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	118	60	82	0	0.508475	0	T|0.902;C|0.098	0.098	strong	IL4R,lymph_node,lymphoid_neoplasm,0,1	IL4R	70	1	NM_000418	exon11	c.T1291C	p.C431R	GAGTCATGCCTTC	.	PASS	Atlas-SNP
KRT72	140807	hgsc.bcm.edu	37	12	52994955	52994955	+	Silent	SNP	G	G	A	rs61747192	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	68	38	75	0	0.558824	0	G|0.856;A|0.144	0.144	strong	.	KRT72	70	.	NM_001146225	exon1	c.C282T	p.P94P	GCCCCCGGGTGGG	.	PASS	Atlas-SNP
ZNF80	7634	hgsc.bcm.edu	37	3	113955187	113955187	+	Nonsense_Mutation	SNP	A	A	C	rs3732781	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	101	49	85	0	0.485149	0	C|0.195;N|0.000	0.195	strong	.	ZNF80	75	.	NM_007136	exon1	c.T735G	p.Y245X	GCACTCATAAGGT	.	PASS	Atlas-SNP
CRISPLD2	83716	hgsc.bcm.edu	37	16	84879464	84879464	+	Missense_Mutation	SNP	A	A	G	rs12051468	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	82	82	74	0	1	0	A|0.613;G|0.387	0.387	strong	.	CRISPLD2	36	.	NM_031476	exon3	c.A313G	p.S105G	CCCACCAGTCTGC	.	PASS	Atlas-SNP
NCKAP5	344148	hgsc.bcm.edu	37	2	133540605	133540605	+	Missense_Mutation	SNP	G	G	T	rs13016342	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	331	154	257	1	0.465257	0.00389105	G|0.868;T|0.132	0.132	strong	.	NCKAP5	322	.	NM_207363	exon14	c.C3779A	p.P1260Q	AGGTGTGGTTTGC	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	37	7	116436022	116436022	+	Silent	SNP	G	G	A	rs2023748	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	262	132	249	0	0.503817	0	G|0.618;A|0.382	0.382	strong	MET,NS,carcinoma,0,1	MET	412	1	NM_001127500	exon21	c.G4071A	p.A1357A	ATCAGCGATCTTC	.	PASS	Atlas-SNP
RPH3A	22895	hgsc.bcm.edu	37	12	113319600	113319600	+	Silent	SNP	C	C	T	rs2240194	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	37	109	0	0.430233	0	C|0.479;T|0.521	0.521	strong	.	RPH3A	98	.	NM_001143854	exon15	c.C1275T	p.N425N	TTCAAACGGCTTG	.	PASS	Atlas-SNP
SFXN1	94081	hgsc.bcm.edu	37	5	174936038	174936038	+	Silent	SNP	A	A	G	rs35420613	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	184	182	156	0	0.98913	0	A|0.947;G|0.053	0.053	strong	.	SFXN1	23	.	NM_022754	exon3	c.A168G	p.Q56Q	TAGGCAAGGAATT	.	PASS	Atlas-SNP
SLC14A2	8170	hgsc.bcm.edu	37	18	43204744	43204744	+	Missense_Mutation	SNP	C	C	G	rs149251757	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	88	50	77	0	0.568182	0	C|0.999;G|0.001	0.001	strong	.	SLC14A2	121	.	NM_001242692	exon3	c.C115G	p.P39A	ACTCACCCAGCTC	.	PASS	Atlas-SNP
TUBGCP6	85378	hgsc.bcm.edu	37	22	50658424	50658424	+	Missense_Mutation	SNP	T	T	C	rs11703226	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	119	58	113	0	0.487395	0	T|0.561;C|0.439	0.439	strong	.	TUBGCP6	132	.	NM_020461	exon17	c.A4129G	p.T1377A	CCTCAGTGTCCCC	.	PASS	Atlas-SNP
MAGEB16	139604	hgsc.bcm.edu	37	X	35821055	35821055	+	Missense_Mutation	SNP	A	A	G	rs4829390	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	10	96	0	0.0806452	0	A|0.455;G|0.545	0.545	strong	.	MAGEB16	64	.	NM_001099921	exon2	c.A742G	p.M248V	CCCAGAATGCTCA	.	PASS	Atlas-SNP
ADCY3	109	hgsc.bcm.edu	37	2	25141538	25141538	+	Missense_Mutation	SNP	A	A	G	rs11676272	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	196	97	160	0	0.494898	0	A|0.421;G|0.579	0.579	strong	.	ADCY3	114	.	NM_004036	exon1	c.T319C	p.S107P	CGAGGGAAGCCAG	.	PASS	Atlas-SNP
FREM1	158326	hgsc.bcm.edu	37	9	14842557	14842557	+	Missense_Mutation	SNP	T	T	C	rs1353223	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	67	67	66	0	1	0	T|0.917;C|0.083	0.083	strong	.	FREM1	261	.	NM_144966	exon10	c.A1495G	p.I499V	CAAATATCCGGAA	.	PASS	Atlas-SNP
OR10Q1	219960	hgsc.bcm.edu	37	11	57995777	57995777	+	Missense_Mutation	SNP	G	G	A	rs11229301	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	124	64	117	0	0.516129	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
PCK1	5105	hgsc.bcm.edu	37	20	56138648	56138648	+	Missense_Mutation	SNP	G	G	A	rs11552145	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	97	57	83	0	0.587629	0	G|0.881;A|0.119	0.119	strong	.	PCK1	95	.	NM_002591	exon6	c.G826A	p.E276K	GAGGGTGAGAAGA	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100679715	100679715	+	Missense_Mutation	SNP	C	C	T	rs143909059	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	54	34	78	0	0.62963	0	C|1.000;T|0.000	0.000	weak	.	MUC17	804	.	NM_001040105	exon3	c.C5018T	p.T1673I	CTCCTACACCTGC	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105418275	105418275	+	Silent	SNP	T	T	C	rs2819441	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	81	80	161	0	0.987654	0	C|0.267;T|0.733	0.267	strong	.	AHNAK2	719	.	NM_138420	exon7	c.A3513G	p.P1171P	GAACGATGGCATC	.	PASS	Atlas-SNP
PLEKHA3	65977	hgsc.bcm.edu	37	2	179358665	179358665	+	Silent	SNP	A	A	G	rs41461050	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	268	124	241	0	0.462687	0	A|1.000;|0.000	.	weak	PLEKHA3,NS,carcinoma,+1,1	PLEKHA3	25	1	NM_019091	exon4	c.A399G	p.T133T	TCATACAATACAG	.	PASS	Atlas-SNP
LRP2	4036	hgsc.bcm.edu	37	2	170053505	170053505	+	Missense_Mutation	SNP	C	C	T	rs2228171	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	61	35	55	0	0.57377	0	T|0.232;G|0.108;C|0.608;A|0.053	0.232	strong	.	LRP2	751	.	NM_004525	exon46	c.G8614A	p.A2872T	CAGATGCGCATTG	.	PASS	Atlas-SNP
FPR1	2357	hgsc.bcm.edu	37	19	52250216	52250216	+	Missense_Mutation	SNP	A	A	G	rs5030878	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	197	197	201	1	1	0.00497512	A|0.201;G|0.799	0.799	strong	.	FPR1	64	.	NM_001193306	exon3	c.T32C	p.I11T	CCAGAGATGTTCG	.	PASS	Atlas-SNP
ADAR	103	hgsc.bcm.edu	37	1	154573526	154573526	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	242	102	211	0	0.421488	0	.	.	none	ADAR,NS,malignant_melanoma,-1,1	ADAR	113	1	NM_015840	exon2	c.A1592G	p.H531R	GGTTCATGGGGTG	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	37	MT	13602	13602	+	Silent	SNP	T	T	C	novel		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	19	19	6	0	1	0	.	.	none	.	.	.	.	ENST00000361567	exon1	c.T1266C	p.Y422Y	CGCCTATAGCACT	.	PASS	Atlas-SNP
SPANXE	171489	hgsc.bcm.edu	37	X	140785741	140785741	+	Missense_Mutation	SNP	A	A	C	rs144554749	bycluster	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	525	339	409	1	0.645714	0.00244499	.	.	weak	.	.	.	.	NM_145665	exon2	c.T175G	p.F59V	TTTTAAAGTTCCT	.	PASS	Atlas-SNP
CHIA	27159	hgsc.bcm.edu	37	1	111862078	111862078	+	Silent	SNP	C	C	T	rs12094378	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	158	70	149	0	0.443038	0	C|0.872;T|0.128	0.128	strong	.	CHIA	115	.	NM_201653	exon11	c.C1165T	p.L389L	CTCGGCCTGCAGA	.	PASS	Atlas-SNP
ZCCHC3	85364	hgsc.bcm.edu	37	20	279185	279185	+	Silent	SNP	C	C	T	rs45569040	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	163	163	133	0	1	0	C|0.995;T|0.005	0.005	strong	.	ZCCHC3	20	.	NM_033089	exon1	c.C958T	p.L320L	TTCTTCCTGGGGG	.	PASS	Atlas-SNP
AKR1C2	1646	hgsc.bcm.edu	37	10	5042789	5042789	+	Silent	SNP	A	A	G	rs145355870	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	256	130	227	1	0.507812	0.00440529	A|0.997;G|0.003	0.003	strong	.	AKR1C2	68	.	NM_001354	exon5	c.T322C	p.L108L	AGTCCAATTGAAG	.	PASS	Atlas-SNP
KRT76	51350	hgsc.bcm.edu	37	12	53165949	53165949	+	Missense_Mutation	SNP	C	C	T	rs12296548	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	230	125	184	0	0.543478	0	C|0.889;T|0.111	0.111	strong	.	KRT76	72	.	NM_015848	exon5	c.G1066A	p.E356K	GGACCTCGGCAAT	.	PASS	Atlas-SNP
ABCC3	8714	hgsc.bcm.edu	37	17	48753423	48753423	+	Silent	SNP	C	C	T	rs4148416	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	120	62	117	0	0.516667	0	C|0.893;T|0.107	0.107	strong	.	ABCC3	138	.	NM_003786	exon22	c.C3039T	p.G1013G	GCTGGGCGTCTAT	.	PASS	Atlas-SNP
ITPKB	3707	hgsc.bcm.edu	37	1	226923938	226923938	+	Missense_Mutation	SNP	A	A	C	rs6667260	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	66	66	78	1	1	0.0128205	A|0.444;C|0.556	0.556	strong	ITPKB_ENST00000429204,NS,carcinoma,0,1	ITPKB	158	1	NM_002221	exon2	c.T1222G	p.S408A	TCAGGGAATCAGA	.	scavenged	Atlas-SNP
SMCR8	140775	hgsc.bcm.edu	37	17	18226177	18226177	+	Silent	SNP	G	G	T	rs4925171	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	195	89	146	0	0.45641	0	G|0.744;T|0.256	0.256	strong	SMCR8,NS,carcinoma,0,1	SMCR8	62	1	NM_144775	exon2	c.G2607T	p.L869L	GCACCTGCCTACC	.	PASS	Atlas-SNP
MAP1S	55201	hgsc.bcm.edu	37	19	17835917	17835917	+	Silent	SNP	C	C	T	rs141175074	bycluster;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	109	51	93	0	0.46789	0	C|1.000;T|0.000	0.000	strong	.	MAP1S	74	.	NM_018174	exon4	c.C363T	p.C121C	GCCCTGCCTGGAG	.	PASS	Atlas-SNP
TNC	3371	hgsc.bcm.edu	37	9	117835899	117835899	+	Missense_Mutation	SNP	C	C	T	rs1138545	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	135	63	91	0	0.466667	0	C|0.864;T|0.136	0.136	strong	.	TNC	282	.	NM_002160	exon10	c.G3197A	p.R1066H	TTCACACGTGCGG	.	PASS	Atlas-SNP
APOL2	23780	hgsc.bcm.edu	37	22	36623920	36623920	+	Missense_Mutation	SNP	G	G	A	rs7285167	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	106	50	72	0	0.471698	0	G|0.885;A|0.115	0.115	strong	.	APOL2	20	.	NM_030882	exon5	c.C544T	p.R182C	AGTTGCGGGCTTG	.	PASS	Atlas-SNP
FMN1	342184	hgsc.bcm.edu	37	15	33359370	33359370	+	Missense_Mutation	SNP	C	C	T	rs11072170	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	110	54	86	0	0.490909	0	C|0.730;T|0.270	0.270	strong	FMN1_ENST00000334528,NS,carcinoma,0,1	FMN1	174	1	NM_001103184	exon1	c.G716A	p.G239E	TGGGACCCTTCTT	.	PASS	Atlas-SNP
SLC12A7	10723	hgsc.bcm.edu	37	5	1065514	1065514	+	Missense_Mutation	SNP	A	A	G	rs56350427	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	145	66	118	0	0.455172	0	A|0.987;G|0.013	0.013	strong	.	SLC12A7	97	.	NM_006598	exon18	c.T2321C	p.M774T	TGGGACATGCCAT	.	PASS	Atlas-SNP
SLC35G5	83650	hgsc.bcm.edu	37	8	11189387	11189387	+	Missense_Mutation	SNP	G	G	A	rs71360892		TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	167	7	143	0	0.0419162	0	A|1.000;|0.000	1.000	weak	AMAC1L2,trunk,malignant_melanoma,0,1	.	.	1	NM_054028	exon1	c.G772A	p.A258T	GTGGGGGCAGAGG	.	scavenged	Atlas-SNP
IL1RAP	3556	hgsc.bcm.edu	37	3	190363594	190363594	+	Silent	SNP	G	G	A	rs34879831	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	62	138	0	0.446043	0	G|0.811;A|0.189	0.189	strong	.	IL1RAP	96	.	NM_001167929	exon10	c.G1308A	p.K436K	ATACAAGCTGTGC	.	PASS	Atlas-SNP
AIFM3	150209	hgsc.bcm.edu	37	22	21328568	21328568	+	Missense_Mutation	SNP	G	G	A	rs56179977	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	139	80	114	0	0.57554	0	G|0.983;A|0.017	0.017	strong	.	AIFM3	49	.	NM_001146288	exon6	c.G511A	p.V171I	GTGTACGTCCGGG	.	PASS	Atlas-SNP
ATG7	10533	hgsc.bcm.edu	37	3	11400019	11400019	+	Missense_Mutation	SNP	T	T	C	rs36117895	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	122	56	105	0	0.459016	0	T|0.965;C|0.035	0.035	strong	.	ATG7	56	.	NM_001136031	exon13	c.T1412C	p.V471A	ATGTCGTCTTCCT	.	PASS	Atlas-SNP
COL11A2	1302	hgsc.bcm.edu	37	6	33153528	33153528	+	Missense_Mutation	SNP	C	C	T	rs9277934	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	77	41	90	0	0.532468	0	C|0.684;N|0.000	.	strong	COL11A2,NS,lymphoid_neoplasm,+1,1	COL11A2	124	1	NM_080680	exon6	c.G826A	p.E276K	GGGGCTCGTAGTC	.	PASS	Atlas-SNP
CH25H	9023	hgsc.bcm.edu	37	10	90966393	90966393	+	Silent	SNP	G	G	A	rs17382301	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	85	8	127	0	0.0941176	0	G|0.910;A|0.090	0.090	strong	CH25H,NS,carcinoma,0,1	CH25H	19	1	NM_003956	exon1	c.C657T	p.N219N	AGGGAAGTTGTAG	.	PASS	Atlas-SNP
RNMTL1	55178	hgsc.bcm.edu	37	17	685640	685640	+	Missense_Mutation	SNP	G	G	T	rs2273454	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	31	13	29	0	0.419355	0	G|0.803;T|0.197	0.197	strong	RNMTL1,NS,carcinoma,-1,1	RNMTL1	25	1	NM_018146	exon1	c.G22T	p.A8S	AGACCCGCGAGGT	.	PASS	Atlas-SNP
ETFB	2109	hgsc.bcm.edu	37	19	51857738	51857738	+	Missense_Mutation	SNP	G	G	A	rs79338777	bycluster;byfrequency;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	86	40	79	0	0.465116	0	G|0.937;A|0.063	0.063	strong	.	ETFB	46	.	NM_001014763	exon1	c.C155T	p.P52L	GGCAGGGGCAGGT	.	PASS	Atlas-SNP
RBM19	9904	hgsc.bcm.edu	37	12	114377877	114377877	+	Missense_Mutation	SNP	T	T	C	rs2290789	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6907-01A-11D-2210-10	TCGA-G8-6907-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c50abe38-50f3-4d17-b9dd-ec3adebe0a96	acab7c95-cc41-43da-a5fb-abe8c14cbcb7	70	35	92	0	0.5	0	T|0.830;C|0.170	0.170	strong	.	RBM19	117	.	NM_001146699	exon15	c.A1826G	p.H609R	CCAAAATGGCCGA	.	PASS	Atlas-SNP
