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
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	153.0	50.0	142.0	0.0	0.327	.	.	.	none	.	NCL	80	.	NM_005381	exon4	c.808_810del	p.270_270del	.	.	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	91.0	38.0	60.0	0.0	0.418	.	.	.	none	.	PCDH7	215	.	NM_032457	exon1	c.2814_2815insA	p.K938fs	.	.	PASS	Pindel,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	238.0	62.0	233.0	0.0	0.261	.	.	.	none	.	ZNF560	162	.	NM_152476	exon10	c.1111_1112del	p.371_371del	.	.	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	118.0	32.0	110.0	0.0	0.271	.	.	.	none	.	SEC16A	249	.	NM_014866	exon3	c.1106_1114del	p.369_372del	.	.	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	263.0	49.0	376.0	0.0	0.186	.	.	.	none	.	.	.	.	NM_001113541	exon4	c.3405delA	p.P1135fs	.	.	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	162.0	50.0	142.0	0.0	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	186.0	81.0	177.0	0.0	0.435	.	.	.	none	.	TMSB4X	3	.	NM_021109	exon2	c.62_63del	p.21_21del	.	.	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	217.0	59.0	167.0	0.0	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	229.0	39.0	117.0	0.0	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	209.0	52.0	171.0	0.0	0.249	.	.	.	none	FCRL5,NS,carcinoma,-1,1	FCRL5	177	1	NM_031281	exon14	c.2667delT	p.P889fs	.	.	PASS	Pindel,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	136.0	50.0	129.0	0.0	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
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	290.0	101.0	295.0	0.0	0.348276	0	.	.	none	.	.	.	.	NM_001113541	exon4	c.3400delA	p.T1134fs	.	.	PASS	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	101.0	40.0	69.0	0.0	0.39604	0	.	.	none	.	KRT4	110	.	NM_002272	exon1	c.241_242insC	p.G81fs	.	.	PASS	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	95.0	30.0	114.0	0.0	0.316	.	.	.	none	.	MAN1A2	50	.	NM_006699	exon2	c.551_558del	p.184_186del	.	.	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	70.0	13.0	62.0	0.0	0.185714	0	.	.	alt	PCQAP,caecum,carcinoma,0,2	MED15	68	2	NM_015889	exon7	c.750_751insCAGCAGCAGCAG	p.Q250delinsQQQQQ	.	.	PASS	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	135.0	30.0	92.0	0.0	0.222	.	.	.	none	ALMS1,NS,carcinoma,0,1	ALMS1	384	1	NM_015120	exon8	c.7526delT	p.V2509fs	.	.	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	211.0	57.0	180.0	0.0	0.270	.	.	.	none	.	DYSF	536	.	NM_001130987	exon42	c.4609_4626del	p.1537_1542del	.	.	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	504.0	37.0	207.0	0.0	0.0734127	0	.	.	none	.	.	.	.	NM_001083124	exon4	c.3400delA	p.T1134fs	.	.	PASS	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	146.0	14.0	109.0	0.0	0.0958904	0	.	.	none	.	OR5B12	80	.	NM_001004733	exon1	c.590_591del	p.197_197del	.	.	PASS	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	50.0	20.0	66.0	0.0	0.400	.	.	.	none	.	CUL9	248	.	NM_015089	exon26	c.5023_5028del	p.1675_1676del	.	.	PASS	Pindel,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	118.0	20.0	168.0	0.0	0.169	.	.	.	none	.	DNAJC9	19	.	NM_015190	exon3	c.355_361del	p.119_121del	.	.	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	582.0	62.0	582.0	0.0	0.106529	0	.	.	none	.	PDPK1	37	.	NM_001261816	exon4	c.452_455del	p.151_152del	.	.	PASS	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	50.0	12.0	46.0	0.0	0.240	.	.	.	none	.	TUT1	122	.	NM_022830	exon1	c.12delT	p.P4fs	.	.	PASS	Pindel,Atlas-Indel
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	32.0	5.0	29.0	0.0	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	98.0	4.0	73.0	0.0	0.0408163	0	.	.	none	.	AKAP9	788	.	NM_005751	exon45	c.C11065T	p.L3689L	CAAACTCTGAGCC	.	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	123.0	66.0	202.0	0.0	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
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	150.0	82.0	115.0	1.0	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
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	150.0	140.0	124.0	0.0	0.933333	0	.	.	none	.	BTK	87	.	NM_000061	exon13	c.T1109C	p.I370T	CTGGATATGAGTC	.	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	92.0	50.0	87.0	0.0	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
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	204.0	104.0	188.0	0.0	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	107.0	52.0	87.0	0.0	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
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	116.0	64.0	85.0	0.0	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
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	182.0	94.0	154.0	0.0	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
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	50.0	26.0	56.0	0.0	0.52	0	.	.	none	.	MYO6	124	.	NM_004999	exon6	c.G418A	p.V140M	ATGAAGGTGCTCA	.	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	172.0	81.0	163.0	0.0	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
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	64.0	24.0	66.0	0.0	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	152.0	77.0	122.0	0.0	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
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	80.0	31.0	53.0	0.0	0.3875	0	.	.	none	.	ABCA7	174	.	NM_019112	exon28	c.C3741T	p.A1247A	GCCTGCCCTCTTT	.	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	62.0	33.0	65.0	0.0	0.532258	0	.	.	none	.	FADD	14	.	NM_003824	exon1	c.C187T	p.L63L	GAGCTCCTGCGCG	.	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	134.0	47.0	108.0	0.0	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	117.0	62.0	120.0	0.0	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
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	322.0	172.0	298.0	0.0	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
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	144.0	69.0	137.0	0.0	0.479167	0	.	.	none	.	C4BPA	70	.	NM_000715	exon3	c.C144G	p.G48G	TCCAGGCAATTGT	.	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	177.0	70.0	179.0	0.0	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
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	365.0	127.0	454.0	0.0	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
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	153.0	58.0	124.0	0.0	0.379085	0	.	.	none	GCC2,NS,carcinoma,-1,1	GCC2	129	1	NM_181453	exon6	c.G1382T	p.G461V	TACAGGGTCTTAA	.	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	111.0	52.0	86.0	0.0	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
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	165.0	81.0	169.0	0.0	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
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	156.0	72.0	141.0	0.0	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
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	173.0	83.0	159.0	0.0	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
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	132.0	61.0	97.0	1.0	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
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	122.0	57.0	108.0	0.0	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
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	231.0	121.0	253.0	0.0	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
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	140.0	71.0	150.0	0.0	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
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	117.0	56.0	95.0	0.0	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
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	128.0	65.0	97.0	0.0	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
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	40.0	25.0	22.0	0.0	0.625	0	.	.	alt	.	GRIN2D	76	.	NM_000836	exon3	c.G1072A	p.E358K	CGCGGCGAGAGTC	.	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	68.0	28.0	50.0	0.0	0.411765	0	.	.	none	.	GRIN2A	366	.	NM_000833	exon13	c.C2562T	p.S854S	CCGGTCGGAGCAC	.	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	197.0	86.0	145.0	0.0	0.436548	0	.	.	none	.	TEAD2	70	.	NM_001256658	exon3	c.G267A	p.L89L	CGTTCTCAGCTTG	.	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	74.0	48.0	79.0	0.0	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
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	117.0	56.0	115.0	0.0	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
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	106.0	45.0	92.0	0.0	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
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	244.0	48.0	180.0	0.0	0.196721	0	.	.	none	.	MTUS1	144	.	NM_001001924	exon2	c.C1393T	p.P465S	AGTCTGGTATGTT	.	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	22.0	22.0	8.0	0.0	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	202.0	95.0	177.0	0.0	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
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	325.0	142.0	251.0	0.0	0.436923	0	.	.	weak	FAM55D,NS,carcinoma,-2,1	.	.	1	NM_001077639	exon3	c.C291T	p.A97A	ATGTGTGGCGCTG	.	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	82.0	4.0	73.0	0.0	0.0487805	0	.	.	weak	.	HTATIP2	30	.	NM_001098520	exon5	c.C583T	p.R195C	TTTGATCGTTACT	.	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	129.0	66.0	109.0	0.0	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	96.0	4.0	65.0	0.0	0.0416667	0	.	.	none	.	ZNF287	60	.	NM_020653	exon6	c.T1696C	p.C566R	CATTACATTTATA	.	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	231.0	87.0	150.0	0.0	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
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	77.0	42.0	57.0	0.0	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
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	63.0	29.0	63.0	0.0	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
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	117.0	55.0	82.0	0.0	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
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	138.0	72.0	144.0	0.0	0.521739	0	.	.	none	.	AASDHPPT	40	.	NM_015423	exon2	c.A325G	p.I109V	TTTAACATCTCTC	.	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	102.0	40.0	78.0	0.0	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
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	238.0	108.0	166.0	0.0	0.453782	0	.	.	none	ZFHX4,NS,carcinoma,0,1	ZFHX4	878	1	NM_024721	exon10	c.A4198C	p.N1400H	CGCTGTAACCATT	.	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	221.0	125.0	210.0	0.0	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
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	102.0	54.0	97.0	0.0	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
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	77.0	35.0	72.0	0.0	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
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	161.0	57.0	179.0	1.0	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
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	32.0	12.0	21.0	0.0	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
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	261.0	137.0	192.0	0.0	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
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	138.0	62.0	116.0	0.0	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
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	84.0	34.0	52.0	0.0	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	68.0	7.0	92.0	0.0	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
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	105.0	65.0	86.0	0.0	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
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	81.0	44.0	87.0	0.0	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
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	243.0	99.0	174.0	0.0	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
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	88.0	39.0	72.0	0.0	0.443182	0	.	.	weak	.	KIAA0586	180	.	NM_001244189	exon22	c.G2991A	p.E997E	GGTAGAGCAAGAA	.	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	103.0	48.0	91.0	0.0	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
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	73.0	3.0	55.0	0.0	0.0410959	0	.	.	none	FXR2,NS,carcinoma,+2,1	FXR2	44	1	NM_004860	exon11	c.C1051T	p.R351X	TCTCTCGGGTGCC	.	scavenged	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	72.0	38.0	64.0	0.0	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
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	116.0	63.0	77.0	1.0	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
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	111.0	51.0	87.0	0.0	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	126.0	59.0	140.0	0.0	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
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	99.0	38.0	94.0	0.0	0.383838	0	.	.	weak	.	ZNF780B	143	.	NM_001005851	exon5	c.T921C	p.C307C	TTCCCTACATACA	.	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	124.0	20.0	45.0	0.0	0.16129	0	.	.	none	.	MAMLD1	263	.	NM_005491	exon3	c.C1190A	p.A397D	GCAATGCTGCCCT	.	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	250.0	126.0	265.0	0.0	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
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	192.0	88.0	173.0	0.0	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
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	56.0	33.0	39.0	0.0	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
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	231.0	81.0	204.0	0.0	0.350649	0	.	.	none	.	ZNF462	322	.	NM_021224	exon2	c.G84T	p.T28T	CCACACGGCATTT	.	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	108.0	53.0	94.0	0.0	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
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	19.0	12.0	18.0	0.0	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
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	88.0	34.0	71.0	0.0	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
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	231.0	126.0	98.0	0.0	0.545455	0	.	.	none	.	FLNA	373	.	NM_001456	exon7	c.A1063C	p.K355Q	TCACCTTATGAGT	.	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	123.0	52.0	96.0	0.0	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
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	211.0	109.0	150.0	0.0	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
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	101.0	51.0	104.0	0.0	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
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	136.0	69.0	118.0	0.0	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	150.0	80.0	122.0	0.0	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
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	211.0	109.0	183.0	0.0	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
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	205.0	17.0	174.0	0.0	0.0829268	0	.	.	weak	.	KIAA1009	119	.	NM_014895	exon15	c.A1927C	p.K643Q	TCTCCTTTTCTGA	.	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	163.0	74.0	151.0	0.0	0.453988	0	.	.	none	.	NARG2	82	.	NM_001276385	exon9	c.T1139C	p.F380S	AAAAAAAAAGCAT	.	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	352.0	151.0	274.0	0.0	0.428977	0	.	.	none	.	C15orf40	18	.	NM_001160116	exon4	c.C382T	p.P128S	GTTGAGGAATGGA	.	PASS	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	200.0	100.0	167.0	0.0	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
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	237.0	102.0	198.0	0.0	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
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	19.0	13.0	21.0	0.0	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	292.0	19.0	211.0	1.0	0.0650685	0.00473934	.	.	none	MCART2_ENST00000269205,NS,carcinoma,+1,2	.	.	2	NM_001034172	exon1	c.G604A	p.G202S	GAAGGCCGAAAAA	.	scavenged	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	85.0	38.0	69.0	0.0	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
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	52.0	32.0	78.0	0.0	0.615385	0	.	.	weak	.	MUC17	804	.	NM_001040105	exon3	c.G5023A	p.A1675T	ACACCTGCTGAAG	.	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	81.0	48.0	65.0	0.0	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
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	117.0	47.0	120.0	0.0	0.401709	0	.	.	none	.	ARHGAP9	79	.	NM_001080157	exon9	c.C1246T	p.Q416X	CCGACTGCAGCAG	.	PASS	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	85.0	33.0	94.0	0.0	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
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	106.0	51.0	98.0	0.0	0.481132	0	.	.	weak	.	WDR90	107	.	NM_145294	exon38	c.G4780A	p.A1594T	TGGCTGGCTGCCA	.	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	259.0	122.0	216.0	0.0	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
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	88.0	37.0	96.0	0.0	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
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	57.0	24.0	46.0	0.0	0.421053	0	.	.	none	EZH2_ENST00000350995,face,carcinoma,-1,214	EZH2	823	214	NM_004456	exon16	c.A1937C	p.Y646S	CCACAGTATTCTG	.	PASS	Atlas-SNP
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	106.0	62.0	97.0	0.0	0.584906	0	.	.	none	.	MUC2	614	.	NM_002457	exon49	c.C8142T	p.V2714V	CCCCGTCACCACG	.	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	400.0	205.0	373.0	0.0	0.5125	0	.	.	none	.	FAM189B	51	.	NM_006589	exon12	c.A1966G	p.S656G	TGAGGCTGTGGGG	.	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	103.0	41.0	109.0	0.0	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	93.0	39.0	101.0	0.0	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
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	100.0	45.0	83.0	0.0	0.45	0	.	.	none	.	PRUNE2	331	.	NM_015225	exon8	c.C4479T	p.D1493D	AGGGACGTCCCCA	.	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	68.0	39.0	89.0	0.0	0.573529	0	A|0.998;G|0.002	0.002	strong	.	.	.	.	NM_001042493	exon3	c.A69G	p.P23P	AAGCCCAGGGCTC	.	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	64.0	32.0	54.0	0.0	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
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	185.0	93.0	125.0	0.0	0.502703	0	.	.	none	.	ZFPM2	219	.	NM_012082	exon8	c.C1719A	p.S573R	CAGCAGCCGATGG	.	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	39.0	5.0	15.0	1.0	0.128205	0.0666667	.	.	none	RHPN2,face,carcinoma,0,2	RHPN2	107	2	NM_033103	exon3	c.G217A	p.V73M	GCCGCACTTGCTC	.	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	98.0	44.0	75.0	0.0	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
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	28.0	11.0	27.0	0.0	0.392857	0	.	.	weak	.	PLEC	1144	.	NM_201380	exon32	c.C11848T	p.R3950C	CCAGGCGGGGGTC	.	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	128.0	58.0	119.0	0.0	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
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	222.0	102.0	167.0	0.0	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
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	263.0	127.0	230.0	1.0	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
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	145.0	67.0	136.0	0.0	0.462069	0	.	.	none	ATP8B3,caecum,carcinoma,0,1	ATP8B3	108	1	NM_138813	exon29	c.C3745T	p.R1249C	TGGAACGGCGGGC	.	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	135.0	118.0	334.0	0.0	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
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	143.0	66.0	123.0	0.0	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
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	478.0	237.0	426.0	0.0	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
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	139.0	75.0	146.0	0.0	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
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	158.0	76.0	129.0	0.0	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
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	47.0	15.0	39.0	0.0	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
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	71.0	42.0	53.0	0.0	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
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	143.0	73.0	103.0	0.0	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
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	5.0	4.0	7.0	0.0	0.8	0	.	.	alt	ZNF268,NS,carcinoma,0,1	ZNF268	71	1	NM_001165881	exon6	c.G2315A	p.R772Q	ATCAGCGAACTCA	.	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	105.0	44.0	87.0	0.0	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
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	223.0	101.0	226.0	0.0	0.452915	0	.	.	weak	.	FLG	900	.	NM_002016	exon3	c.G3757T	p.G1253X	CCTGTCCCACCTG	.	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	145.0	77.0	108.0	0.0	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
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	111.0	62.0	118.0	0.0	0.558559	0	A|0.994;G|0.006	0.006	strong	.	.	.	.	NM_080574	exon4	c.A337G	p.K113E	GATGTCAAAGCTG	.	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	127.0	68.0	82.0	0.0	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
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	17.0	10.0	17.0	0.0	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
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	185.0	89.0	155.0	0.0	0.481081	0	.	.	none	ANO2_ENST00000327087,NS,carcinoma,0,2	ANO2	309	2	NM_020373	exon15	c.G1530A	p.T510T	ACACTCCGTCGTG	.	PASS	Atlas-SNP
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	32.0	15.0	20.0	0.0	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
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	57.0	52.0	98.0	0.0	0.912281	0	.	.	none	.	B2M	99	.	NM_004048	exon1	c.T26A	p.V9E	TAGCTGTGCTCGC	.	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	97.0	54.0	72.0	0.0	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
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	294.0	138.0	249.0	1.0	0.469388	0.00401606	C|0.999;T|0.001	0.001	strong	.	.	.	.	NM_019090	exon1	c.C3006T	p.S1002S	TGTGTCCGAACTT	.	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	126.0	65.0	114.0	0.0	0.515873	0	.	.	none	.	RAB11B	15	.	NM_004218	exon5	c.A537G	p.K179K	ACAGAAACAGATC	.	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	160.0	73.0	183.0	0.0	0.45625	0	.	.	none	.	PTPRO	148	.	NM_002848	exon13	c.G2217C	p.V739V	TTCAGTGACTTTG	.	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	129.0	52.0	118.0	0.0	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
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	60.0	3.0	64.0	0.0	0.05	0	.	.	none	OR5P2,brain,glioma,0,2	OR5P2	68	2	NM_153444	exon1	c.G325A	p.V109I	GAAGGACGCATTC	.	scavenged	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	135.0	70.0	127.0	0.0	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
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	192.0	87.0	228.0	0.0	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
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	142.0	70.0	127.0	0.0	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
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	41.0	19.0	28.0	1.0	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
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	100.0	48.0	80.0	0.0	0.48	0	C|0.999;G|0.001	.	alt	.	MYH11	520	.	NM_001040114	exon30	c.G3895A	p.V1299I	CTGTGACGCTCTC	.	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	107.0	8.0	62.0	2.0	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	120.0	6.0	95.0	0.0	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	71.0	60.0	115.0	0.0	0.84507	0	.	.	weak	FAS,caecum,carcinoma,-1,1	FAS	47	1	NM_152872	exon4	c.C361T	p.R121W	TGCACCCGGACCC	.	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	54.0	18.0	53.0	0.0	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
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	32.0	16.0	33.0	0.0	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
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	122.0	53.0	120.0	0.0	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
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	118.0	58.0	89.0	0.0	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
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	113.0	53.0	105.0	0.0	0.469027	0	.	.	none	.	SMO	145	.	NM_005631	exon2	c.C370A	p.P124T	ATCCAGCCCCTGC	.	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	22.0	11.0	89.0	0.0	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
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	785.0	145.0	618.0	1.0	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
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	81.0	35.0	61.0	0.0	0.432099	0	.	.	none	.	TUBGCP6	132	.	NM_020461	exon16	c.C3763A	p.P1255T	ACACAGGCTCCCC	.	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	123.0	65.0	135.0	0.0	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
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	133.0	55.0	118.0	0.0	0.413534	0	.	.	none	NAA15,NS,carcinoma,0,1	NAA15	88	1	NM_057175	exon11	c.T1186G	p.Y396D	TTGGAGTACATAA	.	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	63.0	34.0	52.0	0.0	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	169.0	88.0	151.0	0.0	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	61.0	21.0	59.0	0.0	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
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	127.0	16.0	133.0	0.0	0.125984	0	.	.	none	.	DSCC1	40	.	NM_024094	exon8	c.G1051A	p.E351K	TATCTTCTTCTGT	.	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	180.0	82.0	131.0	0.0	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
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	26.0	26.0	7.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361381	exon1	c.C1110A	p.P370P	CTTACCCCCCACT	.	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	181.0	99.0	199.0	0.0	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
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	162.0	91.0	148.0	0.0	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
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	167.0	86.0	130.0	0.0	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
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	263.0	13.0	464.0	0.0	0.0494297	0	.	.	none	.	CSF2RA	153	.	NM_172247	exon6	c.C726A	p.T242T	CAGGACCTATCAG	.	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	17.0	6.0	33.0	0.0	0.352941	0	.	.	none	.	DNASE1L2	14	.	NM_001374	exon4	c.C309T	p.F103F	CCTGTTCGTGTAC	.	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	238.0	128.0	222.0	0.0	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
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	132.0	65.0	113.0	0.0	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
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	40.0	21.0	29.0	0.0	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
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	61.0	33.0	46.0	0.0	0.540984	0	.	.	none	.	SLC25A47	36	.	NM_207117	exon4	c.C223T	p.R75C	ACCTACCGCCACT	.	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	87.0	7.0	150.0	0.0	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
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	51.0	22.0	48.0	0.0	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
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	153.0	73.0	141.0	0.0	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
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	13.0	5.0	33.0	0.0	0.384615	0	.	.	weak	.	DIDO1	321	.	NM_001193369	exon16	c.G6459A	p.R2153R	GGCGCTCCTCTCC	.	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	210.0	105.0	180.0	0.0	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
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	957.0	292.0	856.0	0.0	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	88.0	36.0	95.0	0.0	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
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	141.0	69.0	118.0	0.0	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	109.0	57.0	85.0	0.0	0.522936	0	G|1.000;A|0.000	0.000	weak	.	.	.	.	NM_032806	exon2	c.C222T	p.H74H	GTCTGTGTGCGTG	.	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	88.0	13.0	114.0	0.0	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
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	286.0	141.0	242.0	0.0	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	135.0	70.0	113.0	0.0	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
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	175.0	75.0	148.0	1.0	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
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	38.0	14.0	26.0	0.0	0.368421	0	.	.	none	.	CASP8AP2	108	.	NM_001137667	exon7	c.A1007C	p.D336A	GAGTAGACTCTCA	.	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	73.0	5.0	61.0	0.0	0.0684932	0	.	.	none	.	WASL	70	.	NM_003941	exon9	c.A955T	p.T319S	CAGCTGTGGGAGC	.	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	190.0	98.0	194.0	0.0	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
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	224.0	105.0	132.0	0.0	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
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	96.0	59.0	82.0	0.0	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
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	434.0	219.0	358.0	0.0	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
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	129.0	73.0	96.0	0.0	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
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	154.0	16.0	116.0	0.0	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
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	130.0	56.0	137.0	0.0	0.430769	0	.	.	none	.	TNFRSF9	50	.	NM_001561	exon7	c.C465T	p.D155D	GACCACGTCCCTC	.	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	121.0	61.0	106.0	0.0	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
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	359.0	149.0	270.0	0.0	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
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	33.0	23.0	48.0	0.0	0.69697	0	.	.	none	.	LPHN1	107	.	NM_001008701	exon24	c.C4257T	p.P1419P	TTCGGGGGGGCCG	.	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	67.0	34.0	83.0	0.0	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
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	68.0	36.0	62.0	0.0	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
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	106.0	48.0	110.0	0.0	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
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	40.0	38.0	83.0	0.0	0.95	0	.	.	none	.	AS3MT	17	.	NM_020682	exon8	c.G686A	p.R229H	CTCCACGTTTGGT	.	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	18.0	9.0	28.0	0.0	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
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	171.0	65.0	111.0	0.0	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
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	120.0	17.0	101.0	0.0	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
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	213.0	90.0	165.0	0.0	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
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	125.0	70.0	125.0	0.0	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
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	44.0	20.0	47.0	0.0	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
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	57.0	31.0	45.0	0.0	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
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	52.0	22.0	50.0	0.0	0.423077	0	.	.	none	.	LRP5	136	.	NM_002335	exon2	c.C408A	p.N136K	GGCCAACCTCAAT	.	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	237.0	123.0	205.0	0.0	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
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	104.0	57.0	123.0	0.0	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
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	184.0	95.0	169.0	0.0	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
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	84.0	6.0	60.0	0.0	0.0714286	0	.	.	none	.	NHSL2	148	.	NM_001013627	exon6	c.G2157A	p.S719S	CCAGTCGGAAACA	.	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	203.0	122.0	189.0	0.0	0.600985	0	.	.	weak	.	HEPHL1	144	.	NM_001098672	exon17	c.A2968C	p.N990H	ATGACAAACTGGT	.	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	184.0	79.0	153.0	0.0	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
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	149.0	75.0	129.0	0.0	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
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	161.0	76.0	170.0	0.0	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
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	162.0	74.0	151.0	0.0	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
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	76.0	40.0	116.0	0.0	0.526316	0	.	.	none	.	HS3ST4	120	.	NM_006040	exon1	c.A703G	p.R235G	TTCGACAGGAACT	.	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	90.0	44.0	76.0	0.0	0.488889	0	.	.	none	ZFHX3,NS,carcinoma,+1,1	ZFHX3	404	1	NM_006885	exon2	c.G1498T	p.D500Y	CCTCATCCAACTC	.	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	96.0	53.0	97.0	0.0	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
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	134.0	72.0	130.0	0.0	0.537313	0	.	.	weak	.	C1orf173	380	.	NM_001002912	exon14	c.G4009A	p.V1337I	CCACAACCCTTCC	.	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	153.0	73.0	122.0	0.0	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
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	71.0	36.0	47.0	0.0	0.507042	0	.	.	none	.	IL17B	15	.	NM_014443	exon3	c.G322A	p.D108N	TGGGGTCGTGGTT	.	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	104.0	24.0	45.0	1.0	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	53.0	5.0	36.0	0.0	0.0943396	0	.	.	none	.	ZFHX3	404	.	NM_006885	exon2	c.G1416A	p.A472A	CTCCTCCGCCTCT	.	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	227.0	161.0	165.0	1.0	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
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	322.0	143.0	292.0	0.0	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
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	80.0	46.0	92.0	0.0	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
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	226.0	112.0	201.0	0.0	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
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	96.0	39.0	87.0	0.0	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
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	236.0	135.0	211.0	1.0	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
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	93.0	47.0	94.0	0.0	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
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	87.0	37.0	83.0	0.0	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	167.0	11.0	156.0	0.0	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
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	153.0	66.0	153.0	0.0	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
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	28.0	19.0	31.0	0.0	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
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	116.0	57.0	86.0	0.0	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
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	143.0	69.0	117.0	0.0	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
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	73.0	29.0	53.0	0.0	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
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	50.0	30.0	45.0	0.0	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
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	224.0	113.0	183.0	0.0	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
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	139.0	66.0	143.0	0.0	0.47482	0	.	.	none	.	NOL8	118	.	NM_017948	exon7	c.C1618T	p.R540C	CAGGACGAATACA	.	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	147.0	79.0	143.0	1.0	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
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	72.0	9.0	54.0	0.0	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
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	130.0	67.0	98.0	0.0	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	99.0	51.0	72.0	0.0	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
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	150.0	65.0	133.0	0.0	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
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	72.0	41.0	75.0	0.0	0.569444	0	.	.	weak	.	LAMA5	268	.	NM_005560	exon44	c.G5792A	p.R1931Q	CCGCCTCGCAGGA	.	PASS	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	131.0	60.0	123.0	0.0	0.458015	0	.	.	weak	.	USP40	174	.	NM_018218	exon14	c.G1862C	p.C621S	GTTTCACACAGTG	.	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	192.0	101.0	153.0	0.0	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
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	148.0	73.0	133.0	0.0	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
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	106.0	63.0	86.0	0.0	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
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	78.0	38.0	54.0	0.0	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
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	80.0	23.0	78.0	0.0	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
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	132.0	69.0	132.0	0.0	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
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	259.0	132.0	197.0	0.0	0.509652	0	.	.	none	.	ATP11A	225	.	NM_032189	exon12	c.G1042A	p.D348N	TTCACGGACTTCC	.	PASS	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	162.0	10.0	112.0	0.0	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
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	60.0	33.0	66.0	0.0	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
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	255.0	136.0	204.0	1.0	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
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	132.0	66.0	127.0	0.0	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
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	120.0	59.0	120.0	0.0	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	52.0	51.0	87.0	0.0	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
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	272.0	135.0	225.0	0.0	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	132.0	66.0	101.0	0.0	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
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	100.0	41.0	59.0	0.0	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
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	83.0	32.0	101.0	0.0	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
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	49.0	5.0	39.0	0.0	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	203.0	92.0	220.0	0.0	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
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	103.0	45.0	73.0	0.0	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
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	69.0	57.0	114.0	0.0	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
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	285.0	128.0	192.0	1.0	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
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	81.0	45.0	42.0	0.0	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
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	154.0	64.0	179.0	1.0	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
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	98.0	51.0	79.0	0.0	0.520408	0	.	.	weak	.	CC2D1A	67	.	NM_017721	exon26	c.G2657A	p.R886H	TGCAACGCAGCCA	.	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	157.0	70.0	136.0	0.0	0.44586	0	.	.	weak	.	MUC16	4315	.	NM_024690	exon3	c.C12749T	p.T4250M	ATATTCGTCACTG	.	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	18.0	17.0	51.0	0.0	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
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	24.0	9.0	25.0	0.0	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
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	94.0	43.0	95.0	0.0	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
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	204.0	88.0	172.0	0.0	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
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	309.0	148.0	253.0	0.0	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
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	135.0	12.0	88.0	0.0	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
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	236.0	107.0	202.0	0.0	0.45339	0	.	.	none	DCAF10,NS,carcinoma,0,1	DCAF10	31	1	NM_024345	exon7	c.C1555T	p.R519W	CCCCTGCGGGTGA	.	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	73.0	32.0	90.0	0.0	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
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	124.0	64.0	112.0	0.0	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
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	91.0	48.0	62.0	1.0	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
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	140.0	71.0	97.0	0.0	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
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	7.0	5.0	11.0	0.0	0.714286	0	.	.	weak	.	MAFA	9	.	NM_201589	exon1	c.G420A	p.E140E	GAGCGCCTCCACC	.	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	41.0	19.0	43.0	0.0	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
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	348.0	151.0	370.0	1.0	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
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	231.0	78.0	121.0	0.0	0.337662	0	.	.	none	.	STAG2	309	.	NM_001042749	exon11	c.A940G	p.I314V	ATTGGCATTTGGA	.	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	126.0	64.0	100.0	0.0	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
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	137.0	79.0	102.0	0.0	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
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	407.0	196.0	417.0	0.0	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
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	196.0	96.0	224.0	0.0	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
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	103.0	48.0	60.0	0.0	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	125.0	58.0	87.0	0.0	0.464	0	C|0.998;T|0.002	0.002	strong	.	.	.	.	NM_001146033	exon1	c.G545A	p.C182Y	TTAGTACAGATGC	.	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	203.0	103.0	202.0	0.0	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
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	219.0	107.0	190.0	0.0	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	96.0	57.0	64.0	0.0	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
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	84.0	40.0	67.0	0.0	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
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	138.0	56.0	149.0	0.0	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
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	140.0	82.0	155.0	0.0	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
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	147.0	82.0	125.0	0.0	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	179.0	89.0	139.0	0.0	0.497207	0	.	.	weak	.	UTRN	327	.	NM_007124	exon50	c.C7331T	p.T2444M	GGAGGACGGTGCA	.	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	180.0	96.0	166.0	0.0	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
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	86.0	55.0	66.0	0.0	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	113.0	59.0	144.0	0.0	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
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	96.0	42.0	109.0	1.0	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
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	85.0	20.0	93.0	0.0	0.235294	0	.	.	none	.	ZNF418	76	.	NM_133460	exon4	c.T1758C	p.T586T	TTCTCCAGTGTGA	.	PASS	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	38.0	9.0	42.0	0.0	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
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	87.0	79.0	139.0	0.0	0.908046	0	C|0.999;G|0.001	.	alt	.	ZBED1	64	.	NM_001171135	exon2	c.G327A	p.A109A	GGCCAGCGCGTCC	.	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	190.0	98.0	147.0	0.0	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
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	331.0	166.0	326.0	0.0	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
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	68.0	31.0	75.0	0.0	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
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	236.0	107.0	205.0	0.0	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
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	289.0	142.0	239.0	0.0	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
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	159.0	73.0	139.0	0.0	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
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	45.0	22.0	35.0	0.0	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
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	164.0	82.0	157.0	0.0	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
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	250.0	137.0	251.0	1.0	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
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	48.0	25.0	72.0	0.0	0.520833	0	.	.	weak	.	.	.	.	NM_001099694	exon6	c.C1732T	p.H578Y	CACAATCACTTGA	.	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	82.0	51.0	94.0	0.0	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
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	46.0	4.0	43.0	0.0	0.0869565	0	.	.	none	.	B4GALNT3	64	.	NM_173593	exon2	c.A189G	p.E63E	GAGAGAACTGGCC	.	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	188.0	89.0	182.0	0.0	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
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	229.0	108.0	194.0	0.0	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
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	112.0	59.0	111.0	0.0	0.526786	0	.	.	none	.	OS9	55	.	NM_006812	exon15	c.C1989T	p.D663D	CCTGGACGAATTT	.	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	104.0	56.0	110.0	0.0	0.538462	0	.	.	none	GRLF1_ENST00000317082,NS,carcinoma,+1,2	.	.	2	NM_004491	exon1	c.C456T	p.D152D	GCCAGACGGAAAG	.	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	74.0	42.0	111.0	0.0	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	135.0	25.0	127.0	0.0	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	62.0	34.0	54.0	0.0	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
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	147.0	34.0	110.0	0.0	0.231293	0	.	.	none	.	PDXDC1	59	.	NM_015027	exon11	c.G949A	p.D317N	AAACACGATGACC	.	PASS	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	186.0	93.0	176.0	0.0	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
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	122.0	57.0	98.0	0.0	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
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	110.0	54.0	70.0	0.0	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
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	88.0	49.0	62.0	0.0	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
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	117.0	49.0	98.0	0.0	0.418803	0	.	.	weak	.	WDR81	180	.	NM_001163809	exon3	c.C3910T	p.R1304C	ATCGCCCGCCTGT	.	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	70.0	38.0	49.0	0.0	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
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	125.0	60.0	93.0	0.0	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	136.0	59.0	112.0	0.0	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
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	62.0	7.0	46.0	0.0	0.112903	0	.	.	none	.	STK10	100	.	NM_005990	exon8	c.G922T	p.A308S	CCTCAGCCACCAG	.	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	201.0	101.0	160.0	0.0	0.502488	0	.	.	none	.	POLE	416	.	NM_006231	exon29	c.C3492T	p.P1164P	CCAGTCGGGGTGT	.	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	23.0	13.0	26.0	0.0	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
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	127.0	62.0	144.0	0.0	0.488189	0	.	.	none	CNTNAP5,caecum,carcinoma,-1,1	CNTNAP5	405	1	NM_130773	exon22	c.C3557T	p.A1186V	CTGTCGCGCCTGT	.	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	211.0	116.0	170.0	0.0	0.549763	0	.	.	none	.	KIF21B	208	.	NM_017596	exon2	c.A236G	p.Y79C	GCATTATAGCCCT	.	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	73.0	37.0	58.0	0.0	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
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	234.0	111.0	195.0	0.0	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
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	423.0	209.0	406.0	0.0	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	72.0	36.0	67.0	0.0	0.5	0	.	.	none	EPHX2,scalp,carcinoma,+2,1	EPHX2	57	1	NM_001979	exon2	c.A168G	p.G56G	GAAAGGAGAGATC	.	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	131.0	70.0	105.0	0.0	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
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	263.0	16.0	314.0	0.0	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	115.0	57.0	80.0	0.0	0.495652	0	.	.	none	.	TLR2	84	.	NM_003264	exon3	c.T983G	p.L328R	ATGATCTGAGCAC	.	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	80.0	73.0	37.0	0.0	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	105.0	54.0	108.0	0.0	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	137.0	50.0	112.0	0.0	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
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	205.0	89.0	176.0	0.0	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
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	202.0	108.0	203.0	1.0	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
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	67.0	38.0	75.0	0.0	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
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	117.0	52.0	104.0	0.0	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	81.0	73.0	66.0	0.0	0.901235	0	.	.	none	.	MXRA5	815	.	NM_015419	exon5	c.G2135A	p.R712K	AGTCTCCTTGAAG	.	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	52.0	4.0	63.0	0.0	0.0769231	0	.	.	none	.	TBC1D4	142	.	NM_014832	exon1	c.G178A	p.A60T	TCTCGGCCATGAG	.	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	188.0	91.0	133.0	0.0	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
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	266.0	145.0	226.0	0.0	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	115.0	54.0	91.0	0.0	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
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	69.0	27.0	59.0	0.0	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
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	142.0	13.0	94.0	0.0	0.0915493	0	.	.	none	.	MUC21	98	.	NM_001010909	exon2	c.C608T	p.T203I	GCACAACCTCCAG	.	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	272.0	130.0	226.0	0.0	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	79.0	43.0	54.0	0.0	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
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	96.0	58.0	81.0	0.0	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
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	213.0	97.0	206.0	0.0	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
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	404.0	162.0	428.0	1.0	0.40099	0.00233645	.	.	none	ENSG00000188219,NS,carcinoma,-1,1	.	.	1	NM_001083538	exon15	c.A1948G	p.T650A	AATAGTACGTTGC	.	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	60.0	37.0	25.0	0.0	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
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	45.0	22.0	25.0	0.0	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
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	128.0	60.0	105.0	0.0	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
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	145.0	7.0	132.0	0.0	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
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	95.0	51.0	75.0	0.0	0.536842	0	.	.	weak	.	MATN2	165	.	NM_002380	exon10	c.G1543A	p.V515M	GGACACGTGCTCC	.	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	186.0	93.0	166.0	0.0	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
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	188.0	95.0	180.0	0.0	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
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	74.0	44.0	71.0	0.0	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
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	189.0	102.0	132.0	0.0	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
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	184.0	41.0	165.0	0.0	0.222826	0	A|1.000;|0.000	1.000	weak	.	.	.	.	NM_001083538	exon15	c.G2880A	p.A960A	CGAGGCGCTCTTC	.	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	28.0	27.0	7.0	0.0	0.964286	0	.	.	none	.	.	.	.	ENST00000361789	exon1	c.G250A	p.A84T	CTTCACGCCAATG	.	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	215.0	91.0	222.0	0.0	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	140.0	69.0	145.0	0.0	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
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	104.0	56.0	150.0	0.0	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
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	69.0	42.0	69.0	0.0	0.608696	0	.	.	none	.	PIP5K1C	63	.	NM_001195733	exon12	c.C1375T	p.R459C	CGCCGCGCCCCTT	.	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	83.0	46.0	64.0	0.0	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	196.0	78.0	182.0	0.0	0.397959	0	.	.	weak	.	LYST	370	.	NM_000081	exon30	c.T8151C	p.I2717I	ACTTACAATAGAT	.	PASS	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	226.0	103.0	183.0	0.0	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
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	165.0	81.0	144.0	0.0	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
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	229.0	125.0	207.0	0.0	0.545852	0	.	.	none	.	THBS4	82	.	NM_003248	exon19	c.C2387T	p.A796V	ACTATGCAGGCTT	.	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	104.0	52.0	84.0	0.0	0.5	0	.	.	weak	.	CACNA2D4	220	.	NM_172364	exon22	c.C2119T	p.R707C	GGAAGCGGATCAT	.	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	242.0	127.0	226.0	0.0	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
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	652.0	89.0	675.0	1.0	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
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	126.0	64.0	116.0	0.0	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
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	68.0	48.0	53.0	0.0	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
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	183.0	95.0	182.0	0.0	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
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	151.0	76.0	159.0	0.0	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
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	620.0	304.0	590.0	0.0	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
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	139.0	62.0	131.0	0.0	0.446043	0	.	.	none	PRMT2,NS,NS,0,1	PRMT2	48	1	NM_001242864	exon5	c.C476T	p.A159V	ACTATGCGCGGCC	.	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	109.0	53.0	88.0	0.0	0.486239	0	.	.	none	.	LALBA	9	.	NM_002289	exon5	c.369-1G>T	.	GCCAACCTGATAA	.	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	510.0	243.0	403.0	1.0	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
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	174.0	83.0	148.0	0.0	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
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	110.0	59.0	79.0	0.0	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
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	114.0	44.0	101.0	0.0	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
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	102.0	52.0	121.0	0.0	0.509804	0	.	.	none	.	IL10RA	46	.	NM_001558	exon4	c.A474G	p.E158E	ATATGAAAGCATC	.	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	179.0	72.0	160.0	0.0	0.402235	0	.	.	none	.	CDHR3	153	.	NM_152750	exon3	c.C310T	p.Q104X	GATTTGCAGATTT	.	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	69.0	40.0	64.0	0.0	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
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	113.0	5.0	104.0	0.0	0.0442478	0	.	.	none	.	TTC18	106	.	NM_145170	exon17	c.G1930A	p.E644K	CTGCTTCAAATGC	.	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	76.0	31.0	78.0	0.0	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
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	86.0	35.0	80.0	0.0	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	123.0	62.0	128.0	0.0	0.504065	0	.	.	none	.	ADAM28	100	.	NM_014265	exon4	c.T302G	p.I101S	CACAAATTATGGT	.	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	133.0	70.0	145.0	0.0	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
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	56.0	26.0	82.0	0.0	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
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	71.0	34.0	75.0	0.0	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
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	101.0	48.0	88.0	0.0	0.475248	0	.	.	weak	TBC1D17,NS,carcinoma,+2,1	TBC1D17	39	1	NM_024682	exon3	c.T168C	p.D56D	TGGAGATTCCACC	.	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	138.0	64.0	114.0	0.0	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
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	118.0	55.0	88.0	0.0	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	62.0	9.0	81.0	0.0	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	25.0	16.0	25.0	0.0	0.64	0	.	.	none	B3GNT9,NS,carcinoma,-1,1	B3GNT9	25	1	NM_033309	exon2	c.G522A	p.A174A	GGTTCGCGCGCCC	.	scavenged	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	136.0	59.0	140.0	0.0	0.433824	0	.	.	none	.	DPP8	78	.	NM_197960	exon6	c.A646G	p.M216V	GATCCATCCGTAT	.	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	145.0	55.0	106.0	0.0	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
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	46.0	23.0	38.0	0.0	0.5	0	.	.	weak	.	NACA	131	.	NM_001113203	exon3	c.G879A	p.A293A	GGGACCCGCAGTC	.	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	139.0	67.0	111.0	0.0	0.482014	0	.	.	weak	.	CBFA2T2	93	.	NM_005093	exon6	c.G585A	p.A195A	TCGGGCGGCCAAG	.	PASS	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	67.0	23.0	56.0	0.0	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
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	95.0	48.0	94.0	0.0	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	318.0	161.0	257.0	0.0	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
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	166.0	15.0	107.0	0.0	0.0903614	0	.	.	weak	.	MUC21	98	.	NM_001010909	exon2	c.A357T	p.T119T	CAGCACAGCCACC	.	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	224.0	81.0	130.0	0.0	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
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	113.0	61.0	96.0	0.0	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
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	185.0	89.0	186.0	0.0	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
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	55.0	28.0	37.0	0.0	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
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	53.0	8.0	36.0	0.0	0.150943	0	.	.	none	.	ZFHX3	404	.	NM_006885	exon2	c.C1415A	p.A472E	TCCTCCGCCTCTT	.	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	153.0	85.0	105.0	0.0	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
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	126.0	55.0	101.0	0.0	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
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	100.0	51.0	65.0	0.0	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
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	139.0	71.0	119.0	0.0	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
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	160.0	80.0	144.0	0.0	0.5	0	.	.	none	.	ITGA9	98	.	NM_002207	exon8	c.A888G	p.S296S	AGCATCAGGTAAA	.	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	250.0	16.0	227.0	0.0	0.064	0	.	.	none	.	IGSF22	211	.	NM_173588	exon14	c.T1924C	p.Y642H	CCTTGTACCATGT	.	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	122.0	56.0	141.0	0.0	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
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	50.0	38.0	32.0	0.0	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
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	5.0	5.0	4.0	0.0	1	0	.	.	none	.	CHST13	21	.	NM_152889	exon3	c.C396T	p.R132R	AGCCCGCGGCGAC	.	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	178.0	96.0	141.0	0.0	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
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	267.0	117.0	252.0	0.0	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
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	141.0	58.0	113.0	0.0	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
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	44.0	24.0	57.0	0.0	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
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	144.0	57.0	155.0	0.0	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
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	139.0	65.0	149.0	0.0	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
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	88.0	40.0	51.0	0.0	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
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	116.0	66.0	108.0	0.0	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
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	137.0	48.0	152.0	0.0	0.350365	0	.	.	none	.	BLM	122	.	NM_000057	exon17	c.T3326A	p.F1109Y	GAAGATTTACTAT	.	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	80.0	30.0	71.0	0.0	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
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	111.0	43.0	101.0	0.0	0.387387	0	.	.	none	.	CCDC132	136	.	NM_017667	exon10	c.702+2T>G	.	TTGAGGTAAGAAG	.	PASS	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	116.0	56.0	86.0	0.0	0.482759	0	.	.	none	.	TTC38	40	.	NM_017931	exon4	c.G323A	p.R108Q	CAAGGCGGGAGCA	.	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	78.0	35.0	61.0	0.0	0.448718	0	.	.	none	LMO7_ENST00000357063,NS,carcinoma,0,2	LMO7	334	2	NM_005358	exon7	c.A516G	p.T172T	GATAACATTGTAC	.	PASS	Atlas-SNP
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	28.0	27.0	11.0	0.0	0.964286	0	.	.	none	.	.	.	.	ENST00000361567	exon1	c.A1701G	p.S567S	AATTTCACAGCAC	.	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	122.0	72.0	132.0	0.0	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
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	118.0	54.0	86.0	0.0	0.457627	0	.	.	none	.	SCARA3	93	.	NM_182826	exon5	c.G636A	p.E212E	CCAGGAGTGCTAC	.	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	186.0	93.0	158.0	0.0	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
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	19.0	19.0	7.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000362079	exon1	c.T510C	p.G170G	ACTGGGTCTCTAT	.	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	85.0	34.0	88.0	0.0	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
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	80.0	7.0	131.0	0.0	0.0875	0	.	.	none	.	RB1	1068	.	NM_000321	exon23	c.T2390A	p.L797X	CACCCTTACGGAT	.	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	168.0	72.0	145.0	0.0	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
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	43.0	17.0	55.0	0.0	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
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	187.0	100.0	214.0	1.0	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
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	229.0	115.0	214.0	0.0	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
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	146.0	67.0	116.0	0.0	0.458904	0	.	.	none	.	KREMEN1	46	.	NM_001039570	exon5	c.G580A	p.G194R	TGCTTCGGGGATC	.	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	154.0	65.0	109.0	0.0	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
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	187.0	82.0	145.0	0.0	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	212.0	23.0	180.0	0.0	0.108491	0	T|0.999;A|0.001	0.001	strong	.	.	.	.	NM_001194958	exon3	c.T531A	p.I177I	CATGATTGGTGCC	.	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	102.0	46.0	76.0	0.0	0.45098	0	.	.	none	.	PHF12	69	.	NM_020889	exon2	c.A131T	p.E44V	TCCTTCTCAGGCT	.	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	115.0	66.0	80.0	0.0	0.573913	0	G|0.979;A|0.021	.	alt	.	BAG3	42	.	NM_004281	exon2	c.G212T	p.R71L	CTTCCCGGGAGGG	.	PASS	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	93.0	45.0	70.0	0.0	0.483871	0	.	.	none	HELB,NS,carcinoma,-2,1	HELB	90	1	NM_033647	exon4	c.A1390G	p.M464V	TTGGAAATGATTT	.	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	177.0	72.0	184.0	0.0	0.40678	0	.	.	weak	TRAPPC10,colon,carcinoma,0,1	TRAPPC10	109	1	NM_003274	exon14	c.G1813A	p.V605I	GGCGGCGTTTTGT	.	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	175.0	80.0	184.0	1.0	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
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	85.0	9.0	146.0	0.0	0.105882	0	.	.	weak	.	OR5M3	103	.	NM_001004742	exon1	c.T365C	p.M122T	ATTGCCATGTATC	.	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	113.0	54.0	107.0	0.0	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
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	15.0	11.0	12.0	0.0	0.733333	0	.	.	weak	.	USP7	116	.	NM_003470	exon1	c.C60T	p.P20P	GTCCTCGGGCTCG	.	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	218.0	104.0	210.0	0.0	0.477064	0	.	.	weak	.	KIAA0922	214	.	NM_001131007	exon2	c.C125T	p.A42V	CTGCAGCGATTGA	.	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	236.0	106.0	255.0	1.0	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
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	76.0	35.0	66.0	0.0	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
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	154.0	77.0	110.0	0.0	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
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	173.0	80.0	142.0	0.0	0.462428	0	.	.	weak	.	PKHD1L1	522	.	NM_177531	exon29	c.G3391A	p.V1131I	GCCCCCGTTGCTG	.	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	147.0	127.0	309.0	0.0	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	33.0	18.0	40.0	0.0	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
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	164.0	83.0	113.0	0.0	0.506098	0	.	.	weak	.	PNISR	74	.	NM_015491	exon11	c.T1836G	p.P612P	TCGGGAAGGACTC	.	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	305.0	141.0	288.0	1.0	0.462295	0.00347222	.	.	none	.	TMTC4	103	.	NM_032813	exon16	c.C1941T	p.L647L	ATTGTCGAGGAGT	.	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	263.0	132.0	254.0	0.0	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
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	112.0	66.0	128.0	0.0	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
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	152.0	71.0	87.0	0.0	0.467105	0	.	.	none	.	ILF2	25	.	NM_004515	exon14	c.T1023C	p.S341S	TATTTCAGAAGCA	.	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	25.0	14.0	36.0	0.0	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
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	228.0	103.0	197.0	0.0	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
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	152.0	67.0	123.0	0.0	0.440789	0	.	.	none	LMTK3_ENST00000270238,caecum,carcinoma,-1,3	LMTK3	125	3	NM_001080434	exon3	c.C204A	p.Y68X	CACAGCGTAGGGA	.	PASS	Atlas-SNP
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	4.0	4.0	0.0	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	196.0	103.0	186.0	0.0	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
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	319.0	148.0	298.0	0.0	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
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	151.0	12.0	94.0	0.0	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
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	199.0	82.0	179.0	0.0	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
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	76.0	33.0	97.0	0.0	0.434211	0	A|1.000;G|0.000	.	alt	.	PLCB1	394	.	NM_015192	exon15	c.G1573T	p.E525X	TCTTCAATGGATG	.	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	204.0	106.0	181.0	0.0	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
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	83.0	43.0	69.0	0.0	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
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	168.0	74.0	134.0	0.0	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
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	213.0	111.0	188.0	0.0	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
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	31.0	2.0	37.0	0.0	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
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	136.0	76.0	115.0	0.0	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
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	63.0	38.0	78.0	0.0	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
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	120.0	54.0	83.0	0.0	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
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	170.0	94.0	146.0	0.0	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
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	250.0	129.0	213.0	1.0	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
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	57.0	32.0	38.0	0.0	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
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	88.0	38.0	92.0	0.0	0.431818	0	.	.	none	.	DCHS2	594	.	NM_001142552	exon2	c.T2217C	p.Y739Y	GAGATCATAGGTA	.	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	52.0	17.0	48.0	0.0	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
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	50.0	16.0	33.0	0.0	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
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	100.0	39.0	63.0	0.0	0.39	0	.	.	none	.	PRSS53	29	.	NM_001039503	exon5	c.G632A	p.G211D	TGGGGGCCCCCAC	.	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	172.0	96.0	160.0	0.0	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	81.0	42.0	74.0	0.0	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
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	161.0	74.0	108.0	0.0	0.459627	0	C|0.999;T|0.001	0.001	strong	.	.	.	.	NM_016030	exon4	c.C1262T	p.T421M	GCCACACGACAGA	.	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	227.0	116.0	192.0	0.0	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
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	165.0	81.0	154.0	0.0	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
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	158.0	59.0	138.0	0.0	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
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	297.0	158.0	234.0	0.0	0.531987	0	.	.	none	.	DBF4	67	.	NM_006716	exon12	c.A1730G	p.K577R	ATCGAAAAGTGAA	.	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	102.0	42.0	94.0	0.0	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
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	71.0	32.0	61.0	0.0	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
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	198.0	96.0	201.0	0.0	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
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	197.0	90.0	174.0	0.0	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
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	53.0	20.0	43.0	0.0	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
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	30.0	29.0	13.0	0.0	0.966667	0	.	.	none	.	.	.	.	ENST00000361567	exon1	c.A1717G	p.T573A	ATCTCCACCTCCA	.	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	77.0	36.0	66.0	0.0	0.467532	0	C|0.966;A|0.034	.	alt	.	OR4C15	145	.	NM_001001920	exon1	c.C317G	p.A106G	GCCCTGCTCTTCT	.	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	109.0	42.0	108.0	0.0	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
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	185.0	95.0	173.0	0.0	0.513514	0	.	.	none	.	SKP2	70	.	NM_032637	exon3	c.C392T	p.A131V	GCCTAGCGTAAGT	.	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	57.0	25.0	76.0	0.0	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
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	119.0	54.0	116.0	0.0	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
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	107.0	46.0	96.0	0.0	0.429907	0	T|0.998;C|0.002	0.002	strong	.	.	.	.	NM_017970	exon13	c.A3333G	p.V1111V	GTAGAATACACCT	.	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	119.0	60.0	84.0	0.0	0.504202	0	.	.	none	.	TRERF1	124	.	NM_033502	exon5	c.G740C	p.G247A	TGTCCTCCCTGCA	.	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	370.0	247.0	262.0	0.0	0.667568	0	.	.	none	.	C2orf42	30	.	NM_017880	exon9	c.G1447T	p.E483X	AGGTTTCTGCTAT	.	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	148.0	78.0	100.0	0.0	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
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	136.0	11.0	121.0	0.0	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
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	125.0	60.0	130.0	0.0	0.48	0	.	.	none	DYX1C1,NS,carcinoma,-1,1	DYX1C1	54	1	NM_130810	exon10	c.C1175T	p.A392V	TTAAGTGCCGCTT	.	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	121.0	75.0	84.0	0.0	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
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	376.0	196.0	374.0	1.0	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
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	52.0	21.0	36.0	0.0	0.403846	0	.	.	weak	.	CSRNP1	59	.	NM_033027	exon5	c.C791T	p.T264I	AATGCTGTGTGGT	.	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	57.0	22.0	55.0	0.0	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
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	123.0	64.0	123.0	0.0	0.520325	0	.	.	weak	.	DECR2	47	.	NM_020664	exon8	c.C855G	p.F285L	GGATTTCGCATCC	.	PASS	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	24.0	13.0	13.0	0.0	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
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	223.0	98.0	184.0	0.0	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
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	92.0	50.0	71.0	0.0	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
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	109.0	58.0	101.0	0.0	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
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	28.0	15.0	39.0	0.0	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
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	65.0	28.0	80.0	0.0	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
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	124.0	57.0	79.0	0.0	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
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	218.0	109.0	154.0	0.0	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
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	23.0	13.0	23.0	0.0	0.565217	0	.	.	none	.	BRSK2	97	.	NM_001256629	exon1	c.C58T	p.R20W	CCCTACCGGCTGG	.	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	39.0	16.0	47.0	1.0	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
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	26.0	3.0	22.0	0.0	0.115385	0	.	.	none	TCERG1,NS,carcinoma,0,2	TCERG1	148	2	NM_006706	exon4	c.G648A	p.Q216Q	GGCCCAGGCCCAG	.	scavenged	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	333.0	168.0	254.0	1.0	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
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	240.0	114.0	202.0	1.0	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
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	60.0	15.0	107.0	0.0	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	137.0	67.0	98.0	0.0	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
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	80.0	34.0	82.0	0.0	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	109.0	45.0	88.0	0.0	0.412844	0	.	.	weak	.	RAB1B	14	.	NM_030981	exon6	c.G483A	p.A161A	GCAGGCGTTCATG	.	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	49.0	20.0	43.0	0.0	0.408163	0	.	.	none	.	RAX2	4	.	NM_032753	exon2	c.C57T	p.G19G	CTCCTCGCCCGGC	.	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	58.0	29.0	64.0	0.0	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
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	40.0	21.0	33.0	0.0	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
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	393.0	203.0	309.0	0.0	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	124.0	107.0	85.0	0.0	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
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	134.0	59.0	126.0	0.0	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
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	82.0	36.0	76.0	0.0	0.439024	0	.	.	weak	.	ST6GALNAC2	29	.	NM_006456	exon9	c.G1003A	p.D335N	AGTGGTCGGAAAA	.	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	59.0	32.0	58.0	0.0	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
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	142.0	74.0	112.0	0.0	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
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	41.0	18.0	29.0	0.0	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	168.0	88.0	192.0	0.0	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
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	30.0	18.0	28.0	0.0	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
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	63.0	39.0	57.0	0.0	0.619048	0	.	.	none	.	.	.	.	NM_001039477	exon2	c.A152G	p.K51R	TGATCAAGGTCAC	.	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	127.0	16.0	116.0	0.0	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
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	224.0	90.0	216.0	0.0	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
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	185.0	89.0	142.0	0.0	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
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	65.0	41.0	67.0	0.0	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	30.0	17.0	19.0	0.0	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
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	73.0	31.0	53.0	0.0	0.424658	0	.	.	none	.	SP4	91	.	NM_003112	exon3	c.C151T	p.L51L	GCTTTACTGGCAG	.	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	75.0	42.0	110.0	0.0	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
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	135.0	62.0	140.0	0.0	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	143.0	68.0	137.0	0.0	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
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	14.0	6.0	42.0	0.0	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
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	96.0	4.0	83.0	0.0	0.0416667	0	.	.	none	.	NOTCH3	340	.	NM_000435	exon9	c.A1426G	p.S476G	AGGGGCTACTCTG	.	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	78.0	35.0	75.0	0.0	0.448718	0	.	.	none	.	IDH3B	25	.	NM_006899	exon6	c.A403G	p.K135E	CCAACTTACGCCT	.	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	221.0	109.0	226.0	0.0	0.493213	0	.	.	weak	.	USP40	174	.	NM_018218	exon9	c.G1153C	p.G385R	ATATTCCTATCTT	.	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	120.0	54.0	92.0	0.0	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
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	30.0	13.0	20.0	0.0	0.433333	0	.	.	none	.	MDN1	478	.	NM_014611	exon79	c.A12854C	p.Q4285P	GTCCACTGCTGCA	.	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	56.0	13.0	107.0	1.0	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
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	133.0	68.0	132.0	0.0	0.511278	0	.	.	none	.	TNIP1	51	.	NM_001252385	exon4	c.C334G	p.P112A	GGACTGGTGCTGG	.	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	167.0	85.0	145.0	0.0	0.508982	0	.	.	none	.	ALG12	35	.	NM_024105	exon7	c.C931T	p.R311C	TGAAGCGTAGCTC	.	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	58.0	15.0	107.0	0.0	0.258621	0	.	.	none	.	PCDHA4	419	.	NM_031500	exon1	c.G1581A	p.E527E	CGAGGAGCTAGAG	.	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	59.0	28.0	46.0	0.0	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
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	120.0	57.0	111.0	0.0	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
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	9.0	6.0	19.0	0.0	0.666667	0	.	.	none	.	DNAH9	695	.	NM_001372	exon1	c.C373T	p.L125L	GGGGACCTGCCCG	.	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	157.0	78.0	137.0	0.0	0.496815	0	.	.	weak	.	C20orf26	188	.	NM_015585	exon5	c.A387G	p.A129A	TAAGGCAGTGCCA	.	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	53.0	31.0	45.0	0.0	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
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	56.0	4.0	81.0	0.0	0.0714286	0	.	.	none	.	NUP107	88	.	NM_020401	exon6	c.C474T	p.F158F	TGATTTCCTGCAG	.	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	144.0	6.0	137.0	0.0	0.0416667	0	.	.	weak	SDHA,NS,carcinoma,+2,1	SDHA	80	1	NM_004168	exon15	c.C1968T	p.T656T	TGCCACCGTCCCG	.	scavenged	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	57.0	9.0	38.0	0.0	0.157895	0	.	.	none	.	ZFHX3	404	.	NM_006885	exon2	c.G1419A	p.E473E	CTCCTCCTCCGCC	.	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	90.0	48.0	104.0	0.0	0.533333	0	.	.	none	.	C3orf58	36	.	NM_173552	exon3	c.C1255A	p.R419S	GAACTGCGTGAAT	.	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	148.0	71.0	121.0	0.0	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
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	163.0	75.0	151.0	0.0	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
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	153.0	65.0	122.0	0.0	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
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	44.0	24.0	53.0	0.0	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
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	111.0	50.0	93.0	0.0	0.45045	0	.	.	none	.	EXOC4	118	.	NM_021807	exon17	c.T2613G	p.C871W	AATGTGTAGGAAC	.	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	137.0	129.0	217.0	0.0	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
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	125.0	58.0	73.0	0.0	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
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	298.0	155.0	263.0	0.0	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
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	86.0	41.0	71.0	0.0	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	163.0	86.0	154.0	0.0	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
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	166.0	145.0	312.0	0.0	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	123.0	63.0	88.0	0.0	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
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	98.0	46.0	96.0	0.0	0.469388	0	.	.	none	.	SNTA1	35	.	NM_003098	exon2	c.C377T	p.T126I	GCCTCTGTCTGGT	.	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	155.0	83.0	123.0	0.0	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
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	176.0	81.0	137.0	0.0	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
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	103.0	54.0	107.0	0.0	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	70.0	64.0	48.0	0.0	0.914286	0	.	.	none	.	MAGEE1	236	.	NM_020932	exon1	c.G1107A	p.P369P	TGTGCCGCCCACC	.	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	48.0	27.0	37.0	0.0	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
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	98.0	41.0	74.0	0.0	0.418367	0	.	.	none	.	CA11	29	.	NM_001217	exon4	c.G290A	p.R97Q	GTTCCCCGGAGCT	.	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	238.0	101.0	224.0	0.0	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
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	72.0	33.0	61.0	0.0	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	138.0	62.0	110.0	0.0	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
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	174.0	92.0	170.0	0.0	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
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	316.0	143.0	324.0	1.0	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
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	145.0	73.0	217.0	0.0	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
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	229.0	120.0	196.0	1.0	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
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	204.0	96.0	177.0	0.0	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
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	102.0	46.0	105.0	0.0	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
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	57.0	29.0	57.0	0.0	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
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	129.0	66.0	103.0	0.0	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
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	152.0	66.0	128.0	0.0	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
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	320.0	27.0	297.0	0.0	0.084375	0	.	.	none	FAM86B1,NS,carcinoma,+2,1	FAM86B1	7	1	NM_001083537	exon4	c.G319A	p.A107T	GGGCGGCATCCCA	.	scavenged	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	152.0	74.0	132.0	0.0	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
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	168.0	85.0	120.0	0.0	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
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	81.0	28.0	72.0	0.0	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
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	140.0	60.0	98.0	0.0	0.428571	0	.	.	weak	.	DGKB	166	.	NM_145695	exon18	c.G1563T	p.L521L	AAGAGGCAGAATC	.	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	43.0	25.0	56.0	0.0	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
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	41.0	25.0	25.0	0.0	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	89.0	16.0	109.0	0.0	0.179775	0	.	.	none	.	ZNF418	76	.	NM_133460	exon4	c.T1926C	p.T642T	TTCTCCAGTGTGT	.	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	110.0	59.0	107.0	0.0	0.536364	0	.	.	weak	.	DNAH5	868	.	NM_001369	exon36	c.T6018C	p.C2006C	GTCTGAACAATTG	.	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	62.0	28.0	64.0	0.0	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	5.0	3.0	5.0	0.0	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
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	176.0	91.0	147.0	1.0	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
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	15.0	7.0	22.0	0.0	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
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	115.0	107.0	253.0	0.0	0.930435	0	.	.	weak	.	IL3RA	49	.	NM_002183	exon5	c.G368C	p.S123T	GCTGCAGCTGGGC	.	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	79.0	38.0	59.0	0.0	0.481013	0	.	.	none	.	KIAA0556	348	.	NM_015202	exon15	c.G2481T	p.Q827H	ACCCCAGAGGGCA	.	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	116.0	56.0	113.0	0.0	0.482759	0	.	.	weak	.	SPTBN1	378	.	NM_003128	exon16	c.C3251T	p.A1084V	AGACAGCGATCGC	.	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	59.0	26.0	65.0	0.0	0.440678	0	.	.	none	.	ARHGAP32	307	.	NM_001142685	exon22	c.C5516A	p.A1839D	TGGTGGGCTCTGT	.	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	52.0	28.0	82.0	0.0	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
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	97.0	40.0	61.0	0.0	0.412371	0	.	.	none	.	MYO1G	86	.	NM_033054	exon17	c.G2368A	p.A790T	AGAGTGCGTGGCA	.	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	93.0	49.0	115.0	0.0	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
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	144.0	76.0	152.0	0.0	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
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	105.0	46.0	65.0	0.0	0.438095	0	.	.	none	.	.	.	.	NM_001146197	exon2	c.C246T	p.C82C	TTTGGGGCAACTG	.	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	275.0	140.0	216.0	0.0	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
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	69.0	34.0	68.0	0.0	0.492754	0	.	.	weak	.	LBH	14	.	NM_030915	exon3	c.G297A	p.A99A	GACAGCGAAAGAA	.	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	192.0	95.0	179.0	0.0	0.494792	0	.	.	none	.	DDC	100	.	NM_001082971	exon2	c.G33A	p.K11K	CATCTCCTTCCCT	.	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	152.0	80.0	162.0	0.0	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
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	93.0	41.0	75.0	0.0	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
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	136.0	63.0	108.0	0.0	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
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	156.0	75.0	153.0	0.0	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
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	196.0	87.0	194.0	0.0	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
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	171.0	79.0	163.0	0.0	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
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	72.0	60.0	162.0	0.0	0.833333	0	.	.	none	PTEN,NS,malignant_melanoma,-2,3	PTEN	3652	3	NM_000314	exon4	c.T226G	p.Y76D	AGACATTATGACA	.	PASS	Atlas-SNP
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	87.0	36.0	68.0	0.0	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
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	109.0	48.0	97.0	0.0	0.440367	0	.	.	none	.	SMYD4	50	.	NM_052928	exon5	c.A391G	p.R131G	GTGCTCTGTTAAT	.	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	62.0	7.0	47.0	0.0	0.112903	0	.	.	none	.	STK10	100	.	NM_005990	exon8	c.C923T	p.A308V	GCCTCAGCCACCA	.	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	44.0	23.0	41.0	0.0	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
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	177.0	78.0	174.0	0.0	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
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	12.0	3.0	8.0	0.0	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	182.0	91.0	181.0	0.0	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
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	96.0	45.0	69.0	0.0	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	184.0	75.0	202.0	0.0	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
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	93.0	37.0	78.0	0.0	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
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	222.0	105.0	168.0	0.0	0.472973	0	.	.	none	.	GRIK3	195	.	NM_000831	exon2	c.C234A	p.T78T	GGTCAAGGTTGTG	.	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	188.0	95.0	185.0	0.0	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
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	87.0	35.0	75.0	0.0	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
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	49.0	7.0	44.0	1.0	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
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	100.0	48.0	77.0	0.0	0.48	0	.	.	none	.	STAT2	70	.	NM_005419	exon20	c.C1726T	p.R576C	TGATGCGTCTGGA	.	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	311.0	22.0	260.0	0.0	0.0707396	0	.	.	none	.	.	.	.	NM_001005198	exon1	c.T897C	p.S299S	ATCATCTGTCAGC	.	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	167.0	72.0	109.0	0.0	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
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	131.0	68.0	108.0	0.0	0.519084	0	.	.	none	.	TAB1	36	.	NM_153497	exon5	c.G496A	p.A166T	GGAGGGGCCATGG	.	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	200.0	95.0	196.0	0.0	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
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	194.0	97.0	150.0	0.0	0.5	0	.	.	none	.	IGSF21	87	.	NM_032880	exon6	c.C913T	p.L305F	GCCCTGCTCACCT	.	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	483.0	211.0	426.0	0.0	0.436853	0	.	.	none	.	PASK	230	.	NM_001252122	exon3	c.T246G	p.I82M	TGTACAAATATTC	.	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	28.0	20.0	34.0	0.0	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
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	126.0	64.0	90.0	0.0	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
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	66.0	28.0	87.0	0.0	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
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	74.0	43.0	49.0	0.0	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
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	57.0	37.0	46.0	0.0	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
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	119.0	48.0	121.0	0.0	0.403361	0	.	.	none	.	LAMB4	253	.	NM_007356	exon8	c.A867G	p.G289G	CACCATTCCAGGA	.	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	203.0	189.0	181.0	0.0	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
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	262.0	132.0	249.0	0.0	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
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	88.0	50.0	77.0	0.0	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
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	54.0	34.0	78.0	0.0	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
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	242.0	102.0	211.0	0.0	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	19.0	19.0	6.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361567	exon1	c.T1266C	p.Y422Y	CGCCTATAGCACT	.	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	163.0	163.0	133.0	0.0	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	256.0	130.0	227.0	1.0	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
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	109.0	51.0	93.0	0.0	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
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	145.0	66.0	118.0	0.0	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