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
TLL2	7093	hgsc.bcm.edu	37	10	98170201	98170201	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	77.0	13.0	63.0	0.0	0.168831	0	.	.	none	TLL2,NS,malignant_melanoma,-2,1	TLL2	122	1	NM_012465	exon9	c.1080delA	p.G360fs	.	.	PASS	Atlas-Indel
UBE2Q2	92912	hgsc.bcm.edu	37	15	76161328	76161330	+	In_Frame_Del	DEL	GAA	GAA	-	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	GAA	GAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	194.0	38.0	142.0	0.0	0.195876	0	.	.	none	.	UBE2Q2	26	.	NM_173469	exon4	c.423_425del	p.141_142del	.	.	PASS	Atlas-Indel
GLIPR1L2	144321	hgsc.bcm.edu	37	12	75816842	75816843	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	88.0	11.0	67.0	0.0	0.125	0	.	.	none	.	GLIPR1L2	54	.	NM_152436	exon4	c.743_744insT	p.S248fs	.	.	PASS	Atlas-Indel
IGLL5	100423062	hgsc.bcm.edu	37	22	23237676	23237677	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	171.0	28.0	151.0	0.0	0.163743	0	.	.	none	.	IGLL5	26	.	NM_001178126	exon3	c.447_448insT	p.A149fs	.	.	PASS	Atlas-Indel
FAS	355	hgsc.bcm.edu	37	10	90773975	90773975	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	66.0	15.0	49.0	0.0	0.227273	0	.	.	none	.	FAS	47	.	NM_000043	exon9	c.T776C	p.I259T	CCAAAATAGATGA	.	PASS	Atlas-SNP
DNAH7	56171	hgsc.bcm.edu	37	2	196651835	196651835	+	Missense_Mutation	SNP	G	G	A	rs200008102	by1000genomes	TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	198.0	29.0	200.0	0.0	0.146465	0	G|1.000;A|0.000	0.000	strong	.	DNAH7	512	.	NM_018897	exon58	c.C10777T	p.R3593W	ATTTCCGTCTTTC	.	PASS	Atlas-SNP
USP17L7	392197	hgsc.bcm.edu	37	8	11990882	11990882	+	Missense_Mutation	SNP	C	C	T	rs9720235	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	10.0	9.0	3.0	0.0	0.9	0	C|0.499;T|0.501	0.501	strong	.	.	.	.	NM_001256869	exon1	c.G637A	p.V213I	CTGAAACGCCGTG	.	PASS	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385790	58385790	+	Missense_Mutation	SNP	G	G	T	rs111727691	bycluster	TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	189.0	28.0	170.0	0.0	0.148148	0	G|0.500;T|0.500	0.500	weak	.	ZNF814	93	.	NM_001144989	exon3	c.C968A	p.P323H	TCATAAGGTCTTT	.	PASS	Atlas-SNP
GPR113	165082	hgsc.bcm.edu	37	2	26534617	26534617	+	Missense_Mutation	SNP	C	C	T	rs201936475	bycluster;by1000genomes	TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	41.0	12.0	31.0	0.0	0.292683	0	C|1.000;T|0.000	0.000	strong	GPR113_ENST00000311519,NS,malignant_melanoma,0,5	GPR113	134	5	NM_001145168	exon11	c.G1979A	p.R660Q	AGTTTTCGCAGCA	.	PASS	Atlas-SNP
KRTAP11-1	337880	hgsc.bcm.edu	37	21	32253665	32253665	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	74.0	27.0	45.0	0.0	0.364865	0	.	.	none	KRTAP11-1,NS,carcinoma,+1,1	KRTAP11-1	46	1	NM_175858	exon1	c.G179T	p.C60F	TCACAGCAGGTCT	.	PASS	Atlas-SNP
DOCK5	80005	hgsc.bcm.edu	37	8	25230091	25230091	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	64.0	9.0	53.0	0.0	0.140625	0	.	.	none	.	DOCK5	167	.	NM_024940	exon35	c.C3541T	p.R1181W	CATTGCCGGAAAC	.	PASS	Atlas-SNP
GPR50	9248	hgsc.bcm.edu	37	X	150348455	150348455	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	152.0	27.0	147.0	0.0	0.177632	0	.	.	none	.	GPR50	195	.	NM_004224	exon2	c.C400T	p.L134F	CACAGCCTCCAGT	.	PASS	Atlas-SNP
C1QTNF2	114898	hgsc.bcm.edu	37	5	159781844	159781844	+	Nonsense_Mutation	SNP	G	G	A	rs144600396	bycluster;byfrequency	TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	68.0	10.0	61.0	0.0	0.147059	0	G|1.000;A|0.000	0.000	strong	.	C1QTNF2	33	.	NM_031908	exon2	c.C310T	p.R104X	CCATTCGTCCCAT	.	PASS	Atlas-SNP
FZD10	11211	hgsc.bcm.edu	37	12	130649024	130649024	+	Missense_Mutation	SNP	G	G	C	rs369465643	alternate_allele	TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	40.0	7.0	37.0	0.0	0.175	0	.	.	alt	.	FZD10	95	.	NM_007197	exon1	c.G1537C	p.V513L	CTGCTGGTGGTGG	.	PASS	Atlas-SNP
BBS1	582	hgsc.bcm.edu	37	11	66299440	66299440	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	46.0	10.0	62.0	0.0	0.217391	0	.	.	none	.	BBS1	58	.	NM_024649	exon17	c.G1714A	p.G572S	CGAGAAGGCCAAA	.	PASS	Atlas-SNP
RSBN1L	222194	hgsc.bcm.edu	37	7	77378893	77378893	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	87.0	16.0	98.0	0.0	0.183908	0	.	.	none	.	RSBN1L	74	.	NM_198467	exon3	c.G856A	p.D286N	CTAACTGATGTTG	.	PASS	Atlas-SNP
MRPL19	9801	hgsc.bcm.edu	37	2	75879766	75879766	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	229.0	32.0	266.0	0.0	0.139738	0	.	.	none	.	MRPL19	21	.	NM_014763	exon4	c.A458T	p.N153I	TTAGGAATGTTAT	.	PASS	Atlas-SNP
POTEC	388468	hgsc.bcm.edu	37	18	14542891	14542891	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	275.0	28.0	298.0	0.0	0.101818	0	.	.	none	POTEC,NS,carcinoma,0,1	POTEC	129	1	NM_001137671	exon1	c.C255T	p.D85D	GTCATGGTCTCCA	.	PASS	Atlas-SNP
PAPPA	5069	hgsc.bcm.edu	37	9	119097144	119097144	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	53.0	11.0	42.0	0.0	0.207547	0	.	.	none	.	PAPPA	243	.	NM_002581	exon13	c.C3402T	p.L1134L	AGGCCTCCATGTC	.	PASS	Atlas-SNP
LIMD1	8994	hgsc.bcm.edu	37	3	45636379	45636379	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	73.0	8.0	50.0	0.0	0.109589	0	.	.	none	.	LIMD1	34	.	NM_014240	exon1	c.A8T	p.K3M	TGGATAAGTATGA	.	PASS	Atlas-SNP
HIST1H1B	3009	hgsc.bcm.edu	37	6	27835042	27835042	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	151.0	27.0	120.0	0.0	0.178808	0	.	.	none	.	HIST1H1B	54	.	NM_005322	exon1	c.G266A	p.S89N	ACCAAGCTCTTGA	.	PASS	Atlas-SNP
OR52L1	338751	hgsc.bcm.edu	37	11	6007398	6007398	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	77.0	13.0	58.0	0.0	0.168831	0	.	.	none	.	OR52L1	100	.	NM_001005173	exon1	c.G763A	p.A255T	TAAACGCCTTAAG	.	PASS	Atlas-SNP
FAM117A	81558	hgsc.bcm.edu	37	17	47799869	47799869	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	63.0	9.0	59.0	0.0	0.142857	0	.	.	none	.	FAM117A	45	.	NM_030802	exon3	c.C454T	p.R152X	CTTTTCGGTGGTC	.	PASS	Atlas-SNP
MST1R	4486	hgsc.bcm.edu	37	3	49940010	49940010	+	Missense_Mutation	SNP	C	C	T	rs367549694		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	112.0	18.0	90.0	0.0	0.160714	0	.	.	weak	.	MST1R	205	.	NM_001244937	exon1	c.G1033A	p.V345I	ATAGTACTTCCTG	.	PASS	Atlas-SNP
EPHA6	285220	hgsc.bcm.edu	37	3	96706499	96706499	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	155.0	28.0	126.0	0.0	0.180645	0	.	.	none	EPHA6_ENST00000389672,colon,carcinoma,+1,9	EPHA6	439	9	NM_001080448	exon3	c.G776A	p.R259H	GTGATCGCATCCT	.	PASS	Atlas-SNP
COL9A1	1297	hgsc.bcm.edu	37	6	70991128	70991128	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	72.0	12.0	52.0	0.0	0.166667	0	.	.	none	COL9A1_ENST00000320755,NS,carcinoma,+1,2	COL9A1	228	2	NM_001851	exon8	c.G841T	p.G281C	GGGGGCCCGGAGG	.	PASS	Atlas-SNP
ZFHX4	79776	hgsc.bcm.edu	37	8	77767750	77767750	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	41.0	8.0	37.0	0.0	0.195122	0	.	.	none	ZFHX4,caecum,carcinoma,0,2	ZFHX4	878	2	NM_024721	exon10	c.C8593A	p.L2865I	AAATTTCTCTTTT	.	PASS	Atlas-SNP
TMEM70	54968	hgsc.bcm.edu	37	8	74893545	74893545	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	180.0	19.0	125.0	0.0	0.105556	0	.	.	none	.	TMEM70	12	.	NM_017866	exon3	c.C472T	p.L158L	CCAGTGCTGCTTC	.	PASS	Atlas-SNP
SSTR2	6752	hgsc.bcm.edu	37	17	71166537	71166537	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	49.0	12.0	48.0	0.0	0.244898	0	.	.	none	.	SSTR2	27	.	NM_001050	exon2	c.T1079C	p.L360P	GGACCCTCCTCAA	.	PASS	Atlas-SNP
POGK	57645	hgsc.bcm.edu	37	1	166818482	166818482	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	95.0	9.0	75.0	0.0	0.0947368	0	.	.	none	.	POGK	54	.	NM_017542	exon5	c.G666A	p.K222K	TGCCAAGCAGTTT	.	PASS	Atlas-SNP
RP1	6101	hgsc.bcm.edu	37	8	55533908	55533908	+	Missense_Mutation	SNP	C	C	T	rs147116231	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	62.0	14.0	42.0	0.0	0.225806	0	C|0.998;A|0.002	.	alt	.	RP1	429	.	NM_006269	exon2	c.C382T	p.L128F	CCCTGGCTCAGCA	.	PASS	Atlas-SNP
PPP4C	5531	hgsc.bcm.edu	37	16	30093814	30093814	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	60.0	8.0	41.0	0.0	0.133333	0	.	.	none	.	PPP4C	25	.	NM_002720	exon4	c.G160A	p.D54N	TGCGGCGACATCC	.	PASS	Atlas-SNP
AGA	175	hgsc.bcm.edu	37	4	178355570	178355570	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	213.0	18.0	259.0	0.0	0.084507	0	.	.	none	.	AGA	39	.	NM_000027	exon7	c.G772A	p.G258R	CATTCCCAGTGGC	.	PASS	Atlas-SNP
MID2	11043	hgsc.bcm.edu	37	X	107147248	107147248	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	240.0	39.0	194.0	0.0	0.1625	0	.	.	none	.	MID2	122	.	NM_012216	exon4	c.A877G	p.I293V	GAGATCATCCAGC	.	PASS	Atlas-SNP
SETD8	387893	hgsc.bcm.edu	37	12	123892235	123892235	+	Silent	SNP	G	G	A	rs61955128	bycluster;by1000genomes	TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	61.0	5.0	41.0	0.0	0.0819672	0	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
ZNF814	730051	hgsc.bcm.edu	37	19	58385867	58385867	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	79.0	11.0	58.0	1.0	0.139241	0.0172414	.	.	none	ZNF814,NS,carcinoma,-2,1	ZNF814	93	1	NM_001144989	exon3	c.A891T	p.E297D	TCCACATTCATGT	.	scavenged	Atlas-SNP
DSG3	1830	hgsc.bcm.edu	37	18	29039873	29039873	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	90.0	12.0	60.0	2.0	0.133333	0.0333333	.	.	none	DSG3,colon,carcinoma,0,1	DSG3	172	1	NM_001944	exon6	c.G583T	p.A195S	AAAATTGCCTTCA	.	scavenged	Atlas-SNP
P4HA3	283208	hgsc.bcm.edu	37	11	73997431	73997431	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	112.0	28.0	81.0	0.0	0.25	0	.	.	none	.	P4HA3	43	.	NM_182904	exon6	c.G775A	p.D259N	TATTATCTGGGCC	.	PASS	Atlas-SNP
PTCHD2	57540	hgsc.bcm.edu	37	1	11595630	11595630	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	48.0	5.0	44.0	0.0	0.104167	0	.	.	none	PTCHD2,NS,carcinoma,-2,1	PTCHD2	193	1	NM_020780	exon20	c.G3745A	p.V1249M	TCCTCCGTGGATT	.	PASS	Atlas-SNP
CSNK1A1L	122011	hgsc.bcm.edu	37	13	37679015	37679015	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	165.0	27.0	134.0	0.0	0.163636	0	.	.	none	.	CSNK1A1L	69	.	NM_145203	exon1	c.G379A	p.V127M	TATGCACGTATTC	.	PASS	Atlas-SNP
AHRR	57491	hgsc.bcm.edu	37	5	427978	427978	+	Silent	SNP	G	G	A	rs371473301		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	93.0	22.0	72.0	0.0	0.236559	0	.	.	weak	.	AHRR	67	.	NM_020731	exon9	c.G831A	p.P277P	GGCGCCGTCAGGA	.	PASS	Atlas-SNP
NMBR	4829	hgsc.bcm.edu	37	6	142400028	142400028	+	Silent	SNP	G	G	T	rs147371910	alternate_allele	TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	88.0	21.0	63.0	0.0	0.238636	0	G|1.000;A|0.000	.	alt	.	NMBR	62	.	NM_002511	exon2	c.C435A	p.I145I	GTTAACGATGGCT	.	PASS	Atlas-SNP
CELSR1	9620	hgsc.bcm.edu	37	22	46860090	46860090	+	Missense_Mutation	SNP	C	C	T	rs200980049	bycluster	TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	58.0	8.0	45.0	0.0	0.137931	0	.	.	weak	CELSR1,NS,carcinoma,+2,1	CELSR1	242	1	NM_014246	exon2	c.G3697A	p.A1233T	GCACGGCGGCCAC	.	PASS	Atlas-SNP
PCDHB1	29930	hgsc.bcm.edu	37	5	140431538	140431538	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	96.0	18.0	90.0	0.0	0.1875	0	.	.	none	.	PCDHB1	148	.	NM_013340	exon1	c.C483T	p.D161D	TCTGGACGTGGGC	.	PASS	Atlas-SNP
TJP2	9414	hgsc.bcm.edu	37	9	71836110	71836110	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	59.0	9.0	56.0	0.0	0.152542	0	.	.	none	.	TJP2	120	.	NM_001170416	exon5	c.G743A	p.R248H	GCAGCCGTGGCCG	.	PASS	Atlas-SNP
PATE4	399968	hgsc.bcm.edu	37	11	125708273	125708273	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	52.0	9.0	45.0	0.0	0.173077	0	.	.	none	.	PATE4	10	.	NM_001144874	exon3	c.T248C	p.L83P	GAGGCCTGTTGAG	.	PASS	Atlas-SNP
KIAA1644	85352	hgsc.bcm.edu	37	22	44681413	44681413	+	Missense_Mutation	SNP	G	G	A	rs372785890		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	81.0	11.0	90.0	0.0	0.135802	0	.	.	weak	.	KIAA1644	39	.	NM_001099294	exon4	c.C494T	p.P165L	GGCTGCGGCTGTG	.	PASS	Atlas-SNP
ADAMTS19	171019	hgsc.bcm.edu	37	5	128863470	128863470	+	Silent	SNP	G	G	C	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	399.0	18.0	369.0	0.0	0.0451128	0	.	.	none	ADAMTS19,NS,carcinoma,+2,1	ADAMTS19	216	1	NM_133638	exon5	c.G1098C	p.L366L	GAGTCTGAGTGTG	.	PASS	Atlas-SNP
ABCF1	23	hgsc.bcm.edu	37	6	30553108	30553108	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	109.0	24.0	100.0	0.0	0.220183	0	.	.	none	.	ABCF1	61	.	NM_001025091	exon15	c.T1463A	p.I488N	CTGTCATCTGGCT	.	PASS	Atlas-SNP
PLCL2	23228	hgsc.bcm.edu	37	3	17051505	17051505	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	107.0	11.0	49.0	0.0	0.102804	0	.	.	none	.	PLCL2	145	.	NM_015184	exon2	c.G289A	p.G97R	ATATATGGAGAGA	.	PASS	Atlas-SNP
CEP85	64793	hgsc.bcm.edu	37	1	26584680	26584680	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	85.0	17.0	73.0	0.0	0.2	0	.	.	none	.	CEP85	61	.	NM_022778	exon6	c.G1084A	p.E362K	GAGAGCGAACTGC	.	PASS	Atlas-SNP
SACS	26278	hgsc.bcm.edu	37	13	23908091	23908091	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	107.0	20.0	89.0	0.0	0.186916	0	.	.	none	.	SACS	871	.	NM_014363	exon10	c.C9924T	p.H3308H	TGCAATGTGCATA	.	PASS	Atlas-SNP
PCNXL3	399909	hgsc.bcm.edu	37	11	65388334	65388334	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	66.0	12.0	50.0	0.0	0.181818	0	.	.	none	.	PCNXL3	140	.	NM_032223	exon10	c.C2132T	p.S711L	TCCACTCGGCTGA	.	PASS	Atlas-SNP
SEC61G	23480	hgsc.bcm.edu	37	7	54823513	54823513	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	80.0	9.0	51.0	0.0	0.1125	0	.	.	none	.	SEC61G	10	.	NM_001012456	exon3	c.C156T	p.F52F	CACAAAGAAGCCA	.	PASS	Atlas-SNP
OR4A15	81328	hgsc.bcm.edu	37	11	55135959	55135959	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	314.0	49.0	315.0	0.0	0.156051	0	.	.	none	.	OR4A15	161	.	NM_001005275	exon1	c.T600C	p.N200N	ACCCAATGTCATT	.	PASS	Atlas-SNP
CARD17	440068	hgsc.bcm.edu	37	11	104970112	104970112	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	34.0	8.0	43.0	0.0	0.235294	0	.	.	none	.	CARD17	15	.	NM_001007232	exon3	c.C311T	p.S104F	ATTTGAGAATCTT	.	PASS	Atlas-SNP
OR5L1	219437	hgsc.bcm.edu	37	11	55579056	55579056	+	Silent	SNP	G	G	A	rs147224918		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	155.0	28.0	136.0	1.0	0.180645	0.00735294	G|1.000;A|0.000	0.000	weak	OR5L1,colon,carcinoma,+2,2	OR5L1	145	2	NM_001004738	exon1	c.G114A	p.T38T	AGTCACGTTGTTA	.	scavenged	Atlas-SNP
VMA21	203547	hgsc.bcm.edu	37	X	150573426	150573426	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	146.0	35.0	134.0	0.0	0.239726	0	.	.	none	.	VMA21	17	.	NM_001017980	exon3	c.G202A	p.A68T	TTTTACGCTGCTA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511447	195511447	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	100.0	6.0	71.0	0.0	0.06	0	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,3	MUC4	1505	3	NM_018406	exon2	c.C7004T	p.T2335M	AGAGGCGTGGTGT	.	scavenged	Atlas-SNP
PIP5K1A	8394	hgsc.bcm.edu	37	1	151206713	151206713	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	218.0	70.0	193.0	0.0	0.321101	0	.	.	none	.	PIP5K1A	61	.	NM_001135638	exon8	c.A680G	p.Y227C	AATTCTATGGACT	.	PASS	Atlas-SNP
SHANK1	50944	hgsc.bcm.edu	37	19	51165532	51165532	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	68.0	15.0	81.0	0.0	0.220588	0	.	.	none	.	SHANK1	210	.	NM_016148	exon23	c.C6176T	p.P2059L	ATCCCCGGGTGTG	.	PASS	Atlas-SNP
SPOCD1	90853	hgsc.bcm.edu	37	1	32258931	32258931	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	150.0	28.0	124.0	0.0	0.186667	0	.	.	none	.	SPOCD1	109	.	NM_144569	exon13	c.G2633A	p.R878Q	CGGAACCGCTTGA	.	PASS	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385793	58385793	+	Missense_Mutation	SNP	C	C	T	rs113623532	bycluster	TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	179.0	25.0	161.0	0.0	0.139665	0	C|0.500;T|0.500	0.500	weak	.	ZNF814	93	.	NM_001144989	exon3	c.G965A	p.R322K	TAAGGTCTTTTCC	.	PASS	Atlas-SNP
ZC4H2	55906	hgsc.bcm.edu	37	X	64141833	64141833	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	438.0	76.0	382.0	0.0	0.173516	0	.	.	none	.	ZC4H2	64	.	NM_018684	exon2	c.G89A	p.R30H	TTCAAACGAGCCT	.	PASS	Atlas-SNP
POF1B	79983	hgsc.bcm.edu	37	X	84586065	84586065	+	Silent	SNP	G	G	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	357.0	58.0	287.0	0.0	0.162465	0	.	.	none	.	POF1B	77	.	NM_024921	exon7	c.C744A	p.G248G	TTCAGGGCCATCA	.	PASS	Atlas-SNP
USP9X	8239	hgsc.bcm.edu	37	X	41075218	41075218	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	289.0	62.0	357.0	0.0	0.214533	0	.	.	none	.	USP9X	385	.	NM_001039591	exon35	c.T5398G	p.F1800V	AAGCGATTTGACT	.	PASS	Atlas-SNP
PCDHA2	56146	hgsc.bcm.edu	37	5	140174824	140174824	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	86.0	13.0	82.0	0.0	0.151163	0	.	.	none	.	PCDHA2	404	.	NM_031495	exon1	c.G275A	p.R92Q	TCGACCGGGAGGA	.	PASS	Atlas-SNP
PCDHA10	56139	hgsc.bcm.edu	37	5	140236219	140236219	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	171.0	26.0	153.0	0.0	0.152047	0	.	.	none	.	PCDHA10	358	.	NM_031859	exon1	c.C586T	p.R196W	GTTCTGCGGAAGC	.	PASS	Atlas-SNP
PXDNL	137902	hgsc.bcm.edu	37	8	52252217	52252217	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	138.0	19.0	150.0	0.0	0.137681	0	.	.	none	.	PXDNL	414	.	NM_144651	exon21	c.A4113T	p.E1371D	CTGAATTTCCGCT	.	PASS	Atlas-SNP
GABRG3	2567	hgsc.bcm.edu	37	15	27772692	27772692	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	74.0	8.0	78.0	0.0	0.108108	0	.	.	none	.	GABRG3	115	.	NM_033223	exon8	c.G979A	p.V327I	CTGTTTGTCTTCG	.	PASS	Atlas-SNP
THBD	7056	hgsc.bcm.edu	37	20	23028813	23028813	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	72.0	9.0	72.0	0.0	0.125	0	.	.	none	.	THBD	26	.	NM_000361	exon1	c.C1329T	p.D443D	GCACTCGTCGATG	.	PASS	Atlas-SNP
PLEKHH2	130271	hgsc.bcm.edu	37	2	43919728	43919728	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	217.0	41.0	180.0	0.0	0.18894	0	.	.	none	.	PLEKHH2	156	.	NM_172069	exon4	c.T262C	p.C88R	AATAAGTGTCAAG	.	PASS	Atlas-SNP
C1orf173	127254	hgsc.bcm.edu	37	1	75038599	75038599	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	79.0	16.0	84.0	0.0	0.202532	0	.	.	none	.	C1orf173	380	.	NM_001002912	exon14	c.A2795G	p.E932G	TCAGCCTCTCCCT	.	PASS	Atlas-SNP
OR2T4	127074	hgsc.bcm.edu	37	1	248525640	248525640	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	47.0	24.0	13.0	0.0	0.510638	0	.	.	none	OR2T4,brain,glioma,+1,1	OR2T4	126	1	NM_001004696	exon1	c.T758C	p.I253T	TACTCATCCTCCT	.	PASS	Atlas-SNP
SLC16A12	387700	hgsc.bcm.edu	37	10	91195994	91195994	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	69.0	12.0	76.0	0.0	0.173913	0	.	.	none	.	SLC16A12	40	.	NM_213606	exon7	c.C1111T	p.Q371X	GACTTTGAAGCAT	.	PASS	Atlas-SNP
LY9	4063	hgsc.bcm.edu	37	1	160794028	160794028	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	84.0	26.0	54.0	0.0	0.309524	0	.	.	none	.	LY9	115	.	NM_002348	exon9	c.C1888T	p.R630W	TCCATACGGAAAC	.	PASS	Atlas-SNP
CHM	1121	hgsc.bcm.edu	37	X	85119697	85119697	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	210.0	16.0	184.0	0.0	0.0761905	0	.	.	none	.	CHM	57	.	NM_000390	exon15	c.G1900T	p.A634S	AGTTAGCCTCTGG	.	PASS	Atlas-SNP
CNNM2	54805	hgsc.bcm.edu	37	10	104679785	104679785	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	167.0	9.0	133.0	0.0	0.0538922	0	.	.	none	.	CNNM2	119	.	NM_199076	exon1	c.A1548G	p.K516K	CACCAAATTTTAT	.	PASS	Atlas-SNP
HTR2A	3356	hgsc.bcm.edu	37	13	47409701	47409701	+	Silent	SNP	G	G	T	rs141413930	bycluster;byfrequency;alternate_allele	TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	85.0	22.0	63.0	0.0	0.258824	0	G|0.999;A|0.001	.	alt	.	HTR2A	98	.	NM_000621	exon4	c.C687A	p.L229L	ATCGGCGAGTAAG	.	PASS	Atlas-SNP
RBMXL2	27288	hgsc.bcm.edu	37	11	7111164	7111164	+	Silent	SNP	G	G	A	rs138708788		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	68.0	14.0	50.0	0.0	0.205882	0	G|1.000;A|0.000	0.000	weak	.	RBMXL2	47	.	NM_014469	exon1	c.G813A	p.G271G	CTACGGGGATCAT	.	PASS	Atlas-SNP
TNS1	7145	hgsc.bcm.edu	37	2	218712997	218712997	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	61.0	9.0	78.0	0.0	0.147541	0	.	.	none	.	TNS1	251	.	NM_022648	exon17	c.C1868T	p.S623L	GCTTCCGAAAAGG	.	PASS	Atlas-SNP
ANKRD50	57182	hgsc.bcm.edu	37	4	125590963	125590963	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U3-01A-11D-A38X-10	TCGA-GS-A9U3-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50af794e-c494-4546-be75-32392cfe1183	112ae0ce-a64e-4c94-92bc-27be6b47b249	72.0	11.0	78.0	0.0	0.152778	0	.	.	none	.	ANKRD50	136	.	NM_020337	exon4	c.C3469T	p.P1157S	GAGTAGGCCCATT	.	PASS	Atlas-SNP