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
FAM154B	283726	hgsc.bcm.edu	37	15	82574734	82574735	+	Frame_Shift_Del	DEL	AC	AC	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91.0	34.0	87.0	0.0	0.374	.	.	.	none	.	FAM154B	50	.	NM_001008226	exon3	c.527_528del	p.176_176del	.	.	PASS	Pindel,Atlas-Indel
CA9	768	hgsc.bcm.edu	37	9	35674059	35674059	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121.0	37.0	120.0	0.0	0.306	.	.	.	none	.	CA9	48	.	NM_001216	exon1	c.102delT	p.P34fs	.	.	PASS	Pindel,Atlas-Indel
NFKBIE	4794	hgsc.bcm.edu	37	6	44232842	44232845	+	Frame_Shift_Del	DEL	GTGT	GTGT	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GTGT	GTGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146.0	22.0	112.0	0.0	0.151	.	.	.	none	.	NFKBIE	31	.	NM_004556	exon1	c.657_660del	p.219_220del	.	.	PASS	Pindel,Atlas-Indel
GLIPR1L2	144321	hgsc.bcm.edu	37	12	75804262	75804262	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136.0	43.0	134.0	0.0	0.316	.	.	.	none	.	GLIPR1L2	54	.	NM_152436	exon2	c.282delA	p.K94fs	.	.	PASS	Pindel,Atlas-Indel
IGLL5	100423062	hgsc.bcm.edu	37	22	23230309	23230311	+	In_Frame_Del	DEL	CTG	CTG	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CTG	CTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146.0	19.0	151.0	0.0	0.130137	0	.	.	none	.	IGLL5	26	.	NM_001178126	exon1	c.75_77del	p.25_26del	.	.	PASS	Atlas-Indel
TGM6	343641	hgsc.bcm.edu	37	20	2411657	2411658	+	In_Frame_Ins	INS	-	-	AAC	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80.0	30.0	63.0	0.0	0.375	.	.	.	none	.	TGM6	126	.	NM_198994	exon12	c.1951_1952insAAC	p.E651delinsEQ	.	.	PASS	Pindel,Atlas-Indel
MDFIC	29969	hgsc.bcm.edu	37	7	114562638	114562639	+	In_Frame_Ins	INS	-	-	GAG	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42.0	13.0	40.0	0.0	0.310	.	.	.	none	.	MDFIC	30	.	NM_001166346	exon1	c.167_168insGAG	p.K56delinsKR	.	.	PASS	Pindel,Atlas-Indel
GAL3ST3	89792	hgsc.bcm.edu	37	11	65811114	65811116	+	In_Frame_Del	DEL	GAG	GAG	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161.0	55.0	185.0	0.0	0.342	.	.	.	none	.	GAL3ST3	40	.	NM_033036	exon3	c.159_161del	p.53_54del	.	.	PASS	Pindel,Atlas-Indel
RPGR	6103	hgsc.bcm.edu	37	X	38145632	38145646	+	In_Frame_Del	DEL	CTTCCTCCCCTTCTT	CTTCCTCCCCTTCTT	-	rs200824587	by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CTTCCTCCCCTTCTT	CTTCCTCCCCTTCTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27.0	20.0	44.0	0.0	0.740741	0	CTTCCTCCCCTTCTT|0.987;-|0.013	0.013	strong	.	RPGR	175	.	NM_001034853	exon15	c.2607_2621del	p.869_874del	.	.	PASS	Atlas-Indel
ZNF687	57592	hgsc.bcm.edu	37	1	151263677	151263678	+	In_Frame_Ins	INS	-	-	ACA	rs145032688	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	32.0	14.0	25.0	0.0	0.438	.	-|0.977;ACA|0.023	0.023	strong	.	ZNF687	94	.	NM_020832	exon9	c.3706_3707insACA	p.D1236delinsDN	.	.	PASS	Pindel,Atlas-Indel
TNFAIP3	7128	hgsc.bcm.edu	37	6	138192494	138192501	+	Frame_Shift_Del	DEL	CACCGATA	CACCGATA	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CACCGATA	CACCGATA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114.0	12.0	148.0	0.0	0.105263	0	.	.	none	.	TNFAIP3	340	.	NM_006290	exon2	c.129_136del	p.43_46del	.	.	PASS	Atlas-Indel
TET2	54790	hgsc.bcm.edu	37	4	106197061	106197061	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130.0	22.0	140.0	0.0	0.169231	0	.	.	none	.	TET2	1762	.	NM_001127208	exon11	c.5393delC	p.S1798X	.	.	PASS	Atlas-Indel
TAS2R8	50836	hgsc.bcm.edu	37	12	10958845	10958846	+	Frame_Shift_Ins	INS	-	-	A	rs200711805	by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90.0	33.0	110.0	0.0	0.367	.	-|0.994;A|0.006	0.006	strong	TAS2R8,NS,malignant_melanoma,0,1	TAS2R8	42	1	NM_023918	exon1	c.735_736insT	p.F245fs	.	.	PASS	Pindel,Atlas-Indel
CCDC150	284992	hgsc.bcm.edu	37	2	197521469	197521470	+	Frame_Shift_Del	DEL	TG	TG	-	rs143904259	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151.0	50.0	142.0	0.0	0.331	.	TG|0.989;-|0.011	0.011	strong	.	CCDC150	96	.	NM_001080539	exon3	c.288_289del	p.96_97del	.	.	PASS	Pindel,Atlas-Indel
TRPM7	54822	hgsc.bcm.edu	37	15	50884289	50884294	+	In_Frame_Del	DEL	ATTTTT	ATTTTT	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	ATTTTT	ATTTTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	35.0	10.0	35.0	0.0	0.286	.	.	.	none	.	TRPM7	145	.	NM_017672	exon26	c.4139_4144del	p.1380_1382del	.	.	PASS	Pindel,Atlas-Indel
RSU1	6251	hgsc.bcm.edu	37	10	16635400	16635402	+	In_Frame_Del	DEL	TTC	TTC	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	TTC	TTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213.0	71.0	205.0	0.0	0.333	.	.	.	none	.	RSU1	31	.	NM_012425	exon9	c.826_828del	p.276_276del	.	.	PASS	Pindel,Atlas-Indel
RIMBP3C	150221	hgsc.bcm.edu	37	22	21741340	21741341	+	In_Frame_Ins	INS	-	-	TGCAGG	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	15.0	15.0	2.0	0.0	1.000	.	.	.	none	.	RIMBP3C	6	.	NM_001128633	exon1	c.3193_3194insTGCAGG	p.L1065delinsLQV	.	.	PASS	Pindel
PELP1	27043	hgsc.bcm.edu	37	17	4576216	4576217	+	In_Frame_Ins	INS	-	-	GGCATGGGGCCTGCTGAA	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146.0	33.0	147.0	0.0	0.226	.	.	.	none	.	PELP1	102	.	NM_014389	exon16	c.2070_2071insTTCAGCAGGCCCCATGCC	p.P690delinsPSAGPMP	.	.	PASS	Pindel
EXOSC2	23404	hgsc.bcm.edu	37	9	133579152	133579152	+	Silent	SNP	G	G	A	rs34680820	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	36.0	13.0	70.0	0.0	0.361111	0	G|0.986;A|0.014	0.014	strong	.	EXOSC2	15	.	NM_014285	exon9	c.G873A	p.Q291Q	GGAACAGGAGGGA	.	PASS	Atlas-SNP
MMS22L	253714	hgsc.bcm.edu	37	6	97599674	97599674	+	Missense_Mutation	SNP	G	G	A	rs138146580	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184.0	109.0	189.0	0.0	0.592391	0	G|0.987;A|0.013	0.013	strong	.	MMS22L	102	.	NM_198468	exon23	c.C3455T	p.P1152L	GAGGAAGGTTCTT	.	PASS	Atlas-SNP
ABL1	25	hgsc.bcm.edu	37	9	133760029	133760029	+	Silent	SNP	C	C	G	rs2229070	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	33.0	16.0	36.0	0.0	0.484848	0	C|0.885;G|0.115	0.115	strong	.	ABL1	1632	.	NM_007313	exon11	c.C2409G	p.P803P	TCCCCCCAGGCTG	.	PASS	Atlas-SNP
ZFP41	286128	hgsc.bcm.edu	37	8	144332045	144332045	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81.0	43.0	73.0	0.0	0.530864	0	.	.	none	ZFP41,NS,carcinoma,0,1	ZFP41	25	1	NM_173832	exon2	c.C32T	p.T11M	AGAAGACGCCGAC	.	PASS	Atlas-SNP
NOD2	64127	hgsc.bcm.edu	37	16	50746228	50746228	+	Silent	SNP	G	G	T	rs104895495	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147.0	66.0	146.0	0.0	0.44898	0	G|0.998;T|0.002	0.002	strong	.	NOD2	118	.	NM_022162	exon4	c.G2406T	p.V802V	CTCTGTGGGTGAC	.	PASS	Atlas-SNP
ZSWIM5	57643	hgsc.bcm.edu	37	1	45500064	45500064	+	Missense_Mutation	SNP	C	C	T	rs182892990	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82.0	23.0	100.0	0.0	0.280488	0	C|0.999;T|0.001	0.001	strong	.	ZSWIM5	72	.	NM_020883	exon11	c.G2369A	p.R790H	GGATAACGGCTGG	.	PASS	Atlas-SNP
CROCC	9696	hgsc.bcm.edu	37	1	17265601	17265601	+	Silent	SNP	C	C	T	rs146792981	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	17.0	10.0	12.0	0.0	0.588235	0	C|0.984;T|0.016	0.016	strong	CROCC,NS,haematopoietic_neoplasm,0,1	CROCC	185	1	NM_014675	exon12	c.C1572T	p.I524I	CCTGATCCACTCC	.	PASS	Atlas-SNP
LIFR	3977	hgsc.bcm.edu	37	5	38510603	38510603	+	Silent	SNP	G	G	A	rs61748202	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135.0	52.0	112.0	0.0	0.385185	0	G|0.997;A|0.003	0.003	strong	.	LIFR	348	.	NM_002310	exon7	c.C954T	p.T318T	ATCTTCGGTTGTA	.	PASS	Atlas-SNP
CHCHD2	51142	hgsc.bcm.edu	37	7	56172086	56172086	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	200.0	94.0	204.0	0.0	0.47	0	.	.	none	.	CHCHD2	10	.	NM_016139	exon2	c.T133G	p.S45A	CAGAAGAGCCAAC	.	PASS	Atlas-SNP
TST	7263	hgsc.bcm.edu	37	22	37414321	37414321	+	Silent	SNP	G	G	A	rs61743068	bycluster;alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167.0	37.0	187.0	0.0	0.221557	0	G|0.985;T|0.015	.	alt	.	TST	22	.	NM_003312	exon2	c.C453T	p.A151A	GAAGACGGCCGGT	.	PASS	Atlas-SNP
CUL7	9820	hgsc.bcm.edu	37	6	43006687	43006687	+	Nonsense_Mutation	SNP	G	G	A	rs121918228	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106.0	52.0	88.0	0.0	0.490566	0	G|1.000;A|0.000	0.000	strong	.	CUL7	133	.	NM_001168370	exon23	c.C4585T	p.R1529X	GCAGTCGCCTCTG	.	PASS	Atlas-SNP
GRIP1	23426	hgsc.bcm.edu	37	12	66773075	66773075	+	Missense_Mutation	SNP	C	C	T	rs145115262	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182.0	87.0	215.0	0.0	0.478022	0	C|0.997;T|0.003	0.003	strong	.	GRIP1	106	.	NM_001178074	exon19	c.G2450A	p.R817Q	GTGGACCGGTCCC	.	PASS	Atlas-SNP
BUB1	699	hgsc.bcm.edu	37	2	111413444	111413444	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	247.0	119.0	219.0	1.0	0.481781	0.00456621	.	.	none	.	BUB1	91	.	NM_004336	exon16	c.G1748C	p.G583A	CGAATACCCCATA	.	PASS	Atlas-SNP
OBSL1	23363	hgsc.bcm.edu	37	2	220422126	220422126	+	Silent	SNP	G	G	A	rs375716830		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	25.0	19.0	22.0	0.0	0.76	0	.	.	weak	.	OBSL1	120	.	NM_001173431	exon12	c.C4005T	p.D1335D	CCCAGCGTCCCCG	.	PASS	Atlas-SNP
NUMA1	4926	hgsc.bcm.edu	37	11	71720030	71720030	+	Missense_Mutation	SNP	G	G	A	rs74985106	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140.0	67.0	166.0	0.0	0.478571	0	G|0.982;A|0.018	0.018	strong	.	NUMA1	142	.	NM_006185	exon19	c.C5041T	p.R1681C	GGCTGCGCACCTG	.	PASS	Atlas-SNP
CD1D	912	hgsc.bcm.edu	37	1	158151892	158151892	+	Silent	SNP	T	T	C	rs140563679	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	291.0	160.0	206.0	0.0	0.549828	0	T|0.999;C|0.001	0.001	strong	.	CD1D	60	.	NM_001766	exon4	c.T399C	p.H133H	CTTCCATGTAGCA	.	PASS	Atlas-SNP
ZNF780A	284323	hgsc.bcm.edu	37	19	40580545	40580545	+	Nonsense_Mutation	SNP	G	G	A	rs149702621	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158.0	72.0	192.0	0.0	0.455696	0	G|0.999;A|0.001	0.001	strong	ZNF780A_ENST00000455521,NS,carcinoma,0,2	ZNF780A	156	2	NM_001142577	exon6	c.C1807T	p.R603X	GATGTCGAATAAG	.	PASS	Atlas-SNP
IL17RC	84818	hgsc.bcm.edu	37	3	9970062	9970062	+	Silent	SNP	C	C	T	rs151110374	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30.0	10.0	42.0	0.0	0.333333	0	C|0.999;T|0.001	0.001	strong	.	IL17RC	55	.	NM_153461	exon11	c.C1164T	p.D388D	GCTGGACGCACCG	.	PASS	Atlas-SNP
SLC35F4	341880	hgsc.bcm.edu	37	14	58060707	58060707	+	Missense_Mutation	SNP	T	T	C	rs145246618	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186.0	94.0	231.0	0.0	0.505376	0	T|0.997;C|0.003	0.003	strong	SLC35F4_ENST00000339762,right_upper_lobe,carcinoma,0,2	SLC35F4	105	2	NM_001206920	exon2	c.A239G	p.Q80R	GATCCTTGGTTTT	.	PASS	Atlas-SNP
KLC3	147700	hgsc.bcm.edu	37	19	45848869	45848869	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133.0	59.0	141.0	0.0	0.443609	0	.	.	none	.	KLC3	37	.	NM_177417	exon2	c.G70A	p.V24M	GAGCTGGTGCGGC	.	PASS	Atlas-SNP
OSTN	344901	hgsc.bcm.edu	37	3	190936577	190936577	+	Silent	SNP	A	A	G	rs34687554	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68.0	29.0	78.0	0.0	0.426471	0	A|0.992;G|0.008	0.008	strong	.	OSTN	25	.	NM_198184	exon2	c.A144G	p.T48T	ACCCACAGTCAGG	.	PASS	Atlas-SNP
KIF26B	55083	hgsc.bcm.edu	37	1	245772692	245772692	+	Silent	SNP	A	A	C	rs61755865	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	228.0	102.0	223.0	0.0	0.447368	0	A|0.970;C|0.030	0.030	strong	.	KIF26B	343	.	NM_018012	exon8	c.A1776C	p.S592S	TTTCTCAGTCCGG	.	PASS	Atlas-SNP
PTPRJ	5795	hgsc.bcm.edu	37	11	48145397	48145397	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131.0	53.0	103.0	0.0	0.40458	0	.	.	none	.	PTPRJ	225	.	NM_001098503	exon5	c.C849A	p.D283E	GGGAGACCCCTTG	.	PASS	Atlas-SNP
CDSN	1041	hgsc.bcm.edu	37	6	31085226	31085226	+	Missense_Mutation	SNP	G	G	A	rs7742033	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176.0	107.0	155.0	0.0	0.607955	0	G|0.979;A|0.021	0.021	strong	.	CDSN	48	.	NM_001264	exon2	c.C166T	p.L56F	CAGTGAGGCAGGG	.	PASS	Atlas-SNP
DGKI	9162	hgsc.bcm.edu	37	7	137150761	137150761	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98.0	4.0	104.0	0.0	0.0408163	0	.	.	none	.	DGKI	335	.	NM_004717	exon27	c.G2529A	p.M843I	AATCTCCATCACA	.	PASS	Atlas-SNP
ND6	0	hgsc.bcm.edu	37	MT	14587	14587	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67.0	65.0	61.0	0.0	0.970149	0	.	.	none	.	.	.	.	ENST00000361681	exon1	c.T87C	p.G29G	TACTAAACCCCCA	.	PASS	Atlas-SNP
GCLC	2729	hgsc.bcm.edu	37	6	53387230	53387230	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91.0	12.0	74.0	0.0	0.131868	0	.	.	none	.	GCLC	58	.	NM_001197115	exon2	c.G246A	p.G82G	CCTTTCCCCCTTC	.	PASS	Atlas-SNP
KALRN	8997	hgsc.bcm.edu	37	3	123953756	123953756	+	Silent	SNP	C	C	A	rs144465315	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81.0	30.0	75.0	0.0	0.37037	0	C|0.999;A|0.001	0.001	strong	.	KALRN	556	.	NM_003947	exon3	c.C223A	p.R75R	GACCTGCGGAAAC	.	PASS	Atlas-SNP
PUM2	23369	hgsc.bcm.edu	37	2	20494189	20494189	+	Missense_Mutation	SNP	T	T	C	rs34032508	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114.0	56.0	98.0	0.0	0.491228	0	T|0.996;C|0.004	0.004	strong	.	PUM2	91	.	NM_015317	exon8	c.A1100G	p.N367S	GTGTTATTTGCCG	.	PASS	Atlas-SNP
ENTPD3	956	hgsc.bcm.edu	37	3	40453432	40453432	+	Missense_Mutation	SNP	C	C	T	rs377644776		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38.0	27.0	40.0	0.0	0.710526	0	.	.	weak	.	ENTPD3	48	.	NM_001248	exon5	c.C416T	p.T139M	GAGCCACGGCTGG	.	PASS	Atlas-SNP
KIAA0319	9856	hgsc.bcm.edu	37	6	24570151	24570151	+	Silent	SNP	G	G	A	rs41271797	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	250.0	126.0	209.0	0.0	0.504	0	G|0.999;A|0.001	0.001	strong	KIAA0319,NS,carcinoma,0,1	KIAA0319	117	1	NM_001168377	exon12	c.C1971T	p.F657F	GTGGTAGAAGACA	.	PASS	Atlas-SNP
DHX37	57647	hgsc.bcm.edu	37	12	125438712	125438712	+	Silent	SNP	C	C	A	rs11829165	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147.0	79.0	118.0	0.0	0.537415	0	C|0.852;A|0.148	0.148	strong	DHX37,NS,carcinoma,0,1	DHX37	114	1	NM_032656	exon19	c.G2499T	p.R833R	CCGGGCCCGCTTG	.	PASS	Atlas-SNP
NCOR2	9612	hgsc.bcm.edu	37	12	124824869	124824869	+	Missense_Mutation	SNP	G	G	A	rs61755988	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48.0	26.0	45.0	0.0	0.541667	0	G|0.997;A|0.003	0.003	strong	.	NCOR2	475	.	NM_006312	exon38	c.C5459T	p.T1820M	TCCACCGTCGTGG	.	PASS	Atlas-SNP
SCNN1A	6337	hgsc.bcm.edu	37	12	6472752	6472752	+	Missense_Mutation	SNP	G	G	A	rs55797039	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	17.0	11.0	26.0	0.0	0.647059	0	G|0.986;A|0.014	0.014	strong	.	SCNN1A	54	.	NM_001159576	exon2	c.C718T	p.R240W	TCCCCCGCAGGTC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511268	195511268	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	569.0	27.0	156.0	0.0	0.0474517	0	.	.	none	.	MUC4	1505	.	NM_018406	exon2	c.A7183T	p.T2395S	CACCTGTGGATGC	.	PASS	Atlas-SNP
LAMA3	3909	hgsc.bcm.edu	37	18	21492734	21492734	+	Silent	SNP	C	C	T	rs62093184	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78.0	31.0	85.0	0.0	0.397436	0	C|0.999;T|0.001	0.001	strong	.	LAMA3	397	.	NM_198129	exon56	c.C7218T	p.D2406D	AAATGACCTGGAA	.	PASS	Atlas-SNP
LYPD2	137797	hgsc.bcm.edu	37	8	143833840	143833840	+	Silent	SNP	C	C	G	rs78400087	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162.0	82.0	303.0	0.0	0.506173	0	C|0.985;G|0.015	0.015	strong	LYPD2,NS,carcinoma,0,1	LYPD2	18	1	NM_205545	exon1	c.G30C	p.A10A	CACCAGCGCCAGG	.	PASS	Atlas-SNP
CEP120	153241	hgsc.bcm.edu	37	5	122720648	122720648	+	Missense_Mutation	SNP	T	T	A	rs147430819		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117.0	62.0	95.0	0.0	0.529915	0	T|1.000;A|0.000	0.000	weak	.	CEP120	72	.	NM_153223	exon12	c.A1760T	p.Q587L	TACCCTTGTGCTG	.	PASS	Atlas-SNP
NUMA1	4926	hgsc.bcm.edu	37	11	71724784	71724784	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58.0	29.0	64.0	0.0	0.5	0	.	.	none	.	NUMA1	142	.	NM_006185	exon15	c.G3765A	p.V1255V	GGCCATCACCAGC	.	PASS	Atlas-SNP
APIP	51074	hgsc.bcm.edu	37	11	34937828	34937828	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83.0	25.0	62.0	0.0	0.301205	0	.	.	none	.	APIP	21	.	NM_015957	exon1	c.T4C	p.S2P	AGCCAGACATGGC	.	PASS	Atlas-SNP
KIAA0226	9711	hgsc.bcm.edu	37	3	197427515	197427515	+	Silent	SNP	C	C	T	rs116791711	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209.0	77.0	204.0	0.0	0.368421	0	C|0.987;T|0.013	0.013	strong	Q96CK5_HUMAN,NS,carcinoma,-1,6	KIAA0226	136	6	NM_014687	exon7	c.G1230A	p.S410S	GGTATCCGAATGG	.	PASS	Atlas-SNP
FGD5	152273	hgsc.bcm.edu	37	3	14860968	14860968	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	293.0	126.0	212.0	0.0	0.430034	0	.	.	none	FGD5_ENST00000285046,NS,carcinoma,+1,1	FGD5	248	1	NM_152536	exon1	c.G390A	p.A130A	AGGAGCGCTGAGC	.	PASS	Atlas-SNP
BEAN1	146227	hgsc.bcm.edu	37	16	66514549	66514549	+	Silent	SNP	A	A	G	rs141546513	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140.0	59.0	153.0	0.0	0.421429	0	A|1.000;G|0.000	0.000	strong	.	BEAN1	6	.	NM_001178020	exon5	c.A501G	p.P167P	ACCACCACCCTAC	.	PASS	Atlas-SNP
PHLDB1	23187	hgsc.bcm.edu	37	11	118516274	118516274	+	Missense_Mutation	SNP	G	G	A	rs149914355	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126.0	61.0	91.0	0.0	0.484127	0	G|0.998;A|0.002	0.002	strong	.	PHLDB1	103	.	NM_001144758	exon16	c.G3322A	p.A1108T	GAGCACGCCTATG	.	PASS	Atlas-SNP
KLKB1	3818	hgsc.bcm.edu	37	4	187178437	187178437	+	Missense_Mutation	SNP	G	G	A	rs121964951	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130.0	55.0	125.0	1.0	0.423077	0.008	G|1.000;A|0.000	0.000	strong	KLKB1_ENST00000264690,colon,carcinoma,0,2	KLKB1	155	2	NM_000892	exon14	c.G1643A	p.C548Y	AAGAATGCCAGAA	.	scavenged	Atlas-SNP
UGT2B4	7363	hgsc.bcm.edu	37	4	70361163	70361163	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157.0	28.0	135.0	0.0	0.178344	0	.	.	none	.	UGT2B4	105	.	NM_021139	exon1	c.A417G	p.K139K	CTGTAGTTTCTTC	.	PASS	Atlas-SNP
ARHGEF10	9639	hgsc.bcm.edu	37	8	1893773	1893773	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139.0	71.0	112.0	0.0	0.510791	0	.	.	none	.	ARHGEF10	255	.	NM_014629	exon27	c.C3349A	p.H1117N	CTCAAGCACCTGC	.	PASS	Atlas-SNP
FHOD3	80206	hgsc.bcm.edu	37	18	34289118	34289118	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	225.0	89.0	248.0	0.0	0.395556	0	.	.	none	FHOD3,NS,carcinoma,+1,1	FHOD3	210	1	NM_025135	exon15	c.G1772T	p.G591V	GGGCGGGGCAGGT	.	PASS	Atlas-SNP
HCAR1	27198	hgsc.bcm.edu	37	12	123214372	123214372	+	Missense_Mutation	SNP	G	G	A	rs61742326	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27.0	14.0	22.0	0.0	0.518519	0	G|0.996;A|0.004	0.004	strong	.	HCAR1	21	.	NM_032554	exon1	c.C515T	p.S172L	TTGGCCGACTCCA	.	PASS	Atlas-SNP
APOA4	337	hgsc.bcm.edu	37	11	116693871	116693871	+	Missense_Mutation	SNP	C	C	T	rs12721041	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143.0	77.0	121.0	0.0	0.538462	0	C|0.990;T|0.010	0.010	strong	.	APOA4	51	.	NM_000482	exon1	c.G37A	p.V13M	CAGCCACCAGGGC	.	PASS	Atlas-SNP
FRMPD2	143162	hgsc.bcm.edu	37	10	49431171	49431171	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84.0	51.0	83.0	0.0	0.607143	0	.	.	none	.	FRMPD2	157	.	NM_001018071	exon11	c.G1311A	p.L437L	CTGGAGCAGCCCA	.	PASS	Atlas-SNP
MYH11	4629	hgsc.bcm.edu	37	16	15808876	15808876	+	Missense_Mutation	SNP	C	C	G	rs113964173	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152.0	76.0	127.0	0.0	0.5	0	C|0.993;G|0.007	0.007	strong	.	MYH11	520	.	NM_001040114	exon41	c.G5697C	p.E1899D	CTGGGACTCCTCC	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32549584	32549584	+	Silent	SNP	C	C	T	rs200078051		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	368.0	36.0	183.0	0.0	0.0978261	0	.	.	weak	.	HLA-DRB1	41	.	NM_002124	exon3	c.G402A	p.K134K	CTGGGTCTTTGAA	.	PASS	Atlas-SNP
AP3B1	8546	hgsc.bcm.edu	37	5	77423965	77423965	+	Silent	SNP	A	A	C	rs115892142	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45.0	21.0	35.0	0.0	0.466667	0	A|0.998;C|0.002	0.002	strong	.	AP3B1	94	.	NM_003664	exon17	c.T1857G	p.L619L	GGTGCCAAGCTGG	.	PASS	Atlas-SNP
EIF4G1	1981	hgsc.bcm.edu	37	3	184037523	184037523	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	392.0	230.0	315.0	0.0	0.586735	0	.	.	none	.	EIF4G1	151	.	NM_001194946	exon8	c.C492T	p.G164G	CACTGGCGTGGCC	.	PASS	Atlas-SNP
GPATCH8	23131	hgsc.bcm.edu	37	17	42477385	42477385	+	Missense_Mutation	SNP	T	T	C	rs61744303	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153.0	63.0	140.0	0.0	0.411765	0	T|0.989;C|0.011	0.011	strong	.	GPATCH8	114	.	NM_001002909	exon8	c.A2060G	p.H687R	CGTTTGTGTTTGC	.	PASS	Atlas-SNP
CCDC61	729440	hgsc.bcm.edu	37	19	46520069	46520069	+	Silent	SNP	C	C	T	rs144277506	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77.0	47.0	69.0	0.0	0.61039	0	C|0.989;T|0.011	0.011	strong	.	CCDC61	32	.	NM_001267723	exon10	c.C1209T	p.R403R	TAACCGCTCCCGA	.	PASS	Atlas-SNP
LILRB4	11006	hgsc.bcm.edu	37	19	55179184	55179184	+	Silent	SNP	T	T	C	rs61743358	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	493.0	58.0	468.0	0.0	0.117647	0	T|0.633;C|0.367	0.367	strong	.	LILRB4	86	.	NM_006847	exon11	c.T1140C	p.S380S	ACTGTCTGGGGAA	.	PASS	Atlas-SNP
SLCO1B1	10599	hgsc.bcm.edu	37	12	21331940	21331940	+	Missense_Mutation	SNP	G	G	A	rs374113543		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56.0	20.0	74.0	0.0	0.357143	0	.	.	weak	.	SLCO1B1	151	.	NM_006446	exon7	c.G713A	p.G238E	ATATTGGATATGT	.	PASS	Atlas-SNP
FER1L5	90342	hgsc.bcm.edu	37	2	97368800	97368800	+	Missense_Mutation	SNP	C	C	A	rs373937760		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205.0	96.0	184.0	0.0	0.468293	0	.	.	weak	.	FER1L5	113	.	NM_001113382	exon48	c.C5591A	p.P1864H	TCTCCCCCGACGA	.	PASS	Atlas-SNP
OR10P1	121130	hgsc.bcm.edu	37	12	56031318	56031318	+	Missense_Mutation	SNP	A	A	T	rs76940436	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103.0	52.0	91.0	0.0	0.504854	0	A|0.985;T|0.015	0.015	strong	.	OR10P1	48	.	NM_206899	exon1	c.A643T	p.I215F	TCTCTGATTGTCA	.	PASS	Atlas-SNP
EML2	24139	hgsc.bcm.edu	37	19	46137712	46137712	+	Missense_Mutation	SNP	C	C	T	rs144104945	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81.0	44.0	68.0	0.0	0.54321	0	C|0.996;T|0.004	0.004	strong	.	EML2	64	.	NM_001193268	exon7	c.G800A	p.R267Q	CAGTCTCGGCCAC	.	PASS	Atlas-SNP
MYH15	22989	hgsc.bcm.edu	37	3	108163559	108163559	+	Silent	SNP	C	C	T	rs148022324	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	247.0	106.0	277.0	1.0	0.42915	0.00361011	C|0.998;T|0.002	0.002	strong	.	MYH15	223	.	NM_014981	exon23	c.G2643A	p.Q881Q	CTCCCTCTGAAAC	.	PASS	Atlas-SNP
LAMA2	3908	hgsc.bcm.edu	37	6	129635920	129635920	+	Missense_Mutation	SNP	G	G	A	rs34505698	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59.0	27.0	73.0	0.0	0.457627	0	G|0.999;A|0.001	0.001	strong	.	LAMA2	481	.	NM_000426	exon24	c.G3532A	p.A1178T	TCTGAAGCAAAAG	.	PASS	Atlas-SNP
CTNND1	1500	hgsc.bcm.edu	37	11	57564451	57564451	+	Missense_Mutation	SNP	C	C	T	rs199813020	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96.0	42.0	89.0	0.0	0.4375	0	.	.	weak	.	CTNND1	203	.	NM_001085461	exon6	c.C943T	p.R315C	GACCCTCGTCGGC	.	PASS	Atlas-SNP
ZNF763	284390	hgsc.bcm.edu	37	19	12087921	12087921	+	Silent	SNP	G	G	C	rs376310072	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	256.0	12.0	216.0	0.0	0.046875	0	.	.	alt	ZNF763,NS,carcinoma,+1,2	ZNF763	31	2	NM_001012753	exon2	c.G81C	p.S27S	TATTTCGCAGAGG	.	scavenged	Atlas-SNP
GAS2L2	246176	hgsc.bcm.edu	37	17	34072031	34072031	+	Missense_Mutation	SNP	G	G	A	rs56386706	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104.0	51.0	96.0	0.0	0.490385	0	G|0.964;A|0.036	0.036	strong	.	GAS2L2	94	.	NM_139285	exon6	c.C2485T	p.R829W	CCACCCGGGATGC	.	PASS	Atlas-SNP
ZNF483	158399	hgsc.bcm.edu	37	9	114305075	114305075	+	Silent	SNP	G	G	A	rs142830150		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84.0	5.0	103.0	1.0	0.0595238	0.00970874	G|1.000;A|0.000	0.000	weak	ZNF483,NS,carcinoma,+1,1	ZNF483	78	1	NM_133464	exon6	c.G1860A	p.T620T	TTTTACGTCTGTG	.	scavenged	Atlas-SNP
LPAR3	23566	hgsc.bcm.edu	37	1	85331462	85331462	+	Silent	SNP	A	A	C	rs41289037	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170.0	104.0	206.0	0.0	0.611765	0	A|0.991;C|0.009	0.009	strong	.	LPAR3	53	.	NM_012152	exon2	c.T342G	p.T114T	GGAAGCAGTCAAG	.	PASS	Atlas-SNP
ATM	472	hgsc.bcm.edu	37	11	108175462	108175462	+	Missense_Mutation	SNP	G	G	A	rs1801516	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111.0	54.0	120.0	0.0	0.486486	0	G|0.910;A|0.090	0.090	strong	ATM_ENST00000278616,colon,carcinoma,-1,17	ATM	1657	17	NM_000051	exon37	c.G5557A	p.D1853N	CTCCAAGATACAA	.	PASS	Atlas-SNP
GPATCH2	55105	hgsc.bcm.edu	37	1	217793484	217793484	+	Silent	SNP	C	C	T	rs140815718	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76.0	37.0	94.0	0.0	0.486842	0	C|0.994;T|0.006	0.006	strong	.	GPATCH2	53	.	NM_018040	exon2	c.G414A	p.G138G	TCTTTTCCCTCGA	.	PASS	Atlas-SNP
NCOA7	135112	hgsc.bcm.edu	37	6	126210797	126210797	+	Missense_Mutation	SNP	G	G	A	rs35223550	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56.0	32.0	62.0	0.0	0.571429	0	G|0.996;A|0.004	0.004	strong	.	NCOA7	92	.	NM_001199619	exon10	c.G1597A	p.G533R	AAAGAAGGGCCAC	.	PASS	Atlas-SNP
TTC37	9652	hgsc.bcm.edu	37	5	94834122	94834122	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	258.0	146.0	250.0	0.0	0.565891	0	.	.	none	.	TTC37	128	.	NM_014639	exon33	c.A3515G	p.Q1172R	CGGCCTTGGAGTG	.	PASS	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45214661	45214661	+	Silent	SNP	G	G	A	rs111322439		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40.0	5.0	19.0	1.0	0.125	0.0526316	G|0.500;A|0.500	0.500	weak	CDC27_ENST00000531206,rectum,carcinoma,0,4	CDC27	337	4	NM_001114091	exon14	c.C1788T	p.F596F	TCTCTGGAAGAAT	.	scavenged	Atlas-SNP
MLH1	4292	hgsc.bcm.edu	37	3	37053568	37053568	+	Missense_Mutation	SNP	A	A	G	rs1799977	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93.0	55.0	99.0	0.0	0.591398	0	A|0.799;G|0.201	0.201	strong	MLH1,NS,carcinoma,0,1	MLH1	226	1	NM_000249	exon8	c.A655G	p.I219V	CGCTCCATCTTTG	.	PASS	Atlas-SNP
CD300LB	124599	hgsc.bcm.edu	37	17	72521967	72521967	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210.0	35.0	215.0	0.0	0.166667	0	.	.	none	.	CD300LB	38	.	NM_174892	exon2	c.A401G	p.D134G	GCGTCATCTCGCC	.	PASS	Atlas-SNP
MGA	23269	hgsc.bcm.edu	37	15	41989091	41989091	+	Missense_Mutation	SNP	C	C	A	rs61736074	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134.0	75.0	100.0	0.0	0.559702	0	C|0.987;A|0.013	0.013	strong	.	MGA	264	.	NM_001080541	exon3	c.C1883A	p.P628Q	GACGACCACCTAA	.	PASS	Atlas-SNP
MAGEC1	9947	hgsc.bcm.edu	37	X	140993885	140993885	+	Missense_Mutation	SNP	C	C	T	rs74847167	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	327.0	215.0	822.0	2.0	0.657492	0.00243309	C|0.989;T|0.011	0.011	strong	.	MAGEC1	317	.	NM_005462	exon4	c.C695T	p.P232L	AGTCTCCTCTCCA	.	PASS	Atlas-SNP
ANO9	338440	hgsc.bcm.edu	37	11	421036	421036	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84.0	43.0	70.0	0.0	0.511905	0	.	.	none	.	ANO9	61	.	NM_001012302	exon17	c.G1399A	p.A467T	CGCTGGCGTGGCA	.	PASS	Atlas-SNP
CYP2A6	1548	hgsc.bcm.edu	37	19	41351211	41351211	+	Silent	SNP	G	G	A	rs150586234	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	235.0	18.0	213.0	0.0	0.0765957	0	G|0.998;A|0.002	0.002	strong	.	CYP2A6	69	.	NM_000762	exon7	c.C1149T	p.F383F	GAGGAAGAAATCC	.	PASS	Atlas-SNP
SHC1	6464	hgsc.bcm.edu	37	1	154938076	154938076	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	288.0	37.0	239.0	0.0	0.128472	0	.	.	none	.	SHC1	91	.	NM_001130040	exon11	c.C1569T	p.L523L	GCCAGTGAGCACA	.	PASS	Atlas-SNP
SLC24A1	9187	hgsc.bcm.edu	37	15	65917220	65917220	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188.0	25.0	156.0	0.0	0.132979	0	.	.	none	.	SLC24A1	58	.	NM_004727	exon2	c.G802T	p.V268F	GCAAACGTCTTGA	.	PASS	Atlas-SNP
PLEKHG2	64857	hgsc.bcm.edu	37	19	39914225	39914225	+	Missense_Mutation	SNP	G	G	C	rs201914405	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	43.0	23.0	78.0	0.0	0.534884	0	.	.	weak	PLEKHG2_ENST00000458508,colon,carcinoma,0,3	PLEKHG2	329	3	NM_022835	exon18	c.G2531C	p.R844P	CCCCGCGCCGCCG	.	PASS	Atlas-SNP
PPP1R14D	54866	hgsc.bcm.edu	37	15	41120675	41120675	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149.0	69.0	143.0	0.0	0.463087	0	.	.	none	.	PPP1R14D	8	.	NM_017726	exon1	c.C165G	p.S55R	CAGGCGGCTGGGT	.	PASS	Atlas-SNP
HKDC1	80201	hgsc.bcm.edu	37	10	71026433	71026433	+	Missense_Mutation	SNP	T	T	C	rs148418934	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128.0	63.0	113.0	0.0	0.492188	0	T|0.998;C|0.002	0.002	strong	.	HKDC1	98	.	NM_025130	exon18	c.T2674C	p.S892P	ATGCTGTCAGAAG	.	PASS	Atlas-SNP
GIGYF1	64599	hgsc.bcm.edu	37	7	100279988	100279988	+	Silent	SNP	G	G	A	rs117477530	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64.0	28.0	65.0	0.0	0.4375	0	G|0.998;A|0.002	0.002	strong	.	GIGYF1	113	.	NM_022574	exon21	c.C2718T	p.C906C	CTGCTCGCACCAC	.	PASS	Atlas-SNP
MFSD12	126321	hgsc.bcm.edu	37	19	3546264	3546264	+	Missense_Mutation	SNP	C	C	T	rs34878396	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56.0	31.0	94.0	0.0	0.553571	0	C|0.996;T|0.004	0.004	strong	.	MFSD12	22	.	NM_001042680	exon7	c.G1183A	p.G395S	GGGGACCGATGAG	.	PASS	Atlas-SNP
KLF2	10365	hgsc.bcm.edu	37	19	16436775	16436775	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39.0	5.0	50.0	0.0	0.128205	0	.	.	none	.	KLF2	10	.	NM_016270	exon2	c.G824A	p.S275N	CCTGCAGCTACGC	.	PASS	Atlas-SNP
RHBDL3	162494	hgsc.bcm.edu	37	17	30615883	30615883	+	Silent	SNP	C	C	T	rs150485822	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	232.0	110.0	210.0	0.0	0.474138	0	C|1.000;T|0.000	0.000	strong	.	RHBDL3	49	.	NM_138328	exon4	c.C367T	p.L123L	AAGGCCCTGCTGG	.	PASS	Atlas-SNP
OR5H1	26341	hgsc.bcm.edu	37	3	97852291	97852291	+	Silent	SNP	A	A	G	rs112819024	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	346.0	165.0	302.0	0.0	0.476879	0	A|0.993;G|0.007	0.007	strong	OR5H1,NS,carcinoma,+2,1	OR5H1	71	1	NM_001005338	exon1	c.A750G	p.L250L	CTCTTTATACTAT	.	PASS	Atlas-SNP
SH3BP1	23616	hgsc.bcm.edu	37	22	38051493	38051493	+	Silent	SNP	G	G	T	rs117382629	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58.0	33.0	58.0	0.0	0.568965	0	G|0.987;T|0.013	0.013	strong	.	SH3BP1	41	.	NM_018957	exon18	c.G1908T	p.R636R	AAGCCGGCGTTCA	.	PASS	Atlas-SNP
GRHPR	9380	hgsc.bcm.edu	37	9	37436755	37436755	+	Silent	SNP	G	G	A	rs76299266	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91.0	37.0	80.0	0.0	0.406593	0	G|0.992;A|0.008	0.008	strong	.	GRHPR	35	.	NM_012203	exon9	c.G963A	p.P321P	GGAGCCGATGCCT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179582738	179582738	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152.0	80.0	120.0	0.0	0.526316	0	.	.	none	.	TTN	18412	.	NM_001267550	exon86	c.G24995A	p.G8332E	TACTCTCCCACAT	.	PASS	Atlas-SNP
PLEK	5341	hgsc.bcm.edu	37	2	68607984	68607984	+	Missense_Mutation	SNP	G	G	T	rs147263237	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77.0	24.0	94.0	0.0	0.311688	0	G|1.000;T|0.000	0.000	weak	PLEK,NS,carcinoma,0,2	PLEK	64	2	NM_002664	exon3	c.G328T	p.A110S	AAATTTGCCAGGA	.	PASS	Atlas-SNP
AGO1	26523	hgsc.bcm.edu	37	1	36367665	36367665	+	Silent	SNP	C	C	T	rs61751003	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118.0	75.0	110.0	0.0	0.635593	0	C|0.998;T|0.002	0.002	strong	.	.	.	.	NM_012199	exon10	c.C1257T	p.G419G	GTACGGCGGCCGG	.	PASS	Atlas-SNP
ZNF529	57711	hgsc.bcm.edu	37	19	37038584	37038584	+	Silent	SNP	T	T	C	rs183728423	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182.0	86.0	162.0	0.0	0.472527	0	T|0.998;C|0.002	0.002	strong	.	ZNF529	82	.	NM_001145649	exon6	c.A876G	p.R292R	ATGCACTCTAAAG	.	PASS	Atlas-SNP
FGFR2	2263	hgsc.bcm.edu	37	10	123239112	123239112	+	Silent	SNP	G	G	A	rs1047057	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90.0	47.0	86.0	0.0	0.522222	0	G|0.609;A|0.391	0.391	strong	FGFR2_ENST00000357555,NS,carcinoma,0,1	FGFR2	758	1	NM_001144915	exon17	c.C2107T	p.L703L	CAGCCAGTACGCA	.	PASS	Atlas-SNP
UBE2O	63893	hgsc.bcm.edu	37	17	74387455	74387455	+	Missense_Mutation	SNP	C	C	T	rs34070229	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107.0	48.0	69.0	0.0	0.448598	0	C|0.991;T|0.009	0.009	strong	.	UBE2O	207	.	NM_022066	exon18	c.G3448A	p.A1150T	GCAGGGCATGGGT	.	PASS	Atlas-SNP
ITM2C	81618	hgsc.bcm.edu	37	2	231742138	231742138	+	Silent	SNP	G	G	A	rs34910213	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181.0	84.0	164.0	0.0	0.464088	0	G|0.988;A|0.012	0.012	strong	.	ITM2C	17	.	NM_030926	exon5	c.G585A	p.T195T	GCAGACGTACATC	.	PASS	Atlas-SNP
CYLD	1540	hgsc.bcm.edu	37	16	50810149	50810149	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104.0	13.0	97.0	0.0	0.125	0	.	.	none	.	CYLD	150	.	NM_015247	exon8	c.G982A	p.D328N	GTTGGGGACAAAG	.	PASS	Atlas-SNP
PCDHGA8	9708	hgsc.bcm.edu	37	5	140774505	140774505	+	Missense_Mutation	SNP	G	G	T	rs367656720		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130.0	89.0	141.0	0.0	0.684615	0	.	.	weak	.	PCDHGA8	146	.	NM_014004	exon1	c.G2125T	p.A709S	TTTGTCGCTGTGC	.	PASS	Atlas-SNP
RAI1	10743	hgsc.bcm.edu	37	17	17698023	17698023	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50.0	25.0	70.0	0.0	0.5	0	.	.	none	.	RAI1	121	.	NM_030665	exon3	c.C1761T	p.F587F	CAAGTTCGTGGCG	.	PASS	Atlas-SNP
CLCNKB	1188	hgsc.bcm.edu	37	1	16382243	16382243	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135.0	54.0	170.0	0.0	0.4	0	.	.	none	.	CLCNKB	50	.	NM_000085	exon18	c.C1919A	p.S640Y	AGACTTCCCTGCA	.	PASS	Atlas-SNP
SFTPB	6439	hgsc.bcm.edu	37	2	85893842	85893842	+	Silent	SNP	C	C	T	rs34682912	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83.0	38.0	77.0	0.0	0.457831	0	C|0.997;T|0.003	0.003	strong	.	SFTPB	49	.	NM_198843	exon5	c.G327A	p.E109E	CTCCTGCTCCAGG	.	PASS	Atlas-SNP
AGTPBP1	23287	hgsc.bcm.edu	37	9	88248239	88248239	+	Silent	SNP	T	T	C	rs144890878	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133.0	57.0	154.0	0.0	0.428571	0	T|0.994;C|0.006	0.006	strong	.	AGTPBP1	128	.	NM_015239	exon14	c.A1233G	p.K411K	ACGTACTTTTCCC	.	PASS	Atlas-SNP
SLITRK4	139065	hgsc.bcm.edu	37	X	142718181	142718181	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94.0	93.0	214.0	0.0	0.989362	0	.	.	none	.	SLITRK4	162	.	NM_001184750	exon2	c.A744G	p.L248L	TCCATATAAGTCA	.	PASS	Atlas-SNP
NLGN2	57555	hgsc.bcm.edu	37	17	7319124	7319124	+	Silent	SNP	C	C	T	rs145633225	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85.0	49.0	60.0	0.0	0.576471	0	C|0.999;T|0.001	0.001	strong	.	NLGN2	61	.	NM_020795	exon6	c.C1332T	p.G444G	CAATGGCGAAATG	.	PASS	Atlas-SNP
SOS2	6655	hgsc.bcm.edu	37	14	50626657	50626657	+	Silent	SNP	C	C	T	rs35530861	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	281.0	140.0	272.0	0.0	0.498221	0	C|0.997;T|0.003	0.003	strong	.	SOS2	195	.	NM_006939	exon10	c.G1344A	p.L448L	TCTTGTCAATGGT	.	PASS	Atlas-SNP
C2orf78	388960	hgsc.bcm.edu	37	2	74043857	74043857	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127.0	16.0	124.0	1.0	0.125984	0.00806452	.	.	none	C2orf78,striated_muscle,rhabdoid_tumour,0,1	C2orf78	150	1	NM_001080474	exon3	c.G2507A	p.R836Q	GTCTCCGGTCACT	.	scavenged	Atlas-SNP
UNC13D	201294	hgsc.bcm.edu	37	17	73838639	73838639	+	Silent	SNP	C	C	T	rs373551579		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95.0	43.0	84.0	0.0	0.452632	0	.	.	weak	.	UNC13D	68	.	NM_199242	exon6	c.G444A	p.G148G	GCTGCCCCCTGGC	.	PASS	Atlas-SNP
AXIN2	8313	hgsc.bcm.edu	37	17	63532528	63532528	+	Missense_Mutation	SNP	G	G	A	rs138287857	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124.0	68.0	146.0	0.0	0.548387	0	G|0.998;A|0.002	0.002	strong	.	AXIN2	92	.	NM_004655	exon8	c.C2051T	p.A684V	GGCATCGCAGGGT	.	PASS	Atlas-SNP
LAMA3	3909	hgsc.bcm.edu	37	18	21496533	21496533	+	Silent	SNP	C	C	T	rs61751706	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66.0	33.0	103.0	0.0	0.5	0	C|0.995;T|0.005	0.005	strong	.	LAMA3	397	.	NM_198129	exon60	c.C7797T	p.D2599D	GTCAGACAAAAAT	.	PASS	Atlas-SNP
PDE4C	5143	hgsc.bcm.edu	37	19	18333062	18333062	+	Missense_Mutation	SNP	C	C	T	rs146818532	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93.0	46.0	79.0	0.0	0.494624	0	C|0.999;T|0.001	0.001	strong	.	PDE4C	80	.	NM_000923	exon3	c.G314A	p.R105Q	ATAATCCGGCCCA	.	PASS	Atlas-SNP
ZNF737	100129842	hgsc.bcm.edu	37	19	20736639	20736639	+	Silent	SNP	C	C	T	rs111988999	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71.0	40.0	65.0	0.0	0.56338	0	C|0.940;T|0.060	0.060	strong	.	ZNF737	50	.	NM_001159293	exon2	c.G6A	p.G2G	CAATGGCCCCTGA	.	PASS	Atlas-SNP
TRIM65	201292	hgsc.bcm.edu	37	17	73887089	73887089	+	Missense_Mutation	SNP	C	C	T	rs61754864	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55.0	28.0	56.0	0.0	0.509091	0	C|0.997;T|0.003	0.003	strong	.	TRIM65	23	.	NM_173547	exon6	c.G1325A	p.R442H	GGGAGGCGCTGGG	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124298380	124298380	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89.0	41.0	80.0	0.0	0.460674	0	.	.	none	.	DNAH10	888	.	NM_207437	exon20	c.G3347A	p.R1116K	AAATTAGAAGTAA	.	PASS	Atlas-SNP
SH3BP2	6452	hgsc.bcm.edu	37	4	2828969	2828969	+	Silent	SNP	G	G	A	rs145235325	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58.0	30.0	55.0	0.0	0.517241	0	G|0.999;A|0.001	0.001	strong	.	SH3BP2	43	.	NM_001145856	exon6	c.G612A	p.S204S	CAGCTCGGACACA	.	PASS	Atlas-SNP
SHISA9	729993	hgsc.bcm.edu	37	16	13297348	13297348	+	Silent	SNP	C	C	T	rs12444395	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70.0	31.0	63.0	0.0	0.442857	0	C|0.980;T|0.020	0.020	strong	.	SHISA9	33	.	NM_001145204	exon3	c.C789T	p.P263P	CAACCCCTATGAA	.	PASS	Atlas-SNP
PCDHAC1	56135	hgsc.bcm.edu	37	5	140307485	140307485	+	Silent	SNP	T	T	C	rs147219331	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194.0	61.0	185.0	0.0	0.314433	0	T|0.999;C|0.001	0.001	strong	.	PCDHAC1	141	.	NM_031882	exon1	c.T1008C	p.H336H	CGATCATGCCCCC	.	PASS	Atlas-SNP
OR2V1	26693	hgsc.bcm.edu	37	5	180551660	180551660	+	Silent	SNP	G	G	T	rs141508488	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98.0	59.0	105.0	0.0	0.602041	0	G|0.994;T|0.006	0.006	strong	.	OR2V1	20	.	NM_001258283	exon1	c.C645A	p.I215I	GGCCATGATGATG	.	PASS	Atlas-SNP
MAP7D1	55700	hgsc.bcm.edu	37	1	36636774	36636774	+	Silent	SNP	G	G	A	rs139650826	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100.0	74.0	112.0	0.0	0.74	0	G|0.992;A|0.008	0.008	strong	.	MAP7D1	62	.	NM_018067	exon2	c.G249A	p.Q83Q	CCCGCAGGAAGAG	.	PASS	Atlas-SNP
SMARCC2	6601	hgsc.bcm.edu	37	12	56558483	56558483	+	Missense_Mutation	SNP	G	G	A	rs76701112	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102.0	42.0	101.0	0.0	0.411765	0	G|0.995;A|0.005	0.005	strong	SMARCC2_ENST00000267064,NS,carcinoma,+1,2	SMARCC2	212	2	NM_139067	exon28	c.C3265T	p.P1089S	TTGAGGGAGGAGT	.	PASS	Atlas-SNP
SYTL2	54843	hgsc.bcm.edu	37	11	85435805	85435805	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155.0	74.0	131.0	0.0	0.477419	0	.	.	none	.	SYTL2	231	.	NM_206927	exon1	c.A1695G	p.T565T	CTCCTCTGTACTA	.	PASS	Atlas-SNP
GOLGB1	2804	hgsc.bcm.edu	37	3	121413239	121413239	+	Missense_Mutation	SNP	T	T	G	rs75383249	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105.0	54.0	130.0	0.0	0.514286	0	T|0.997;G|0.003	0.003	strong	.	GOLGB1	319	.	NM_001256486	exon13	c.A6131C	p.E2044A	GTTCTCTCCAGAG	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32549582	32549582	+	Missense_Mutation	SNP	G	G	T	rs200516145	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	375.0	37.0	188.0	0.0	0.0986667	0	.	.	weak	.	HLA-DRB1	41	.	NM_002124	exon3	c.C404A	p.T135N	GGCTGGGTCTTTG	.	PASS	Atlas-SNP
ALK	238	hgsc.bcm.edu	37	2	29543663	29543663	+	Silent	SNP	T	T	C	rs2293564	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187.0	187.0	210.0	1.0	1	0.0047619	T|0.203;C|0.797	0.797	strong	.	ALK	533	.	NM_004304	exon7	c.A1500G	p.Q500Q	CTGCCATTGAGGA	.	PASS	Atlas-SNP
ERBB2	2064	hgsc.bcm.edu	37	17	37879588	37879588	+	Missense_Mutation	SNP	A	A	G	rs1136201	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	238.0	93.0	249.0	0.0	0.390756	0	A|0.845;G|0.155;N|0.000;T|0.000	0.155	strong	.	ERBB2	429	.	NM_004448	exon17	c.A1963G	p.I655V	TCCATCATCTCTG	.	PASS	Atlas-SNP
ITGA9	3680	hgsc.bcm.edu	37	3	37860417	37860417	+	Silent	SNP	C	C	T	rs142961075	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144.0	82.0	148.0	0.0	0.569444	0	C|0.999;T|0.001	0.001	strong	.	ITGA9	98	.	NM_002207	exon28	c.C3045T	p.I1015I	AATTATCGAAGCT	.	PASS	Atlas-SNP
ZSCAN1	284312	hgsc.bcm.edu	37	19	58564863	58564863	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63.0	10.0	71.0	0.0	0.15873	0	.	.	none	.	ZSCAN1	102	.	NM_182572	exon6	c.C671T	p.P224L	CAGGGCCCTCCTC	.	PASS	Atlas-SNP
FCAMR	83953	hgsc.bcm.edu	37	1	207140447	207140447	+	Missense_Mutation	SNP	C	C	T	rs199884709	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119.0	42.0	91.0	0.0	0.352941	0	C|0.999;T|0.001	0.001	strong	.	FCAMR	125	.	NM_001170631	exon3	c.G119A	p.R40K	GCCCTCCTGCTGG	.	PASS	Atlas-SNP
MS4A4A	51338	hgsc.bcm.edu	37	11	60073626	60073626	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	377.0	179.0	408.0	1.0	0.474801	0.00245098	.	.	none	.	MS4A4A	76	.	NM_148975	exon6	c.G600A	p.V200V	TGCTGTGTCCCTC	.	PASS	Atlas-SNP
FAM209B	388799	hgsc.bcm.edu	37	20	55108507	55108507	+	Missense_Mutation	SNP	C	C	A	rs200150839		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181.0	26.0	293.0	0.0	0.143646	0	.	.	weak	.	.	.	.	NM_001013646	exon1	c.C110A	p.P37Q	AGGTGCCGTGTGG	.	PASS	Atlas-SNP
ATG2B	55102	hgsc.bcm.edu	37	14	96800027	96800027	+	Missense_Mutation	SNP	C	C	T	rs183527316	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95.0	46.0	106.0	0.0	0.484211	0	C|0.998;T|0.002	0.002	strong	.	ATG2B	169	.	NM_018036	exon8	c.G1205A	p.R402H	TTACCACGGCTAG	.	PASS	Atlas-SNP
PRRC2A	7916	hgsc.bcm.edu	37	6	31605016	31605016	+	Missense_Mutation	SNP	T	T	C	rs35595439	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100.0	52.0	104.0	0.0	0.52	0	T|0.993;C|0.007	0.007	strong	.	PRRC2A	152	.	NM_004638	exon30	c.T6248C	p.F2083S	GGTCCTTCTCTGG	.	PASS	Atlas-SNP
NDRG1	10397	hgsc.bcm.edu	37	8	134296524	134296524	+	Missense_Mutation	SNP	C	C	T	rs145871479	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213.0	117.0	201.0	0.0	0.549296	0	C|0.999;T|0.001	0.001	strong	.	NDRG1	40	.	NM_006096	exon2	c.G31A	p.A11T	CCTCAGCGAGGTC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508060	195508060	+	Missense_Mutation	SNP	G	G	A	rs200799263		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	296.0	21.0	101.0	0.0	0.0709459	0	.	.	weak	.	MUC4	1505	.	NM_018406	exon2	c.C10391T	p.S3464L	GATGCTGAGGAAG	.	PASS	Atlas-SNP
CYP2C9	1559	hgsc.bcm.edu	37	10	96740981	96740981	+	Missense_Mutation	SNP	C	C	T	rs28371685	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199.0	107.0	158.0	1.0	0.537688	0.00632911	C|0.986;T|0.014	0.014	strong	CYP2C9,NS,carcinoma,-1,1	CYP2C9	82	1	NM_000771	exon7	c.C1003T	p.R335W	AGAAACCGGAGCC	.	scavenged	Atlas-SNP
WNT10A	80326	hgsc.bcm.edu	37	2	219754822	219754822	+	Missense_Mutation	SNP	G	G	A	rs77583146	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83.0	44.0	64.0	0.0	0.53012	0	G|0.993;A|0.007	0.007	strong	.	WNT10A	35	.	NM_025216	exon3	c.G493A	p.G165R	CGGCGAGGGGACG	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1258387	1258387	+	Missense_Mutation	SNP	G	G	A	rs202160055		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	24.0	3.0	39.0	0.0	0.125	0	.	.	weak	MUC5B,NS,carcinoma,+1,4	MUC5B	473	4	NM_002458	exon25	c.G3290A	p.R1097H	CCTGCCGCTCCCA	.	scavenged	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	37	6	152730807	152730807	+	Missense_Mutation	SNP	C	C	G	rs374482089		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85.0	43.0	83.0	0.0	0.505882	0	.	.	weak	.	SYNE1	3227	.	NM_033071	exon43	c.G6289C	p.E2097Q	GATATTCTCTCAT	.	PASS	Atlas-SNP
FST	10468	hgsc.bcm.edu	37	5	52781029	52781029	+	Silent	SNP	G	G	A	rs11746136	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57.0	27.0	52.0	0.0	0.473684	0	G|0.983;A|0.017	0.017	strong	.	FST	42	.	NM_013409	exon5	c.G924A	p.L308L	GCTACTGGAAGTA	.	PASS	Atlas-SNP
TRAF6	7189	hgsc.bcm.edu	37	11	36518764	36518764	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42.0	19.0	68.0	0.0	0.452381	0	.	.	none	.	TRAF6	56	.	NM_004620	exon4	c.G500A	p.R167H	AAGGGACGCTGGC	.	PASS	Atlas-SNP
MARCH7	64844	hgsc.bcm.edu	37	2	160604781	160604781	+	Missense_Mutation	SNP	G	G	A	rs142330597	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97.0	41.0	77.0	0.0	0.42268	0	G|0.999;A|0.001	0.001	strong	MARCH7,NS,carcinoma,+1,1	MARCH7	48	1	NM_022826	exon5	c.G980A	p.R327H	AGTCCCGTAGTAA	.	PASS	Atlas-SNP
EDEM1	9695	hgsc.bcm.edu	37	3	5229643	5229643	+	Silent	SNP	C	C	T	rs144177905	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	21.0	15.0	39.0	0.0	0.714286	0	C|0.985;T|0.015	0.015	strong	.	EDEM1	45	.	NM_014674	exon1	c.C153T	p.G51G	CGACGGCCCCGCG	.	PASS	Atlas-SNP
CCDC174	51244	hgsc.bcm.edu	37	3	14712433	14712433	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206.0	91.0	165.0	0.0	0.441748	0	.	.	none	.	.	.	.	NM_016474	exon11	c.A1136G	p.Q379R	AGAGGCAGTCAGA	.	PASS	Atlas-SNP
CDAN1	146059	hgsc.bcm.edu	37	15	43022868	43022868	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186.0	10.0	179.0	0.0	0.0537634	0	.	.	none	.	CDAN1	70	.	NM_138477	exon14	c.C2102T	p.S701F	GCAAAGGAGAGAA	.	PASS	Atlas-SNP
SALL3	27164	hgsc.bcm.edu	37	18	76757145	76757145	+	Silent	SNP	C	C	T	rs148335210	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86.0	4.0	76.0	0.0	0.0465116	0	C|0.999;T|0.001	0.001	strong	SALL3,NS,malignant_melanoma,+2,1	SALL3	162	1	NM_171999	exon3	c.C3726T	p.P1242P	GCTCCCCGTGAGT	.	PASS	Atlas-SNP
SCNN1A	6337	hgsc.bcm.edu	37	12	6472753	6472753	+	Silent	SNP	C	C	A	rs55859427	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	17.0	11.0	26.0	0.0	0.647059	0	C|0.985;A|0.015	0.015	strong	.	SCNN1A	54	.	NM_001159576	exon2	c.G717T	p.L239L	CCCCCGCAGGTCG	.	PASS	Atlas-SNP
ADAMTS2	9509	hgsc.bcm.edu	37	5	178564906	178564906	+	Silent	SNP	G	G	A	rs369654932		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77.0	24.0	132.0	0.0	0.311688	0	.	.	weak	ADAMTS2,colon,carcinoma,0,1	ADAMTS2	190	1	NM_014244	exon12	c.C1815T	p.Y605Y	GAAGTCGTAGGCA	.	PASS	Atlas-SNP
CHN2	1124	hgsc.bcm.edu	37	7	29539639	29539639	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67.0	9.0	110.0	0.0	0.134328	0	.	.	none	.	CHN2	98	.	NM_004067	exon9	c.G896A	p.R299Q	GCATTCGGGAAAT	.	PASS	Atlas-SNP
NT5C	30833	hgsc.bcm.edu	37	17	73127348	73127348	+	Missense_Mutation	SNP	G	G	A	rs11541956	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	231.0	113.0	264.0	0.0	0.489177	0	G|0.983;A|0.017	0.017	strong	.	NT5C	3	.	NM_001252377	exon2	c.C203T	p.P68L	AAGCCCGGGGCTT	.	PASS	Atlas-SNP
DOM3Z	1797	hgsc.bcm.edu	37	6	31939319	31939319	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118.0	35.0	90.0	0.0	0.29661	0	.	.	none	.	DOM3Z	20	.	NM_005510	exon2	c.G134A	p.R45H	GAAGGGCGCCGGT	.	PASS	Atlas-SNP
SREBF1	6720	hgsc.bcm.edu	37	17	17723595	17723595	+	Missense_Mutation	SNP	G	G	A	rs115855236	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96.0	50.0	81.0	0.0	0.520833	0	G|0.999;A|0.001	0.001	strong	.	SREBF1	47	.	NM_001005291	exon3	c.C422T	p.P141L	ATGGACGGGTACA	.	PASS	Atlas-SNP
RAD51B	5890	hgsc.bcm.edu	37	14	68353893	68353893	+	Missense_Mutation	SNP	A	A	G	rs34594234	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152.0	67.0	110.0	0.0	0.440789	0	A|0.992;G|0.008	0.008	strong	.	RAD51B	80	.	NM_133509	exon7	c.A728G	p.K243R	CCTTGAAGTATTT	.	PASS	Atlas-SNP
MPPED2	744	hgsc.bcm.edu	37	11	30433028	30433028	+	Missense_Mutation	SNP	G	G	A	rs146268212		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101.0	46.0	121.0	0.0	0.455446	0	G|1.000;A|0.000	0.000	weak	.	MPPED2	106	.	NM_001584	exon6	c.C872T	p.P291L	CCCTGTGGGTTTG	.	PASS	Atlas-SNP
ACOX2	8309	hgsc.bcm.edu	37	3	58517520	58517520	+	Silent	SNP	A	A	G	rs57216393	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64.0	29.0	70.0	0.0	0.453125	0	A|0.923;G|0.077	0.077	strong	.	ACOX2	53	.	NM_003500	exon6	c.T603C	p.H201H	CAGGGCATGGGTG	.	PASS	Atlas-SNP
DERA	51071	hgsc.bcm.edu	37	12	16189279	16189279	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77.0	33.0	88.0	0.0	0.428571	0	.	.	none	.	DERA	20	.	NM_015954	exon8	c.A864G	p.I288M	TCGAATAGGTGCC	.	PASS	Atlas-SNP
ARHGAP42	143872	hgsc.bcm.edu	37	11	100803982	100803982	+	Silent	SNP	C	C	T	rs79213484	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132.0	75.0	109.0	0.0	0.568182	0	C|0.983;T|0.017	0.017	strong	.	ARHGAP42	32	.	NM_152432	exon7	c.C693T	p.N231N	GTTCAACTTGCAG	.	PASS	Atlas-SNP
MAP1A	4130	hgsc.bcm.edu	37	15	43818959	43818959	+	Missense_Mutation	SNP	C	C	G	rs375898111		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106.0	46.0	87.0	0.0	0.433962	0	.	.	weak	.	MAP1A	189	.	NM_002373	exon4	c.C5288G	p.P1763R	CCTCACCACAGAA	.	PASS	Atlas-SNP
NOL6	65083	hgsc.bcm.edu	37	9	33467397	33467397	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165.0	30.0	153.0	0.0	0.181818	0	.	.	none	.	NOL6	85	.	NM_022917	exon13	c.C1720T	p.P574S	CCTCAGGCTGGTC	.	PASS	Atlas-SNP
SPAG5	10615	hgsc.bcm.edu	37	17	26919344	26919344	+	Silent	SNP	T	T	C	rs113667723	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124.0	64.0	103.0	0.0	0.516129	0	T|0.992;C|0.008	0.008	strong	.	SPAG5	92	.	NM_006461	exon3	c.A918G	p.T306T	CAGGCATGTGGAC	.	PASS	Atlas-SNP
DYRK2	8445	hgsc.bcm.edu	37	12	68043643	68043643	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52.0	34.0	65.0	0.0	0.653846	0	.	.	none	.	DYRK2	63	.	NM_006482	exon2	c.G116A	p.R39Q	CCACCCGGAGCGG	.	PASS	Atlas-SNP
SPATC1L	84221	hgsc.bcm.edu	37	21	47581869	47581869	+	Silent	SNP	G	G	A	rs139199473	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30.0	16.0	62.0	0.0	0.533333	0	G|1.000;A|0.000	0.000	strong	.	.	.	.	NM_001142854	exon4	c.C657T	p.Y219Y	GAAGCCGTAGAGC	.	PASS	Atlas-SNP
ZCCHC7	84186	hgsc.bcm.edu	37	9	37304232	37304232	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107.0	25.0	128.0	0.0	0.233645	0	.	.	none	.	ZCCHC7	56	.	NM_032226	exon4	c.C702T	p.Y234Y	GCGGTACTATTCA	.	PASS	Atlas-SNP
OR5B12	390191	hgsc.bcm.edu	37	11	58207494	58207494	+	Missense_Mutation	SNP	A	A	G	rs140525146	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109.0	60.0	108.0	0.0	0.550459	0	A|0.995;G|0.005	0.005	strong	.	OR5B12	80	.	NM_001004733	exon1	c.T131C	p.I44T	AATTCAATCATCC	.	PASS	Atlas-SNP
PLXND1	23129	hgsc.bcm.edu	37	3	129297255	129297255	+	Missense_Mutation	SNP	T	T	C	rs112755880	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133.0	64.0	125.0	0.0	0.481203	0	T|0.997;C|0.003	0.003	strong	.	PLXND1	149	.	NM_015103	exon9	c.A2263G	p.T755A	GCAGGGTCCGGGG	.	PASS	Atlas-SNP
SERPING1	710	hgsc.bcm.edu	37	11	57373646	57373646	+	Silent	SNP	C	C	T	rs143760635	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	239.0	124.0	219.0	1.0	0.518828	0.00456621	C|0.999;T|0.001	0.001	strong	SERPING1,NS,carcinoma,0,1	SERPING1	57	1	NM_001032295	exon4	c.C849T	p.S283S	GCCCTCCGATACC	.	PASS	Atlas-SNP
TDP2	51567	hgsc.bcm.edu	37	6	24653283	24653283	+	Silent	SNP	T	T	C	rs11559067	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120.0	61.0	80.0	0.0	0.508333	0	T|0.977;C|0.023	0.023	strong	.	TDP2	29	.	NM_016614	exon6	c.A735G	p.L245L	TTTCTTTAAAACC	.	PASS	Atlas-SNP
NOP56	10528	hgsc.bcm.edu	37	20	2636059	2636059	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131.0	19.0	141.0	0.0	0.145038	0	.	.	none	NOP56,NS,carcinoma,-2,1	NOP56	73	1	NM_006392	exon6	c.C658T	p.R220X	GGAAACCGAAGGG	.	PASS	Atlas-SNP
KLHL2	11275	hgsc.bcm.edu	37	4	166239083	166239083	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154.0	19.0	155.0	0.0	0.123377	0	.	.	none	.	KLHL2	42	.	NM_001161521	exon14	c.T1727G	p.V576G	GGACAGTTGTGTC	.	PASS	Atlas-SNP
SOX30	11063	hgsc.bcm.edu	37	5	157078632	157078632	+	Missense_Mutation	SNP	G	G	A	rs13181859	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128.0	89.0	100.0	0.0	0.695312	0	G|0.998;A|0.002	0.002	strong	.	SOX30	67	.	NM_178424	exon1	c.C455T	p.P152L	CCTCGAGGCCCCA	.	PASS	Atlas-SNP
HS6ST1	9394	hgsc.bcm.edu	37	2	129026358	129026358	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	265.0	30.0	239.0	0.0	0.113208	0	.	.	none	.	HS6ST1	31	.	NM_004807	exon2	c.A614G	p.K205R	GACGTCTTCCACG	.	PASS	Atlas-SNP
ADAM15	8751	hgsc.bcm.edu	37	1	155023917	155023917	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	21.0	11.0	25.0	0.0	0.52381	0	.	.	none	.	ADAM15	92	.	NM_003815	exon1	c.C55T	p.P19S	CCTCTGCCTTCCT	.	PASS	Atlas-SNP
SNAPC3	6619	hgsc.bcm.edu	37	9	15459821	15459821	+	Missense_Mutation	SNP	A	A	C	rs3087653	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138.0	44.0	145.0	0.0	0.318841	0	A|0.956;C|0.044	0.044	strong	.	SNAPC3	28	.	NM_001039697	exon9	c.A1193C	p.E398A	TGGGGGAATTCCT	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32549583	32549583	+	Missense_Mutation	SNP	T	T	C	rs17433947	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	372.0	37.0	185.0	0.0	0.0994624	0	.	.	weak	.	HLA-DRB1	41	.	NM_002124	exon3	c.A403G	p.T135A	GCTGGGTCTTTGA	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144859906	144859906	+	Missense_Mutation	SNP	G	G	T	rs182136884	by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	306.0	17.0	251.0	0.0	0.0555556	0	G|1.000;T|0.000	0.000	strong	.	PDE4DIP	817	.	NM_014644	exon38	c.C6178A	p.Q2060K	TGCTCTGCTCCAG	.	PASS	Atlas-SNP
COL4A5	1287	hgsc.bcm.edu	37	X	107867476	107867476	+	Silent	SNP	A	A	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44.0	16.0	110.0	0.0	0.363636	0	.	.	none	.	COL4A5	262	.	NM_000495	exon34	c.A2928T	p.G976G	ACCTGGAGTTTCA	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144859817	144859817	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	402.0	26.0	307.0	0.0	0.0646766	0	.	.	none	.	PDE4DIP	817	.	NM_014644	exon38	c.C6267T	p.S2089S	GTTAATGGAGGAG	.	PASS	Atlas-SNP
ACTR3C	653857	hgsc.bcm.edu	37	7	149981856	149981856	+	Missense_Mutation	SNP	G	G	A	rs117425825	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95.0	40.0	84.0	0.0	0.421053	0	G|0.976;A|0.024	0.024	strong	.	.	.	.	NM_001164459	exon6	c.C550T	p.R184C	GCGGACGCCGCAC	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092971	1092971	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121.0	6.0	114.0	1.0	0.0495868	0.00877193	.	.	none	MUC2_ENST00000441003,NS,carcinoma,0,1	MUC2	614	1	NM_002457	exon30	c.C4790T	p.T1597I	CCCCAACACCCAC	.	scavenged	Atlas-SNP
SPP2	6694	hgsc.bcm.edu	37	2	234959642	234959642	+	Missense_Mutation	SNP	C	C	T	rs34347825	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184.0	91.0	176.0	0.0	0.494565	0	C|0.995;T|0.005	0.005	strong	.	SPP2	35	.	NM_006944	exon2	c.C113T	p.S38F	ATCCATCCTCCTT	.	PASS	Atlas-SNP
ZNF207	7756	hgsc.bcm.edu	37	17	30689985	30689985	+	Missense_Mutation	SNP	A	A	G	rs140641814		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56.0	31.0	74.0	0.0	0.553571	0	A|1.000;G|0.000	0.000	weak	.	ZNF207	32	.	NM_001098507	exon7	c.A652G	p.M218V	CCTCTGATGCCTG	.	PASS	Atlas-SNP
C16orf71	146562	hgsc.bcm.edu	37	16	4790446	4790446	+	Missense_Mutation	SNP	C	C	T	rs35599524	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112.0	55.0	82.0	0.0	0.491071	0	C|0.981;T|0.019	0.019	strong	.	C16orf71	46	.	NM_139170	exon4	c.C569T	p.S190L	CTGCCTCACAAGA	.	PASS	Atlas-SNP
RAB39A	54734	hgsc.bcm.edu	37	11	107833065	107833065	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135.0	66.0	116.0	0.0	0.488889	0	.	.	none	.	.	.	.	NM_017516	exon2	c.A621C	p.E207D	TGAGGAAGCAGTA	.	PASS	Atlas-SNP
MLH1	4292	hgsc.bcm.edu	37	3	37089131	37089131	+	Missense_Mutation	SNP	A	A	C	rs63750449	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134.0	80.0	130.0	0.0	0.597015	0	A|0.995;C|0.005	0.005	strong	MLH1,colon,carcinoma,0,5	MLH1	226	5	NM_000249	exon16	c.A1853C	p.K618T	AGAAGAAGGCTGA	.	PASS	Atlas-SNP
FBXO44	93611	hgsc.bcm.edu	37	1	11718859	11718859	+	Missense_Mutation	SNP	C	C	T	rs150816569	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77.0	54.0	67.0	0.0	0.701299	0	C|0.992;T|0.008	0.008	strong	.	FBXO44	20	.	NM_183412	exon4	c.C430T	p.R144C	CGCGCACGCGCCT	.	PASS	Atlas-SNP
EGF	1950	hgsc.bcm.edu	37	4	110884396	110884396	+	Silent	SNP	A	A	G	rs11568953	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132.0	66.0	148.0	0.0	0.5	0	A|0.990;G|0.010	0.010	strong	.	EGF	113	.	NM_001963	exon9	c.A1380G	p.E460E	CTGGGAATGTGAT	.	PASS	Atlas-SNP
SNAPC4	6621	hgsc.bcm.edu	37	9	139272045	139272045	+	Missense_Mutation	SNP	C	C	A	rs79283598	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71.0	37.0	59.0	0.0	0.521127	0	C|0.976;A|0.024	0.024	strong	.	SNAPC4	82	.	NM_003086	exon21	c.G4234T	p.A1412S	TGTCTGCAAGTTC	.	PASS	Atlas-SNP
STAMBP	10617	hgsc.bcm.edu	37	2	74077556	74077556	+	Silent	SNP	G	G	T	rs77000353	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187.0	185.0	204.0	0.0	0.989305	0	G|0.988;T|0.012	0.012	strong	.	STAMBP	37	.	NM_006463	exon8	c.G921T	p.G307G	TGCTGGGTCTGAT	.	PASS	Atlas-SNP
UBE3B	89910	hgsc.bcm.edu	37	12	109972462	109972462	+	Missense_Mutation	SNP	G	G	A	rs374046452		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174.0	37.0	147.0	0.0	0.212644	0	.	.	weak	.	UBE3B	116	.	NM_130466	exon28	c.G3082A	p.G1028S	CCAGGCGGCCGCC	.	PASS	Atlas-SNP
RALGAPB	57148	hgsc.bcm.edu	37	20	37199443	37199443	+	Silent	SNP	G	G	A	rs139543103	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85.0	49.0	60.0	0.0	0.576471	0	G|0.991;A|0.009	0.009	strong	.	RALGAPB	134	.	NM_020336	exon28	c.G4095A	p.E1365E	GACAGAGATCAGT	.	PASS	Atlas-SNP
SLC4A1	6521	hgsc.bcm.edu	37	17	42327847	42327847	+	Missense_Mutation	SNP	G	G	C	rs377326869	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51.0	26.0	45.0	0.0	0.509804	0	.	.	alt	.	SLC4A1	104	.	NM_000342	exon20	c.C2715G	p.D905E	CACTTCGTCGTAT	.	PASS	Atlas-SNP
TRIM21	6737	hgsc.bcm.edu	37	11	4411471	4411471	+	Missense_Mutation	SNP	G	G	A	rs200488796	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123.0	69.0	99.0	0.0	0.560976	0	G|1.000;A|0.000	0.000	strong	.	TRIM21	45	.	NM_003141	exon2	c.C169T	p.R57C	GAAAGCGCTGCCG	.	PASS	Atlas-SNP
ADAT1	23536	hgsc.bcm.edu	37	16	75642801	75642801	+	Missense_Mutation	SNP	G	G	A	rs77029992	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91.0	48.0	89.0	0.0	0.527473	0	G|0.983;A|0.017	0.017	strong	.	ADAT1	45	.	NM_012091	exon8	c.C1129T	p.R377C	CACTGCGGCTCTG	.	PASS	Atlas-SNP
SOX12	6666	hgsc.bcm.edu	37	20	306733	306733	+	Silent	SNP	G	G	A	rs73071018	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157.0	89.0	147.0	0.0	0.566879	0	G|0.985;A|0.015	0.015	strong	SOX12,NS,lymphoid_neoplasm,0,1	SOX12	8	1	NM_006943	exon1	c.G165A	p.R55R	CGAACGGCGGAAG	.	PASS	Atlas-SNP
ZBBX	79740	hgsc.bcm.edu	37	3	167035332	167035332	+	Missense_Mutation	SNP	T	T	C	rs34465133	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	219.0	78.0	189.0	0.0	0.356164	0	T|0.987;C|0.013	0.013	strong	.	ZBBX	299	.	NM_024687	exon13	c.A1037G	p.H346R	GTTTCATGTGGAT	.	PASS	Atlas-SNP
PARP14	54625	hgsc.bcm.edu	37	3	122419210	122419210	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72.0	16.0	74.0	0.0	0.222222	0	.	.	none	.	PARP14	242	.	NM_017554	exon6	c.T1809C	p.V603V	TGAAGTTGAGAAC	.	PASS	Atlas-SNP
ATXN1L	342371	hgsc.bcm.edu	37	16	71884430	71884430	+	Missense_Mutation	SNP	C	C	G	rs199599582	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107.0	43.0	99.0	0.0	0.401869	0	.	.	weak	.	ATXN1L	18	.	NM_001137675	exon3	c.C787G	p.L263V	TCTGCTCTGGAAG	.	PASS	Atlas-SNP
KLF3	51274	hgsc.bcm.edu	37	4	38696385	38696385	+	Silent	SNP	C	C	T	rs142916199	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126.0	67.0	109.0	0.0	0.531746	0	C|0.999;T|0.001	0.001	strong	.	KLF3	40	.	NM_016531	exon5	c.C714T	p.I238I	GGTCATCGTGCAG	.	PASS	Atlas-SNP
MED13	9969	hgsc.bcm.edu	37	17	60038404	60038404	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102.0	52.0	102.0	0.0	0.509804	0	.	.	none	MED13,NS,carcinoma,-1,1	MED13	181	1	NM_005121	exon23	c.A5304G	p.P1768P	CTTCACTGGAGCC	.	PASS	Atlas-SNP
SGSM1	129049	hgsc.bcm.edu	37	22	25251027	25251027	+	Silent	SNP	T	T	C	rs201064977	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	271.0	115.0	249.0	0.0	0.424354	0	T|0.998;C|0.002	0.002	strong	.	SGSM1	150	.	NM_001098497	exon6	c.T520C	p.L174L	TCTTTGTTGGGTA	.	PASS	Atlas-SNP
MYBBP1A	10514	hgsc.bcm.edu	37	17	4458515	4458515	+	Missense_Mutation	SNP	G	G	T	rs117128211	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61.0	34.0	80.0	0.0	0.557377	0	G|0.983;T|0.017	0.017	strong	.	MYBBP1A	69	.	NM_014520	exon1	c.C105A	p.F35L	GTCCAAGAACTCG	.	PASS	Atlas-SNP
PIEZO1	9780	hgsc.bcm.edu	37	16	88793155	88793155	+	Missense_Mutation	SNP	C	C	T	rs185326407	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41.0	18.0	42.0	0.0	0.439024	0	C|0.997;T|0.003	0.003	strong	.	PIEZO1	79	.	NM_001142864	exon25	c.G3667A	p.V1223I	CGGTGACGTTGTA	.	PASS	Atlas-SNP
WNT16	51384	hgsc.bcm.edu	37	7	120972016	120972016	+	Missense_Mutation	SNP	C	C	A	rs74389152	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80.0	40.0	93.0	0.0	0.5	0	C|0.998;A|0.002	0.002	strong	.	WNT16	97	.	NM_057168	exon3	c.C631A	p.Q211K	GGAAGGCAGGTAT	.	PASS	Atlas-SNP
IQCK	124152	hgsc.bcm.edu	37	16	19775403	19775403	+	Missense_Mutation	SNP	A	A	C	rs149444739	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124.0	66.0	157.0	0.0	0.532258	0	A|0.996;C|0.004	0.004	strong	.	IQCK	35	.	NM_153208	exon7	c.A574C	p.I192L	TTCTCCATTCCAT	.	PASS	Atlas-SNP
HYDIN	54768	hgsc.bcm.edu	37	16	71054116	71054116	+	Missense_Mutation	SNP	T	T	C	rs183427172	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63.0	36.0	69.0	0.0	0.571429	0	T|0.998;C|0.002	0.002	strong	.	HYDIN	788	.	NM_001270974	exon22	c.A3291G	p.I1097M	CTCACATATAAAG	.	PASS	Atlas-SNP
ADAM21	8747	hgsc.bcm.edu	37	14	70924432	70924432	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	265.0	14.0	315.0	0.0	0.0528302	0	.	.	none	ADAM21_ENST00000267499,colon,carcinoma,0,2	ADAM21	181	2	NM_003813	exon2	c.C216T	p.H72H	GAAACACGTTGTT	.	scavenged	Atlas-SNP
TMC5	79838	hgsc.bcm.edu	37	16	19481020	19481020	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145.0	28.0	104.0	0.0	0.193103	0	.	.	none	TMC5_ENST00000396229,NS,malignant_melanoma,0,2	TMC5	169	2	NM_001105249	exon10	c.G1655A	p.R552Q	ATTTCCGGAACAA	.	PASS	Atlas-SNP
GSTZ1	2954	hgsc.bcm.edu	37	14	77793237	77793237	+	Missense_Mutation	SNP	G	G	A	rs7972	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66.0	27.0	64.0	0.0	0.409091	0	G|0.949;A|0.051	0.051	strong	.	GSTZ1	35	.	NM_145871	exon3	c.G124A	p.G42R	AAGGATGGGGGCC	.	PASS	Atlas-SNP
APPL1	26060	hgsc.bcm.edu	37	3	57293908	57293908	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137.0	23.0	184.0	0.0	0.167883	0	.	.	none	.	APPL1	59	.	NM_012096	exon17	c.C1519A	p.L507I	CGATTCCTTGGTT	.	PASS	Atlas-SNP
DBF4	10926	hgsc.bcm.edu	37	7	87537188	87537188	+	Missense_Mutation	SNP	A	A	G	rs61747462	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	269.0	130.0	250.0	0.0	0.483271	0	A|0.992;G|0.008	0.008	strong	.	DBF4	67	.	NM_006716	exon12	c.A1735G	p.K579E	AAAGTGAAAATAA	.	PASS	Atlas-SNP
OR6N1	128372	hgsc.bcm.edu	37	1	158736217	158736217	+	Missense_Mutation	SNP	G	G	A	rs857828	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118.0	76.0	84.0	0.0	0.644068	0	G|0.994;A|0.006	0.006	strong	.	OR6N1	96	.	NM_001005185	exon1	c.C256T	p.L86F	CACTGAGCAAGTT	.	PASS	Atlas-SNP
CD44	960	hgsc.bcm.edu	37	11	35211471	35211471	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	239.0	120.0	198.0	0.0	0.502092	0	.	.	none	.	CD44	48	.	NM_001001391	exon5	c.G526A	p.D176N	ACTGATGATGACG	.	PASS	Atlas-SNP
SF3B1	23451	hgsc.bcm.edu	37	2	198270017	198270017	+	Silent	SNP	T	T	C	rs35493573	bycluster;byfrequency;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133.0	77.0	134.0	0.0	0.578947	0	T|0.994;C|0.006	0.006	strong	SF3B1,NS,carcinoma,-2,1	SF3B1	1038	1	NM_012433	exon10	c.A1419G	p.Q473Q	AAAGTATTGAATA	.	PASS	Atlas-SNP
SV2B	9899	hgsc.bcm.edu	37	15	91827271	91827271	+	Missense_Mutation	SNP	A	A	G	rs117361551	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160.0	81.0	104.0	0.0	0.50625	0	A|0.990;G|0.010	0.010	strong	.	SV2B	98	.	NM_014848	exon12	c.A1528G	p.I510V	AAGTTCATCAACT	.	PASS	Atlas-SNP
FAM161A	84140	hgsc.bcm.edu	37	2	62066986	62066986	+	Missense_Mutation	SNP	G	G	C	rs139266382	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	257.0	114.0	276.0	0.0	0.44358	0	G|0.998;C|0.002	0.002	strong	.	FAM161A	200	.	NM_032180	exon3	c.C1153G	p.Q385E	TCAGCTGTGTCCT	.	PASS	Atlas-SNP
ARHGEF11	9826	hgsc.bcm.edu	37	1	156910020	156910020	+	Missense_Mutation	SNP	C	C	T	rs144803270		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168.0	85.0	135.0	0.0	0.505952	0	C|1.000;T|0.000	0.000	weak	.	ARHGEF11	168	.	NM_198236	exon36	c.G3712A	p.A1238T	AGTCAGCGAGCCC	.	PASS	Atlas-SNP
ABL1	25	hgsc.bcm.edu	37	9	133760380	133760380	+	Silent	SNP	C	C	G	rs56017837	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80.0	39.0	80.0	0.0	0.4875	0	.	.	weak	.	ABL1	1632	.	NM_007313	exon11	c.C2760G	p.P920P	GCCGCCCCCACCA	.	PASS	Atlas-SNP
DENND6B	414918	hgsc.bcm.edu	37	22	50753263	50753263	+	Silent	SNP	G	G	A	rs113856947	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186.0	76.0	227.0	0.0	0.408602	0	G|0.994;A|0.006	0.006	strong	.	.	.	.	NM_001001794	exon10	c.C846T	p.P282P	CACGTCGGGCGAG	.	PASS	Atlas-SNP
TSC2	7249	hgsc.bcm.edu	37	16	2136842	2136842	+	Silent	SNP	C	C	T	rs45517384	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85.0	43.0	84.0	0.0	0.505882	0	C|0.992;T|0.008	0.008	strong	.	TSC2	364	.	NM_000548	exon38	c.C4959T	p.S1653S	TGACTCCGGTGAG	.	PASS	Atlas-SNP
MAP3K11	4296	hgsc.bcm.edu	37	11	65367223	65367223	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30.0	4.0	28.0	0.0	0.133333	0	.	.	none	.	MAP3K11	67	.	NM_002419	exon9	c.T1848C	p.P616P	CAGGCTAGGCCGC	.	PASS	Atlas-SNP
KRT74	121391	hgsc.bcm.edu	37	12	52966368	52966368	+	Silent	SNP	C	C	T	rs78832381	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	270.0	116.0	224.0	0.0	0.42963	0	C|0.974;T|0.026	0.026	strong	.	KRT74	67	.	NM_175053	exon2	c.G555A	p.K185K	CAGGTTCTTCTTG	.	PASS	Atlas-SNP
HTRA1	5654	hgsc.bcm.edu	37	10	124268261	124268261	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64.0	11.0	52.0	0.0	0.171875	0	.	.	none	HTRA1,colon,carcinoma,+2,2	HTRA1	40	2	NM_002775	exon6	c.G1095A	p.T365T	CCTCACGGAGTCC	.	PASS	Atlas-SNP
HSDL2	84263	hgsc.bcm.edu	37	9	115167994	115167994	+	Missense_Mutation	SNP	A	A	T	rs41280175	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46.0	32.0	65.0	0.0	0.695652	0	A|0.995;T|0.005	0.005	strong	.	HSDL2	24	.	NM_032303	exon3	c.A272T	p.K91I	TCAAGAAATTTGG	.	PASS	Atlas-SNP
FGF21	26291	hgsc.bcm.edu	37	19	49261218	49261218	+	Missense_Mutation	SNP	G	G	A	rs142980324	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132.0	57.0	153.0	0.0	0.431818	0	G|1.000;A|0.000	0.000	weak	.	FGF21	21	.	NM_019113	exon3	c.G371A	p.R124Q	GCTTCCGGGAGCT	.	PASS	Atlas-SNP
COQ10B	80219	hgsc.bcm.edu	37	2	198334871	198334871	+	Silent	SNP	A	A	C	rs140640160	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	329.0	165.0	308.0	0.0	0.50152	0	A|0.998;C|0.002	0.002	strong	.	COQ10B	18	.	NM_025147	exon4	c.A525C	p.P175P	CTACCCAAGAACT	.	PASS	Atlas-SNP
SCYL1	57410	hgsc.bcm.edu	37	11	65293819	65293819	+	Silent	SNP	G	G	A	rs75169347	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110.0	44.0	119.0	0.0	0.4	0	G|0.968;A|0.032	0.032	strong	.	SCYL1	76	.	NM_020680	exon4	c.G600A	p.K200K	AGAGAAGTGGTGG	.	PASS	Atlas-SNP
CYB5R3	1727	hgsc.bcm.edu	37	22	43032811	43032811	+	Missense_Mutation	SNP	A	A	T	rs370253340		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49.0	14.0	51.0	0.0	0.285714	0	.	.	weak	.	CYB5R3	31	.	NM_001171660	exon2	c.T162A	p.S54R	GAGCAGACTGTAC	.	PASS	Atlas-SNP
CDH6	1004	hgsc.bcm.edu	37	5	31294254	31294254	+	Silent	SNP	C	C	T	rs147617483	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107.0	55.0	88.0	0.0	0.514019	0	C|0.995;T|0.005	0.005	strong	.	CDH6	175	.	NM_004932	exon3	c.C414T	p.P138P	GAGACCCGTGGAG	.	PASS	Atlas-SNP
UGT2B4	7363	hgsc.bcm.edu	37	4	70361334	70361334	+	Silent	SNP	A	A	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143.0	24.0	136.0	0.0	0.167832	0	.	.	none	.	UGT2B4	105	.	NM_021139	exon1	c.T246G	p.T82T	AGTTTTAGTTAAA	.	PASS	Atlas-SNP
MED12	9968	hgsc.bcm.edu	37	X	70354254	70354254	+	Silent	SNP	G	G	A	rs375001801		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92.0	92.0	166.0	0.0	1	0	.	.	weak	.	MED12	984	.	NM_005120	exon34	c.G4665A	p.T1555T	GACCACGGAGTGG	.	PASS	Atlas-SNP
ABCA7	10347	hgsc.bcm.edu	37	19	1062285	1062285	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52.0	10.0	60.0	0.0	0.192308	0	.	.	none	.	ABCA7	174	.	NM_019112	exon42	c.C5685T	p.R1895R	CCTGCGCGGTGTC	.	PASS	Atlas-SNP
ADAR	103	hgsc.bcm.edu	37	1	154560614	154560614	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90.0	39.0	72.0	0.0	0.433333	0	.	.	none	.	ADAR	113	.	NM_001111	exon11	c.C3006T	p.T1002T	CACCTTGGTGCGG	.	PASS	Atlas-SNP
IZUMO1	284359	hgsc.bcm.edu	37	19	49244260	49244260	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94.0	4.0	79.0	0.0	0.0425532	0	.	.	none	.	IZUMO1	30	.	NM_182575	exon10	c.G958A	p.D320N	TGAAATCGATCAC	.	PASS	Atlas-SNP
FAM209B	388799	hgsc.bcm.edu	37	20	55108508	55108508	+	Silent	SNP	G	G	A	rs150517677	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181.0	26.0	294.0	0.0	0.143646	0	G|0.985;A|0.015	0.015	strong	.	.	.	.	NM_001013646	exon1	c.G111A	p.P37P	GGTGCCGTGTGGA	.	PASS	Atlas-SNP
TTC37	9652	hgsc.bcm.edu	37	5	94882781	94882781	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84.0	35.0	103.0	0.0	0.416667	0	.	.	none	.	TTC37	128	.	NM_014639	exon4	c.C74T	p.A25V	TTCAAAGCTTCTT	.	PASS	Atlas-SNP
OR2AK2	391191	hgsc.bcm.edu	37	1	248129304	248129304	+	Missense_Mutation	SNP	T	T	C	rs143777155	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150.0	77.0	179.0	0.0	0.513333	0	T|0.998;C|0.002	0.002	strong	.	OR2AK2	90	.	NM_001004491	exon1	c.T671C	p.L224P	TGCTACTACCATT	.	PASS	Atlas-SNP
BICD1	636	hgsc.bcm.edu	37	12	32458756	32458756	+	Silent	SNP	C	C	T	rs11051922	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52.0	28.0	69.0	0.0	0.538462	0	C|0.988;T|0.012	0.012	strong	.	BICD1	89	.	NM_001714	exon4	c.C705T	p.L235L	AGCCCTCGAGACT	.	PASS	Atlas-SNP
GPR152	390212	hgsc.bcm.edu	37	11	67218787	67218787	+	Missense_Mutation	SNP	G	G	A	rs137906019	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52.0	30.0	45.0	0.0	0.576923	0	G|0.998;A|0.002	0.002	strong	.	GPR152	41	.	NM_206997	exon1	c.C1409T	p.T470M	CCTCACGTGGGGC	.	PASS	Atlas-SNP
MEST	4232	hgsc.bcm.edu	37	7	130140729	130140729	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95.0	46.0	79.0	0.0	0.484211	0	.	.	none	.	MEST	28	.	NM_002402	exon9	c.C747T	p.D249D	CATTGACAGGTAA	.	PASS	Atlas-SNP
TPO	7173	hgsc.bcm.edu	37	2	1418210	1418210	+	Silent	SNP	G	G	A	rs28909989	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141.0	53.0	184.0	1.0	0.375887	0.00543478	G|0.996;A|0.004	0.004	strong	TPO,NS,carcinoma,+1,1	TPO	224	1	NM_175719	exon2	c.G30A	p.T10T	TGTCACGCTGGTT	.	scavenged	Atlas-SNP
FAM222A	84915	hgsc.bcm.edu	37	12	110206760	110206760	+	Silent	SNP	C	C	A	rs79456911	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	21.0	10.0	20.0	0.0	0.47619	0	C|0.994;A|0.006	0.006	strong	.	.	.	.	NM_032829	exon3	c.C1026A	p.G342G	CGTAGGCCAGTAC	.	PASS	Atlas-SNP
ATP12A	479	hgsc.bcm.edu	37	13	25267017	25267017	+	Missense_Mutation	SNP	A	A	C	rs56291145	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69.0	28.0	84.0	0.0	0.405797	0	A|0.975;C|0.025	0.025	strong	.	ATP12A	172	.	NM_001185085	exon10	c.A1378C	p.N460H	CAGGAAAATGTCC	.	PASS	Atlas-SNP
KIF26B	55083	hgsc.bcm.edu	37	1	245772651	245772651	+	Missense_Mutation	SNP	C	C	G	rs61754955	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	225.0	105.0	203.0	0.0	0.466667	0	C|0.976;G|0.024	0.024	strong	.	KIF26B	343	.	NM_018012	exon8	c.C1735G	p.L579V	TTCAAGCTCATAA	.	PASS	Atlas-SNP
BRIP1	83990	hgsc.bcm.edu	37	17	59761336	59761336	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128.0	58.0	111.0	1.0	0.453125	0.00900901	.	.	none	BRIP1_ENST00000259008,NS,carcinoma,-1,4	BRIP1	237	4	NM_032043	exon20	c.G3071T	p.G1024V	GATGACCCGAGCT	.	scavenged	Atlas-SNP
MAP3K1	4214	hgsc.bcm.edu	37	5	56155672	56155672	+	Missense_Mutation	SNP	A	A	G	rs56069227	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	229.0	116.0	217.0	0.0	0.50655	0	A|0.976;G|0.024	0.024	strong	.	MAP3K1	355	.	NM_005921	exon3	c.A764G	p.N255S	CTGGCAACTCCCC	.	PASS	Atlas-SNP
C1QB	713	hgsc.bcm.edu	37	1	22987744	22987744	+	Silent	SNP	C	C	T	rs149718049	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91.0	54.0	122.0	0.0	0.593407	0	C|0.999;T|0.001	0.001	strong	.	C1QB	40	.	NM_000491	exon3	c.C627T	p.T209T	CACCACCGGTGGC	.	PASS	Atlas-SNP
EYS	346007	hgsc.bcm.edu	37	6	64488001	64488001	+	Missense_Mutation	SNP	T	T	C	rs74636274	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	250.0	114.0	270.0	0.0	0.456	0	T|0.996;C|0.004	0.004	strong	.	EYS	527	.	NM_001142800	exon40	c.A7796G	p.H2599R	TTTGGGTGGCCCT	.	PASS	Atlas-SNP
HECW1	23072	hgsc.bcm.edu	37	7	43506113	43506113	+	Silent	SNP	A	A	C	rs138489968	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72.0	36.0	57.0	0.0	0.5	0	A|0.990;C|0.010	0.010	strong	.	HECW1	540	.	NM_015052	exon15	c.A2859C	p.P953P	GTCCCCAGCGGTC	.	PASS	Atlas-SNP
C19orf57	79173	hgsc.bcm.edu	37	19	14001206	14001206	+	Missense_Mutation	SNP	G	G	A	rs144502446	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38.0	28.0	45.0	0.0	0.736842	0	G|0.994;A|0.006	0.006	strong	.	C19orf57	34	.	NM_024323	exon6	c.C463T	p.L155F	CCTGGAGGGGGAC	.	PASS	Atlas-SNP
DYNC2H1	79659	hgsc.bcm.edu	37	11	103153765	103153765	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136.0	29.0	100.0	0.0	0.213235	0	.	.	none	.	DYNC2H1	246	.	NM_001080463	exon74	c.T10862G	p.L3621R	ATCAGCTTCCGTC	.	PASS	Atlas-SNP
CHRNA3	1136	hgsc.bcm.edu	37	15	78894420	78894420	+	Silent	SNP	A	A	G	rs8192480	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189.0	93.0	223.0	0.0	0.492063	0	A|0.995;G|0.005	0.005	strong	.	CHRNA3	56	.	NM_000743	exon5	c.T564C	p.D188D	GACCAGATCGATT	.	PASS	Atlas-SNP
KIAA0754	643314	hgsc.bcm.edu	37	1	39876573	39876573	+	Missense_Mutation	SNP	A	A	C	rs74607331	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176.0	51.0	206.0	0.0	0.289773	0	A|0.988;C|0.012	0.012	strong	KIAA0754_ENST00000530275,NS,carcinoma,+2,2	KIAA0754	93	2	NM_015038	exon1	c.A636C	p.L212F	AAACTTAAGTGGA	.	PASS	Atlas-SNP
SPTAN1	6709	hgsc.bcm.edu	37	9	131371241	131371241	+	Missense_Mutation	SNP	A	A	G	rs145038571	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160.0	75.0	140.0	0.0	0.46875	0	A|0.999;G|0.001	0.001	strong	.	SPTAN1	266	.	NM_003127	exon35	c.A4580G	p.N1527S	GGCGCAATGAGGT	.	PASS	Atlas-SNP
PNPLA8	50640	hgsc.bcm.edu	37	7	108155377	108155377	+	Missense_Mutation	SNP	G	G	A	rs139626312	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42.0	23.0	35.0	0.0	0.547619	0	G|0.997;A|0.003	0.003	strong	PNPLA8,caecum,carcinoma,+1,2	PNPLA8	82	2	NM_001256008	exon2	c.C559T	p.R187C	GACTGCGTTTACC	.	PASS	Atlas-SNP
FAAH	2166	hgsc.bcm.edu	37	1	46871746	46871746	+	Silent	SNP	G	G	A	rs41305628	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104.0	66.0	87.0	0.0	0.634615	0	G|0.970;A|0.030	0.030	strong	.	FAAH	36	.	NM_001441	exon6	c.G822A	p.E274E	ACAGGAGGCAGGT	.	PASS	Atlas-SNP
MYLK	4638	hgsc.bcm.edu	37	3	123332995	123332995	+	Missense_Mutation	SNP	G	G	A	rs200490629	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142.0	78.0	112.0	0.0	0.549296	0	G|1.000;A|0.000	0.000	strong	.	MYLK	224	.	NM_053025	exon34	c.C5702T	p.T1901M	TCCATCGTTTCCA	.	PASS	Atlas-SNP
CDT1	81620	hgsc.bcm.edu	37	16	88873824	88873824	+	Missense_Mutation	SNP	C	C	G	rs141663679	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147.0	87.0	121.0	0.0	0.591837	0	C|0.998;G|0.002	0.002	strong	.	CDT1	30	.	NM_030928	exon9	c.C1411G	p.P471A	CGCAAGCCTGCGC	.	PASS	Atlas-SNP
LCNL1	401562	hgsc.bcm.edu	37	9	139879196	139879196	+	Silent	SNP	C	C	T	rs201494183	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70.0	35.0	62.0	0.0	0.5	0	C|0.996;T|0.004	0.004	strong	.	LCNL1	4	.	NM_207510	exon3	c.C228T	p.F76F	GGCCTTCTCCGAC	.	PASS	Atlas-SNP
KRTAP5-9	3846	hgsc.bcm.edu	37	11	71259841	71259841	+	Silent	SNP	C	C	T	rs189729045	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	355.0	159.0	290.0	0.0	0.447887	0	C|0.996;T|0.004	0.004	strong	.	KRTAP5-9	19	.	NM_005553	exon1	c.C138T	p.C46C	CGTGTGCTGCTGT	.	PASS	Atlas-SNP
VPS13D	55187	hgsc.bcm.edu	37	1	12429611	12429611	+	Silent	SNP	C	C	T	rs2295338	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157.0	69.0	138.0	0.0	0.43949	0	C|0.940;T|0.060	0.060	strong	.	VPS13D	316	.	NM_015378	exon54	c.C10662T	p.D3554D	CTGGGACGAACCC	.	PASS	Atlas-SNP
WDR62	284403	hgsc.bcm.edu	37	19	36594676	36594676	+	Missense_Mutation	SNP	C	C	G	rs35811023	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52.0	27.0	57.0	0.0	0.519231	0	C|0.995;G|0.005	0.005	strong	.	WDR62	102	.	NM_001083961	exon30	c.C3946G	p.Q1316E	GATACCCAGCCTG	.	PASS	Atlas-SNP
IRX2	153572	hgsc.bcm.edu	37	5	2749539	2749539	+	Silent	SNP	G	G	C	rs61748183	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	266.0	155.0	232.0	0.0	0.582707	0	G|0.997;C|0.003	0.003	strong	.	IRX2	60	.	NM_001134222	exon2	c.C612G	p.P204P	CTTGTCGGGACTC	.	PASS	Atlas-SNP
ZNF449	203523	hgsc.bcm.edu	37	X	134494878	134494878	+	Silent	SNP	C	C	T	rs141878135	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70.0	69.0	127.0	0.0	0.985714	0	C|0.999;T|0.001	0.001	strong	.	ZNF449	68	.	NM_152695	exon5	c.C1434T	p.L478L	AAGCCTCGTTATT	.	PASS	Atlas-SNP
SETD8	387893	hgsc.bcm.edu	37	12	123892235	123892235	+	Silent	SNP	G	G	A	rs61955128	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75.0	3.0	73.0	1.0	0.04	0.0136986	G|0.999;A|0.001	0.001	strong	SETD8,NS,neuroblastoma,0,1	SETD8	35	1	NM_020382	exon8	c.G1044A	p.P348P	CCACCCGTGGCTG	.	scavenged	Atlas-SNP
RNF133	168433	hgsc.bcm.edu	37	7	122338071	122338071	+	Missense_Mutation	SNP	A	A	G	rs113127267	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134.0	69.0	120.0	0.0	0.514925	0	A|0.997;G|0.003	0.003	strong	.	RNF133	41	.	NM_139175	exon1	c.T902C	p.L301P	ACTTTAAGAATAT	.	PASS	Atlas-SNP
NRXN2	9379	hgsc.bcm.edu	37	11	64457892	64457892	+	Missense_Mutation	SNP	G	G	A	rs141807338	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89.0	48.0	109.0	0.0	0.539326	0	G|1.000;A|0.000	0.000	strong	.	NRXN2	247	.	NM_015080	exon5	c.C835T	p.H279Y	GCTGGTGCACATC	.	PASS	Atlas-SNP
ADCY4	196883	hgsc.bcm.edu	37	14	24803710	24803710	+	Missense_Mutation	SNP	G	G	A	rs77202343	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	14.0	9.0	26.0	0.0	0.642857	0	G|0.987;A|0.013	0.013	strong	.	ADCY4	86	.	NM_001198592	exon2	c.C149T	p.A50V	CCGCTGGCCCAGG	.	PASS	Atlas-SNP
NLRP1	22861	hgsc.bcm.edu	37	17	5442790	5442790	+	Missense_Mutation	SNP	C	C	T	rs61754791	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77.0	34.0	83.0	0.0	0.441558	0	A|0.000;C|0.986;T|0.014	0.014	strong	.	NLRP1	358	.	NM_033007	exon7	c.G2815A	p.V939M	GTCGCACGCCAAC	.	PASS	Atlas-SNP
NAT14	57106	hgsc.bcm.edu	37	19	55998317	55998317	+	Missense_Mutation	SNP	C	C	A	rs118182626	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	8.0	7.0	4.0	0.0	0.875	0	C|0.978;A|0.022	0.022	strong	.	NAT14	11	.	NM_020378	exon3	c.C615A	p.D205E	CAAAGACCTGTGA	.	PASS	Atlas-SNP
CCNB3	85417	hgsc.bcm.edu	37	X	50085217	50085217	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87.0	26.0	166.0	0.0	0.298851	0	.	.	none	.	CCNB3	367	.	NM_033031	exon8	c.C3533T	p.T1178I	AGATGACCCATGA	.	PASS	Atlas-SNP
HPS4	89781	hgsc.bcm.edu	37	22	26864577	26864577	+	Silent	SNP	G	G	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174.0	88.0	142.0	0.0	0.505747	0	.	.	none	.	HPS4	123	.	NM_022081	exon8	c.C609G	p.T203T	GAGTTGGGTGCTG	.	PASS	Atlas-SNP
C6orf165	154313	hgsc.bcm.edu	37	6	88173748	88173748	+	Missense_Mutation	SNP	G	G	A	rs139574881	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	31.0	13.0	45.0	0.0	0.419355	0	G|0.999;A|0.001	0.001	strong	.	C6orf165	116	.	NM_001031743	exon13	c.G1649A	p.R550H	ATTTGCGCCAGAA	.	PASS	Atlas-SNP
PABPN1L	390748	hgsc.bcm.edu	37	16	88932857	88932857	+	Missense_Mutation	SNP	T	T	C	rs139390142	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106.0	52.0	98.0	0.0	0.490566	0	T|0.996;C|0.004	0.004	strong	.	PABPN1L	25	.	NM_001080487	exon1	c.A158G	p.E53G	TCTTCCTCCTCTT	.	PASS	Atlas-SNP
PELP1	27043	hgsc.bcm.edu	37	17	4576195	4576195	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129.0	19.0	141.0	0.0	0.147287	0	.	.	none	PELP1_ENST00000301396,NS,carcinoma,-1,3	PELP1	102	3	NM_014389	exon16	c.G2091A	p.S697S	GCGTGCCGAGGGC	.	PASS	Atlas-SNP
TUBA8	51807	hgsc.bcm.edu	37	22	18609703	18609703	+	Missense_Mutation	SNP	C	C	T	rs140202346	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174.0	96.0	142.0	0.0	0.551724	0	C|0.999;T|0.001	0.001	strong	.	TUBA8	36	.	NM_018943	exon4	c.C958T	p.R320W	CTCTACCGGGGCG	.	PASS	Atlas-SNP
CTNNA2	1496	hgsc.bcm.edu	37	2	80646660	80646660	+	Silent	SNP	C	C	T	rs148134866	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60.0	29.0	67.0	0.0	0.483333	0	C|0.998;T|0.002	0.002	strong	.	CTNNA2	462	.	NM_001164883	exon9	c.C1224T	p.S408S	AAAGAGCGGAAAT	.	PASS	Atlas-SNP
SMARCC2	6601	hgsc.bcm.edu	37	12	56559415	56559415	+	Silent	SNP	C	C	T	rs116595430	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149.0	78.0	142.0	0.0	0.52349	0	C|0.996;T|0.004	0.004	strong	.	SMARCC2	212	.	NM_139067	exon27	c.G2919A	p.A973A	CATCTCCGCATAC	.	PASS	Atlas-SNP
PRRC2A	7916	hgsc.bcm.edu	37	6	31599556	31599556	+	Silent	SNP	A	A	C	rs78503551	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55.0	33.0	43.0	0.0	0.6	0	A|0.995;C|0.005	0.005	strong	.	PRRC2A	152	.	NM_004638	exon16	c.A3106C	p.R1036R	AGAGGGAGGGGTT	.	PASS	Atlas-SNP
OTOL1	131149	hgsc.bcm.edu	37	3	161220819	161220819	+	Missense_Mutation	SNP	C	C	A	rs149127996	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184.0	77.0	170.0	0.0	0.418478	0	C|0.995;A|0.005	0.005	strong	.	OTOL1	63	.	NM_001080440	exon4	c.C523A	p.P175T	GGTGAACCTGGCC	.	PASS	Atlas-SNP
THEM4	117145	hgsc.bcm.edu	37	1	151867528	151867528	+	Missense_Mutation	SNP	C	C	T	rs114800758	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149.0	100.0	141.0	0.0	0.671141	0	C|0.994;T|0.006	0.006	strong	.	THEM4	19	.	NM_053055	exon2	c.G242A	p.R81H	GGTGTACGTTTAT	.	PASS	Atlas-SNP
AKAP13	11214	hgsc.bcm.edu	37	15	86124861	86124861	+	Missense_Mutation	SNP	C	C	A	rs371702364		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101.0	55.0	124.0	0.0	0.544554	0	.	.	weak	.	AKAP13	394	.	NM_007200	exon7	c.C3562A	p.L1188M	GTCCTACTGCAGC	.	PASS	Atlas-SNP
ALG14	199857	hgsc.bcm.edu	37	1	95538424	95538424	+	Missense_Mutation	SNP	C	C	T	rs34364382	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38.0	16.0	53.0	0.0	0.421053	0	C|0.994;T|0.006	0.006	strong	.	ALG14	13	.	NM_144988	exon1	c.G31A	p.A11T	CTCCTGCGGCCGC	.	PASS	Atlas-SNP
SEMA4F	10505	hgsc.bcm.edu	37	2	74883750	74883750	+	Missense_Mutation	SNP	G	G	A	rs139676653	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153.0	72.0	176.0	0.0	0.470588	0	G|0.993;A|0.007	0.007	strong	.	SEMA4F	89	.	NM_001271662	exon2	c.G235A	p.V79I	CTTTATGTTGGCG	.	PASS	Atlas-SNP
TRABD2A	129293	hgsc.bcm.edu	37	2	85059204	85059204	+	Missense_Mutation	SNP	C	C	T	rs201984217	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145.0	66.0	113.0	0.0	0.455172	0	C|0.998;T|0.002	0.002	weak	.	.	.	.	NM_001080824	exon4	c.G910A	p.V304I	CAGGGGCGTGTTC	.	PASS	Atlas-SNP
FOXO3	2309	hgsc.bcm.edu	37	6	108882915	108882915	+	Silent	SNP	C	C	T	rs150320900	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127.0	65.0	125.0	0.0	0.511811	0	C|0.995;T|0.005	0.005	strong	.	FOXO3	67	.	NM_001455	exon1	c.C504T	p.R168R	CACCCGCGCCATC	.	PASS	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88536321	88536321	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	389.0	18.0	415.0	0.0	0.0462725	0	.	.	none	.	DSPP	174	.	NM_014208	exon5	c.G2507A	p.S836N	ATAGCAGCAACAG	.	PASS	Atlas-SNP
SNCAIP	9627	hgsc.bcm.edu	37	5	121780312	121780312	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115.0	55.0	125.0	0.0	0.478261	0	.	.	none	.	SNCAIP	308	.	NM_005460	exon8	c.C1477A	p.P493T	GAAAAGCCCTCCC	.	PASS	Atlas-SNP
C17orf77	146723	hgsc.bcm.edu	37	17	72588438	72588438	+	Nonsense_Mutation	SNP	G	G	T	rs79556281	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62.0	38.0	46.0	0.0	0.612903	0	G|0.994;T|0.006	0.006	strong	.	C17orf77	31	.	NM_152460	exon3	c.G253T	p.E85X	CTACTCGAATCTC	.	PASS	Atlas-SNP
ADAM28	10863	hgsc.bcm.edu	37	8	24167700	24167700	+	Silent	SNP	G	G	A	rs150620720	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93.0	37.0	72.0	0.0	0.397849	0	G|1.000;A|0.000	0.000	strong	ADAM28,NS,carcinoma,0,1	ADAM28	100	1	NM_014265	exon4	c.G252A	p.T84T	CTACACGGAAACA	.	PASS	Atlas-SNP
PTPRN	5798	hgsc.bcm.edu	37	2	220162129	220162129	+	Silent	SNP	C	C	T	rs144452294	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86.0	41.0	91.0	0.0	0.476744	0	C|0.996;T|0.004	0.004	strong	PTPRN,colon,carcinoma,-1,1	PTPRN	138	1	NM_002846	exon14	c.G1914A	p.T638T	GGACTTCGTGGCC	.	PASS	Atlas-SNP
LDLRAD1	388633	hgsc.bcm.edu	37	1	54480033	54480033	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61.0	34.0	90.0	0.0	0.557377	0	.	.	none	.	LDLRAD1	22	.	NM_001010978	exon3	c.C78T	p.G26G	GCCGCCGCCTGCT	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10469292	10469292	+	Silent	SNP	C	C	T	rs62490857	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123.0	65.0	141.0	0.0	0.528455	0	C|0.945;T|0.055	0.055	strong	.	RP1L1	453	.	NM_178857	exon4	c.G2316A	p.S772S	GGCCGGCGAGCAT	.	PASS	Atlas-SNP
EBF4	57593	hgsc.bcm.edu	37	20	2686317	2686317	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112.0	53.0	113.0	0.0	0.473214	0	.	.	none	.	.	.	.	NM_001110514	exon3	c.C220T	p.R74W	TACGACCGGCAGG	.	PASS	Atlas-SNP
ST6GAL1	6480	hgsc.bcm.edu	37	3	186760533	186760533	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	207.0	22.0	193.0	0.0	0.10628	0	.	.	none	.	ST6GAL1	36	.	NM_003032	exon3	c.C42T	p.V14V	CTGCGTCCTGGTC	.	PASS	Atlas-SNP
RNF41	10193	hgsc.bcm.edu	37	12	56601998	56601998	+	Silent	SNP	G	G	A	rs17118378	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	214.0	96.0	160.0	0.0	0.448598	0	G|0.986;A|0.014	0.014	strong	.	RNF41	31	.	NM_005785	exon5	c.C447T	p.I149I	CTCTGCGATGCGT	.	PASS	Atlas-SNP
MICA	100507436	hgsc.bcm.edu	37	6	31378928	31378928	+	Silent	SNP	C	C	T	rs41553614	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	221.0	113.0	161.0	0.0	0.511312	0	C|0.987;T|0.013	0.013	strong	.	MICA	21	.	NM_001177519	exon3	c.C405T	p.Y135Y	CTACTACGATGGG	.	PASS	Atlas-SNP
FBXW5	54461	hgsc.bcm.edu	37	9	139838414	139838414	+	Missense_Mutation	SNP	C	C	T	rs200423543	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30.0	21.0	98.0	0.0	0.7	0	.	.	weak	.	FBXW5	36	.	NM_018998	exon2	c.G122A	p.R41Q	TCGTCCCGCGACA	.	PASS	Atlas-SNP
KLHL32	114792	hgsc.bcm.edu	37	6	97562207	97562207	+	Silent	SNP	G	G	T	rs74787311	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82.0	32.0	70.0	0.0	0.390244	0	G|0.960;T|0.040	0.040	strong	.	KLHL32	85	.	NM_052904	exon7	c.G1176T	p.V392V	TTTTGTGCTGGGT	.	PASS	Atlas-SNP
HPR	3250	hgsc.bcm.edu	37	16	72110872	72110872	+	Silent	SNP	G	G	A	rs147707949	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	251.0	106.0	206.0	0.0	0.422311	0	G|0.997;A|0.003	0.003	strong	HPR,NS,carcinoma,+2,1	HPR	43	1	NM_020995	exon5	c.G939A	p.A313A	GTACGCGGCTGGG	.	PASS	Atlas-SNP
HNF1A	6927	hgsc.bcm.edu	37	12	121437114	121437114	+	Silent	SNP	G	G	A	rs55834942	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	207.0	112.0	189.0	0.0	0.541063	0	G|0.860;A|0.140	0.140	strong	HNF1A,brain,glioma,0,4	HNF1A	302	4	NM_000545	exon8	c.G1545A	p.T515T	CCACACGGGCCTG	.	PASS	Atlas-SNP
MYO7A	4647	hgsc.bcm.edu	37	11	76895787	76895787	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71.0	71.0	0.0	0.0	1	.	.	.	none	.	MYO7A	164	.	NM_001127179	exon27	c.G3530A	p.R1177K	ACACCAGGGCCTG	.	PASS	Atlas-SNP
BTG2	7832	hgsc.bcm.edu	37	1	203274867	203274867	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87.0	11.0	95.0	0.0	0.126437	0	.	.	none	BTG2,lymph_node,lymphoid_neoplasm,-1,2	BTG2	16	2	NM_006763	exon1	c.G133T	p.A45S	CAGGAGGCACTCA	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155219540	155219540	+	Missense_Mutation	SNP	C	C	A	rs141467714	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159.0	79.0	160.0	0.0	0.496855	0	C|0.998;A|0.002	0.002	strong	.	DCHS2	594	.	NM_017639	exon18	c.G4561T	p.A1521S	CAGAAGCCTCATC	.	PASS	Atlas-SNP
OR7G1	125962	hgsc.bcm.edu	37	19	9225662	9225662	+	Missense_Mutation	SNP	T	T	C	rs138190811	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95.0	51.0	77.0	0.0	0.536842	0	T|0.999;C|0.001	0.001	strong	.	OR7G1	53	.	NM_001005192	exon1	c.A778G	p.I260V	AACTAATGTACAC	.	PASS	Atlas-SNP
DNAJC13	23317	hgsc.bcm.edu	37	3	132221139	132221139	+	Missense_Mutation	SNP	C	C	T	rs55825559	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144.0	50.0	135.0	0.0	0.347222	0	C|0.981;T|0.019	0.019	strong	.	DNAJC13	253	.	NM_015268	exon40	c.C4543T	p.P1515S	AGTATTCCCCGCG	.	PASS	Atlas-SNP
KCNJ18	100134444	hgsc.bcm.edu	37	17	21318826	21318826	+	Missense_Mutation	SNP	G	G	A	rs142399667	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	259.0	45.0	246.0	1.0	0.173745	0.00406504	G|0.993;A|0.007	0.007	strong	KCNJ12,NS,carcinoma,0,1	.	.	1	NM_001194958	exon3	c.G172A	p.A58T	GAGTTCGCCAACA	.	scavenged	Atlas-SNP
IRF5	3663	hgsc.bcm.edu	37	7	128588712	128588712	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99.0	16.0	93.0	0.0	0.161616	0	.	.	none	.	IRF5	40	.	NM_001098629	exon9	c.C1385T	p.S462L	AGATCTCAAACCC	.	PASS	Atlas-SNP
DCTN1	1639	hgsc.bcm.edu	37	2	74589828	74589828	+	Missense_Mutation	SNP	C	C	T	rs200834352	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86.0	50.0	84.0	0.0	0.581395	0	C|0.999;T|0.001	0.001	weak	.	DCTN1	110	.	NM_004082	exon30	c.G3558A	p.M1186I	TTGCTCCATAAGT	.	PASS	Atlas-SNP
KAT6A	7994	hgsc.bcm.edu	37	8	41790866	41790866	+	Silent	SNP	G	G	C	rs2980901	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46.0	25.0	50.0	0.0	0.543478	0	G|0.964;C|0.036	0.036	strong	.	.	.	.	NM_001099412	exon18	c.C4872G	p.V1624V	AGGCTGGACGCTG	.	PASS	Atlas-SNP
VWA2	340706	hgsc.bcm.edu	37	10	116050058	116050058	+	Missense_Mutation	SNP	G	G	C	rs45560935	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151.0	74.0	113.0	0.0	0.490066	0	G|0.998;C|0.002	0.002	strong	.	VWA2	64	.	NM_001272046	exon13	c.G2182C	p.V728L	AGCTGCGTCCTGC	.	PASS	Atlas-SNP
ARHGEF5	7984	hgsc.bcm.edu	37	7	144069807	144069807	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	587.0	114.0	881.0	2.0	0.194208	0.00227015	.	.	none	ARHGEF5,NS,carcinoma,-1,1	ARHGEF5	73	1	NM_005435	exon9	c.C4007T	p.S1336L	GCTCCTCGGAGGA	.	scavenged	Atlas-SNP
ARSF	416	hgsc.bcm.edu	37	X	2990197	2990197	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83.0	4.0	174.0	0.0	0.0481928	0	.	.	none	.	ARSF	97	.	NM_004042	exon3	c.T142C	p.Y48H	GGCTGCTACGGCA	.	PASS	Atlas-SNP
XIRP2	129446	hgsc.bcm.edu	37	2	168106803	168106803	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194.0	29.0	182.0	0.0	0.149485	0	.	.	none	.	XIRP2	914	.	NM_152381	exon9	c.G8901C	p.E2967D	AGCAGAGCCAAAT	.	PASS	Atlas-SNP
MFSD9	84804	hgsc.bcm.edu	37	2	103343356	103343356	+	Silent	SNP	A	A	C	rs34997861	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181.0	91.0	207.0	0.0	0.502762	0	A|0.999;C|0.001	0.001	strong	.	MFSD9	56	.	NM_032718	exon4	c.T375G	p.L125L	TCCGAGAAGGAGA	.	PASS	Atlas-SNP
PNMA3	29944	hgsc.bcm.edu	37	X	152226189	152226189	+	Silent	SNP	G	G	A	rs141778950	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110.0	108.0	245.0	0.0	0.981818	0	G|0.999;A|0.001	0.001	strong	.	PNMA3	81	.	NM_013364	exon2	c.G777A	p.E259E	TCAGGAGGCAGGA	.	PASS	Atlas-SNP
TYRO3	7301	hgsc.bcm.edu	37	15	41862436	41862436	+	Splice_Site	SNP	A	A	G	rs201371674	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86.0	8.0	79.0	0.0	0.0930233	0	A|0.986;G|0.014	0.014	strong	.	TYRO3	169	.	NM_006293	exon11	c.1383-2A>G	.	TCCTTTAGGCAAG	.	PASS	Atlas-SNP
CACNA1E	777	hgsc.bcm.edu	37	1	181724381	181724381	+	Silent	SNP	C	C	T	rs41315709	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86.0	41.0	54.0	0.0	0.476744	0	C|0.999;T|0.001	0.001	strong	CACNA1E_ENST00000367573,caecum,carcinoma,0,2	CACNA1E	778	2	NM_001205293	exon28	c.C3837T	p.F1279F	CGTCTTCGACTGC	.	PASS	Atlas-SNP
BBS10	79738	hgsc.bcm.edu	37	12	76741341	76741341	+	Missense_Mutation	SNP	C	C	T	rs142863601	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104.0	56.0	115.0	0.0	0.538462	0	C|0.994;T|0.006	0.006	strong	.	BBS10	46	.	NM_024685	exon2	c.G424A	p.D142N	TACCGTCTAATAT	.	PASS	Atlas-SNP
LSS	4047	hgsc.bcm.edu	37	21	47626602	47626602	+	Silent	SNP	G	G	A	rs111779817	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52.0	28.0	53.0	0.0	0.538462	0	G|0.997;A|0.003	0.003	strong	.	LSS	50	.	NM_001001438	exon16	c.C1548T	p.N516N	CGAGGGGTTCAGC	.	PASS	Atlas-SNP
MED15	51586	hgsc.bcm.edu	37	22	20922809	20922809	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94.0	52.0	90.0	0.0	0.553191	0	.	.	none	.	MED15	68	.	NM_015889	exon8	c.T1043C	p.V348A	TCAAGGTCCGAGC	.	PASS	Atlas-SNP
ZNF354C	30832	hgsc.bcm.edu	37	5	178503472	178503472	+	Silent	SNP	C	C	T	rs116407910	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	287.0	164.0	290.0	0.0	0.571429	0	C|0.996;T|0.004	0.004	strong	ZNF354C,NS,carcinoma,+2,1	ZNF354C	77	1	NM_014594	exon3	c.C54T	p.A18A	TGTGGCCGTGTTC	.	PASS	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	37	22	26164408	26164408	+	Silent	SNP	C	C	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83.0	38.0	85.0	0.0	0.457831	0	.	.	none	.	MYO18B	322	.	NM_032608	exon4	c.C525G	p.A175A	TGACGCCCCCCCT	.	PASS	Atlas-SNP
SLC18A2	6571	hgsc.bcm.edu	37	10	119003546	119003546	+	Silent	SNP	G	G	A	rs11568722	bycluster;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99.0	55.0	121.0	0.0	0.555556	0	G|1.000;A|0.000	0.000	weak	SLC18A2,NS,carcinoma,+1,1	SLC18A2	58	1	NM_003054	exon3	c.G186A	p.T62T	CCAGACGGCCAGG	.	PASS	Atlas-SNP
MTUS1	57509	hgsc.bcm.edu	37	8	17503612	17503612	+	Silent	SNP	C	C	G	rs61733704	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76.0	41.0	68.0	0.0	0.539474	0	C|0.956;G|0.044	0.044	strong	.	MTUS1	144	.	NM_001001924	exon15	c.G3636C	p.S1212S	CTCCAGCGACTCT	.	PASS	Atlas-SNP
ALK	238	hgsc.bcm.edu	37	2	29940529	29940529	+	Silent	SNP	A	A	T	rs2246745	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	247.0	247.0	264.0	0.0	1	0	A|0.355;T|0.645	0.645	strong	ALK,NS,carcinoma,-1,1	ALK	533	1	NM_004304	exon2	c.T702A	p.P234P	AGGAGAAGGCATG	.	PASS	Atlas-SNP
LDHD	197257	hgsc.bcm.edu	37	16	75146357	75146357	+	Missense_Mutation	SNP	T	T	G	rs372986804		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70.0	31.0	84.0	0.0	0.442857	0	.	.	weak	.	LDHD	34	.	NM_153486	exon11	c.A1421C	p.Q474P	AGCAGCTGCCGCT	.	PASS	Atlas-SNP
CBX2	84733	hgsc.bcm.edu	37	17	77758653	77758653	+	Missense_Mutation	SNP	C	C	G	rs141957173	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51.0	20.0	70.0	0.0	0.392157	0	C|0.996;G|0.004	0.004	strong	.	CBX2	50	.	NM_005189	exon5	c.C1411G	p.P471A	TCCGACCCCGACT	.	PASS	Atlas-SNP
HJURP	55355	hgsc.bcm.edu	37	2	234752863	234752863	+	Missense_Mutation	SNP	C	C	T	rs140874442	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110.0	54.0	84.0	0.0	0.490909	0	C|0.998;T|0.002	0.002	strong	.	HJURP	72	.	NM_018410	exon7	c.G562A	p.V188M	CAGGCACGGCAGG	.	PASS	Atlas-SNP
ELOVL2	54898	hgsc.bcm.edu	37	6	11005776	11005776	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101.0	51.0	72.0	0.0	0.504951	0	.	.	none	.	ELOVL2	40	.	NM_017770	exon3	c.G84A	p.G28G	GAACCACCCTCTG	.	PASS	Atlas-SNP
LY6G6F	259215	hgsc.bcm.edu	37	6	31677953	31677953	+	Missense_Mutation	SNP	G	G	A	rs61740977	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112.0	53.0	117.0	1.0	0.473214	0.00854701	G|0.994;A|0.006	0.006	strong	LY6G6F,colon,carcinoma,+1,1	LY6G6F	23	1	NM_001003693	exon4	c.G797A	p.G266D	CTCCAGGCAGAGG	.	scavenged	Atlas-SNP
TGM5	9333	hgsc.bcm.edu	37	15	43527819	43527819	+	Missense_Mutation	SNP	T	T	C	rs35985214	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160.0	59.0	186.0	0.0	0.36875	0	T|0.988;C|0.012	0.012	strong	TGM5,rectum,carcinoma,-1,1	TGM5	88	1	NM_201631	exon10	c.A1562G	p.Q521R	ATATCCTGGCCCA	.	PASS	Atlas-SNP
C9orf40	55071	hgsc.bcm.edu	37	9	77567335	77567335	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60.0	24.0	89.0	0.0	0.4	0	.	.	none	.	C9orf40	5	.	NM_017998	exon1	c.G193A	p.E65K	AGGGCTCTGCCAT	.	PASS	Atlas-SNP
CHRNA3	1136	hgsc.bcm.edu	37	15	78893787	78893787	+	Silent	SNP	G	G	A	rs56403513	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	243.0	115.0	239.0	0.0	0.473251	0	G|0.996;A|0.004	0.004	strong	.	CHRNA3	56	.	NM_000743	exon5	c.C1197T	p.D399D	CATCCCGTCCTGG	.	PASS	Atlas-SNP
FHDC1	85462	hgsc.bcm.edu	37	4	153886104	153886104	+	Silent	SNP	G	G	A	rs2018007	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	401.0	183.0	359.0	0.0	0.456359	0	G|0.973;A|0.027	0.027	strong	.	FHDC1	102	.	NM_033393	exon8	c.G1077A	p.L359L	AAAATTGCATCAT	.	PASS	Atlas-SNP
BTN2A1	11120	hgsc.bcm.edu	37	6	26468637	26468637	+	Missense_Mutation	SNP	G	G	A	rs142664900	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	515.0	263.0	347.0	1.0	0.51068	0.00288184	G|0.999;A|0.001	0.001	strong	.	BTN2A1	118	.	NM_007049	exon8	c.G1444A	p.V482M	TTTTCCGTGCCTG	.	PASS	Atlas-SNP
NEUROD4	58158	hgsc.bcm.edu	37	12	55420785	55420785	+	Missense_Mutation	SNP	G	G	A	rs151143558	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56.0	30.0	51.0	0.0	0.535714	0	G|0.997;A|0.003	0.003	strong	.	NEUROD4	87	.	NM_021191	exon2	c.G562A	p.D188N	CACGAGGATAAAT	.	PASS	Atlas-SNP
ZNF526	116115	hgsc.bcm.edu	37	19	42729121	42729121	+	Missense_Mutation	SNP	C	C	T	rs150807158	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139.0	72.0	149.0	0.0	0.517986	0	C|0.991;T|0.009	0.009	strong	.	ZNF526	51	.	NM_133444	exon3	c.C566T	p.P189L	CTCCCCCATCCGA	.	PASS	Atlas-SNP
CFHR5	81494	hgsc.bcm.edu	37	1	196953220	196953220	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95.0	11.0	87.0	0.0	0.115789	0	.	.	none	CFHR5_ENST00000367414,NS,malignant_melanoma,0,6	CFHR5	150	6	NM_030787	exon3	c.C383T	p.S128L	ACATTTCGTGTGT	.	PASS	Atlas-SNP
SLC34A3	142680	hgsc.bcm.edu	37	9	140127725	140127725	+	Silent	SNP	C	C	T	rs34796681	bycluster;byfrequency;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58.0	31.0	46.0	0.0	0.534483	0	C|0.993;T|0.007	0.007	strong	.	SLC34A3	32	.	NM_001177317	exon7	c.C625T	p.L209L	CTGCCACTGGAGA	.	PASS	Atlas-SNP
ZNF528	84436	hgsc.bcm.edu	37	19	52909200	52909200	+	Missense_Mutation	SNP	A	A	G	rs370656674		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	200.0	96.0	197.0	0.0	0.48	0	.	.	weak	.	ZNF528	95	.	NM_032423	exon5	c.A56G	p.Q19R	TCTCTCAGGAAGA	.	PASS	Atlas-SNP
UPF3A	65110	hgsc.bcm.edu	37	13	115067419	115067419	+	Silent	SNP	G	G	A	rs146464930	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115.0	60.0	140.0	0.0	0.521739	0	G|0.991;A|0.009	0.009	strong	.	UPF3A	47	.	NM_023011	exon9	c.G1221A	p.P407P	GGCTCCGGGGGAG	.	PASS	Atlas-SNP
ACACB	32	hgsc.bcm.edu	37	12	109665242	109665242	+	Missense_Mutation	SNP	G	G	A	rs60293430	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120.0	64.0	91.0	0.0	0.533333	0	G|0.932;A|0.068	0.068	strong	.	ACACB	330	.	NM_001093	exon27	c.G3949A	p.G1317S	CCGGACGGCACCT	.	PASS	Atlas-SNP
MTBP	27085	hgsc.bcm.edu	37	8	121463425	121463425	+	Silent	SNP	T	T	C	rs61753755	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54.0	24.0	86.0	0.0	0.444444	0	T|0.966;C|0.034	0.034	strong	.	MTBP	77	.	NM_022045	exon4	c.T288C	p.D96D	TTCTGATTGGCAA	.	PASS	Atlas-SNP
NYAP1	222950	hgsc.bcm.edu	37	7	100086246	100086246	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91.0	13.0	150.0	0.0	0.142857	0	.	.	none	.	.	.	.	NM_173564	exon4	c.G902A	p.R301H	CCCACCGCCGCCC	.	PASS	Atlas-SNP
DSCR4	10281	hgsc.bcm.edu	37	21	39493232	39493232	+	Missense_Mutation	SNP	G	G	A	rs61731605	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55.0	25.0	67.0	0.0	0.454545	0	G|0.980;A|0.020	0.020	strong	.	DSCR4	20	.	NM_005867	exon1	c.C118T	p.P40S	GGAGAGGAGAAGC	.	PASS	Atlas-SNP
HORMAD2	150280	hgsc.bcm.edu	37	22	30489945	30489945	+	Missense_Mutation	SNP	G	G	A	rs34150968	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	249.0	110.0	243.0	1.0	0.441767	0.00411523	G|0.993;A|0.007	0.007	strong	.	HORMAD2	12	.	NM_152510	exon2	c.G4A	p.A2T	ACAATGGCCACTG	.	PASS	Atlas-SNP
SPAG17	200162	hgsc.bcm.edu	37	1	118535211	118535211	+	Missense_Mutation	SNP	T	T	C	rs35290515	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181.0	75.0	185.0	0.0	0.414365	0	T|0.979;C|0.021	0.021	strong	.	SPAG17	263	.	NM_206996	exon36	c.A5239G	p.K1747E	GCTGTTTGGACTC	.	PASS	Atlas-SNP
AKR1C3	8644	hgsc.bcm.edu	37	10	5138747	5138747	+	Missense_Mutation	SNP	A	A	G	rs11551177	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	328.0	157.0	285.0	1.0	0.478659	0.00350877	A|0.950;G|0.050	0.050	strong	.	AKR1C3	21	.	NM_001253908	exon2	c.A230G	p.E77G	AGAGAGAAGACAT	.	PASS	Atlas-SNP
MAPK11	5600	hgsc.bcm.edu	37	22	50704028	50704028	+	Missense_Mutation	SNP	C	C	T	rs33932986	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102.0	29.0	74.0	0.0	0.284314	0	C|0.985;T|0.015	0.015	strong	.	MAPK11	23	.	NM_002751	exon10	c.G824A	p.R275H	GCTCCACGGAAGA	.	PASS	Atlas-SNP
FABP9	646480	hgsc.bcm.edu	37	8	82370894	82370894	+	Silent	SNP	T	T	C	rs139486050	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	254.0	127.0	224.0	0.0	0.5	0	T|0.999;C|0.001	0.001	strong	.	FABP9	15	.	NM_001080526	exon3	c.A291G	p.K97K	AAGCCATTTTTGG	.	PASS	Atlas-SNP
ADCY1	107	hgsc.bcm.edu	37	7	45701762	45701762	+	Silent	SNP	C	C	T	rs61729596	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94.0	43.0	106.0	0.0	0.457447	0	C|0.986;T|0.014	0.014	strong	.	ADCY1	187	.	NM_021116	exon8	c.C1554T	p.F518F	AATGTTCAAGGCC	.	PASS	Atlas-SNP
CMYA5	202333	hgsc.bcm.edu	37	5	79025592	79025592	+	Missense_Mutation	SNP	C	C	T	rs114648445	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171.0	76.0	131.0	0.0	0.444444	0	C|0.997;T|0.003	0.003	strong	.	CMYA5	643	.	NM_153610	exon2	c.C1004T	p.T335I	ATGCCACATCTGC	.	PASS	Atlas-SNP
MEGF6	1953	hgsc.bcm.edu	37	1	3411235	3411235	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	28.0	17.0	51.0	0.0	0.607143	0	.	.	none	.	MEGF6	91	.	NM_001409	exon31	c.C3942T	p.H1314H	GCTGGCGTGGCAC	.	PASS	Atlas-SNP
ST5	6764	hgsc.bcm.edu	37	11	8724191	8724191	+	Missense_Mutation	SNP	A	A	G	rs113126215	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	43.0	19.0	50.0	0.0	0.44186	0	A|0.996;G|0.004	0.004	strong	.	ST5	85	.	NM_005418	exon17	c.T2648C	p.V883A	TGGCGCACACTGA	.	PASS	Atlas-SNP
ZC3H4	23211	hgsc.bcm.edu	37	19	47572395	47572395	+	Silent	SNP	C	C	T	rs202116030	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45.0	17.0	54.0	0.0	0.377778	0	C|1.000;T|0.000	0.000	strong	.	ZC3H4	96	.	NM_015168	exon14	c.G2352A	p.A784A	CCTCCTCGCTCTC	.	PASS	Atlas-SNP
NOTCH2	4853	hgsc.bcm.edu	37	1	120458122	120458122	+	Missense_Mutation	SNP	A	A	T	rs35586704	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124.0	73.0	129.0	0.0	0.58871	0	A|0.998;T|0.002	0.002	strong	.	NOTCH2	348	.	NM_024408	exon34	c.T7223A	p.L2408H	CCCTGGAGGTGAC	.	PASS	Atlas-SNP
XIRP1	165904	hgsc.bcm.edu	37	3	39228774	39228774	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105.0	39.0	115.0	0.0	0.371429	0	.	.	none	.	XIRP1	173	.	NM_001198621	exon2	c.C2163T	p.P721P	ACCCGCGGGGATG	.	PASS	Atlas-SNP
PRRC2A	7916	hgsc.bcm.edu	37	6	31600430	31600430	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156.0	91.0	132.0	0.0	0.583333	0	.	.	none	.	PRRC2A	152	.	NM_004638	exon16	c.G3980A	p.S1327N	CAGAGAGCAGTGA	.	PASS	Atlas-SNP
ASB2	51676	hgsc.bcm.edu	37	14	94405616	94405616	+	Silent	SNP	G	G	A	rs140791740	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97.0	44.0	105.0	0.0	0.453608	0	G|1.000;A|0.000	0.000	strong	.	ASB2	71	.	NM_001202429	exon8	c.C1455T	p.A485A	CTTCATGGCGAAC	.	PASS	Atlas-SNP
ZNF20	7568	hgsc.bcm.edu	37	19	12244656	12244656	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210.0	112.0	171.0	0.0	0.533333	0	.	.	none	.	ZNF20	86	.	NM_021143	exon4	c.G345A	p.T115T	ATGACCCGTGCCA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195513772	195513772	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	267.0	18.0	243.0	0.0	0.0674157	0	.	.	none	.	MUC4	1505	.	NM_018406	exon2	c.C4679T	p.S1560L	GATACTGAGGAAG	.	PASS	Atlas-SNP
TUBGCP6	85378	hgsc.bcm.edu	37	22	50660064	50660064	+	Silent	SNP	C	C	T	rs140491142	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	220.0	89.0	226.0	1.0	0.404545	0.00442478	C|0.999;T|0.001	0.001	strong	TUBGCP6,NS,carcinoma,0,1	TUBGCP6	132	1	NM_020461	exon16	c.G2724A	p.P908P	CACGGACGGCTCA	.	scavenged	Atlas-SNP
CATSPER3	347732	hgsc.bcm.edu	37	5	134345062	134345062	+	Missense_Mutation	SNP	A	A	G	rs72800379	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96.0	61.0	74.0	0.0	0.635417	0	A|0.998;G|0.002	0.002	strong	.	CATSPER3	38	.	NM_178019	exon6	c.A818G	p.D273G	TCTAGGACTCCAT	.	PASS	Atlas-SNP
QRFPR	84109	hgsc.bcm.edu	37	4	122301595	122301595	+	Missense_Mutation	SNP	C	C	A	rs55693553	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180.0	94.0	159.0	0.0	0.522222	0	C|0.987;A|0.013	0.013	strong	.	QRFPR	65	.	NM_198179	exon1	c.G208T	p.V70L	GGGTCACCACGTA	.	PASS	Atlas-SNP
GOLIM4	27333	hgsc.bcm.edu	37	3	167747707	167747707	+	Missense_Mutation	SNP	C	C	T	rs140974195	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118.0	40.0	116.0	0.0	0.338983	0	C|0.998;T|0.002	0.002	strong	.	GOLIM4	71	.	NM_014498	exon10	c.G1294A	p.E432K	AAGCTTCCTGGTG	.	PASS	Atlas-SNP
DDX39B	7919	hgsc.bcm.edu	37	6	31503219	31503219	+	Silent	SNP	G	G	A	rs55799418	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104.0	53.0	94.0	0.0	0.509615	0	G|0.993;A|0.007	0.007	strong	.	DDX39B	38	.	NM_004640	exon6	c.C660T	p.H220H	CTTCTCGTGGGGG	.	PASS	Atlas-SNP
ZNF626	199777	hgsc.bcm.edu	37	19	20808414	20808414	+	Missense_Mutation	SNP	C	C	T	rs8110802	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122.0	50.0	86.0	0.0	0.409836	0	C|0.961;T|0.039	0.039	strong	.	ZNF626	121	.	NM_001076675	exon4	c.G269A	p.S90N	TTCATGCTCTGCT	.	PASS	Atlas-SNP
ZNF519	162655	hgsc.bcm.edu	37	18	14105770	14105770	+	Missense_Mutation	SNP	T	T	C	rs61730995	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66.0	31.0	94.0	0.0	0.469697	0	T|0.996;C|0.004	0.004	strong	.	ZNF519	53	.	NM_145287	exon3	c.A769G	p.I257V	TAATTATCTTATG	.	PASS	Atlas-SNP
LGR5	8549	hgsc.bcm.edu	37	12	71977427	71977427	+	Missense_Mutation	SNP	G	G	A	rs200272164	by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	268.0	123.0	281.0	0.0	0.458955	0	G|1.000;A|0.000	0.000	strong	.	LGR5	103	.	NM_003667	exon18	c.G1637A	p.G546D	TTCTAGGCCCCTT	.	PASS	Atlas-SNP
UBE2O	63893	hgsc.bcm.edu	37	17	74392249	74392249	+	Silent	SNP	G	G	A	rs76110889	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80.0	38.0	78.0	0.0	0.475	0	G|0.992;A|0.008	0.008	strong	.	UBE2O	207	.	NM_022066	exon14	c.C2769T	p.S923S	CTTGGCGCTGGTG	.	PASS	Atlas-SNP
ADAM29	11086	hgsc.bcm.edu	37	4	175898913	175898913	+	Missense_Mutation	SNP	C	C	T	rs142711835		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202.0	21.0	145.0	0.0	0.10396	0	.	.	weak	ADAM29,rectum,carcinoma,0,22	ADAM29	262	22	NM_001130703	exon4	c.C2237T	p.T746M	CTGTGACGCCTTC	.	scavenged	Atlas-SNP
FOLH1	2346	hgsc.bcm.edu	37	11	49207398	49207398	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206.0	31.0	195.0	0.0	0.150485	0	.	.	none	.	FOLH1	141	.	NM_004476	exon6	c.G649A	p.A217T	GCTGGGCATTTTT	.	PASS	Atlas-SNP
GSE1	23199	hgsc.bcm.edu	37	16	85702028	85702028	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	25.0	7.0	23.0	0.0	0.28	0	.	.	none	KIAA0182,NS,carcinoma,+1,1	.	.	1	NM_014615	exon14	c.A3413G	p.E1138G	ACATAGAAGGTAA	.	scavenged	Atlas-SNP
ADRA2B	151	hgsc.bcm.edu	37	2	96780863	96780863	+	Silent	SNP	C	C	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71.0	34.0	106.0	0.0	0.478873	0	.	.	none	.	ADRA2B	115	.	NM_000682	exon1	c.G1026C	p.L342L	CCTGCCCAGGAGC	.	PASS	Atlas-SNP
METTL3	56339	hgsc.bcm.edu	37	14	21971694	21971694	+	Silent	SNP	C	C	G	rs11540964	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59.0	27.0	54.0	0.0	0.457627	0	C|0.998;G|0.002	0.002	strong	.	METTL3	48	.	NM_019852	exon3	c.G345C	p.G115G	TTCTACCCCATCT	.	PASS	Atlas-SNP
RFXANK	8625	hgsc.bcm.edu	37	19	19307817	19307817	+	Missense_Mutation	SNP	G	G	A	rs375541634		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47.0	18.0	40.0	0.0	0.382979	0	.	.	weak	.	RFXANK	31	.	NM_003721	exon4	c.G233A	p.R78Q	GGCAGCGAGGGAA	.	PASS	Atlas-SNP
TRDN	10345	hgsc.bcm.edu	37	6	123703291	123703291	+	Missense_Mutation	SNP	A	A	C	rs200706450		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132.0	55.0	180.0	0.0	0.416667	0	.	.	weak	.	TRDN	88	.	NM_001251987	exon15	c.T1140G	p.D380E	CTTGGAATCTGAA	.	PASS	Atlas-SNP
SLC4A8	9498	hgsc.bcm.edu	37	12	51856159	51856159	+	Silent	SNP	C	C	T	rs71449805	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130.0	61.0	104.0	0.0	0.469231	0	C|0.974;T|0.026	0.026	strong	.	SLC4A8	292	.	NM_001039960	exon10	c.C1167T	p.F389F	TGAGTTCCTAGAC	.	PASS	Atlas-SNP
STRAP	11171	hgsc.bcm.edu	37	12	16042908	16042908	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	325.0	45.0	309.0	0.0	0.138462	0	.	.	none	.	STRAP	33	.	NM_007178	exon3	c.C295T	p.H99Y	CTGGCTCATAAAC	.	PASS	Atlas-SNP
CNTN1	1272	hgsc.bcm.edu	37	12	41312471	41312471	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205.0	34.0	184.0	0.0	0.165854	0	.	.	none	.	CNTN1	207	.	NM_001256063	exon4	c.T125C	p.I42T	GACCAATTTTTGA	.	PASS	Atlas-SNP
GEMIN4	50628	hgsc.bcm.edu	37	17	649984	649984	+	Silent	SNP	G	G	A	rs147516197	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99.0	52.0	89.0	0.0	0.525253	0	G|0.991;A|0.009	0.009	strong	.	GEMIN4	116	.	NM_015721	exon2	c.C1299T	p.F433F	GTCCGAGAAGGCC	.	PASS	Atlas-SNP
SAMD9	54809	hgsc.bcm.edu	37	7	92735154	92735154	+	Missense_Mutation	SNP	G	G	A	rs147157740	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217.0	105.0	161.0	0.0	0.483871	0	G|0.995;A|0.005	0.005	strong	.	SAMD9	239	.	NM_001193307	exon2	c.C257T	p.S86F	ATCTTAGATGTCT	.	PASS	Atlas-SNP
FAM13A	10144	hgsc.bcm.edu	37	4	89950630	89950630	+	Silent	SNP	C	C	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137.0	17.0	124.0	0.0	0.124088	0	.	.	none	.	FAM13A	181	.	NM_014883	exon2	c.G198C	p.V66V	ATATTCCACTATA	.	PASS	Atlas-SNP
RLN1	6013	hgsc.bcm.edu	37	9	5335590	5335590	+	Silent	SNP	T	T	G	rs35426888	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40.0	15.0	64.0	0.0	0.375	0	C|0.005;G|0.002;T|0.993	0.002	strong	.	RLN1	16	.	NM_006911	exon2	c.A219C	p.V73V	GGATGGTACAATT	.	PASS	Atlas-SNP
PLEKHG2	64857	hgsc.bcm.edu	37	19	39909394	39909394	+	Silent	SNP	C	C	T	rs146672674	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85.0	39.0	81.0	0.0	0.458824	0	C|0.999;T|0.001	0.001	strong	.	PLEKHG2	329	.	NM_022835	exon10	c.C1104T	p.S368S	CGTGAGCGAGAGT	.	PASS	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	37	22	29886354	29886354	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145.0	77.0	114.0	0.0	0.531034	0	.	.	none	.	NEFH	178	.	NM_021076	exon4	c.G2725A	p.E909K	GAGAAGGAGGCTC	.	PASS	Atlas-SNP
CLIC3	9022	hgsc.bcm.edu	37	9	139890105	139890105	+	Silent	SNP	C	C	G	rs141765089	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68.0	44.0	75.0	0.0	0.647059	0	C|0.991;G|0.009	0.009	strong	.	CLIC3	13	.	NM_004669	exon2	c.G138C	p.T46T	CCTGCGCGTGTCC	.	PASS	Atlas-SNP
CCDC88A	55704	hgsc.bcm.edu	37	2	55615950	55615950	+	Silent	SNP	T	T	C	rs147639776	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	304.0	141.0	262.0	0.0	0.463816	0	T|0.998;C|0.002	0.002	strong	.	CCDC88A	336	.	NM_018084	exon3	c.A237G	p.L79L	AATGGATAGATTG	.	PASS	Atlas-SNP
TAS2R8	50836	hgsc.bcm.edu	37	12	10958896	10958896	+	Missense_Mutation	SNP	T	T	G	rs143804727	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78.0	44.0	80.0	0.0	0.564103	0	T|0.987;G|0.013	0.013	strong	TAS2R8,colon,carcinoma,0,1	TAS2R8	42	1	NM_023918	exon1	c.A684C	p.E228D	ATGAACTTCTGTG	.	PASS	Atlas-SNP
TET2	54790	hgsc.bcm.edu	37	4	106183003	106183003	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	253.0	28.0	269.0	0.0	0.110672	0	.	.	none	.	TET2	1762	.	NM_001127208	exon8	c.C4042A	p.Q1348K	AATAATCAGGTAA	.	PASS	Atlas-SNP
MTMR3	8897	hgsc.bcm.edu	37	22	30415983	30415983	+	Missense_Mutation	SNP	C	C	T	rs61737780	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161.0	70.0	148.0	0.0	0.434783	0	C|0.992;T|0.008	0.008	strong	.	MTMR3	106	.	NM_021090	exon17	c.C2335T	p.L779F	AGTTCTCTCCAGG	.	PASS	Atlas-SNP
HBS1L	10767	hgsc.bcm.edu	37	6	135287597	135287597	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54.0	20.0	70.0	0.0	0.37037	0	.	.	none	.	HBS1L	75	.	NM_006620	exon17	c.G1913A	p.G638D	TTCTGGCCTTTAG	.	PASS	Atlas-SNP
LIG1	3978	hgsc.bcm.edu	37	19	48626236	48626236	+	Silent	SNP	A	A	G	rs116999747	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119.0	57.0	136.0	0.0	0.478992	0	A|0.997;G|0.003	0.003	strong	.	LIG1	151	.	NM_000234	exon23	c.T2187C	p.V729V	GGCATCAACATCC	.	PASS	Atlas-SNP
KATNAL1	84056	hgsc.bcm.edu	37	13	30784566	30784566	+	Silent	SNP	A	A	G	rs11617724	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209.0	206.0	261.0	0.0	0.985646	0	A|0.940;G|0.060	0.060	strong	.	KATNAL1	53	.	NM_001014380	exon10	c.T1161C	p.A387A	AAGCTCAGCTCTT	.	PASS	Atlas-SNP
HK2	3099	hgsc.bcm.edu	37	2	75107651	75107651	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	203.0	22.0	135.0	0.0	0.108374	0	.	.	none	HK2,NS,carcinoma,0,1	HK2	85	1	NM_000189	exon10	c.G1525A	p.V509I	GCCCCCGTCAAGA	.	PASS	Atlas-SNP
LARP1	23367	hgsc.bcm.edu	37	5	154092616	154092616	+	Missense_Mutation	SNP	C	C	T	rs148235669	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	269.0	90.0	285.0	0.0	0.334572	0	C|0.998;T|0.002	0.002	strong	.	LARP1	187	.	NM_015315	exon1	c.C131T	p.A44V	CAGCTGCCCCGAG	.	PASS	Atlas-SNP
ERBB4	2066	hgsc.bcm.edu	37	2	212251864	212251864	+	Silent	SNP	T	T	C	rs3748962	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	266.0	137.0	245.0	0.0	0.515038	0	T|0.756;C|0.244	0.244	strong	.	ERBB4	480	.	NM_005235	exon27	c.A3195G	p.V1065V	TCGGTATACAAAC	.	PASS	Atlas-SNP
MTMR4	9110	hgsc.bcm.edu	37	17	56585593	56585593	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42.0	4.0	35.0	0.0	0.0952381	0	.	.	none	.	MTMR4	91	.	NM_004687	exon8	c.G594A	p.W198X	AGTGATCCACACA	.	PASS	Atlas-SNP
TNK1	8711	hgsc.bcm.edu	37	17	7287992	7287992	+	Silent	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48.0	25.0	68.0	0.0	0.520833	0	.	.	none	.	TNK1	31	.	NM_003985	exon7	c.C1056A	p.L352L	GGCCCTCTACTCC	.	PASS	Atlas-SNP
FAF2	23197	hgsc.bcm.edu	37	5	175919324	175919324	+	Silent	SNP	G	G	A	rs78597771	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76.0	27.0	80.0	0.0	0.355263	0	G|0.978;A|0.022	0.022	strong	.	FAF2	38	.	NM_014613	exon5	c.G474A	p.T158T	GGGAACGTACAGC	.	PASS	Atlas-SNP
EXD1	161829	hgsc.bcm.edu	37	15	41488231	41488231	+	Missense_Mutation	SNP	G	G	C	rs139947718	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70.0	32.0	52.0	0.0	0.457143	0	G|0.996;C|0.004	0.004	strong	.	EXD1	52	.	NM_152596	exon6	c.C365G	p.A122G	TTTGTGGCCACCT	.	PASS	Atlas-SNP
TCP10	6953	hgsc.bcm.edu	37	6	167786686	167786686	+	Missense_Mutation	SNP	C	C	T	rs140649985	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188.0	49.0	173.0	0.0	0.260638	0	C|0.994;T|0.006	0.006	strong	.	TCP10	35	.	NM_004610	exon8	c.G952A	p.A318T	AGGGAGCGGCGTG	.	PASS	Atlas-SNP
SLC23A3	151295	hgsc.bcm.edu	37	2	220034377	220034377	+	Silent	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105.0	5.0	107.0	0.0	0.047619	0	.	.	none	.	SLC23A3	60	.	NM_001144890	exon2	c.G186T	p.L62L	ACAGAGCAGAGAA	.	PASS	Atlas-SNP
NUAK2	81788	hgsc.bcm.edu	37	1	205273040	205273040	+	Silent	SNP	G	G	A	rs56069742	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116.0	59.0	134.0	0.0	0.508621	0	G|0.992;A|0.008	0.008	strong	.	NUAK2	107	.	NM_030952	exon7	c.C1425T	p.G475G	CACGTCGCCTGCG	.	PASS	Atlas-SNP
SMIM3	85027	hgsc.bcm.edu	37	5	150175109	150175109	+	Missense_Mutation	SNP	C	C	T	rs61736140	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58.0	40.0	59.0	0.0	0.689655	0	C|0.996;T|0.004	0.004	strong	.	.	.	.	NM_032947	exon2	c.C107T	p.S36L	TGACCTCGTTGTT	.	PASS	Atlas-SNP
CCDC146	57639	hgsc.bcm.edu	37	7	76891535	76891535	+	Nonsense_Mutation	SNP	C	C	T	rs371350411		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102.0	13.0	74.0	0.0	0.127451	0	.	.	weak	CCDC146,NS,carcinoma,0,2	CCDC146	87	2	NM_020879	exon9	c.C1084T	p.R362X	GATTTTCGAAATT	.	PASS	Atlas-SNP
NLRP5	126206	hgsc.bcm.edu	37	19	56538723	56538723	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48.0	11.0	57.0	0.0	0.229167	0	.	.	none	.	NLRP5	217	.	NM_153447	exon7	c.C1124T	p.T375I	ATGACACAAAGCT	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100696348	100696348	+	Silent	SNP	G	G	T	rs200413820	by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112.0	43.0	97.0	0.0	0.383929	0	G|1.000;T|0.000	0.000	strong	MUC17,right_lower_lobe,carcinoma,0,1	MUC17	804	1	NM_001040105	exon10	c.G13185T	p.V4395V	CCTCGTGGGGGCA	.	PASS	Atlas-SNP
WWTR1	25937	hgsc.bcm.edu	37	3	149290781	149290781	+	Silent	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95.0	15.0	92.0	0.0	0.157895	0	.	.	none	.	WWTR1	42	.	NM_001168278	exon4	c.A438C	p.I146I	TTTTTCTATGTGA	.	PASS	Atlas-SNP
JMJD1C	221037	hgsc.bcm.edu	37	10	64927837	64927837	+	Missense_Mutation	SNP	C	C	T	rs71508957	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112.0	45.0	102.0	0.0	0.401786	0	C|0.998;T|0.002	0.002	strong	.	JMJD1C	347	.	NM_032776	exon26	c.G7591A	p.E2531K	CATCCTCGTGTAT	.	PASS	Atlas-SNP
CEP250	11190	hgsc.bcm.edu	37	20	34092076	34092076	+	Missense_Mutation	SNP	G	G	A	rs56259282	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54.0	21.0	48.0	0.0	0.388889	0	G|0.993;A|0.007	0.007	strong	.	CEP250	141	.	NM_007186	exon30	c.G5879A	p.R1960Q	CTGCCCGGGCCCG	.	PASS	Atlas-SNP
CYP2A13	1553	hgsc.bcm.edu	37	19	41600311	41600311	+	Missense_Mutation	SNP	A	A	C	rs115698903	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213.0	108.0	229.0	0.0	0.507042	0	A|0.995;C|0.005	0.005	strong	CYP2A13,NS,carcinoma,-1,1	CYP2A13	90	1	NM_000766	exon7	c.A1135C	p.K379Q	GACACCAAGTTTC	.	PASS	Atlas-SNP
TPST2	8459	hgsc.bcm.edu	37	22	26937198	26937198	+	Silent	SNP	C	C	G	rs140525210	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49.0	23.0	38.0	0.0	0.469388	0	C|0.985;G|0.015	0.015	strong	.	TPST2	23	.	NM_001008566	exon3	c.G399C	p.L133L	GGCGTCCAGCACC	.	PASS	Atlas-SNP
LTA	4049	hgsc.bcm.edu	37	6	31541086	31541086	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157.0	50.0	175.0	0.0	0.318471	0	.	.	none	.	LTA	18	.	NM_001159740	exon4	c.C234T	p.L78L	ACTGCTCTGGAGA	.	PASS	Atlas-SNP
USP24	23358	hgsc.bcm.edu	37	1	55589175	55589175	+	Silent	SNP	C	C	T	rs145599916	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124.0	50.0	124.0	0.0	0.403226	0	C|1.000;T|0.000	0.000	strong	.	USP24	323	.	NM_015306	exon36	c.G4221A	p.A1407A	CTCTCCCGCAATC	.	PASS	Atlas-SNP
EHMT1	79813	hgsc.bcm.edu	37	9	140638534	140638534	+	Missense_Mutation	SNP	G	G	A	rs11137198	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50.0	31.0	40.0	0.0	0.62	0	G|0.986;A|0.014	0.014	strong	.	EHMT1	196	.	NM_001145527	exon6	c.G1162A	p.A388T	GATCGCGCCCAGA	.	PASS	Atlas-SNP
C11orf40	143501	hgsc.bcm.edu	37	11	4594648	4594648	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150.0	78.0	154.0	0.0	0.52	0	.	.	none	C11orf40,NS,carcinoma,0,1	C11orf40	37	1	NM_144663	exon2	c.G196C	p.D66H	ACACATCCTTATC	.	PASS	Atlas-SNP
CECR6	27439	hgsc.bcm.edu	37	22	17600420	17600420	+	Missense_Mutation	SNP	C	C	A	rs184892903	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	15.0	11.0	26.0	0.0	0.733333	0	.	.	weak	.	CECR6	11	.	NM_031890	exon1	c.G1598T	p.G533V	CCGTAGCCCCCTC	.	PASS	Atlas-SNP
USP26	83844	hgsc.bcm.edu	37	X	132161159	132161159	+	Missense_Mutation	SNP	G	G	A	rs35397110	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136.0	133.0	265.0	0.0	0.977941	0	G|0.963;A|0.037	0.037	strong	.	USP26	135	.	NM_031907	exon1	c.C1090T	p.L364F	TTTTAAGATTCAA	.	PASS	Atlas-SNP
SOLH	6650	hgsc.bcm.edu	37	16	602430	602430	+	Silent	SNP	C	C	T	rs148358614	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	16.0	10.0	34.0	0.0	0.625	0	C|0.995;T|0.005	0.005	strong	SOLH,NS,carcinoma,0,1	SOLH	47	1	NM_005632	exon11	c.C2637T	p.F879F	GAAGTTCGTCAGC	.	PASS	Atlas-SNP
ZBTB3	79842	hgsc.bcm.edu	37	11	62519806	62519806	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101.0	54.0	80.0	0.0	0.534653	0	.	.	none	.	ZBTB3	47	.	NM_024784	exon2	c.A1481G	p.H494R	CGTGTGTGCACCG	.	PASS	Atlas-SNP
SEMA3E	9723	hgsc.bcm.edu	37	7	82996931	82996931	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	233.0	112.0	249.0	0.0	0.480687	0	.	.	none	.	SEMA3E	125	.	NM_012431	exon17	c.C2299T	p.R767C	GCAGGCGGTAATG	.	PASS	Atlas-SNP
CACNA1H	8912	hgsc.bcm.edu	37	16	1258033	1258033	+	Missense_Mutation	SNP	G	G	T	rs41292285	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125.0	64.0	121.0	0.0	0.512	0	G|0.992;T|0.008	0.008	strong	.	CACNA1H	317	.	NM_021098	exon16	c.G3175T	p.A1059S	TCCCTGGCCGTGA	.	PASS	Atlas-SNP
SOLH	6650	hgsc.bcm.edu	37	16	602647	602647	+	Missense_Mutation	SNP	C	C	T	rs200960455	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	20.0	9.0	37.0	0.0	0.45	0	.	.	weak	.	SOLH	47	.	NM_005632	exon12	c.C2780T	p.P927L	CAGAGCCGCCGGG	.	PASS	Atlas-SNP
OTUD7A	161725	hgsc.bcm.edu	37	15	31776837	31776837	+	Missense_Mutation	SNP	C	C	G	rs76704217	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137.0	59.0	126.0	0.0	0.430657	0	C|0.970;G|0.030	0.030	strong	.	OTUD7A	89	.	NM_130901	exon11	c.G1441C	p.V481L	TGCACACCGAATC	.	PASS	Atlas-SNP
SUOX	6821	hgsc.bcm.edu	37	12	56397802	56397802	+	Missense_Mutation	SNP	C	C	T	rs141735896	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	270.0	131.0	263.0	0.0	0.485185	0	C|0.997;T|0.003	0.003	strong	.	SUOX	33	.	NM_000456	exon6	c.C629T	p.P210L	TCACACCCAACCC	.	PASS	Atlas-SNP
PTPN1	5770	hgsc.bcm.edu	37	20	49195749	49195749	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72.0	24.0	58.0	0.0	0.333333	0	.	.	none	.	PTPN1	36	.	NM_002827	exon7	c.G747A	p.V249V	GAAAGTGCTGTTA	.	PASS	Atlas-SNP
TMTC2	160335	hgsc.bcm.edu	37	12	83290083	83290083	+	Missense_Mutation	SNP	G	G	A	rs35725509	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107.0	43.0	121.0	0.0	0.401869	0	G|0.994;A|0.006	0.006	strong	.	TMTC2	100	.	NM_152588	exon3	c.G1141A	p.V381I	AACGATGTATCAC	.	PASS	Atlas-SNP
CAPN5	726	hgsc.bcm.edu	37	11	76796082	76796082	+	Silent	SNP	G	G	A	rs368891933		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63.0	40.0	69.0	0.0	0.634921	0	.	.	weak	.	CAPN5	67	.	NM_004055	exon2	c.G150A	p.R50R	CGTCAGGTGGAAG	.	PASS	Atlas-SNP
PTPRZ1	5803	hgsc.bcm.edu	37	7	121698871	121698871	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87.0	8.0	80.0	0.0	0.091954	0	.	.	none	PTPRZ1_ENST00000393386,NS,carcinoma,0,2	PTPRZ1	605	2	NM_002851	exon28	c.A6546C	p.E2182D	ACTTGAAGTGAGG	.	PASS	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	37	6	38903421	38903421	+	Silent	SNP	G	G	A	rs61748646	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44.0	23.0	40.0	0.0	0.522727	0	G|0.980;A|0.020	0.020	strong	.	DNAH8	1239	.	NM_001206927	exon77	c.G11511A	p.R3837R	TAAGCGGAAGATG	.	PASS	Atlas-SNP
HIPK4	147746	hgsc.bcm.edu	37	19	40886987	40886987	+	Missense_Mutation	SNP	G	G	T	rs79330270	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58.0	33.0	67.0	0.0	0.568965	0	A|0.001;G|0.993;T|0.006	0.006	strong	.	HIPK4	100	.	NM_144685	exon3	c.C911A	p.T304N	GGGAAGGTTAGCC	.	PASS	Atlas-SNP
KRTAP1-1	81851	hgsc.bcm.edu	37	17	39197485	39197485	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196.0	24.0	180.0	0.0	0.122449	0	.	.	none	.	KRTAP1-1	23	.	NM_030967	exon1	c.T165C	p.C55C	AAATCCACAGAAG	.	PASS	Atlas-SNP
C15orf27	123591	hgsc.bcm.edu	37	15	76494569	76494569	+	Missense_Mutation	SNP	A	A	G	rs62030189	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151.0	80.0	140.0	0.0	0.529801	0	A|0.996;G|0.004	0.004	strong	.	C15orf27	32	.	NM_152335	exon10	c.A985G	p.S329G	ATGAACAGCTACA	.	PASS	Atlas-SNP
CEBPZ	10153	hgsc.bcm.edu	37	2	37455232	37455232	+	Silent	SNP	C	C	A	rs35414551	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158.0	78.0	135.0	0.0	0.493671	0	C|0.989;A|0.011	0.011	strong	.	CEBPZ	68	.	NM_005760	exon2	c.G1104T	p.V368V	ATGAGCCACGGTA	.	PASS	Atlas-SNP
MAPKAPK2	9261	hgsc.bcm.edu	37	1	206905040	206905040	+	Silent	SNP	C	C	T	rs34526867	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212.0	107.0	182.0	0.0	0.504717	0	C|0.956;T|0.044	0.044	strong	.	MAPKAPK2	45	.	NM_004759	exon8	c.C948T	p.I316I	GACCATCACCGAG	.	PASS	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	37	6	38805753	38805753	+	Silent	SNP	G	G	A	rs45622336	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173.0	95.0	123.0	0.0	0.549133	0	G|0.995;A|0.005	0.005	strong	DNAH8_ENST00000359357,head_neck,malignant_melanoma,+1,2	DNAH8	1239	2	NM_001206927	exon33	c.G4401A	p.T1467T	TGTTACGTATTCA	.	PASS	Atlas-SNP
NARS2	79731	hgsc.bcm.edu	37	11	78189653	78189653	+	Missense_Mutation	SNP	T	T	C	rs116930926	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166.0	71.0	150.0	0.0	0.427711	0	T|0.984;C|0.016	0.016	strong	.	NARS2	62	.	NM_024678	exon8	c.A899G	p.K300R	ATGAATTTGTGAC	.	PASS	Atlas-SNP
DISP2	85455	hgsc.bcm.edu	37	15	40660043	40660043	+	Missense_Mutation	SNP	G	G	T	rs76331864	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22.0	10.0	22.0	0.0	0.454545	0	G|0.977;T|0.023	0.023	strong	.	DISP2	86	.	NM_033510	exon8	c.G1730T	p.G577V	CGGGGGGGCTGGC	.	PASS	Atlas-SNP
COBLL1	22837	hgsc.bcm.edu	37	2	165578602	165578602	+	Missense_Mutation	SNP	C	C	T	rs74459242	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130.0	71.0	130.0	0.0	0.546154	0	C|0.971;T|0.029	0.029	strong	.	COBLL1	122	.	NM_014900	exon6	c.G979A	p.V327M	CATCCACGCTCAT	.	PASS	Atlas-SNP
EDNRA	1909	hgsc.bcm.edu	37	4	148461071	148461071	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174.0	30.0	155.0	0.0	0.172414	0	.	.	none	EDNRA,NS,carcinoma,-1,2	EDNRA	48	2	NM_001957	exon6	c.G1003A	p.E335K	TATAACGAGATGG	.	PASS	Atlas-SNP
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32497986	32497986	+	Missense_Mutation	SNP	G	G	A	rs200744795		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209.0	13.0	62.0	2.0	0.062201	0.0322581	.	.	weak	HLA-DRB5,rectum,carcinoma,0,1	HLA-DRB5	31	1	NM_002125	exon1	c.C16T	p.L6F	CAGGGAGCTTCAG	.	scavenged	Atlas-SNP
MFN2	9927	hgsc.bcm.edu	37	1	12061598	12061598	+	Silent	SNP	C	C	T	rs41278632	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135.0	79.0	107.0	0.0	0.585185	0	C|0.991;T|0.009	0.009	strong	.	MFN2	83	.	NM_014874	exon9	c.C957T	p.G319G	CCAGGGCATGCCT	.	PASS	Atlas-SNP
ANKS1B	56899	hgsc.bcm.edu	37	12	99139559	99139559	+	Silent	SNP	G	G	T	rs61932058	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114.0	59.0	106.0	0.0	0.517544	0	G|0.984;T|0.016	0.016	strong	.	ANKS1B	180	.	NM_181670	exon13	c.C1491A	p.A497A	CCTCTTGGCTTCT	.	PASS	Atlas-SNP
TECTA	7007	hgsc.bcm.edu	37	11	121028666	121028666	+	Silent	SNP	C	C	T	rs33981325	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53.0	35.0	64.0	0.0	0.660377	0	C|0.978;T|0.022	0.022	strong	TECTA,NS,carcinoma,+1,1	TECTA	329	1	NM_005422	exon13	c.C4422T	p.N1474N	GCGCAACGGGGTG	.	PASS	Atlas-SNP
GPNMB	10457	hgsc.bcm.edu	37	7	23313745	23313745	+	Silent	SNP	C	C	T	rs78340800	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122.0	55.0	106.0	0.0	0.45082	0	C|0.995;T|0.005	0.005	strong	.	GPNMB	88	.	NM_001005340	exon11	c.C1621T	p.L541L	AAAGGCCTGAGTG	.	PASS	Atlas-SNP
CYP3A5	1577	hgsc.bcm.edu	37	7	99261643	99261643	+	Nonsense_Mutation	SNP	A	A	T	rs201260783	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166.0	78.0	141.0	0.0	0.46988	0	.	.	weak	.	CYP3A5	46	.	NM_000777	exon8	c.T746A	p.L249X	TTACTTAAAAAAT	.	PASS	Atlas-SNP
SUV39H2	79723	hgsc.bcm.edu	37	10	14939485	14939485	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59.0	23.0	64.0	0.0	0.38983	0	.	.	none	SUV39H2,colon,carcinoma,0,1	SUV39H2	72	1	NM_001193424	exon3	c.G818A	p.R273K	TTAAAAGAATGAG	.	PASS	Atlas-SNP
TCP10L2	401285	hgsc.bcm.edu	37	6	167592571	167592571	+	Missense_Mutation	SNP	G	G	A	rs28690444	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135.0	16.0	98.0	0.0	0.118519	0	G|0.965;A|0.035	0.035	strong	.	TCP10L2	41	.	NM_001145121	exon6	c.G730A	p.A244T	CAGGCCGCCACGC	.	PASS	Atlas-SNP
OTOF	9381	hgsc.bcm.edu	37	2	26696374	26696374	+	Missense_Mutation	SNP	C	C	T	rs56054534	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91.0	42.0	79.0	0.0	0.461538	0	C|0.991;T|0.009	0.009	strong	.	OTOF	524	.	NM_194248	exon28	c.G3470A	p.R1157Q	TCCACCCGTGGCC	.	PASS	Atlas-SNP
ZNF516	9658	hgsc.bcm.edu	37	18	74090864	74090864	+	Missense_Mutation	SNP	A	A	G	rs140499406	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77.0	26.0	104.0	0.0	0.337662	0	A|0.994;G|0.006	0.006	strong	.	ZNF516	102	.	NM_014643	exon5	c.T3205C	p.F1069L	TCGCAAAGTCCTT	.	PASS	Atlas-SNP
CERS4	79603	hgsc.bcm.edu	37	19	8326672	8326672	+	Missense_Mutation	SNP	G	G	A	rs141592194	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	269.0	110.0	304.0	0.0	0.408922	0	G|0.999;A|0.001	0.001	strong	.	.	.	.	NM_024552	exon11	c.G949A	p.V317M	CTGCACGTGTTCT	.	PASS	Atlas-SNP
GALNT11	63917	hgsc.bcm.edu	37	7	151791435	151791435	+	Silent	SNP	C	C	T	rs138436495	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122.0	72.0	93.0	0.0	0.590164	0	C|0.998;T|0.002	0.002	strong	GALNT11,NS,carcinoma,+1,1	GALNT11	59	1	NM_022087	exon2	c.C123T	p.P41P	TGTGCCCGTCAAG	.	PASS	Atlas-SNP
ANKS1B	56899	hgsc.bcm.edu	37	12	100048924	100048924	+	Missense_Mutation	SNP	G	G	A	rs377459874		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	250.0	114.0	224.0	0.0	0.456	0	.	.	weak	.	ANKS1B	180	.	NM_152788	exon9	c.C1193T	p.T398M	CCACACGTATTTT	.	PASS	Atlas-SNP
CSMD2	114784	hgsc.bcm.edu	37	1	34052137	34052137	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92.0	36.0	146.0	0.0	0.391304	0	.	.	none	.	CSMD2	946	.	NM_052896	exon47	c.C7024T	p.L2342L	ACTGCAGGTAGGT	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155158284	155158284	+	Nonsense_Mutation	SNP	A	A	C	rs146298768	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102.0	52.0	102.0	0.0	0.509804	0	A|0.998;C|0.002	0.002	strong	.	DCHS2	594	.	NM_017639	exon25	c.T6155G	p.L2052X	AGAAGTAATACGG	.	PASS	Atlas-SNP
POTEF	728378	hgsc.bcm.edu	37	2	130832364	130832364	+	Missense_Mutation	SNP	G	G	A	rs185469611	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	409.0	362.0	250.0	0.0	0.885086	0	G|0.988;A|0.012	0.012	strong	.	POTEF	140	.	NM_001099771	exon17	c.C2681T	p.T894I	TGCTCGGTGAGGA	.	PASS	Atlas-SNP
LRRTM3	347731	hgsc.bcm.edu	37	10	68687942	68687942	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56.0	21.0	71.0	0.0	0.375	0	.	.	none	.	LRRTM3	241	.	NM_178011	exon2	c.G1268C	p.G423A	TCGCGGGCAGCGT	.	PASS	Atlas-SNP
NCOR2	9612	hgsc.bcm.edu	37	12	124831388	124831388	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46.0	24.0	44.0	0.0	0.521739	0	.	.	none	.	NCOR2	475	.	NM_006312	exon33	c.C4081T	p.R1361W	AGGACCGAGGGAT	.	PASS	Atlas-SNP
CASZ1	54897	hgsc.bcm.edu	37	1	10725469	10725469	+	Missense_Mutation	SNP	G	G	A	rs149479567	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	32.0	24.0	65.0	0.0	0.75	0	G|0.993;A|0.007	0.007	strong	.	CASZ1	150	.	NM_001079843	exon5	c.C176T	p.S59L	GGCTGCGATGGGC	.	PASS	Atlas-SNP
ATM	472	hgsc.bcm.edu	37	11	108124761	108124761	+	Missense_Mutation	SNP	T	T	C	rs4986761	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67.0	35.0	63.0	0.0	0.522388	0	T|0.993;C|0.007	0.007	strong	ATM,NS,carcinoma,0,2	ATM	1657	2	NM_000051	exon13	c.T2119C	p.S707P	TACTCATCTGAGG	.	PASS	Atlas-SNP
KLF3	51274	hgsc.bcm.edu	37	4	38690515	38690515	+	Missense_Mutation	SNP	A	A	G	rs199559194	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161.0	73.0	141.0	0.0	0.453416	0	A|0.999;G|0.001	0.001	weak	.	KLF3	40	.	NM_016531	exon3	c.A367G	p.M123V	CTGTCCATGCCAC	.	PASS	Atlas-SNP
EML5	161436	hgsc.bcm.edu	37	14	89220874	89220874	+	Silent	SNP	C	C	T	rs201072176	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95.0	53.0	93.0	0.0	0.557895	0	C|0.999;T|0.001	0.001	weak	.	EML5	141	.	NM_183387	exon2	c.G339A	p.A113A	GTCAAACGCCAAG	.	PASS	Atlas-SNP
PHC3	80012	hgsc.bcm.edu	37	3	169846937	169846937	+	Silent	SNP	A	A	G	rs373112767		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131.0	58.0	128.0	0.0	0.442748	0	.	.	weak	.	PHC3	113	.	NM_024947	exon8	c.T1323C	p.A441A	CTGGAGAGCTGAT	.	PASS	Atlas-SNP
AK2	204	hgsc.bcm.edu	37	1	33502376	33502376	+	Silent	SNP	G	G	A	rs76061645	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	244.0	26.0	333.0	0.0	0.106557	0	G|0.955;A|0.045	0.045	strong	.	AK2	27	.	NM_001199199	exon1	c.C54T	p.A18A	CAGCACGGCCCGG	.	PASS	Atlas-SNP
CYP2A6	1548	hgsc.bcm.edu	37	19	41351321	41351321	+	Missense_Mutation	SNP	C	C	T	rs78337605	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	368.0	44.0	406.0	0.0	0.119565	0	C|0.500;T|0.500	0.500	strong	.	CYP2A6	69	.	NM_000762	exon7	c.G1039A	p.A347T	TCTTGGCCCGGTC	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11511480	11511480	+	Missense_Mutation	SNP	G	G	A	rs17599639	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92.0	45.0	84.0	0.0	0.48913	0	G|0.971;A|0.029	0.029	strong	DNAH9,NS,malignant_melanoma,+1,1	DNAH9	695	1	NM_001372	exon2	c.G452A	p.R151H	AGAATCGCCTAAA	.	PASS	Atlas-SNP
PUM1	9698	hgsc.bcm.edu	37	1	31441316	31441316	+	Silent	SNP	T	T	C	rs202191174	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100.0	29.0	139.0	0.0	0.29	0	T|1.000;C|0.000	0.000	strong	.	PUM1	107	.	NM_014676	exon11	c.A1530G	p.Q510Q	AGGACGTTGGCTG	.	PASS	Atlas-SNP
F13B	2165	hgsc.bcm.edu	37	1	197029592	197029592	+	Missense_Mutation	SNP	C	C	T	rs145637157	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	203.0	105.0	184.0	0.0	0.517241	0	C|1.000;T|0.000	0.000	weak	.	F13B	137	.	NM_001994	exon5	c.G709A	p.V237I	ACTGAACGACATC	.	PASS	Atlas-SNP
KIAA1217	56243	hgsc.bcm.edu	37	10	24834980	24834980	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	271.0	129.0	255.0	0.0	0.476015	0	.	.	none	KIAA1217,NS,carcinoma,0,1	KIAA1217	235	1	NM_019590	exon21	c.C5559T	p.L1853L	CTCCCTCATCCCT	.	PASS	Atlas-SNP
TEKT4	150483	hgsc.bcm.edu	37	2	95537568	95537568	+	Missense_Mutation	SNP	C	C	T	rs80243548	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	16.0	10.0	36.0	0.0	0.625	0	C|0.978;G|0.007;T|0.015	0.015	strong	TEKT4,bladder,carcinoma,-2,2	TEKT4	72	2	NM_144705	exon1	c.C244T	p.R82C	GCGCAGCGCACGC	.	PASS	Atlas-SNP
FRMPD2	143162	hgsc.bcm.edu	37	10	49400730	49400730	+	Missense_Mutation	SNP	C	C	T	rs116034788	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131.0	60.0	121.0	0.0	0.458015	0	C|0.998;T|0.002	0.002	strong	FRMPD2,NS,carcinoma,-1,1	FRMPD2	157	1	NM_001018071	exon16	c.G2162A	p.R721H	CACCTGCGCCCGA	.	PASS	Atlas-SNP
SDC4	6385	hgsc.bcm.edu	37	20	43956017	43956017	+	Missense_Mutation	SNP	C	C	T	rs202142981	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116.0	55.0	103.0	0.0	0.474138	0	.	.	weak	.	SDC4	16	.	NM_002999	exon5	c.G484A	p.V162I	GGAAGACGGCAAA	.	PASS	Atlas-SNP
MYOM1	8736	hgsc.bcm.edu	37	18	3141939	3141939	+	Missense_Mutation	SNP	T	T	C	rs200179081	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89.0	29.0	83.0	0.0	0.325843	0	.	.	weak	.	MYOM1	192	.	NM_003803	exon14	c.A2023G	p.K675E	TTACCTTTTCCAC	.	PASS	Atlas-SNP
PHRF1	57661	hgsc.bcm.edu	37	11	582056	582056	+	Silent	SNP	G	G	A	rs117660271	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77.0	34.0	67.0	0.0	0.441558	0	G|0.997;A|0.003	0.003	strong	.	PHRF1	188	.	NM_020901	exon3	c.G189A	p.E63E	GTCTGAGGAGGAA	.	PASS	Atlas-SNP
IREB2	3658	hgsc.bcm.edu	37	15	78789534	78789534	+	Missense_Mutation	SNP	A	A	G	rs140959198	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170.0	83.0	167.0	0.0	0.488235	0	A|0.998;G|0.002	0.002	strong	.	IREB2	106	.	NM_004136	exon21	c.A2662G	p.I888V	ATTGGCATAGCTC	.	PASS	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	37	1	145299838	145299838	+	Missense_Mutation	SNP	G	G	A	rs200473325	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98.0	7.0	208.0	1.0	0.0714286	0.00480769	G|0.733;A|0.266	0.266	strong	NBPF10_ENST00000369338,NS,carcinoma,0,10	NBPF10	221	10	NM_001039703	exon6	c.G887A	p.R296H	AATTGCGCCCCCA	.	scavenged	Atlas-SNP
VPRBP	9730	hgsc.bcm.edu	37	3	51475454	51475454	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145.0	68.0	123.0	0.0	0.468966	0	.	.	none	.	VPRBP	107	.	NM_014703	exon8	c.A973G	p.I325V	GCTCGATAGCAGG	.	PASS	Atlas-SNP
EVC	2121	hgsc.bcm.edu	37	4	5806512	5806512	+	Silent	SNP	G	G	A	rs115976359	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96.0	40.0	54.0	0.0	0.416667	0	G|0.991;A|0.009	0.009	strong	EVC,colon,carcinoma,0,3	EVC	90	3	NM_153717	exon17	c.G2505A	p.S835S	CCCTTCGTCGGGC	.	PASS	Atlas-SNP
BTBD7	55727	hgsc.bcm.edu	37	14	93712290	93712290	+	Missense_Mutation	SNP	C	C	A	rs61991737	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77.0	34.0	71.0	0.0	0.441558	0	C|0.999;A|0.001	0.001	strong	.	BTBD7	112	.	NM_001002860	exon10	c.G2464T	p.A822S	GTGCAGCTTTCAC	.	PASS	Atlas-SNP
HMGCS2	3158	hgsc.bcm.edu	37	1	120293454	120293454	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114.0	60.0	113.0	0.0	0.526316	0	.	.	none	.	HMGCS2	58	.	NM_005518	exon9	c.C1498T	p.R500C	TTCGGCGATGCTG	.	PASS	Atlas-SNP
GUCA1B	2979	hgsc.bcm.edu	37	6	42152583	42152583	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98.0	4.0	74.0	0.0	0.0408163	0	.	.	none	.	GUCA1B	19	.	NM_002098	exon4	c.T573C	p.A191A	CTGCTGAGCGAGC	.	PASS	Atlas-SNP
GUF1	60558	hgsc.bcm.edu	37	4	44680660	44680660	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	34.0	16.0	44.0	0.0	0.470588	0	.	.	none	.	GUF1	72	.	NM_021927	exon1	c.G21A	p.R7R	GGGTCGGGGCTGG	.	PASS	Atlas-SNP
SIPA1L1	26037	hgsc.bcm.edu	37	14	72090809	72090809	+	Silent	SNP	G	G	A	rs113082664	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85.0	35.0	80.0	0.0	0.411765	0	G|0.994;A|0.006	0.006	strong	.	SIPA1L1	219	.	NM_015556	exon4	c.G1674A	p.S558S	TCCGTCGACAGCC	.	PASS	Atlas-SNP
SLIT2	9353	hgsc.bcm.edu	37	4	20533613	20533613	+	Silent	SNP	C	C	G	rs150677598	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	265.0	128.0	286.0	0.0	0.483019	0	C|0.998;G|0.002	0.002	strong	SLIT2,NS,carcinoma,+2,1	SLIT2	290	1	NM_004787	exon17	c.C1620G	p.L540L	GCGTCTCAATAAT	.	PASS	Atlas-SNP
CLASP1	23332	hgsc.bcm.edu	37	2	122104692	122104692	+	Silent	SNP	G	G	A	rs374603441		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137.0	59.0	148.0	0.0	0.430657	0	.	.	weak	.	CLASP1	135	.	NM_015282	exon38	c.C4452T	p.S1484S	AAACACGCTGGCC	.	PASS	Atlas-SNP
POU4F2	5458	hgsc.bcm.edu	37	4	147561147	147561147	+	Missense_Mutation	SNP	C	C	A	rs147517729	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78.0	36.0	82.0	0.0	0.461538	0	C|0.992;A|0.008	0.008	strong	.	POU4F2	83	.	NM_004575	exon2	c.C417A	p.D139E	ACCGGACGCCACC	.	PASS	Atlas-SNP
COL15A1	1306	hgsc.bcm.edu	37	9	101797679	101797679	+	Silent	SNP	C	C	G	rs35494947	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85.0	85.0	76.0	0.0	1	0	C|0.992;G|0.008	0.008	strong	.	COL15A1	211	.	NM_001855	exon19	c.C2268G	p.L756L	CAAACTCTCCAGA	.	PASS	Atlas-SNP
METTL2A	339175	hgsc.bcm.edu	37	17	60525113	60525113	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	274.0	134.0	268.0	1.0	0.489051	0.00373134	.	.	none	.	METTL2A	31	.	NM_181725	exon8	c.A968C	p.Y323S	GAGTTTACTTCTT	.	PASS	Atlas-SNP
CASQ1	844	hgsc.bcm.edu	37	1	160162591	160162591	+	Splice_Site	SNP	G	G	C	rs145486953	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144.0	51.0	117.0	0.0	0.354167	0	G|0.998;C|0.002	0.002	strong	.	CASQ1	55	.	NM_001231	exon2	c.280-1G>C	.	CCTCCAGTTAGCA	.	PASS	Atlas-SNP
LRRC4C	57689	hgsc.bcm.edu	37	11	40136049	40136049	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	295.0	133.0	265.0	0.0	0.450847	0	.	.	none	LRRC4C,NS,carcinoma,0,1	LRRC4C	190	1	NM_001258419	exon7	c.T1794C	p.Y598Y	TGAGTTATAGTGA	.	PASS	Atlas-SNP
RNF144B	255488	hgsc.bcm.edu	37	6	18457574	18457574	+	Silent	SNP	C	C	T	rs75403847	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156.0	72.0	109.0	0.0	0.461538	0	C|0.999;T|0.001	0.001	strong	.	RNF144B	18	.	NM_182757	exon5	c.C520T	p.L174L	ATTGTCCTGCCAA	.	PASS	Atlas-SNP
PYGO1	26108	hgsc.bcm.edu	37	15	55838976	55838976	+	Missense_Mutation	SNP	C	C	G	rs144876912	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187.0	99.0	180.0	0.0	0.529412	0	C|0.998;G|0.002	0.002	strong	PYGO1,NS,carcinoma,+2,1	PYGO1	56	1	NM_015617	exon3	c.G505C	p.V169L	TGTTGACATTCTG	.	PASS	Atlas-SNP
ZNF831	128611	hgsc.bcm.edu	37	20	57766113	57766113	+	Silent	SNP	G	G	A	rs148289392	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27.0	14.0	49.0	0.0	0.518519	0	G|0.999;A|0.001	0.001	strong	.	ZNF831	287	.	NM_178457	exon1	c.G39A	p.A13A	TCCTGCGAGGGAC	.	PASS	Atlas-SNP
TSTD2	158427	hgsc.bcm.edu	37	9	100364900	100364900	+	Missense_Mutation	SNP	A	A	C	rs145024955	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	228.0	111.0	252.0	0.0	0.486842	0	A|0.999;C|0.001	0.001	strong	.	TSTD2	42	.	NM_139246	exon10	c.T1402G	p.S468A	GGCCTGAAACTTT	.	PASS	Atlas-SNP
TMEM61	199964	hgsc.bcm.edu	37	1	55451850	55451850	+	Silent	SNP	G	G	A	rs148773188		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61.0	25.0	111.0	0.0	0.409836	0	G|1.000;A|0.000	0.000	weak	.	TMEM61	22	.	NM_182532	exon2	c.G96A	p.T32T	CGGGACGCTCTGC	.	PASS	Atlas-SNP
TEX40	25858	hgsc.bcm.edu	37	11	64071272	64071272	+	Missense_Mutation	SNP	G	G	C	rs117629442	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126.0	66.0	97.0	0.0	0.52381	0	G|0.991;C|0.009	0.009	strong	.	.	.	.	NM_001039496	exon4	c.G460C	p.E154Q	CTCATGGAGAATG	.	PASS	Atlas-SNP
GALR1	2587	hgsc.bcm.edu	37	18	74980553	74980553	+	Missense_Mutation	SNP	G	G	A	rs142216832	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52.0	31.0	77.0	0.0	0.596154	0	G|0.993;A|0.007	0.007	strong	.	GALR1	53	.	NM_001480	exon3	c.G745A	p.V249I	CAGACAGTTCTGG	.	PASS	Atlas-SNP
EPHA3	2042	hgsc.bcm.edu	37	3	89448610	89448610	+	Missense_Mutation	SNP	A	A	T	rs150469112		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58.0	33.0	93.0	0.0	0.568965	0	A|1.000;T|0.000	0.000	weak	.	EPHA3	501	.	NM_005233	exon7	c.A1574T	p.E525V	AGTTTGAGTTTGA	.	PASS	Atlas-SNP
TBP	6908	hgsc.bcm.edu	37	6	170871103	170871103	+	Silent	SNP	G	G	A	rs149441883	by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113.0	6.0	106.0	1.0	0.0530973	0.00943396	G|0.998;A|0.002	0.002	strong	TBP,NS,carcinoma,0,2	TBP	58	2	NM_003194	exon3	c.G279A	p.Q93Q	GCAGCAGCAACAG	.	scavenged	Atlas-SNP
ST6GAL1	6480	hgsc.bcm.edu	37	3	186760520	186760520	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196.0	23.0	184.0	0.0	0.117347	0	.	.	none	ST6GAL1,NS,carcinoma,+1,1	ST6GAL1	36	1	NM_003032	exon3	c.T29G	p.F10C	AAAAGTTCAGCTG	.	PASS	Atlas-SNP
SIPA1L2	57568	hgsc.bcm.edu	37	1	232650163	232650163	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66.0	26.0	60.0	0.0	0.393939	0	.	.	none	.	SIPA1L2	218	.	NM_020808	exon1	c.C923T	p.T308M	TCAGACGTGAACT	.	PASS	Atlas-SNP
SCN1A	6323	hgsc.bcm.edu	37	2	166850872	166850872	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160.0	21.0	182.0	0.0	0.13125	0	.	.	none	.	SCN1A	641	.	NM_001165963	exon25	c.A4636C	p.S1546R	TGATGCTTATGTC	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	37	7	116397572	116397572	+	Silent	SNP	A	A	G	rs13223756	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71.0	25.0	88.0	0.0	0.352113	0	A|0.817;G|0.183	0.183	strong	.	MET	412	.	NM_000245	exon7	c.A1944G	p.Q648Q	AACACAATACAGT	.	PASS	Atlas-SNP
PELP1	27043	hgsc.bcm.edu	37	17	4576203	4576203	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136.0	26.0	141.0	0.0	0.191176	0	.	.	none	.	PELP1	102	.	NM_014389	exon16	c.G2083A	p.V695M	AGGGCACAGGGCC	.	PASS	Atlas-SNP
SEMA6B	10501	hgsc.bcm.edu	37	19	4555079	4555079	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75.0	9.0	63.0	0.0	0.12	0	.	.	none	.	SEMA6B	51	.	NM_032108	exon8	c.C591T	p.T197T	GAAGTCGGTAACA	.	PASS	Atlas-SNP
UBE2U	148581	hgsc.bcm.edu	37	1	64672478	64672478	+	Silent	SNP	A	A	G	rs35112334	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	225.0	87.0	265.0	0.0	0.386667	0	A|0.982;G|0.018	0.018	strong	.	UBE2U	16	.	NM_152489	exon3	c.A180G	p.T60T	TTTTACATCGGAG	.	PASS	Atlas-SNP
USP42	84132	hgsc.bcm.edu	37	7	6175526	6175526	+	Missense_Mutation	SNP	C	C	T	rs61757573	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170.0	69.0	176.0	0.0	0.405882	0	C|0.999;T|0.001	0.001	strong	.	USP42	138	.	NM_032172	exon4	c.C497T	p.A166V	CCCAGGCACTCAG	.	PASS	Atlas-SNP
DECR2	26063	hgsc.bcm.edu	37	16	461443	461443	+	Silent	SNP	C	C	T	rs138044046	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106.0	60.0	94.0	0.0	0.566038	0	C|0.997;T|0.003	0.003	strong	.	DECR2	47	.	NM_020664	exon8	c.C744T	p.S248S	CCACAGCGTGCTC	.	PASS	Atlas-SNP
EEA1	8411	hgsc.bcm.edu	37	12	93172994	93172994	+	Missense_Mutation	SNP	G	G	A	rs138526188	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	258.0	139.0	260.0	0.0	0.53876	0	G|1.000;A|0.000	0.000	strong	.	EEA1	104	.	NM_003566	exon25	c.C3551T	p.A1184V	ACAGCTGCCTTCA	.	PASS	Atlas-SNP
FBXO18	84893	hgsc.bcm.edu	37	10	5948352	5948352	+	Silent	SNP	G	G	A	rs138692839	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140.0	78.0	157.0	0.0	0.557143	0	G|0.998;A|0.002	0.002	strong	.	FBXO18	108	.	NM_032807	exon4	c.G663A	p.T221T	CAGTACGTCTCGG	.	PASS	Atlas-SNP
DDN	23109	hgsc.bcm.edu	37	12	49391682	49391682	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72.0	36.0	72.0	0.0	0.5	0	.	.	none	.	DDN	54	.	NM_015086	exon2	c.A977G	p.N326S	CCACTGTTCAGGT	.	PASS	Atlas-SNP
USP17L10	100287144	hgsc.bcm.edu	37	4	9212676	9212676	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38.0	38.0	0.0	0.0	1	.	.	.	none	.	.	.	.	NM_001256852	exon1	c.G294A	p.L98L	GTGCCTGACATAC	.	PASS	Atlas-SNP
B3GNT1	11041	hgsc.bcm.edu	37	11	66113995	66113995	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86.0	34.0	87.0	0.0	0.395349	0	.	.	none	.	B3GNT1	28	.	NM_006876	exon1	c.G1022A	p.R341H	CGAAAGCGCTCGT	.	PASS	Atlas-SNP
MROH6	642475	hgsc.bcm.edu	37	8	144654730	144654730	+	Missense_Mutation	SNP	G	G	T	rs185255597	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67.0	42.0	79.0	0.0	0.626866	0	G|0.998;T|0.002	0.002	strong	.	.	.	.	NM_001100878	exon1	c.C155A	p.P52H	GCCTCAGGTTTGA	.	PASS	Atlas-SNP
TLR1	7096	hgsc.bcm.edu	37	4	38799493	38799493	+	Silent	SNP	A	A	G	rs200631178	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46.0	26.0	55.0	0.0	0.565217	0	A|0.999;G|0.001	0.001	weak	.	TLR1	70	.	NM_003263	exon4	c.T960C	p.Y320Y	GATTTCATAGATA	.	PASS	Atlas-SNP
ZNF496	84838	hgsc.bcm.edu	37	1	247473018	247473018	+	Missense_Mutation	SNP	G	G	A	rs149858668	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95.0	48.0	94.0	0.0	0.505263	0	G|0.999;A|0.001	0.001	strong	.	ZNF496	80	.	NM_032752	exon7	c.C875T	p.P292L	ACCTGGGGCACTT	.	PASS	Atlas-SNP
STRA6	64220	hgsc.bcm.edu	37	15	74472525	74472525	+	Missense_Mutation	SNP	G	G	A	rs200178616		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158.0	77.0	147.0	1.0	0.487342	0.00680272	G|0.999;A|0.001	0.001	weak	STRA6,NS,carcinoma,+1,1	STRA6	66	1	NM_001199042	exon19	c.C2017T	p.R673C	TGCCGCGGCTGGC	.	scavenged	Atlas-SNP
C6orf15	29113	hgsc.bcm.edu	37	6	31079310	31079310	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137.0	9.0	123.0	0.0	0.0656934	0	.	.	none	.	C6orf15	29	.	NM_014070	exon2	c.A826C	p.N276H	ACCGATTAATATT	.	PASS	Atlas-SNP
RET	5979	hgsc.bcm.edu	37	10	43610119	43610119	+	Missense_Mutation	SNP	G	G	A	rs1799939	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79.0	37.0	58.0	0.0	0.468354	0	G|0.839;A|0.161	0.161	strong	RET_ENST00000340058,adrenal_gland,pheochromocytoma,0,2	RET	916	2	NM_020630	exon11	c.G2071A	p.G691S	TCTTCCGGTGCCC	.	PASS	Atlas-SNP
CRB2	286204	hgsc.bcm.edu	37	9	126125327	126125327	+	Missense_Mutation	SNP	G	G	A	rs138381817	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89.0	52.0	126.0	0.0	0.58427	0	G|0.993;A|0.007	0.007	strong	.	CRB2	86	.	NM_173689	exon2	c.G278A	p.R93H	GCTTCCGCTGCTA	.	PASS	Atlas-SNP
TOPAZ1	375337	hgsc.bcm.edu	37	3	44329245	44329245	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59.0	14.0	70.0	0.0	0.237288	0	.	.	none	.	.	.	.	NM_001145030	exon11	c.C3595T	p.L1199L	CCTTCTCTGAAAA	.	PASS	Atlas-SNP
CCDC61	729440	hgsc.bcm.edu	37	19	46520506	46520506	+	Missense_Mutation	SNP	G	G	C	rs61742389	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39.0	14.0	53.0	0.0	0.358974	0	A|0.000;C|0.012;G|0.987	0.012	strong	.	CCDC61	32	.	NM_001267723	exon12	c.G1312C	p.G438R	CTCAGGGGTCACC	.	PASS	Atlas-SNP
MYH15	22989	hgsc.bcm.edu	37	3	108147510	108147510	+	Silent	SNP	A	A	G	rs201473403	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	261.0	139.0	234.0	0.0	0.532567	0	A|0.999;G|0.001	0.001	strong	.	MYH15	223	.	NM_014981	exon28	c.T3591C	p.F1197F	TGTCTCAAAGTGC	.	PASS	Atlas-SNP
EIF3G	8666	hgsc.bcm.edu	37	19	10226686	10226686	+	Silent	SNP	G	G	A	rs200490441	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61.0	34.0	68.0	0.0	0.557377	0	G|0.999;A|0.001	0.001	strong	.	EIF3G	16	.	NM_003755	exon8	c.C660T	p.D220D	GGCCCCGTCGCGC	.	PASS	Atlas-SNP
PLXNA2	5362	hgsc.bcm.edu	37	1	208227814	208227814	+	Silent	SNP	C	C	T	rs2274447	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127.0	52.0	87.0	1.0	0.409449	0.0114943	C|0.995;T|0.005	0.005	strong	PLXNA2,caecum,carcinoma,-2,1	PLXNA2	178	1	NM_025179	exon14	c.G2808A	p.E936E	CTTACACTCGCCA	.	scavenged	Atlas-SNP
AKAP5	9495	hgsc.bcm.edu	37	14	64935726	64935726	+	Missense_Mutation	SNP	C	C	T	rs2230492	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94.0	39.0	86.0	0.0	0.414894	0	C|0.996;T|0.004	0.004	strong	.	AKAP5	23	.	NM_004857	exon2	c.C614T	p.S205F	CAACTTCTGGAGA	.	PASS	Atlas-SNP
MYO15A	51168	hgsc.bcm.edu	37	17	18058468	18058468	+	Missense_Mutation	SNP	G	G	A	rs140140417	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93.0	35.0	96.0	0.0	0.376344	0	G|0.998;A|0.002	0.002	strong	.	MYO15A	268	.	NM_016239	exon45	c.G8269A	p.V2757M	GAAAGCGTGAAGC	.	PASS	Atlas-SNP
WDFY2	115825	hgsc.bcm.edu	37	13	52313253	52313253	+	Missense_Mutation	SNP	G	G	A	rs77486739	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149.0	75.0	142.0	0.0	0.503356	0	G|0.996;A|0.004	0.004	strong	.	WDFY2	36	.	NM_052950	exon7	c.G667A	p.V223I	CACTCTGTCATCA	.	PASS	Atlas-SNP
CACNA2D1	781	hgsc.bcm.edu	37	7	81593541	81593541	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121.0	8.0	97.0	0.0	0.0661157	0	.	.	none	.	CACNA2D1	191	.	NM_000722	exon33	c.A2709G	p.G903G	GCGATGTCCTGCT	.	PASS	Atlas-SNP
PGAM5	192111	hgsc.bcm.edu	37	12	133294371	133294371	+	Missense_Mutation	SNP	A	A	G	rs117147264	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52.0	15.0	56.0	0.0	0.288462	0	A|0.971;G|0.029	0.029	strong	PGAM5,NS,carcinoma,0,1	PGAM5	18	1	NM_138575	exon4	c.A572G	p.K191R	ATTGGAAGCCGGA	.	PASS	Atlas-SNP
NPHS1	4868	hgsc.bcm.edu	37	19	36339247	36339247	+	Missense_Mutation	SNP	C	C	T	rs33950747	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98.0	38.0	81.0	0.0	0.387755	0	C|0.958;T|0.042	0.042	strong	.	NPHS1	165	.	NM_004646	exon10	c.G1223A	p.R408Q	TCCTCCCGCCGCG	.	PASS	Atlas-SNP
ARHGEF26	26084	hgsc.bcm.edu	37	3	153943770	153943770	+	Missense_Mutation	SNP	C	C	G	rs74965475	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	221.0	105.0	187.0	0.0	0.475113	0	C|0.990;G|0.010	0.010	strong	.	ARHGEF26	158	.	NM_001251962	exon11	c.C2061G	p.N687K	CTTTAACGATGTG	.	PASS	Atlas-SNP
ZMYND8	23613	hgsc.bcm.edu	37	20	45878118	45878118	+	Missense_Mutation	SNP	C	C	G	rs77137073	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135.0	62.0	124.0	0.0	0.459259	0	C|0.991;G|0.009	0.009	strong	ZMYND8,NS,lymphoid_neoplasm,0,1	ZMYND8	166	1	NM_183047	exon13	c.G1687C	p.V563L	GAGGAACAGGGGT	.	PASS	Atlas-SNP
RHD	6007	hgsc.bcm.edu	37	1	25629896	25629896	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	247.0	101.0	154.0	0.0	0.408907	0	.	.	none	.	RHD	38	.	NM_001127691	exon6	c.G885T	p.M295I	TGCCATGGTGCTG	.	PASS	Atlas-SNP
VIPR1	7433	hgsc.bcm.edu	37	3	42568935	42568935	+	Silent	SNP	C	C	T	rs201579976	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53.0	35.0	74.0	0.0	0.660377	0	C|0.999;T|0.001	0.001	strong	VIPR1,NS,carcinoma,0,1	VIPR1	45	1	NM_004624	exon5	c.C450T	p.Y150Y	TGGCTACGGCCTG	.	PASS	Atlas-SNP
TANC1	85461	hgsc.bcm.edu	37	2	160074132	160074132	+	Silent	SNP	G	G	T	rs373000954		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150.0	82.0	106.0	0.0	0.546667	0	.	.	weak	TANC1,NS,NS,+2,1	TANC1	157	1	NM_033394	exon20	c.G3369T	p.G1123G	CCAGGGGCATTGG	.	PASS	Atlas-SNP
BMP8A	353500	hgsc.bcm.edu	37	1	39988708	39988708	+	Silent	SNP	A	A	G	rs2889739	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150.0	59.0	153.0	0.0	0.393333	0	A|0.945;G|0.055	0.055	strong	.	BMP8A	24	.	NM_181809	exon6	c.A978G	p.S326S	CTACTCAGCCTAT	.	PASS	Atlas-SNP
LILRA6	79168	hgsc.bcm.edu	37	19	54744919	54744919	+	Missense_Mutation	SNP	T	T	A	rs61734504	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	666.0	171.0	655.0	1.0	0.256757	0.00152672	T|0.968;A|0.032	0.032	strong	LILRA6,NS,carcinoma,-1,1	LILRA6	75	1	NM_024318	exon5	c.A743T	p.D248V	CCGACATCAGAGC	.	PASS	Atlas-SNP
WBP4	11193	hgsc.bcm.edu	37	13	41646958	41646958	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105.0	47.0	117.0	0.0	0.447619	0	.	.	none	.	WBP4	40	.	NM_007187	exon7	c.A527G	p.D176G	GTGAAGATGGTTT	.	PASS	Atlas-SNP
TRIM41	90933	hgsc.bcm.edu	37	5	180661468	180661468	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80.0	34.0	122.0	0.0	0.425	0	.	.	none	.	TRIM41	96	.	NM_033549	exon6	c.G1586A	p.R529H	CCTCGCGCCATCA	.	PASS	Atlas-SNP
AGTR2	186	hgsc.bcm.edu	37	X	115303837	115303837	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181.0	52.0	343.0	0.0	0.287293	0	.	.	none	.	AGTR2	62	.	NM_000686	exon3	c.A304C	p.T102P	TGGGCAACCTATT	.	PASS	Atlas-SNP
PRR5-ARHGAP8	553158	hgsc.bcm.edu	37	22	45255688	45255688	+	Missense_Mutation	SNP	C	C	T	rs73176189	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78.0	43.0	85.0	0.0	0.551282	0	C|0.998;T|0.002	0.002	strong	PRR5-ARHGAP8,caecum,carcinoma,0,2	PRR5-ARHGAP8	53	2	NM_181334	exon14	c.C1321T	p.R441C	GTCCTCCGCTACC	.	PASS	Atlas-SNP
AK2	204	hgsc.bcm.edu	37	1	33502357	33502357	+	Missense_Mutation	SNP	C	C	T	rs199641857	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	229.0	14.0	339.0	0.0	0.0611354	0	.	.	weak	.	AK2	27	.	NM_001199199	exon1	c.G73A	p.G25R	CGGCCCCGGGAGG	.	PASS	Atlas-SNP
DENND1A	57706	hgsc.bcm.edu	37	9	126144390	126144390	+	Missense_Mutation	SNP	G	G	T	rs189947178	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46.0	30.0	54.0	0.0	0.652174	0	G|0.993;T|0.007	0.007	strong	.	DENND1A	112	.	NM_020946	exon22	c.C2351A	p.A784D	AGGAGGGCGAGCA	.	PASS	Atlas-SNP
PLS3	5358	hgsc.bcm.edu	37	X	114863593	114863593	+	Silent	SNP	T	T	A	rs140121121	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128.0	128.0	265.0	1.0	1	0.00377358	T|0.990;A|0.010	0.010	strong	.	PLS3	60	.	NM_005032	exon4	c.T321A	p.G107G	TCTGGGTGGAACT	.	PASS	Atlas-SNP
ZBTB21	49854	hgsc.bcm.edu	37	21	43413158	43413158	+	Silent	SNP	C	C	T	rs147318145	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107.0	53.0	119.0	0.0	0.495327	0	C|0.983;T|0.017	0.017	strong	.	.	.	.	NM_001098402	exon3	c.G1047A	p.Q349Q	AGGAACCTGGCTA	.	PASS	Atlas-SNP
KRT1	3848	hgsc.bcm.edu	37	12	53070174	53070174	+	Missense_Mutation	SNP	C	C	A	rs17678945	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	238.0	121.0	251.0	0.0	0.508403	0	C|0.981;A|0.019	0.019	strong	.	KRT1	110	.	NM_006121	exon7	c.G1360T	p.A454S	CCTTGGCCTGCTG	.	PASS	Atlas-SNP
ITGA6	3655	hgsc.bcm.edu	37	2	173362720	173362720	+	Silent	SNP	T	T	C	rs139596061	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	252.0	107.0	243.0	0.0	0.424603	0	T|0.999;C|0.001	0.001	strong	.	ITGA6	171	.	NM_001079818	exon24	c.T3006C	p.F1002F	TGTGTTTCCCTCA	.	PASS	Atlas-SNP
KIFC2	90990	hgsc.bcm.edu	37	8	145698758	145698758	+	Silent	SNP	G	G	A	rs201074786	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22.0	10.0	37.0	0.0	0.454545	0	G|0.997;A|0.003	0.003	strong	.	KIFC2	53	.	NM_145754	exon17	c.G2442A	p.R814R	GCAGAGGGCCTGC	.	PASS	Atlas-SNP
DAXX	1616	hgsc.bcm.edu	37	6	33287810	33287810	+	Silent	SNP	G	G	A	rs370615019		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	303.0	170.0	244.0	0.0	0.561056	0	.	.	weak	.	DAXX	111	.	NM_001141970	exon5	c.C1479T	p.D493D	CTCTTCGTCCTCC	.	PASS	Atlas-SNP
KIAA0947	23379	hgsc.bcm.edu	37	5	5461976	5461976	+	Silent	SNP	T	T	C	rs72646682	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147.0	58.0	132.0	0.0	0.394558	0	T|0.998;C|0.002	0.002	strong	.	KIAA0947	301	.	NM_015325	exon13	c.T2529C	p.N843N	TAACAATCCTGTA	.	PASS	Atlas-SNP
CNTNAP3	79937	hgsc.bcm.edu	37	9	39103796	39103796	+	Silent	SNP	G	G	A	rs145100345	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	633.0	256.0	597.0	0.0	0.404423	0	G|0.999;A|0.001	0.001	strong	CNTNAP3,NS,carcinoma,0,1	CNTNAP3	82	1	NM_033655	exon16	c.C2481T	p.S827S	CACCCCGGAGGAA	.	PASS	Atlas-SNP
SLC35E4	339665	hgsc.bcm.edu	37	22	31042606	31042606	+	Missense_Mutation	SNP	G	G	A	rs148304964	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40.0	15.0	60.0	0.0	0.375	0	G|0.997;A|0.003	0.003	strong	.	SLC35E4	22	.	NM_001001479	exon2	c.G641A	p.R214K	AGGAGAGGCTGGA	.	PASS	Atlas-SNP
PRMT10	90826	hgsc.bcm.edu	37	4	148589711	148589711	+	Missense_Mutation	SNP	G	G	A	rs146854725	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110.0	51.0	113.0	0.0	0.463636	0	G|0.996;A|0.004	0.004	strong	.	PRMT10	68	.	NM_138364	exon6	c.C932T	p.A311V	ATCTCTGCACATT	.	PASS	Atlas-SNP
IQGAP3	128239	hgsc.bcm.edu	37	1	156508792	156508792	+	Silent	SNP	T	T	C	rs79402045	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209.0	114.0	167.0	0.0	0.545455	0	T|0.992;C|0.008	0.008	strong	.	IQGAP3	146	.	NM_178229	exon26	c.A3090G	p.T1030T	GTTGCCTGTCACC	.	PASS	Atlas-SNP
NBAS	51594	hgsc.bcm.edu	37	2	15679410	15679410	+	Silent	SNP	G	G	A	rs147692911	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186.0	77.0	185.0	0.0	0.413978	0	G|0.999;A|0.001	0.001	strong	.	NBAS	246	.	NM_015909	exon7	c.C450T	p.A150A	GCTTTCGGCATAG	.	PASS	Atlas-SNP
ZNF621	285268	hgsc.bcm.edu	37	3	40574395	40574395	+	Silent	SNP	C	C	T	rs151057224	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162.0	55.0	216.0	0.0	0.339506	0	C|1.000;T|0.000	0.000	strong	.	ZNF621	42	.	NM_001098414	exon5	c.C1134T	p.A378A	TTCAGCCGTAGCT	.	PASS	Atlas-SNP
B4GALNT2	124872	hgsc.bcm.edu	37	17	47246956	47246956	+	Missense_Mutation	SNP	C	C	T	rs61743617	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	29.0	19.0	44.0	0.0	0.655172	0	C|0.989;T|0.011	0.011	strong	.	B4GALNT2	67	.	NM_153446	exon11	c.C1567T	p.R523W	CAGTCTCGGTCTC	.	PASS	Atlas-SNP
LTBP1	4052	hgsc.bcm.edu	37	2	33567990	33567990	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138.0	83.0	137.0	0.0	0.601449	0	.	.	none	.	LTBP1	317	.	NM_206943	exon25	c.T3816C	p.Y1272Y	CTGTTATCAGGGC	.	PASS	Atlas-SNP
PDZRN4	29951	hgsc.bcm.edu	37	12	41966771	41966771	+	Silent	SNP	G	G	A	rs113916113	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68.0	41.0	49.0	0.0	0.602941	0	G|0.992;A|0.008	0.008	strong	.	PDZRN4	346	.	NM_001164595	exon10	c.G2190A	p.K730K	AGAAAAGTCTGAC	.	PASS	Atlas-SNP
SLC16A8	23539	hgsc.bcm.edu	37	22	38477275	38477275	+	Missense_Mutation	SNP	G	G	A	rs75640043	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38.0	28.0	46.0	0.0	0.736842	0	G|0.951;A|0.049	0.049	strong	SLC16A8,NS,carcinoma,0,1	SLC16A8	13	1	NM_013356	exon4	c.C770T	p.A257V	GTGACGGCGTACA	.	PASS	Atlas-SNP
GARS	2617	hgsc.bcm.edu	37	7	30634548	30634548	+	Missense_Mutation	SNP	C	C	T	rs62636572	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	9.0	7.0	23.0	0.0	0.777778	0	C|0.986;T|0.014	0.014	strong	.	GARS	52	.	NM_002047	exon1	c.C11T	p.P4L	CCTCTCCGCGTCC	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187549443	187549443	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	192.0	85.0	167.0	0.0	0.442708	0	.	.	none	.	FAT1	500	.	NM_005245	exon9	c.G4675A	p.A1559T	ACGGGGCGTGGTC	.	PASS	Atlas-SNP
ZNF574	64763	hgsc.bcm.edu	37	19	42583743	42583743	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159.0	69.0	149.0	0.0	0.433962	0	.	.	none	.	ZNF574	57	.	NM_022752	exon2	c.C985T	p.R329W	CACCTGCGGAGTC	.	PASS	Atlas-SNP
TYW3	127253	hgsc.bcm.edu	37	1	75199023	75199023	+	Missense_Mutation	SNP	A	A	C	rs143670067	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84.0	32.0	99.0	0.0	0.380952	0	A|0.997;C|0.003	0.003	strong	.	TYW3	36	.	NM_001162916	exon1	c.A95C	p.E32A	TGGTAGAGCTTGT	.	PASS	Atlas-SNP
MPHOSPH10	10199	hgsc.bcm.edu	37	2	71360055	71360055	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155.0	76.0	161.0	0.0	0.490323	0	.	.	none	.	MPHOSPH10	81	.	NM_005791	exon2	c.C117T	p.F39F	AAAGTTCACTTCT	.	PASS	Atlas-SNP
WDR6	11180	hgsc.bcm.edu	37	3	49044932	49044932	+	Missense_Mutation	SNP	G	G	T	rs62262472	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162.0	80.0	169.0	0.0	0.493827	0	G|0.997;T|0.003	0.003	strong	.	WDR6	79	.	NM_018031	exon1	c.G158T	p.G53V	TGACGGGTCTGGA	.	PASS	Atlas-SNP
ATP12A	479	hgsc.bcm.edu	37	13	25255705	25255705	+	Silent	SNP	C	C	A	rs41288276	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56.0	25.0	77.0	0.0	0.446429	0	C|0.942;A|0.058	0.058	strong	.	ATP12A	172	.	NM_001185085	exon2	c.C15A	p.T5T	GAAAACCCCAGAA	.	PASS	Atlas-SNP
CPT1C	126129	hgsc.bcm.edu	37	19	50216050	50216050	+	Missense_Mutation	SNP	C	C	A	rs79488403	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	218.0	90.0	252.0	0.0	0.412844	0	C|0.996;A|0.004	0.004	strong	.	CPT1C	93	.	NM_001199752	exon18	c.C2077A	p.L693M	ATGCATCTGTTTG	.	PASS	Atlas-SNP
PDXDC1	23042	hgsc.bcm.edu	37	16	15100301	15100301	+	Missense_Mutation	SNP	C	C	T	rs141901522	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	372.0	103.0	381.0	0.0	0.276882	0	C|0.998;T|0.002	0.002	strong	.	PDXDC1	59	.	NM_015027	exon6	c.C440T	p.A147V	GACTTGCAAAGAT	.	PASS	Atlas-SNP
RASA2	5922	hgsc.bcm.edu	37	3	141295907	141295907	+	Missense_Mutation	SNP	G	G	A	rs201190266	bycluster;alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170.0	98.0	156.0	0.0	0.576471	0	G|0.999;T|0.001	.	alt	RASA2_ENST00000286364,NS,carcinoma,0,2	RASA2	169	2	NM_006506	exon15	c.G1549A	p.V517I	GTAGCCGTAGTAT	.	PASS	Atlas-SNP
WDR43	23160	hgsc.bcm.edu	37	2	29164387	29164387	+	Missense_Mutation	SNP	A	A	G	rs200896154	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102.0	55.0	95.0	0.0	0.539216	0	.	.	weak	.	WDR43	38	.	NM_015131	exon15	c.A1681G	p.T561A	GTCAAAACTTTTC	.	PASS	Atlas-SNP
RPL3L	6123	hgsc.bcm.edu	37	16	2002960	2002960	+	Missense_Mutation	SNP	C	C	T	rs118144581	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81.0	50.0	80.0	0.0	0.617284	0	C|0.996;T|0.004	0.004	strong	.	RPL3L	42	.	NM_005061	exon3	c.G280A	p.A94T	GGGTGGCCACGTA	.	PASS	Atlas-SNP
AKAP9	10142	hgsc.bcm.edu	37	7	91632286	91632286	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134.0	65.0	151.0	0.0	0.485075	0	.	.	none	.	AKAP9	788	.	NM_005751	exon8	c.T3055G	p.L1019V	AGCTCTTTATTAG	.	PASS	Atlas-SNP
COG2	22796	hgsc.bcm.edu	37	1	230810858	230810858	+	Silent	SNP	T	T	C	rs113173809	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184.0	95.0	183.0	0.0	0.516304	0	T|0.997;C|0.003	0.003	strong	.	COG2	61	.	NM_007357	exon9	c.T1014C	p.D338D	TCCCGATGCATTT	.	PASS	Atlas-SNP
ARFGEF1	10565	hgsc.bcm.edu	37	8	68130265	68130265	+	Missense_Mutation	SNP	C	C	A	rs142342517	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128.0	62.0	112.0	0.0	0.484375	0	C|0.995;A|0.005	0.005	strong	.	ARFGEF1	196	.	NM_006421	exon31	c.G4447T	p.A1483S	GCTGAGCAAAAAT	.	PASS	Atlas-SNP
TTC3	7267	hgsc.bcm.edu	37	21	38538736	38538736	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193.0	90.0	192.0	0.0	0.466321	0	.	.	none	.	TTC3	182	.	NM_001001894	exon33	c.T4220G	p.L1407R	AGATCCTTGAGGG	.	PASS	Atlas-SNP
PRR5	55615	hgsc.bcm.edu	37	22	45132853	45132853	+	Missense_Mutation	SNP	C	C	T	rs187629442	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	9.0	6.0	17.0	0.0	0.666667	0	C|0.996;T|0.004	0.004	strong	.	PRR5	75	.	NM_001198721	exon10	c.C962T	p.P321L	CCGACCCGCCCGG	.	PASS	Atlas-SNP
TTI2	80185	hgsc.bcm.edu	37	8	33361280	33361280	+	Silent	SNP	C	C	T	rs17850186	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51.0	23.0	96.0	0.0	0.45098	0	C|0.986;T|0.014	0.014	strong	C8orf41,rectum,carcinoma,0,2	.	.	2	NM_001265581	exon5	c.G1101A	p.P367P	GAAAGCCGGCAGG	.	PASS	Atlas-SNP
FAM172A	83989	hgsc.bcm.edu	37	5	93410379	93410379	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143.0	16.0	154.0	0.0	0.111888	0	.	.	none	.	FAM172A	38	.	NM_032042	exon2	c.T78A	p.D26E	TTTTTCATCTGGA	.	PASS	Atlas-SNP
KIF27	55582	hgsc.bcm.edu	37	9	86518433	86518433	+	Missense_Mutation	SNP	A	A	G	rs144003628	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108.0	48.0	149.0	0.0	0.444444	0	A|1.000;T|0.000	.	alt	.	KIF27	103	.	NM_017576	exon4	c.T1000C	p.Y334H	TGGCATATTTGAG	.	PASS	Atlas-SNP
ZMYM4	9202	hgsc.bcm.edu	37	1	35853073	35853073	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82.0	4.0	110.0	0.0	0.0487805	0	.	.	none	.	ZMYM4	143	.	NM_005095	exon13	c.T2131A	p.C711S	CAGTTCTGTGGCA	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	711429	711429	+	Missense_Mutation	SNP	C	C	T	rs199527716	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70.0	38.0	82.0	0.0	0.542857	0	C|0.998;T|0.002	0.002	strong	.	WDR90	107	.	NM_145294	exon30	c.C3601T	p.L1201F	CAGCATCTCATTT	.	PASS	Atlas-SNP
GGA2	23062	hgsc.bcm.edu	37	16	23504719	23504719	+	Missense_Mutation	SNP	G	G	C	rs143003037		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85.0	34.0	76.0	0.0	0.4	0	G|1.000;C|0.000	0.000	weak	GGA2,mucosal,malignant_melanoma,0,3	GGA2	49	3	NM_015044	exon4	c.C313G	p.R105G	GGAAACGAAATTT	.	PASS	Atlas-SNP
VPS13B	157680	hgsc.bcm.edu	37	8	100454804	100454804	+	Missense_Mutation	SNP	A	A	G	rs61759485	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150.0	75.0	134.0	0.0	0.5	0	A|0.996;G|0.004	0.004	strong	.	VPS13B	811	.	NM_152564	exon23	c.A3386G	p.K1129R	GGCACAAGTATAT	.	PASS	Atlas-SNP
OXCT1	5019	hgsc.bcm.edu	37	5	41862819	41862819	+	Missense_Mutation	SNP	G	G	A	rs76956231	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125.0	61.0	160.0	0.0	0.488	0	G|0.994;A|0.006	0.006	strong	OXCT1,NS,carcinoma,+1,1	OXCT1	54	1	NM_000436	exon2	c.C112T	p.R38C	TATGGCGATGAGC	.	PASS	Atlas-SNP
APOL3	80833	hgsc.bcm.edu	37	22	36537871	36537871	+	Missense_Mutation	SNP	C	C	T	rs140252051	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121.0	64.0	119.0	0.0	0.528926	0	C|0.997;T|0.003	0.003	strong	APOL3_ENST00000349314,caecum,carcinoma,0,4	APOL3	60	4	NM_145640	exon3	c.G586A	p.A196T	AGGCAGCGCCAGT	.	PASS	Atlas-SNP
SLC38A8	146167	hgsc.bcm.edu	37	16	84063130	84063130	+	Missense_Mutation	SNP	C	C	G	rs11862366	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84.0	45.0	74.0	0.0	0.535714	0	C|0.939;G|0.061	0.061	strong	.	SLC38A8	60	.	NM_001080442	exon5	c.G659C	p.S220T	AAGACACTGAACA	.	PASS	Atlas-SNP
RIMS1	22999	hgsc.bcm.edu	37	6	72892796	72892796	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56.0	3.0	73.0	0.0	0.0535714	0	.	.	none	RIMS1,caecum,carcinoma,0,1	RIMS1	278	1	NM_014989	exon6	c.C1622T	p.P541L	CGACGCCCGAGTA	.	scavenged	Atlas-SNP
UROC1	131669	hgsc.bcm.edu	37	3	126207049	126207049	+	Silent	SNP	G	G	A	rs139120643	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136.0	71.0	114.0	0.0	0.522059	0	G|0.999;A|0.001	0.001	strong	UROC1,NS,carcinoma,0,1	UROC1	150	1	NM_001165974	exon19	c.C1962T	p.G654G	GCCCACGCCCCCT	.	PASS	Atlas-SNP
NOTCH1	4851	hgsc.bcm.edu	37	9	139397707	139397707	+	Silent	SNP	G	G	A	rs10521	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87.0	35.0	82.0	0.0	0.402299	0	G|0.466;A|0.534	0.534	strong	NOTCH1_ENST00000277541,colon,carcinoma,0,19	NOTCH1	1980	19	NM_017617	exon27	c.C5094T	p.D1698D	GGCCACGTCGGTG	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134649709	134649709	+	Missense_Mutation	SNP	C	C	T	rs76581191	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85.0	55.0	64.0	0.0	0.647059	0	C|0.990;T|0.010	0.010	strong	TTC40,NS,carcinoma,0,2	TTC40	100	2	NM_001200049	exon46	c.G6550A	p.G2184S	CAGCGCCGTACAG	.	PASS	Atlas-SNP
LILRA6	79168	hgsc.bcm.edu	37	19	54745682	54745682	+	Missense_Mutation	SNP	C	C	T	rs3826749	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	768.0	101.0	719.0	0.0	0.13151	0	C|0.904;T|0.096	0.096	strong	.	LILRA6	75	.	NM_024318	exon4	c.G428A	p.R143Q	CCACATCGGAGGG	.	PASS	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45216115	45216115	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	33.0	2.0	45.0	1.0	0.0606061	0.0222222	.	.	none	CDC27_ENST00000531206,NS,carcinoma,0,2	CDC27	337	2	NM_001114091	exon13	c.A1712T	p.N571I	GGCGAATTTTTAT	.	scavenged	Atlas-SNP
LTBP1	4052	hgsc.bcm.edu	37	2	33540307	33540307	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129.0	21.0	118.0	0.0	0.162791	0	.	.	none	.	LTBP1	317	.	NM_206943	exon24	c.C3701T	p.S1234L	GTTTCTCAATCTC	.	PASS	Atlas-SNP
C14orf37	145407	hgsc.bcm.edu	37	14	58604730	58604730	+	Silent	SNP	T	T	C	rs137871178	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68.0	36.0	64.0	0.0	0.529412	0	T|0.992;C|0.008	0.008	strong	C14orf37,NS,carcinoma,0,1	C14orf37	87	1	NM_001001872	exon2	c.A1347G	p.Q449Q	CAACAGTTGGTCT	.	PASS	Atlas-SNP
TMC8	147138	hgsc.bcm.edu	37	17	76130576	76130576	+	Silent	SNP	C	C	T	rs149203228	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87.0	42.0	82.0	0.0	0.482759	0	C|0.998;T|0.002	0.002	strong	TMC8,NS,carcinoma,0,1	TMC8	44	1	NM_152468	exon8	c.C918T	p.N306N	ACTCAACGGGCTC	.	PASS	Atlas-SNP
MELK	9833	hgsc.bcm.edu	37	9	36597284	36597284	+	Silent	SNP	C	C	G	rs139481227	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69.0	35.0	69.0	0.0	0.507246	0	C|0.999;G|0.001	0.001	strong	.	MELK	74	.	NM_014791	exon6	c.C471G	p.P157P	AAAACCCAAGGTA	.	PASS	Atlas-SNP
KIAA1199	57214	hgsc.bcm.edu	37	15	81173354	81173354	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187.0	78.0	195.0	0.0	0.417112	0	.	.	none	.	KIAA1199	118	.	NM_018689	exon5	c.A494G	p.N165S	TTCTGAACAAGAC	.	PASS	Atlas-SNP
USP25	29761	hgsc.bcm.edu	37	21	17236674	17236674	+	Missense_Mutation	SNP	G	G	C	rs142929561	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73.0	26.0	42.0	0.0	0.356164	0	G|0.999;C|0.001	0.001	strong	USP25,NS,carcinoma,-1,1	USP25	156	1	NM_013396	exon19	c.G2425C	p.V809L	GTAGTGGTCTACT	.	PASS	Atlas-SNP
SPAG16	79582	hgsc.bcm.edu	37	2	214354811	214354811	+	Missense_Mutation	SNP	G	G	A	rs61752199	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	251.0	119.0	279.0	0.0	0.474104	0	G|0.984;A|0.016	0.016	strong	.	SPAG16	134	.	NM_024532	exon10	c.G1067A	p.S356N	CAGTGAGCTGGTA	.	PASS	Atlas-SNP
IGIP	492311	hgsc.bcm.edu	37	5	139508064	139508064	+	Missense_Mutation	SNP	G	G	A	rs141663065	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78.0	31.0	104.0	0.0	0.397436	0	G|0.999;A|0.001	0.001	strong	.	.	.	.	NM_001007189	exon1	c.G3A	p.M1I	AAATATGTGCAGT	.	PASS	Atlas-SNP
ANK2	287	hgsc.bcm.edu	37	4	114274519	114274519	+	Missense_Mutation	SNP	G	G	A	rs138842207	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	211.0	101.0	195.0	0.0	0.478673	0	G|0.999;A|0.001	0.001	strong	ANK2,rectum,carcinoma,+1,1	ANK2	576	1	NM_001148	exon38	c.G4745A	p.R1582Q	GCTCTCGGTCTGA	.	PASS	Atlas-SNP
SLC12A3	6559	hgsc.bcm.edu	37	16	56928555	56928555	+	Splice_Site	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110.0	56.0	108.0	0.0	0.509091	0	.	.	none	.	SLC12A3	99	.	NM_001126108	exon22	c.2633+1G>A	.	AAAGGCGTAAGTG	.	PASS	Atlas-SNP
HUWE1	10075	hgsc.bcm.edu	37	X	53654402	53654402	+	Missense_Mutation	SNP	T	T	C	rs41307640	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136.0	136.0	252.0	0.0	1	0	T|0.984;C|0.016	0.016	strong	.	HUWE1	724	.	NM_031407	exon17	c.A1448G	p.N483S	GTAGTATTGGGTC	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	37	7	116339282	116339282	+	Silent	SNP	G	G	A	rs11762213	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174.0	98.0	159.0	0.0	0.563218	0	G|0.974;A|0.026	0.026	strong	MET,NS,adenocarcinoma,+1,2	MET	412	2	NM_000245	exon2	c.G144A	p.A48A	CACCGCGGAAACA	.	PASS	Atlas-SNP
ACTN1	87	hgsc.bcm.edu	37	14	69341653	69341653	+	Missense_Mutation	SNP	T	T	A	rs11557769	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80.0	32.0	66.0	1.0	0.4	0.0151515	T|0.988;A|0.012	0.012	strong	ACTN1,NS,carcinoma,+2,1	ACTN1	77	1	NM_001130004	exon22	c.A2668T	p.T890S	GGCCGGTGTAGGG	.	scavenged	Atlas-SNP
TCN1	6947	hgsc.bcm.edu	37	11	59623479	59623479	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194.0	34.0	144.0	0.0	0.175258	0	.	.	none	.	TCN1	64	.	NM_001062	exon6	c.A800C	p.Q267P	AGAGTTTGTTGGC	.	PASS	Atlas-SNP
GAK	2580	hgsc.bcm.edu	37	4	877187	877187	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118.0	18.0	72.0	0.0	0.152542	0	.	.	none	.	GAK	104	.	NM_005255	exon13	c.G1320T	p.L440F	CAGGAACAACCGC	.	PASS	Atlas-SNP
CAPZA3	93661	hgsc.bcm.edu	37	12	18891318	18891318	+	Missense_Mutation	SNP	G	G	A	rs117330813	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181.0	77.0	171.0	1.0	0.425414	0.00584795	G|0.995;A|0.005	0.005	strong	CAPZA3,NS,carcinoma,0,1	CAPZA3	51	1	NM_033328	exon1	c.G116A	p.R39H	TTATCCGTGATGA	.	scavenged	Atlas-SNP
MTHFSD	64779	hgsc.bcm.edu	37	16	86585743	86585743	+	Missense_Mutation	SNP	G	G	C	rs34005514	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121.0	61.0	115.0	0.0	0.504132	0	G|0.968;C|0.032	0.032	strong	.	MTHFSD	52	.	NM_001159377	exon3	c.C133G	p.L45V	AAGCCAGATAAGA	.	PASS	Atlas-SNP
ZNF606	80095	hgsc.bcm.edu	37	19	58491382	58491382	+	Silent	SNP	G	G	A	rs142503772	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81.0	33.0	73.0	0.0	0.407407	0	G|0.991;A|0.009	0.009	strong	.	ZNF606	155	.	NM_025027	exon7	c.C666T	p.N222N	GTTTAAGTTCTGG	.	PASS	Atlas-SNP
HIST1H1D	3007	hgsc.bcm.edu	37	6	26234923	26234923	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	289.0	57.0	211.0	0.0	0.197232	0	.	.	none	HIST1H1D,NS,lymphoid_neoplasm,0,1	HIST1H1D	40	1	NM_005320	exon1	c.G239T	p.R80L	TTGATACGGCTGT	.	PASS	Atlas-SNP
HRAS	3265	hgsc.bcm.edu	37	11	534242	534242	+	Silent	SNP	A	A	G	rs12628	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102.0	59.0	144.0	0.0	0.578431	0	A|0.663;G|0.337	0.337	strong	HRAS,arm,benign_melanocytic_nevus,0,26	HRAS	1232	26	NM_001130442	exon2	c.T81C	p.H27H	CACAAAATGGTTC	.	PASS	Atlas-SNP
ETV1	2115	hgsc.bcm.edu	37	7	13950864	13950864	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115.0	14.0	134.0	0.0	0.121739	0	.	.	none	.	ETV1	138	.	NM_004956	exon10	c.G871A	p.G291S	ACTTAACTTCTGT	.	PASS	Atlas-SNP
KCNH2	3757	hgsc.bcm.edu	37	7	150644428	150644428	+	Missense_Mutation	SNP	C	C	A	rs36210421	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	15.0	10.0	7.0	0.0	0.666667	0	C|0.983;A|0.017	0.017	strong	.	KCNH2	157	.	NM_000238	exon13	c.G3140T	p.R1047L	AGCTGGCGCTGGA	.	PASS	Atlas-SNP
NUBPL	80224	hgsc.bcm.edu	37	14	32319354	32319354	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138.0	10.0	137.0	0.0	0.0724638	0	.	.	none	.	NUBPL	21	.	NM_025152	exon10	c.G844T	p.E282X	ATAAGGGAAGCTT	.	PASS	Atlas-SNP
OSGIN1	29948	hgsc.bcm.edu	37	16	83999548	83999548	+	Missense_Mutation	SNP	T	T	C	rs62640905	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57.0	20.0	69.0	0.0	0.350877	0	T|0.985;C|0.015	0.015	strong	.	OSGIN1	33	.	NM_182981	exon6	c.T1370C	p.V457A	GGTTTGTGCAGGG	.	PASS	Atlas-SNP
CLEC4M	10332	hgsc.bcm.edu	37	19	7828277	7828277	+	Splice_Site	SNP	A	A	G	rs62623420	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134.0	69.0	124.0	0.0	0.514925	0	A|0.997;G|0.003	0.003	strong	.	CLEC4M	58	.	NM_001144907	exon2	c.47-2A>G	.	CAATTCAGAAGAA	.	PASS	Atlas-SNP
CYB5R4	51167	hgsc.bcm.edu	37	6	84618792	84618792	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62.0	29.0	67.0	0.0	0.467742	0	.	.	none	.	CYB5R4	72	.	NM_016230	exon4	c.A395G	p.K132R	CCATTAAACCTGC	.	PASS	Atlas-SNP
CENPM	79019	hgsc.bcm.edu	37	22	42342462	42342462	+	Silent	SNP	C	C	T	rs34730141	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	288.0	152.0	230.0	0.0	0.527778	0	C|0.983;T|0.017	0.017	strong	.	CENPM	8	.	NM_024053	exon2	c.G96A	p.A32A	CGAGTCCGCCAGC	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124298030	124298030	+	Missense_Mutation	SNP	G	G	A	rs143713799	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134.0	65.0	103.0	0.0	0.485075	0	G|0.987;A|0.013	0.013	strong	DNAH10_ENST00000409039,colon,carcinoma,+1,7	DNAH10	888	7	NM_207437	exon19	c.G3110A	p.R1037H	TTATGCGCCACCC	.	PASS	Atlas-SNP
TEX13A	56157	hgsc.bcm.edu	37	X	104464360	104464360	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38.0	8.0	60.0	0.0	0.210526	0	.	.	none	.	TEX13A	55	.	NM_031274	exon3	c.C518T	p.A173V	TCAGCTGCTCCTT	.	PASS	Atlas-SNP
PRKG1	5592	hgsc.bcm.edu	37	10	52751177	52751177	+	Missense_Mutation	SNP	G	G	A	rs202017913	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106.0	43.0	115.0	0.0	0.40566	0	.	.	weak	.	PRKG1	167	.	NM_001098512	exon1	c.G39A	p.M13I	TCTCATGCTCAAG	.	PASS	Atlas-SNP
C6orf195	154386	hgsc.bcm.edu	37	6	2623960	2623960	+	Missense_Mutation	SNP	T	T	C	rs201134793	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72.0	29.0	77.0	0.0	0.402778	0	T|0.999;C|0.001	0.001	strong	.	C6orf195	10	.	NM_152554	exon3	c.A97G	p.M33V	GCTCCATGCCATC	.	PASS	Atlas-SNP
EZH2	2146	hgsc.bcm.edu	37	7	148525904	148525904	+	Missense_Mutation	SNP	C	C	G	rs2302427	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141.0	83.0	204.0	0.0	0.588652	0	C|0.926;G|0.074	0.074	strong	EZH2_ENST00000350995,NS,carcinoma,+2,2	EZH2	823	2	NM_001203247	exon6	c.G553C	p.D185H	CATCGTCATCATC	.	PASS	Atlas-SNP
LRIG1	26018	hgsc.bcm.edu	37	3	66434674	66434674	+	Silent	SNP	C	C	T	rs140903952	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	341.0	147.0	296.0	0.0	0.431085	0	C|0.999;T|0.001	0.001	strong	LRIG1,colon,carcinoma,0,1	LRIG1	138	1	NM_015541	exon14	c.G1812A	p.T604T	GTGGGGCGTTTTG	.	PASS	Atlas-SNP
DENND4C	55667	hgsc.bcm.edu	37	9	19290732	19290732	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45.0	31.0	44.0	0.0	0.688889	0	.	.	none	.	DENND4C	120	.	NM_017925	exon5	c.A659G	p.Y220C	AGGACTATGAGTC	.	PASS	Atlas-SNP
OR52W1	120787	hgsc.bcm.edu	37	11	6221305	6221305	+	Missense_Mutation	SNP	C	C	G	rs374054864		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105.0	46.0	97.0	0.0	0.438095	0	.	.	weak	.	OR52W1	33	.	NM_001005178	exon1	c.C852G	p.N284K	CTCCAACATCTAC	.	PASS	Atlas-SNP
PLXNA3	55558	hgsc.bcm.edu	37	X	153689643	153689643	+	Missense_Mutation	SNP	G	G	A	rs145244142	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49.0	49.0	121.0	0.0	1	0	G|0.999;A|0.001	0.001	strong	.	PLXNA3	156	.	NM_017514	exon3	c.G799A	p.A267T	ATGTGCGCGGGAG	.	PASS	Atlas-SNP
TRUB2	26995	hgsc.bcm.edu	37	9	131073842	131073842	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137.0	20.0	126.0	0.0	0.145985	0	.	.	none	.	TRUB2	26	.	NM_015679	exon6	c.G499A	p.V167I	GGATAACGGCCAG	.	PASS	Atlas-SNP
FN3KRP	79672	hgsc.bcm.edu	37	17	80684843	80684843	+	Silent	SNP	G	G	A	rs146293327	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128.0	65.0	89.0	0.0	0.507812	0	G|0.999;A|0.001	0.001	strong	FN3KRP,right_upper_lobe,carcinoma,+1,2	FN3KRP	31	2	NM_024619	exon6	c.G726A	p.S242S	CCACTCGGAATAT	.	PASS	Atlas-SNP
CHDH	55349	hgsc.bcm.edu	37	3	53855738	53855738	+	Silent	SNP	G	G	C	rs35064726	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98.0	42.0	77.0	0.0	0.428571	0	G|0.958;C|0.042	0.042	strong	.	CHDH	34	.	NM_018397	exon5	c.C921G	p.L307L	GCCAGAGAGCATG	.	PASS	Atlas-SNP
OR2T5	401993	hgsc.bcm.edu	37	1	248652049	248652049	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1045.0	302.0	702.0	0.0	0.288995	0	.	.	none	.	OR2T5	17	.	NM_001004697	exon1	c.C160T	p.H54Y	CTGATACACTGTG	.	PASS	Atlas-SNP
DYRK1A	1859	hgsc.bcm.edu	37	21	38884589	38884589	+	Missense_Mutation	SNP	C	C	T	rs201554841		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177.0	81.0	148.0	0.0	0.457627	0	C|0.999;T|0.001	0.001	weak	DYRK1A,NS,malignant_melanoma,0,1	DYRK1A	85	1	NM_001396	exon11	c.C2047T	p.R683C	CAGAATCGCCCAG	.	PASS	Atlas-SNP
ZNF354A	6940	hgsc.bcm.edu	37	5	178139379	178139379	+	Silent	SNP	C	C	G	rs201342253		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126.0	7.0	188.0	0.0	0.0555556	0	C|0.999;G|0.001	0.001	weak	.	ZNF354A	74	.	NM_005649	exon5	c.G1500C	p.G500G	TGTTTTCCCACAC	.	PASS	Atlas-SNP
KCNH5	27133	hgsc.bcm.edu	37	14	63175013	63175013	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161.0	68.0	159.0	0.0	0.42236	0	.	.	none	KCNH5,NS,carcinoma,0,1	KCNH5	320	1	NM_139318	exon11	c.G2180A	p.G727D	GGGTCACCCTGTG	.	PASS	Atlas-SNP
SMARCA4	6597	hgsc.bcm.edu	37	19	11145752	11145752	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163.0	28.0	174.0	0.0	0.171779	0	.	.	none	.	SMARCA4	502	.	NM_003072	exon29	c.C4114T	p.R1372C	GGCTCCCGCCACC	.	PASS	Atlas-SNP
ZNF174	7727	hgsc.bcm.edu	37	16	3454480	3454480	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121.0	52.0	142.0	0.0	0.429752	0	.	.	none	.	ZNF174	32	.	NM_001032292	exon2	c.C457T	p.L153F	TCTCAGCTTGGAG	.	PASS	Atlas-SNP
FAM184B	27146	hgsc.bcm.edu	37	4	17636638	17636638	+	Silent	SNP	G	G	C	rs61745212	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63.0	36.0	66.0	0.0	0.571429	0	G|0.960;C|0.040	0.040	strong	.	FAM184B	38	.	NM_015688	exon16	c.C2883G	p.S961S	CTTCATGGAAGGG	.	PASS	Atlas-SNP
SPEF2	79925	hgsc.bcm.edu	37	5	35759812	35759812	+	Missense_Mutation	SNP	G	G	T	rs201517270	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149.0	76.0	129.0	0.0	0.510067	0	G|0.999;T|0.001	0.001	strong	.	SPEF2	324	.	NM_024867	exon25	c.G3611T	p.S1204I	CTGAAAGCCAGCT	.	PASS	Atlas-SNP
ZNF91	7644	hgsc.bcm.edu	37	19	23543078	23543078	+	Silent	SNP	C	C	T	rs117657695	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62.0	27.0	36.0	0.0	0.435484	0	C|0.995;T|0.005	0.005	strong	.	ZNF91	349	.	NM_003430	exon4	c.G2703A	p.K901K	AATTCTCTTATGT	.	PASS	Atlas-SNP
TNFRSF18	8784	hgsc.bcm.edu	37	1	1140871	1140871	+	Silent	SNP	G	G	A	rs142770542	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132.0	71.0	139.0	0.0	0.537879	0	G|0.998;A|0.002	0.002	strong	.	TNFRSF18	13	.	NM_148902	exon2	c.C189T	p.G63G	CTCCTCGCCTGGG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179613651	179613651	+	Silent	SNP	G	G	A	rs72648904	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100.0	47.0	83.0	0.0	0.47	0	G|0.977;A|0.023	0.023	strong	.	TTN	18412	.	NM_133379	exon46	c.C13476T	p.D4492D	GGCTTTGTCATCA	.	PASS	Atlas-SNP
IL22RA2	116379	hgsc.bcm.edu	37	6	137482840	137482840	+	Missense_Mutation	SNP	A	A	G	rs28385692	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104.0	36.0	133.0	0.0	0.346154	0	A|0.974;G|0.026	0.026	strong	IL22RA2,NS,malignant_melanoma,-1,1	IL22RA2	17	1	NM_181309	exon2	c.T47C	p.L16P	CCAGTAAGGAAGA	.	PASS	Atlas-SNP
PLAC4	191585	hgsc.bcm.edu	37	21	42551270	42551270	+	Missense_Mutation	SNP	A	A	G	rs199893430		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	283.0	21.0	244.0	0.0	0.0742049	0	.	.	weak	.	.	.	.	NM_182832	exon1	c.T286C	p.Y96H	GAGGGTATCCAGG	.	PASS	Atlas-SNP
HSD17B1	3292	hgsc.bcm.edu	37	17	40706596	40706596	+	Missense_Mutation	SNP	C	C	T	rs147402365	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	36.0	16.0	29.0	0.0	0.444444	0	C|0.996;T|0.004	0.004	strong	.	HSD17B1	24	.	NM_000413	exon5	c.C713T	p.A238V	AGGTGGCGGAGGT	.	PASS	Atlas-SNP
LAMB1	3912	hgsc.bcm.edu	37	7	107591763	107591763	+	Missense_Mutation	SNP	G	G	A	rs145485632	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116.0	54.0	104.0	0.0	0.465517	0	G|0.999;A|0.001	0.001	strong	.	LAMB1	185	.	NM_002291	exon24	c.C3299T	p.T1100M	TGCCCCGTGAACT	.	PASS	Atlas-SNP
C7orf57	136288	hgsc.bcm.edu	37	7	48086151	48086151	+	Missense_Mutation	SNP	G	G	A	rs111480809	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91.0	43.0	75.0	0.0	0.472527	0	G|0.989;A|0.011	0.011	strong	C7orf57_ENST00000348904,colon,carcinoma,0,2	C7orf57	59	2	NM_001100159	exon5	c.G445A	p.D149N	CCCTTCGACTTCG	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144859816	144859816	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	409.0	26.0	309.0	0.0	0.0635697	0	.	.	none	.	PDE4DIP	817	.	NM_014644	exon38	c.A6268G	p.I2090V	GGTTAATGGAGGA	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239622	31239622	+	Missense_Mutation	SNP	C	C	G	rs9264668	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76.0	12.0	79.0	0.0	0.157895	0	A|0.575;C|0.423;G|0.002	0.002	strong	HLA-C_ENST00000383329,NS,neuroblastoma,0,2	HLA-C	92	2	NM_002117	exon2	c.G97C	p.D33H	CGGTGTCGAAATA	.	scavenged	Atlas-SNP
PAH	5053	hgsc.bcm.edu	37	12	103288554	103288554	+	Missense_Mutation	SNP	G	G	T	rs62642929	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123.0	49.0	96.0	0.0	0.398374	0	.	.	weak	.	PAH	77	.	NM_000277	exon3	c.C311A	p.A104D	ACAGTGGCACCAA	.	PASS	Atlas-SNP
BICD1	636	hgsc.bcm.edu	37	12	32480886	32480886	+	Silent	SNP	T	T	C	rs12369637	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174.0	69.0	165.0	0.0	0.396552	0	T|0.987;C|0.013	0.013	strong	.	BICD1	89	.	NM_001714	exon5	c.T1497C	p.S499S	TCACAGTACCCTT	.	PASS	Atlas-SNP
C6orf15	29113	hgsc.bcm.edu	37	6	31079350	31079350	+	Silent	SNP	T	T	C	rs146335336	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184.0	63.0	147.0	0.0	0.342391	0	T|0.998;C|0.002	0.002	strong	.	C6orf15	29	.	NM_014070	exon2	c.A786G	p.G262G	AATATTTCCCCAG	.	PASS	Atlas-SNP
CUL9	23113	hgsc.bcm.edu	37	6	43154017	43154017	+	Missense_Mutation	SNP	C	C	G	rs150188923	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122.0	56.0	97.0	0.0	0.459016	0	C|0.995;G|0.005	0.005	strong	.	CUL9	248	.	NM_015089	exon4	c.C1075G	p.Q359E	AGAAGACAAGGGT	.	PASS	Atlas-SNP
TSHR	7253	hgsc.bcm.edu	37	14	81558919	81558919	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201.0	26.0	152.0	0.0	0.129353	0	.	.	none	TSHR_ENST00000554435,NS,carcinoma,+1,2	TSHR	462	2	NM_000369	exon6	c.C512G	p.A171G	TGAATGCTTTTCA	.	PASS	Atlas-SNP
CIDEB	27141	hgsc.bcm.edu	37	14	24775287	24775287	+	Silent	SNP	G	G	A	rs139893717	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62.0	28.0	70.0	0.0	0.451613	0	G|0.995;A|0.005	0.005	strong	.	CIDEB	17	.	NM_014430	exon6	c.C393T	p.I131I	TCGGGCGATGTCC	.	PASS	Atlas-SNP
TRIM54	57159	hgsc.bcm.edu	37	2	27521506	27521506	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190.0	25.0	137.0	0.0	0.131579	0	.	.	none	.	TRIM54	35	.	NM_187841	exon2	c.G240A	p.S80S	CCCATCGTGCAGG	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81232294	81232294	+	Missense_Mutation	SNP	T	T	C	rs61734110	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101.0	60.0	102.0	0.0	0.594059	0	T|0.956;C|0.044	0.044	strong	.	PKD1L2	361	.	NM_001076780	exon7	c.A1516G	p.I506V	GGCAAATCCCAAA	.	PASS	Atlas-SNP
ZNF462	58499	hgsc.bcm.edu	37	9	109692820	109692820	+	Silent	SNP	A	A	G	rs139184113	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149.0	67.0	100.0	0.0	0.449664	0	A|0.999;G|0.001	0.001	strong	.	ZNF462	322	.	NM_021224	exon4	c.A5862G	p.L1954L	TCACTTAGAAGAG	.	PASS	Atlas-SNP
MRPL9	65005	hgsc.bcm.edu	37	1	151735913	151735913	+	Missense_Mutation	SNP	G	G	A	rs199630729	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46.0	31.0	52.0	0.0	0.673913	0	.	.	weak	.	MRPL9	21	.	NM_031420	exon1	c.C43T	p.R15W	CCGCCCGCAGCAG	.	PASS	Atlas-SNP
KIAA0141	9812	hgsc.bcm.edu	37	5	141309152	141309152	+	Nonsense_Mutation	SNP	C	C	T	rs114623503	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109.0	40.0	109.0	0.0	0.366972	0	C|0.999;T|0.001	0.001	strong	.	KIAA0141	44	.	NM_001142603	exon5	c.C418T	p.R140X	GCACTGCGACAAC	.	PASS	Atlas-SNP
DOPEY2	9980	hgsc.bcm.edu	37	21	37584331	37584331	+	Silent	SNP	C	C	T	rs147659226	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100.0	49.0	93.0	1.0	0.49	0.0107527	C|0.999;T|0.001	0.001	strong	DOPEY2,NS,carcinoma,+2,1	DOPEY2	184	1	NM_005128	exon7	c.C840T	p.A280A	CTCAGCCGCCACC	.	scavenged	Atlas-SNP
SMYD4	114826	hgsc.bcm.edu	37	17	1686737	1686737	+	Missense_Mutation	SNP	C	C	T	rs374639152		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	185.0	102.0	172.0	0.0	0.551351	0	.	.	weak	.	SMYD4	50	.	NM_052928	exon9	c.G2054A	p.R685H	GCGTCACGCTGGC	.	PASS	Atlas-SNP
LPHN3	23284	hgsc.bcm.edu	37	4	62845326	62845326	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	435.0	66.0	417.0	0.0	0.151724	0	.	.	none	.	LPHN3	800	.	NM_015236	exon15	c.G2647A	p.V883I	ACGTGGGTTGGAA	.	PASS	Atlas-SNP
SERPINA9	327657	hgsc.bcm.edu	37	14	94936062	94936062	+	Missense_Mutation	SNP	G	G	A	rs45438596	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92.0	51.0	97.0	0.0	0.554348	0	G|0.979;A|0.021	0.021	strong	.	SERPINA9	105	.	NM_175739	exon2	c.C170T	p.T57I	GCAGGGGTGCTCT	.	PASS	Atlas-SNP
CA13	377677	hgsc.bcm.edu	37	8	86180719	86180719	+	Missense_Mutation	SNP	A	A	G	rs75353219	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187.0	98.0	185.0	0.0	0.524064	0	A|0.992;G|0.008	0.008	strong	.	CA13	26	.	NM_198584	exon6	c.A532G	p.T178A	CGATTCACAAATT	.	PASS	Atlas-SNP
MTMR7	9108	hgsc.bcm.edu	37	8	17169039	17169039	+	Missense_Mutation	SNP	C	C	T	rs147637471		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84.0	38.0	73.0	0.0	0.452381	0	C|1.000;T|0.000	0.000	weak	.	MTMR7	75	.	NM_004686	exon9	c.G1082A	p.R361Q	AGAGTCCGGTAGT	.	PASS	Atlas-SNP
TLR4	7099	hgsc.bcm.edu	37	9	120474891	120474891	+	Missense_Mutation	SNP	T	T	C	rs200168998	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154.0	83.0	146.0	0.0	0.538961	0	.	.	weak	.	TLR4	220	.	NM_138554	exon3	c.T485C	p.I162T	ATCTTATCCAATC	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49439900	49439900	+	Silent	SNP	G	G	A	rs377048725		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175.0	83.0	151.0	0.0	0.474286	0	.	.	weak	.	MLL2	1173	.	NM_003482	exon17	c.C4641T	p.A1547A	TTCATCGGCTGCC	.	PASS	Atlas-SNP
ELL2	22936	hgsc.bcm.edu	37	5	95234091	95234091	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	330.0	165.0	311.0	0.0	0.5	0	.	.	none	.	ELL2	63	.	NM_012081	exon8	c.A1378G	p.K460E	ACTTTTTGTGAGA	.	PASS	Atlas-SNP
HNF1A	6927	hgsc.bcm.edu	37	12	121432117	121432117	+	Silent	SNP	G	G	C	rs56348580	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	31.0	17.0	55.0	0.0	0.548387	0	G|0.754;C|0.246	0.246	strong	HNF1A,brain,glioma,0,1	HNF1A	302	1	NM_000545	exon4	c.G864C	p.G288G	CAGCGGGCCCCCC	.	PASS	Atlas-SNP
UBR1	197131	hgsc.bcm.edu	37	15	43256191	43256191	+	Missense_Mutation	SNP	T	T	C	rs3917223	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116.0	71.0	85.0	0.0	0.612069	0	T|0.847;G|0.006;C|0.046;A|0.102	0.046	strong	.	UBR1	124	.	NM_174916	exon42	c.A4642G	p.T1548A	AATTTGTAGGTAA	.	PASS	Atlas-SNP
POLG	5428	hgsc.bcm.edu	37	15	89864987	89864987	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111.0	20.0	79.0	0.0	0.18018	0	.	.	none	.	POLG	75	.	NM_002693	exon16	c.C2578T	p.L860F	CGGTGAGCCATGT	.	PASS	Atlas-SNP
TDO2	6999	hgsc.bcm.edu	37	4	156830085	156830085	+	Missense_Mutation	SNP	G	G	A	rs375801975		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75.0	38.0	96.0	0.0	0.506667	0	.	.	weak	.	TDO2	51	.	NM_005651	exon5	c.G350A	p.R117Q	TGCACCGAGTGTC	.	PASS	Atlas-SNP
SNAPC3	6619	hgsc.bcm.edu	37	9	15422888	15422888	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	36.0	12.0	53.0	0.0	0.333333	0	.	.	none	.	SNAPC3	28	.	NM_001039697	exon1	c.G11C	p.G4A	CTGAAGGAAGCCG	.	PASS	Atlas-SNP
ARHGAP40	343578	hgsc.bcm.edu	37	20	37272551	37272551	+	Missense_Mutation	SNP	A	A	C	rs369137106		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87.0	41.0	74.0	0.0	0.471264	0	.	.	weak	.	ARHGAP40	50	.	NM_001164431	exon11	c.A1564C	p.T522P	CTGTGGACGGTGA	.	PASS	Atlas-SNP
SBSN	374897	hgsc.bcm.edu	37	19	36018272	36018272	+	Silent	SNP	C	C	T	rs12461911	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	4.0	4.0	1.0	0.0	1	0	C|0.795;T|0.205	0.205	strong	.	SBSN	58	.	NM_001166034	exon1	c.G912A	p.A304A	CTGCCCCGCAGCA	.	PASS	Atlas-SNP
FAM208A	23272	hgsc.bcm.edu	37	3	56680943	56680943	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119.0	27.0	109.0	0.0	0.226891	0	.	.	none	.	FAM208A	113	.	NM_001112736	exon14	c.C1822T	p.R608W	CAGGCCGAAAAAT	.	PASS	Atlas-SNP
FLII	2314	hgsc.bcm.edu	37	17	18156957	18156957	+	Silent	SNP	G	G	A	rs147128917	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171.0	75.0	128.0	0.0	0.438596	0	G|0.999;A|0.001	0.001	strong	.	FLII	79	.	NM_002018	exon8	c.C756T	p.N252N	GCTGAGGTTGAGG	.	PASS	Atlas-SNP
FBXO33	254170	hgsc.bcm.edu	37	14	39870594	39870594	+	Silent	SNP	T	T	C	rs61754302	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143.0	70.0	125.0	0.0	0.48951	0	T|1.000;C|0.000	0.000	weak	.	FBXO33	21	.	NM_203301	exon3	c.A1182G	p.L394L	CCTCTCTAGTGGT	.	PASS	Atlas-SNP
BTBD16	118663	hgsc.bcm.edu	37	10	124036305	124036305	+	Splice_Site	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134.0	18.0	125.0	0.0	0.134328	0	.	.	none	BTBD16,bladder,carcinoma,0,1	BTBD16	44	1	NM_144587	exon3	c.19-1G>T	.	CAAGCAGCACAAA	.	PASS	Atlas-SNP
KCNA5	3741	hgsc.bcm.edu	37	12	5154064	5154064	+	Missense_Mutation	SNP	G	G	A	rs12720442	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103.0	47.0	91.0	0.0	0.456311	0	G|0.990;A|0.010	0.010	strong	KCNA5,brain,glioma,0,1	KCNA5	138	1	NM_002234	exon1	c.G751A	p.A251T	GCGCGGGCCATCG	.	PASS	Atlas-SNP
ST14	6768	hgsc.bcm.edu	37	11	130060453	130060453	+	Missense_Mutation	SNP	G	G	A	rs144266633	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45.0	29.0	106.0	0.0	0.644444	0	G|1.000;A|0.000	0.000	strong	.	ST14	82	.	NM_021978	exon7	c.G739A	p.A247T	CAGTGGGCCCTGC	.	PASS	Atlas-SNP
KCNH5	27133	hgsc.bcm.edu	37	14	63175012	63175012	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160.0	67.0	156.0	0.0	0.41875	0	.	.	none	KCNH5,NS,carcinoma,-1,1	KCNH5	320	1	NM_139318	exon11	c.T2181C	p.G727G	AGGGTCACCCTGT	.	PASS	Atlas-SNP
SEC11A	23478	hgsc.bcm.edu	37	15	85234858	85234858	+	Silent	SNP	T	T	C	rs369852123		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77.0	45.0	77.0	0.0	0.584416	0	.	.	weak	.	SEC11A	8	.	NM_014300	exon2	c.A69G	p.L23L	AAAATTTAGGACT	.	PASS	Atlas-SNP
HK3	3101	hgsc.bcm.edu	37	5	176309082	176309082	+	Silent	SNP	C	C	T	rs34127573	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130.0	82.0	121.0	0.0	0.630769	0	C|0.992;T|0.008	0.008	strong	.	HK3	210	.	NM_002115	exon16	c.G2100A	p.A700A	CACGCCCGCCACA	.	PASS	Atlas-SNP
CCDC107	203260	hgsc.bcm.edu	37	9	35660872	35660872	+	Silent	SNP	C	C	T	rs141349284	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80.0	36.0	64.0	0.0	0.45	0	C|1.000;T|0.000	0.000	strong	.	CCDC107	12	.	NM_174923	exon5	c.C540T	p.G180G	GGGAGGCGAGTCT	.	PASS	Atlas-SNP
CGNL1	84952	hgsc.bcm.edu	37	15	57731384	57731384	+	Missense_Mutation	SNP	G	G	T	rs148544821	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115.0	46.0	128.0	0.0	0.4	0	G|0.998;T|0.002	0.002	strong	.	CGNL1	125	.	NM_032866	exon2	c.G1187T	p.G396V	CTTTTGGCCTCCA	.	PASS	Atlas-SNP
ECD	11319	hgsc.bcm.edu	37	10	74894526	74894526	+	Missense_Mutation	SNP	A	A	C	rs35331959	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160.0	67.0	169.0	0.0	0.41875	0	A|0.991;C|0.009	0.009	strong	.	ECD	50	.	NM_001135752	exon15	c.T1849G	p.S617A	TACCAGAATCTTC	.	PASS	Atlas-SNP
C11orf48	79081	hgsc.bcm.edu	37	11	62437422	62437422	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	197.0	94.0	182.0	0.0	0.477157	0	.	.	none	.	C11orf48	18	.	NM_024099	exon2	c.C82T	p.P28S	GCCTGGGACTTTC	.	PASS	Atlas-SNP
PNPLA7	375775	hgsc.bcm.edu	37	9	140438216	140438216	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171.0	74.0	150.0	0.0	0.432749	0	.	.	none	.	PNPLA7	124	.	NM_001098537	exon5	c.C325T	p.R109W	TGGCCCGCTGCCG	.	PASS	Atlas-SNP
TPGS1	91978	hgsc.bcm.edu	37	19	507731	507731	+	Silent	SNP	C	C	T	rs16990489	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	24.0	14.0	43.0	0.0	0.583333	0	C|0.974;T|0.026	0.026	strong	.	.	.	.	NM_033513	exon1	c.C225T	p.G75G	CATGGGCCTGCGC	.	PASS	Atlas-SNP
CXCR5	643	hgsc.bcm.edu	37	11	118764448	118764448	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151.0	70.0	147.0	0.0	0.463576	0	.	.	none	.	CXCR5	34	.	NM_001716	exon2	c.C195T	p.G65G	CCTGGGCGTGATC	.	PASS	Atlas-SNP
ZSCAN9	7746	hgsc.bcm.edu	37	6	28195521	28195521	+	Silent	SNP	A	A	G	rs12197427	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213.0	125.0	205.0	0.0	0.586854	0	A|0.971;G|0.029	0.029	strong	ZNF193,NS,carcinoma,+2,1	.	.	1	NM_006299	exon3	c.A474G	p.L158L	GCCTCTAGCAGAG	.	PASS	Atlas-SNP
PTPN7	5778	hgsc.bcm.edu	37	1	202124690	202124690	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111.0	50.0	109.0	0.0	0.45045	0	.	.	none	PTPN7,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1	PTPN7	31	1	NM_002832	exon5	c.G754A	p.G252R	AATCTCCGTCCTC	.	PASS	Atlas-SNP
PIM3	415116	hgsc.bcm.edu	37	22	50354773	50354773	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	16.0	7.0	24.0	0.0	0.4375	0	.	.	none	.	PIM3	15	.	NM_001001852	exon2	c.C86T	p.A29V	CTGCAGCCAAGGC	.	PASS	Atlas-SNP
TPM1	7168	hgsc.bcm.edu	37	15	63363291	63363291	+	Missense_Mutation	SNP	A	A	G	rs144045691	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128.0	66.0	110.0	0.0	0.515625	0	A|0.999;G|0.001	0.001	strong	.	TPM1	59	.	NM_001018007	exon9	c.A775G	p.K259E	ACAGAGAAAGTGG	.	PASS	Atlas-SNP
INO80D	54891	hgsc.bcm.edu	37	2	206872126	206872126	+	Silent	SNP	C	C	T	rs116331438	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	309.0	145.0	266.0	0.0	0.469256	0	C|0.999;T|0.001	0.001	strong	INO80D_ENST00000403263,NS,carcinoma,0,2	INO80D	134	2	NM_017759	exon10	c.G1800A	p.P600P	GTCATCCGGCAAC	.	PASS	Atlas-SNP
PTPRT	11122	hgsc.bcm.edu	37	20	40743945	40743945	+	Missense_Mutation	SNP	A	A	G	rs41310016	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134.0	68.0	109.0	0.0	0.507463	0	A|0.997;G|0.003	0.003	strong	.	PTPRT	372	.	NM_133170	exon23	c.T3050C	p.V1017A	TATCGCACACATT	.	PASS	Atlas-SNP
DOK1	1796	hgsc.bcm.edu	37	2	74783100	74783100	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127.0	22.0	127.0	0.0	0.173228	0	.	.	none	.	DOK1	39	.	NM_001381	exon4	c.G534A	p.V178V	GAGGGTGGAGGCT	.	PASS	Atlas-SNP
CRKL	1399	hgsc.bcm.edu	37	22	21272249	21272249	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42.0	22.0	44.0	0.0	0.52381	0	.	.	none	.	CRKL	28	.	NM_005207	exon1	c.G27A	p.S9S	CTCCTCGGACCGC	.	PASS	Atlas-SNP
GPR146	115330	hgsc.bcm.edu	37	7	1097430	1097430	+	Silent	SNP	G	G	A	rs61742514	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67.0	36.0	78.0	0.0	0.537313	0	G|0.978;A|0.022	0.022	strong	.	GPR146	20	.	NM_138445	exon1	c.G279A	p.A93A	GTGGGCGCTGTGG	.	PASS	Atlas-SNP
SH3RF3	344558	hgsc.bcm.edu	37	2	110065649	110065649	+	Missense_Mutation	SNP	C	C	G	rs201796718	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216.0	120.0	237.0	0.0	0.555556	0	C|0.999;G|0.001	0.001	weak	.	SH3RF3	62	.	NM_001099289	exon8	c.C1852G	p.Q618E	CAGGCTCAGGACC	.	PASS	Atlas-SNP
PPHLN1	51535	hgsc.bcm.edu	37	12	42840082	42840082	+	Missense_Mutation	SNP	A	A	C	rs149559306	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	18.0	6.0	14.0	0.0	0.333333	0	A|0.992;C|0.008	0.008	strong	.	PPHLN1	101	.	NM_016488	exon12	c.A1340C	p.N447T	ATTGCAACTCACG	.	PASS	Atlas-SNP
ACTR5	79913	hgsc.bcm.edu	37	20	37394988	37394988	+	Silent	SNP	G	G	A	rs151070334	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173.0	79.0	171.0	0.0	0.456647	0	G|0.996;A|0.004	0.004	strong	.	ACTR5	44	.	NM_024855	exon7	c.G1401A	p.G467G	GGCTGGGATTGCA	.	PASS	Atlas-SNP
FMO1	2326	hgsc.bcm.edu	37	1	171249933	171249933	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160.0	24.0	136.0	0.0	0.15	0	.	.	none	.	FMO1	79	.	NM_002021	exon6	c.C636T	p.L212L	GTTCCTCAGCACC	.	PASS	Atlas-SNP
ZNF653	115950	hgsc.bcm.edu	37	19	11594928	11594928	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100.0	16.0	99.0	0.0	0.16	0	.	.	none	.	ZNF653	48	.	NM_138783	exon8	c.C1599T	p.C533C	CTTGCCGCAGGTC	.	PASS	Atlas-SNP
VNN2	8875	hgsc.bcm.edu	37	6	133073844	133073844	+	Silent	SNP	C	C	T	rs33980664	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81.0	37.0	89.0	0.0	0.45679	0	C|0.976;T|0.024	0.024	strong	.	VNN2	83	.	NM_004665	exon4	c.G582A	p.P194P	CAACTCCGGCTTT	.	PASS	Atlas-SNP
DHRS11	79154	hgsc.bcm.edu	37	17	34951481	34951481	+	Silent	SNP	C	C	T	rs73993036	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123.0	65.0	138.0	0.0	0.528455	0	C|0.977;T|0.023	0.023	strong	.	DHRS11	10	.	NM_024308	exon2	c.C228T	p.D76D	AGAGGACATCCTC	.	PASS	Atlas-SNP
RHBDL1	9028	hgsc.bcm.edu	37	16	726301	726301	+	Missense_Mutation	SNP	G	G	A	rs139776304	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160.0	86.0	168.0	0.0	0.5375	0	G|0.999;A|0.001	0.001	strong	.	RHBDL1	14	.	NM_003961	exon1	c.G200A	p.R67H	GGGCCCGCACTCA	.	PASS	Atlas-SNP
CDKN2AIPNL	91368	hgsc.bcm.edu	37	5	133747354	133747354	+	Silent	SNP	C	C	G	rs141449831	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	476.0	161.0	421.0	0.0	0.338235	0	C|0.982;G|0.018	0.018	strong	.	CDKN2AIPNL	5	.	NM_080656	exon1	c.G192C	p.L64L	GGAGAGCAGCTGG	.	PASS	Atlas-SNP
MRPL12	6182	hgsc.bcm.edu	37	17	79671298	79671298	+	Silent	SNP	C	C	T	rs148659191	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100.0	60.0	91.0	0.0	0.6	0	C|0.996;T|0.004	0.004	strong	.	MRPL12	12	.	NM_002949	exon2	c.C99T	p.A33A	CTGTGCCGTGCGA	.	PASS	Atlas-SNP
IFI30	10437	hgsc.bcm.edu	37	19	18286008	18286008	+	Silent	SNP	G	G	C	rs200372	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115.0	50.0	93.0	0.0	0.434783	0	G|0.994;C|0.006	0.006	strong	IFI30,NS,carcinoma,+1,1	IFI30	12	1	NM_006332	exon2	c.G291C	p.T97T	TGTCACGCTGGTG	.	PASS	Atlas-SNP
TBC1D2B	23102	hgsc.bcm.edu	37	15	78290635	78290635	+	Missense_Mutation	SNP	C	C	T	rs200408968	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158.0	11.0	120.0	0.0	0.0696203	0	C|0.960;T|0.040	0.040	strong	TBC1D2B_ENST00000300584,bladder,carcinoma,0,17	TBC1D2B	104	17	NM_144572	exon13	c.G2759A	p.R920Q	GCGCGTCGGTTCC	.	scavenged	Atlas-SNP
KCNN1	3780	hgsc.bcm.edu	37	19	18104350	18104350	+	Silent	SNP	G	G	A	rs376852061		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	221.0	101.0	242.0	0.0	0.457014	0	.	.	weak	.	KCNN1	74	.	NM_002248	exon10	c.G1359A	p.T453T	TAACACGCTTACC	.	PASS	Atlas-SNP
TNKS	8658	hgsc.bcm.edu	37	8	9605648	9605648	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113.0	16.0	112.0	0.0	0.141593	0	.	.	none	TNKS_ENST00000310430,NS,carcinoma,0,3	TNKS	198	3	NM_003747	exon18	c.G2758A	p.A920T	CTGTGCGCCCTCC	.	PASS	Atlas-SNP
REV3L	5980	hgsc.bcm.edu	37	6	111694124	111694124	+	Missense_Mutation	SNP	C	C	G	rs3218599	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87.0	54.0	79.0	0.0	0.62069	0	C|0.985;G|0.015	0.015	strong	.	REV3L	386	.	NM_002912	exon13	c.G5434C	p.D1812H	CTGAGTCAAGAGA	.	PASS	Atlas-SNP
PLCG2	5336	hgsc.bcm.edu	37	16	81942134	81942134	+	Silent	SNP	G	G	A	rs372347274		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136.0	76.0	143.0	0.0	0.558824	0	.	.	weak	.	PLCG2	276	.	NM_002661	exon17	c.G1671A	p.K557K	GGGCAAGGATGGC	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28419566	28419566	+	Silent	SNP	T	T	C	rs201182375	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	310.0	22.0	368.0	0.0	0.0709677	0	T|0.988;C|0.013	0.013	strong	.	HERC2	501	.	NM_004667	exon65	c.A10032G	p.R3344R	AGGGTCTCTTGCA	.	PASS	Atlas-SNP
ABL1	25	hgsc.bcm.edu	37	9	133755528	133755528	+	Silent	SNP	A	A	G	rs2227985	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89.0	39.0	100.0	0.0	0.438202	0	A|0.898;G|0.102	0.102	strong	.	ABL1	1632	.	NM_007313	exon9	c.A1554G	p.E518E	CCAGGAATCCAGT	.	PASS	Atlas-SNP
PIK3C2B	5287	hgsc.bcm.edu	37	1	204433627	204433627	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	197.0	21.0	148.0	0.0	0.106599	0	.	.	none	.	PIK3C2B	142	.	NM_002646	exon5	c.G1140A	p.V380V	CACAGTCACCTTC	.	PASS	Atlas-SNP
TTLL1	25809	hgsc.bcm.edu	37	22	43447891	43447891	+	Silent	SNP	C	C	T	rs9607998	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123.0	82.0	101.0	0.0	0.666667	0	C|0.971;T|0.029	0.029	strong	TTLL1,NS,carcinoma,-2,1	TTLL1	41	1	NM_012263	exon9	c.G894A	p.P298P	CATCACCGGCTGG	.	PASS	Atlas-SNP
NOTCH1	4851	hgsc.bcm.edu	37	9	139407932	139407932	+	Silent	SNP	A	A	G	rs2229971	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138.0	138.0	102.0	0.0	1	0	A|0.484;G|0.516	0.516	strong	.	NOTCH1	1980	.	NM_017617	exon14	c.T2265C	p.N755N	ACACTCATTGTTG	.	PASS	Atlas-SNP
MMEL1	79258	hgsc.bcm.edu	37	1	2535672	2535672	+	Missense_Mutation	SNP	G	G	A	rs143132254	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193.0	99.0	223.0	0.0	0.512953	0	G|1.000;A|0.000	0.000	strong	.	MMEL1	64	.	NM_033467	exon10	c.C865T	p.R289W	CCTCCCGCAGCAA	.	PASS	Atlas-SNP
C6	729	hgsc.bcm.edu	37	5	41160293	41160293	+	Silent	SNP	A	A	G	rs62361567	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	204.0	78.0	162.0	0.0	0.382353	0	A|0.978;G|0.022	0.022	strong	.	C6	197	.	NM_001115131	exon11	c.T1635C	p.S545S	GGTGCCACTCTGA	.	PASS	Atlas-SNP
SH3BP5	9467	hgsc.bcm.edu	37	3	15298590	15298590	+	Missense_Mutation	SNP	C	C	T	rs149397155	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107.0	54.0	91.0	0.0	0.504673	0	C|0.999;T|0.001	0.001	strong	.	SH3BP5	32	.	NM_004844	exon8	c.G920A	p.C307Y	TTGCTACAGCTGT	.	PASS	Atlas-SNP
QRFPR	84109	hgsc.bcm.edu	37	4	122301597	122301597	+	Missense_Mutation	SNP	A	A	C	rs34270076	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180.0	93.0	156.0	0.0	0.516667	0	A|0.987;C|0.013	0.013	strong	.	QRFPR	65	.	NM_198179	exon1	c.T206G	p.V69G	GTCACCACGTAGA	.	PASS	Atlas-SNP
TRMT1	55621	hgsc.bcm.edu	37	19	13220734	13220734	+	Silent	SNP	G	G	A	rs142446751		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60.0	21.0	65.0	0.0	0.35	0	G|1.000;A|0.000	0.000	weak	.	TRMT1	31	.	NM_001136035	exon9	c.C1101T	p.S367S	CCGGCCGCTGGGG	.	PASS	Atlas-SNP
USP6NL	9712	hgsc.bcm.edu	37	10	11504687	11504687	+	Missense_Mutation	SNP	G	G	A	rs41291253	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84.0	42.0	75.0	0.0	0.5	0	G|0.997;A|0.003	0.003	strong	.	USP6NL	57	.	NM_001080491	exon14	c.C2291T	p.T764M	CCCTGCGTCTCAG	.	PASS	Atlas-SNP
PINK1	65018	hgsc.bcm.edu	37	1	20971158	20971158	+	Missense_Mutation	SNP	A	A	T	rs139226733	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51.0	24.0	56.0	0.0	0.470588	0	A|0.999;T|0.001	0.001	strong	.	PINK1	37	.	NM_032409	exon4	c.A952T	p.M318L	CTCGTTATGAAGA	.	PASS	Atlas-SNP
NRG1	3084	hgsc.bcm.edu	37	8	32611970	32611970	+	Missense_Mutation	SNP	G	G	T	rs74942016	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188.0	69.0	172.0	0.0	0.367021	0	G|0.968;T|0.032	0.032	strong	.	NRG1	260	.	NM_013956	exon9	c.G796T	p.V266L	ATGTGTGTGGTGG	.	PASS	Atlas-SNP
SSH1	54434	hgsc.bcm.edu	37	12	109194652	109194652	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130.0	74.0	97.0	0.0	0.569231	0	.	.	none	SSH1_ENST00000326470,NS,carcinoma,0,2	SSH1	144	2	NM_001161331	exon11	c.G1085C	p.G362A	AATAAGCCAGGAA	.	PASS	Atlas-SNP
PCDHGB6	56100	hgsc.bcm.edu	37	5	140788107	140788107	+	Missense_Mutation	SNP	C	C	T	rs201370009	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206.0	115.0	186.0	1.0	0.558252	0.00537634	C|0.994;T|0.006	0.006	strong	PCDHGB6,right_lower_lobe,carcinoma,0,1	PCDHGB6	120	1	NM_032100	exon1	c.C338T	p.P113L	AAAATCCTTTAAA	.	PASS	Atlas-SNP
CCNJL	79616	hgsc.bcm.edu	37	5	159682580	159682580	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199.0	67.0	159.0	0.0	0.336683	0	.	.	none	.	CCNJL	36	.	NM_024565	exon6	c.G863A	p.S288N	CACGTGCTGAGGT	.	PASS	Atlas-SNP
CLEC16A	23274	hgsc.bcm.edu	37	16	11097155	11097155	+	Silent	SNP	G	G	A	rs45464291	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136.0	57.0	154.0	0.0	0.419118	0	G|0.999;A|0.001	0.001	strong	.	CLEC16A	101	.	NM_015226	exon10	c.G1296A	p.E432E	TGGGGAGAGTGAA	.	PASS	Atlas-SNP
IL1A	3552	hgsc.bcm.edu	37	2	113539246	113539246	+	Missense_Mutation	SNP	C	C	T	rs3783531	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	306.0	124.0	268.0	0.0	0.405229	0	C|0.998;T|0.002	0.002	strong	.	IL1A	19	.	NM_000575	exon4	c.G254A	p.R85Q	CTCAACCGTCTCT	.	PASS	Atlas-SNP
FGD5	152273	hgsc.bcm.edu	37	3	14861665	14861665	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149.0	6.0	115.0	0.0	0.0402685	0	.	.	none	.	FGD5	248	.	NM_152536	exon1	c.T1087C	p.S363P	AGCTGTTCTCCTC	.	PASS	Atlas-SNP
ZNF532	55205	hgsc.bcm.edu	37	18	56620910	56620910	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	253.0	139.0	292.0	0.0	0.549407	0	.	.	none	.	ZNF532	108	.	NM_018181	exon8	c.C3029T	p.P1010L	CATCTCCTGTGAA	.	PASS	Atlas-SNP
SPAG16	79582	hgsc.bcm.edu	37	2	214160817	214160817	+	Missense_Mutation	SNP	G	G	A	rs61752198	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161.0	87.0	158.0	0.0	0.540373	0	G|0.985;A|0.015	0.015	strong	.	SPAG16	134	.	NM_024532	exon2	c.G166A	p.D56N	GAAGATGACTATG	.	PASS	Atlas-SNP
PCSK4	54760	hgsc.bcm.edu	37	19	1487981	1487981	+	Silent	SNP	C	C	T	rs151115553	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54.0	26.0	72.0	0.0	0.481481	0	C|0.996;T|0.004	0.004	strong	.	PCSK4	44	.	NM_017573	exon4	c.G498A	p.P166P	GAGGTCCGGGTGG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506555	195506555	+	Missense_Mutation	SNP	C	C	T	rs368695884		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57.0	12.0	61.0	0.0	0.210526	0	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.G11896A	p.A3966T	AGGTGGCGTGACC	.	scavenged	Atlas-SNP
SMO	6608	hgsc.bcm.edu	37	7	128846328	128846328	+	Silent	SNP	G	G	C	rs2228617	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147.0	146.0	133.0	0.0	0.993197	0	G|0.216;C|0.784	0.784	strong	.	SMO	145	.	NM_005631	exon6	c.G1164C	p.G388G	GAGTGGGATTTGT	.	PASS	Atlas-SNP
GALR3	8484	hgsc.bcm.edu	37	22	38219570	38219570	+	Missense_Mutation	SNP	C	C	G	rs78650836	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154.0	73.0	162.0	0.0	0.474026	0	C|0.996;G|0.004	0.004	strong	.	GALR3	12	.	NM_003614	exon1	c.C157G	p.P53A	CAGGAGCCTGGCA	.	PASS	Atlas-SNP
CEL	1056	hgsc.bcm.edu	37	9	135946483	135946483	+	Missense_Mutation	SNP	C	C	T	rs200231984	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103.0	49.0	73.0	0.0	0.475728	0	C|0.999;T|0.001	0.001	weak	.	CEL	71	.	NM_001807	exon11	c.C1603T	p.R535W	ATGAAGCGGAGCC	.	PASS	Atlas-SNP
PKD1L1	168507	hgsc.bcm.edu	37	7	47851578	47851578	+	Missense_Mutation	SNP	G	G	A	rs140456142	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118.0	56.0	133.0	0.0	0.474576	0	G|0.999;A|0.001	0.001	strong	.	PKD1L1	328	.	NM_138295	exon50	c.C7418T	p.S2473F	TGCACAGACACAG	.	PASS	Atlas-SNP
FAM98C	147965	hgsc.bcm.edu	37	19	38896204	38896204	+	Missense_Mutation	SNP	T	T	G	rs117354953	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85.0	42.0	66.0	0.0	0.494118	0	T|0.989;G|0.011	0.011	strong	FAM98C,NS,carcinoma,-1,1	FAM98C	39	1	NM_174905	exon6	c.T679G	p.C227G	TACCGCTGCCGCC	.	PASS	Atlas-SNP
CEP89	84902	hgsc.bcm.edu	37	19	33414392	33414392	+	Silent	SNP	T	T	C	rs17599843	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216.0	97.0	213.0	0.0	0.449074	0	T|0.995;C|0.005	0.005	strong	.	CEP89	82	.	NM_032816	exon12	c.A1221G	p.E407E	GTGCAATTCTTCA	.	PASS	Atlas-SNP
TTC28	23331	hgsc.bcm.edu	37	22	28501580	28501580	+	Silent	SNP	G	G	A	rs189318371	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	232.0	129.0	201.0	0.0	0.556035	0	G|0.997;A|0.003	0.003	strong	.	TTC28	84	.	NM_001145418	exon8	c.C2994T	p.D998D	GGCTGCGTCACTC	.	PASS	Atlas-SNP
KRT25	147183	hgsc.bcm.edu	37	17	38910676	38910676	+	Missense_Mutation	SNP	G	G	C	rs146092638	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145.0	56.0	141.0	0.0	0.386207	0	A|0.000;C|0.000;G|1.000	0.000	strong	.	KRT25	63	.	NM_181534	exon2	c.C474G	p.I158M	ATTATCGATCTGC	.	PASS	Atlas-SNP
GNAT1	2779	hgsc.bcm.edu	37	3	50232262	50232262	+	Silent	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87.0	31.0	95.0	0.0	0.356322	0	.	.	none	.	GNAT1	39	.	NM_144499	exon8	c.G927T	p.R309R	CATGCGGCGCGAC	.	PASS	Atlas-SNP
CIT	11113	hgsc.bcm.edu	37	12	120166407	120166407	+	Missense_Mutation	SNP	T	T	C	rs145731510	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73.0	41.0	59.0	0.0	0.561644	0	T|0.999;C|0.001	0.001	strong	.	CIT	535	.	NM_001206999	exon28	c.A3491G	p.N1164S	AGGTCATTGAGCT	.	PASS	Atlas-SNP
C1orf192	257177	hgsc.bcm.edu	37	1	161335414	161335414	+	Missense_Mutation	SNP	G	G	A	rs141881555	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	276.0	175.0	186.0	0.0	0.634058	0	G|0.999;A|0.001	0.001	strong	.	C1orf192	20	.	NM_001013625	exon4	c.C250T	p.R84C	TTGTACGGGAGGT	.	PASS	Atlas-SNP
FAM5B	57795	hgsc.bcm.edu	37	1	177245369	177245369	+	Missense_Mutation	SNP	C	C	T	rs145109858	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	224.0	126.0	193.0	0.0	0.5625	0	C|1.000;T|0.000	0.000	strong	FAM5B,NS,carcinoma,0,3	FAM5B	191	3	NM_021165	exon6	c.C811T	p.R271C	CGTGAGCGCTTTG	.	PASS	Atlas-SNP
FBXO6	26270	hgsc.bcm.edu	37	1	11733846	11733846	+	Missense_Mutation	SNP	C	C	A	rs148957324	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	243.0	95.0	264.0	0.0	0.390947	0	C|0.994;A|0.006	0.006	strong	.	FBXO6	17	.	NM_018438	exon6	c.C820A	p.Q274K	CCTGGGCAGAAGC	.	PASS	Atlas-SNP
ASGR2	433	hgsc.bcm.edu	37	17	7004927	7004927	+	Silent	SNP	C	C	T	rs11653054	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71.0	39.0	95.0	0.0	0.549296	0	C|0.980;T|0.020	0.020	strong	.	ASGR2	38	.	NM_080912	exon9	c.G903A	p.E301E	CCTTTTCTCACAC	.	PASS	Atlas-SNP
PCDH12	51294	hgsc.bcm.edu	37	5	141337177	141337177	+	Missense_Mutation	SNP	G	G	C	rs138689340	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198.0	125.0	195.0	0.0	0.631313	0	G|0.986;C|0.014	0.014	strong	.	PCDH12	133	.	NM_016580	exon1	c.C240G	p.D80E	CTCAGAGTCCACC	.	PASS	Atlas-SNP
TGFBRAP1	9392	hgsc.bcm.edu	37	2	105924731	105924731	+	Missense_Mutation	SNP	C	C	G	rs201941079	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56.0	23.0	58.0	0.0	0.410714	0	C|0.999;G|0.001	0.001	strong	.	TGFBRAP1	70	.	NM_004257	exon2	c.G28C	p.V10L	CAGAGACAAGCGT	.	PASS	Atlas-SNP
SERPIND1	3053	hgsc.bcm.edu	37	22	21134023	21134023	+	Silent	SNP	G	G	A	rs35646566	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	185.0	92.0	168.0	0.0	0.497297	0	G|0.984;A|0.016	0.016	strong	.	SERPIND1	92	.	NM_000185	exon2	c.G423A	p.L141L	AGTGCTGAAAGAC	.	PASS	Atlas-SNP
NAB2	4665	hgsc.bcm.edu	37	12	57485291	57485291	+	Missense_Mutation	SNP	G	G	A	rs140433833	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41.0	23.0	51.0	0.0	0.560976	0	G|0.997;A|0.003	0.003	strong	NAB2,NS,carcinoma,-1,1	NAB2	47	1	NM_005967	exon2	c.G467A	p.R156H	GTGCCCGCAGTTT	.	PASS	Atlas-SNP
ZNF626	199777	hgsc.bcm.edu	37	19	20808418	20808418	+	Missense_Mutation	SNP	G	G	C	rs8111015	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118.0	48.0	85.0	0.0	0.40678	0	G|0.944;C|0.056	0.056	strong	.	ZNF626	121	.	NM_001076675	exon4	c.C265G	p.Q89E	TGCTCTGCTCTGG	.	PASS	Atlas-SNP
SVEP1	79987	hgsc.bcm.edu	37	9	113169619	113169619	+	Missense_Mutation	SNP	A	A	G	rs199899670	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	260.0	121.0	264.0	0.0	0.465385	0	A|0.998;G|0.002	0.002	strong	.	SVEP1	326	.	NM_153366	exon38	c.T8261C	p.L2754S	AGCCTTAAGTCAG	.	PASS	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	37	10	129904286	129904286	+	Missense_Mutation	SNP	G	G	A	rs146273614	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	403.0	163.0	348.0	0.0	0.404467	0	G|0.994;A|0.006	0.006	strong	.	MKI67	363	.	NM_002417	exon13	c.C5818T	p.R1940W	GTGGCCGTCTCTT	.	PASS	Atlas-SNP
ARHGAP21	57584	hgsc.bcm.edu	37	10	24908668	24908668	+	Missense_Mutation	SNP	T	T	C	rs142573508	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143.0	65.0	154.0	0.0	0.454545	0	T|1.000;C|0.000	0.000	strong	.	ARHGAP21	185	.	NM_020824	exon9	c.A2156G	p.Q719R	GCCTCTTGTAAAC	.	PASS	Atlas-SNP
LRCH1	23143	hgsc.bcm.edu	37	13	47279258	47279258	+	Missense_Mutation	SNP	G	G	T	rs11617392	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	214.0	93.0	239.0	0.0	0.434579	0	G|0.982;T|0.018	0.018	strong	.	LRCH1	104	.	NM_015116	exon12	c.G1456T	p.A486S	GGATCAGCAGAAG	.	PASS	Atlas-SNP
PCSK5	5125	hgsc.bcm.edu	37	9	78638797	78638797	+	Silent	SNP	C	C	T	rs34417623	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148.0	71.0	147.0	0.0	0.47973	0	C|0.989;T|0.011	0.011	strong	.	PCSK5	329	.	NM_006200	exon4	c.C555T	p.Y185Y	AAACTACGTGAGT	.	PASS	Atlas-SNP
LAG3	3902	hgsc.bcm.edu	37	12	6884585	6884585	+	Missense_Mutation	SNP	A	A	T	rs149434241	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216.0	102.0	184.0	0.0	0.472222	0	A|0.994;T|0.006	0.006	strong	.	LAG3	35	.	NM_002286	exon5	c.A928T	p.T310S	CTGGTGACTGGAG	.	PASS	Atlas-SNP
HES4	57801	hgsc.bcm.edu	37	1	934951	934951	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50.0	32.0	29.0	0.0	0.64	0	.	.	none	.	HES4	9	.	NM_001142467	exon2	c.A325G	p.M109V	CGGTCATCTCCAG	.	PASS	Atlas-SNP
BRAT1	221927	hgsc.bcm.edu	37	7	2582878	2582878	+	Missense_Mutation	SNP	T	T	C	rs151317339	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94.0	47.0	82.0	0.0	0.5	0	T|1.000;C|0.000	0.000	strong	.	BRAT1	57	.	NM_152743	exon6	c.A883G	p.M295V	GTCCCATGTGGGT	.	PASS	Atlas-SNP
FKBP5	2289	hgsc.bcm.edu	37	6	35544942	35544942	+	Silent	SNP	G	G	A	rs34866878	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206.0	82.0	198.0	0.0	0.398058	0	G|0.928;A|0.072	0.072	strong	.	FKBP5	64	.	NM_001145775	exon11	c.C1095T	p.N365N	AAACTCGTTCATG	.	PASS	Atlas-SNP
GP6	51206	hgsc.bcm.edu	37	19	55539094	55539094	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92.0	50.0	98.0	0.0	0.543478	0	.	.	none	.	GP6	55	.	NM_016363	exon4	c.C462T	p.Y154Y	ATTCTTGTAGGGC	.	PASS	Atlas-SNP
GNPTG	84572	hgsc.bcm.edu	37	16	1411894	1411894	+	Silent	SNP	G	G	A	rs76594024	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76.0	42.0	64.0	0.0	0.552632	0	G|0.994;A|0.006	0.006	strong	.	GNPTG	18	.	NM_032520	exon5	c.G255A	p.P85P	CTGCCCGTTCCAC	.	PASS	Atlas-SNP
MYH7B	57644	hgsc.bcm.edu	37	20	33586674	33586674	+	Silent	SNP	C	C	T	rs377482062		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121.0	50.0	131.0	0.0	0.413223	0	.	.	weak	.	MYH7B	145	.	NM_020884	exon35	c.C4272T	p.Y1424Y	CAAGTACGAAGCA	.	PASS	Atlas-SNP
ST6GAL1	6480	hgsc.bcm.edu	37	3	186760591	186760591	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189.0	20.0	174.0	0.0	0.10582	0	.	.	none	.	ST6GAL1	36	.	NM_003032	exon3	c.T100A	p.Y34N	GGGAGTTACTATG	.	PASS	Atlas-SNP
CCDC151	115948	hgsc.bcm.edu	37	19	11545690	11545690	+	Missense_Mutation	SNP	G	G	A	rs143295007	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86.0	39.0	88.0	0.0	0.453488	0	G|0.997;A|0.003	0.003	strong	.	CCDC151	44	.	NM_145045	exon1	c.C148T	p.P50S	GGCCTGGGGTCCA	.	PASS	Atlas-SNP
SPTBN5	51332	hgsc.bcm.edu	37	15	42162467	42162467	+	Nonsense_Mutation	SNP	G	G	A	rs61750839	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110.0	70.0	93.0	0.0	0.636364	0	G|0.982;A|0.018	0.018	strong	.	SPTBN5	171	.	NM_016642	exon31	c.C5542T	p.R1848X	GTTCTCGCTCCAG	.	PASS	Atlas-SNP
LRRC8A	56262	hgsc.bcm.edu	37	9	131670217	131670217	+	Silent	SNP	C	C	T	rs41275930	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147.0	67.0	134.0	0.0	0.455782	0	C|0.991;T|0.009	0.009	strong	.	LRRC8A	69	.	NM_001127244	exon3	c.C774T	p.D258D	GGGGGACATTGTG	.	PASS	Atlas-SNP
ABL1	25	hgsc.bcm.edu	37	9	133760106	133760106	+	Missense_Mutation	SNP	C	C	T	rs2229071	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74.0	42.0	74.0	0.0	0.567568	0	C|0.995;T|0.005	0.005	strong	.	ABL1	1632	.	NM_007313	exon11	c.C2486T	p.P829L	CCAGCCCGCCCAA	.	PASS	Atlas-SNP
OR1I1	126370	hgsc.bcm.edu	37	19	15198666	15198666	+	Missense_Mutation	SNP	T	T	A	rs144766527	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132.0	54.0	112.0	0.0	0.409091	0	T|0.989;A|0.011	0.011	strong	OR1I1,NS,malignant_melanoma,-1,1	OR1I1	58	1	NM_001004713	exon1	c.T790A	p.S264T	CCCACATCCCCCA	.	PASS	Atlas-SNP
TFAP2B	7021	hgsc.bcm.edu	37	6	50791444	50791444	+	Missense_Mutation	SNP	G	G	C	rs139904414		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	34.0	21.0	52.0	0.0	0.617647	0	G|1.000;C|0.000	0.000	weak	.	TFAP2B	91	.	NM_003221	exon2	c.G406C	p.D136H	GGCCTTGACCCCC	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144859879	144859879	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	307.0	27.0	242.0	0.0	0.0879479	0	.	.	none	.	PDE4DIP	817	.	NM_014644	exon38	c.C6205T	p.R2069X	GCAGTCGCAGACA	.	PASS	Atlas-SNP
MLH1	4292	hgsc.bcm.edu	37	3	37089130	37089130	+	Missense_Mutation	SNP	A	A	G	rs35502531	bycluster;alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134.0	80.0	131.0	1.0	0.597015	0.00763359	.	.	alt	MLH1,colon,carcinoma,-1,5	MLH1	226	5	NM_000249	exon16	c.A1852G	p.K618E	AAGAAGAAGGCTG	.	scavenged	Atlas-SNP
MYBBP1A	10514	hgsc.bcm.edu	37	17	4446217	4446217	+	Silent	SNP	C	C	T	rs138864176	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96.0	49.0	116.0	0.0	0.510417	0	C|0.997;T|0.003	0.003	strong	.	MYBBP1A	69	.	NM_014520	exon20	c.G2883A	p.T961T	CGGGCCCGTGGGC	.	PASS	Atlas-SNP
ATP8	0	hgsc.bcm.edu	37	MT	8448	8448	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	7.0	7.0	2.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361851	exon1	c.T83C	p.M28T	TAAAAATATTAAA	.	PASS	Atlas-SNP
MAD2L1	4085	hgsc.bcm.edu	37	4	120981323	120981323	+	Missense_Mutation	SNP	T	T	C	rs61752608	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111.0	58.0	107.0	0.0	0.522523	0	T|0.997;C|0.003	0.003	strong	.	MAD2L1	17	.	NM_002358	exon5	c.A568G	p.I190V	TGTGGATTGTAGT	.	PASS	Atlas-SNP
CKAP5	9793	hgsc.bcm.edu	37	11	46789135	46789135	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48.0	23.0	39.0	0.0	0.479167	0	.	.	none	.	CKAP5	134	.	NM_001008938	exon27	c.C3401G	p.S1134C	GCTTTAGAGGATA	.	PASS	Atlas-SNP
SLC25A40	55972	hgsc.bcm.edu	37	7	87476292	87476292	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74.0	4.0	52.0	0.0	0.0540541	0	.	.	none	.	SLC25A40	32	.	NM_018843	exon8	c.T603C	p.P201P	AACAGTAGGAGCC	.	PASS	Atlas-SNP
B4GALNT4	338707	hgsc.bcm.edu	37	11	380395	380395	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52.0	3.0	87.0	0.0	0.0576923	0	.	.	none	B4GALNT4,NS,carcinoma,+1,1	B4GALNT4	83	1	NM_178537	exon18	c.C2819T	p.A940V	CCTTCGCGCCCGT	.	scavenged	Atlas-SNP
KCNH5	27133	hgsc.bcm.edu	37	14	63174700	63174700	+	Silent	SNP	G	G	A	rs142813655		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	425.0	210.0	359.0	0.0	0.494118	0	G|1.000;A|0.000	0.000	weak	.	KCNH5	320	.	NM_139318	exon11	c.C2493T	p.V831V	TTTAGTGACATTA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508235	195508235	+	Missense_Mutation	SNP	T	T	C	rs201826718	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	364.0	28.0	280.0	0.0	0.0769231	0	T|0.006;C|0.994	0.994	strong	.	MUC4	1505	.	NM_018406	exon2	c.A10216G	p.T3406A	GCATGGTGTCACC	.	PASS	Atlas-SNP
LIMA1	51474	hgsc.bcm.edu	37	12	50571221	50571221	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	277.0	125.0	269.0	0.0	0.451264	0	.	.	none	.	LIMA1	67	.	NM_001113546	exon11	c.G1909A	p.V637M	TTTCCACTTGTTT	.	PASS	Atlas-SNP
CFI	3426	hgsc.bcm.edu	37	4	110682723	110682723	+	Missense_Mutation	SNP	G	G	A	rs138346388	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132.0	59.0	134.0	0.0	0.44697	0	G|0.999;A|0.001	0.001	strong	.	CFI	59	.	NM_000204	exon4	c.C608T	p.T203I	CCCATAGTTCTTC	.	PASS	Atlas-SNP
ZNF354B	117608	hgsc.bcm.edu	37	5	178309735	178309735	+	Silent	SNP	A	A	C	rs148284462	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160.0	70.0	149.0	0.0	0.4375	0	A|0.999;C|0.001	0.001	strong	.	ZNF354B	67	.	NM_058230	exon5	c.A282C	p.T94T	AATGACAAAGTCA	.	PASS	Atlas-SNP
CPSF4L	642843	hgsc.bcm.edu	37	17	71248777	71248777	+	Silent	SNP	T	T	C	rs74909356	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164.0	79.0	206.0	0.0	0.481707	0	T|0.998;C|0.002	0.002	strong	.	CPSF4L	8	.	NM_001129885	exon5	c.A489G	p.Q163Q	AGCAAATTGGCAC	.	PASS	Atlas-SNP
MTHFS	10588	hgsc.bcm.edu	37	15	80189277	80189277	+	Silent	SNP	C	C	T	rs375170671		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	19.0	15.0	46.0	0.0	0.789474	0	.	.	weak	.	MTHFS	11	.	NM_006441	exon1	c.G54A	p.K18K	ACGCTGCTTCAGC	.	PASS	Atlas-SNP
NKD1	85407	hgsc.bcm.edu	37	16	50667299	50667299	+	Silent	SNP	C	C	T	rs34100051	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	285.0	133.0	276.0	1.0	0.466667	0.00362319	C|0.981;T|0.019	0.019	strong	.	NKD1	43	.	NM_033119	exon10	c.C1020T	p.D340D	CCAGGACGGGAGC	.	PASS	Atlas-SNP
COL4A4	1286	hgsc.bcm.edu	37	2	228004877	228004877	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142.0	81.0	172.0	0.0	0.570423	0	.	.	none	COL4A4,NS,lymphoid_neoplasm,-1,2	COL4A4	215	2	NM_000092	exon4	c.G192A	p.R64R	ACTTACCCGAGAC	.	PASS	Atlas-SNP
U2AF2	11338	hgsc.bcm.edu	37	19	56181019	56181019	+	Silent	SNP	C	C	T	rs147666260	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156.0	76.0	125.0	0.0	0.487179	0	C|0.994;T|0.006	0.006	strong	.	U2AF2	62	.	NM_007279	exon11	c.C1254T	p.P418P	GATCCCCCGGCCT	.	PASS	Atlas-SNP
BCLAF1	9774	hgsc.bcm.edu	37	6	136599912	136599912	+	Missense_Mutation	SNP	G	G	T	rs200334350		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	20.0	2.0	29.0	1.0	0.1	0.0344828	.	.	weak	BCLAF1_ENST00000531224,head_neck,carcinoma,-1,1	BCLAF1	203	1	NM_014739	exon4	c.C107A	p.S36Y	GACCTAGAACTAA	.	scavenged	Atlas-SNP