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
RBM44	375316	hgsc.bcm.edu	37	2	238726640	238726644	+	Frame_Shift_Del	DEL	ACATT	ACATT	-	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	ACATT	ACATT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	345	50	410	0	0.144928	0	.	.	none	.	RBM44	167	.	NM_001080504	exon3	c.1080_1084del	p.360_362del	.	.	PASS	Atlas-Indel
KRTAP4-5	85289	hgsc.bcm.edu	37	17	39305783	39305784	+	In_Frame_Ins	INS	-	-	CTGGGGCGGCAGCAG	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	58	30	53	0	0.517241	0	.	.	none	KRTAP4-5,colon,carcinoma,-2,3	KRTAP4-5	34	3	NM_033188	exon1	c.237_238insCTGCTGCCGCCCCAG	p.C79delinsCCCRPS	.	.	PASS	Atlas-Indel
CHD8	57680	hgsc.bcm.edu	37	14	21884030	21884031	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	22	22	0	.	1.000	.	.	.	none	.	CHD8	339	.	NM_001170629	exon5	c.1753_1754insA	p.Y585fs	.	.	PASS	Pindel,Atlas-Indel
SMARCA2	6595	hgsc.bcm.edu	37	9	2039777	2039785	+	In_Frame_Del	DEL	CAGCAGCAG	CAGCAGCAG	-	rs376509101	alternate_allele	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	CAGCAGCAG	CAGCAGCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	93	13	100	0	0.139785	0	.	.	alt	SMARCA2_ENST00000349721,NS,carcinoma,0,2	SMARCA2	313	2	NM_139045	exon4	c.666_674del	p.222_225del	.	.	PASS	Atlas-Indel
HDGFL1	154150	hgsc.bcm.edu	37	6	22570346	22570347	+	In_Frame_Ins	INS	-	-	GGC	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	42	15	15	0	0.357143	0	.	.	none	.	HDGFL1	33	.	NM_138574	exon1	c.542_543insGGC	p.R181delinsRA	.	.	PASS	Atlas-Indel
ATXN1	6310	hgsc.bcm.edu	37	6	16327864	16327865	+	In_Frame_Ins	INS	-	-	TGC	rs71806515		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	47	15	43	0	0.319149	0	.	.	weak	.	ATXN1	117	.	NM_001128164	exon7	c.678_679insGCA	p.H226delinsQH	.	.	PASS	Atlas-Indel
RBM44	375316	hgsc.bcm.edu	37	2	238726642	238726647	+	In_Frame_Del	DEL	ATTACC	ATTACC	-	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	ATTACC	ATTACC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	40	40	0	.	1.000	.	.	.	none	.	RBM44	167	.	NM_001080504	exon3	c.1082_1087del	p.361_363del	.	.	PASS	Pindel
NSUN4	387338	hgsc.bcm.edu	37	1	46806573	46806654	+	Frame_Shift_Del	DEL	TCGATATAAGAAGAAATGGGTAAGGTCCGGCTGGGGGCGCAGGAGGGAAAAGTGAGGGTGGAAACTTCTCCAGTCTTTCCGT	TCGATATAAGAAGAAATGGGTAAGGTCCGGCTGGGGGCGCAGGAGGGAAAAGTGAGGGTGGAAACTTCTCCAGTCTTTCCGT	-	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	TCGATATAAGAAGAAATGGGTAAGGTCCGGCTGGGGGCGCAGGAGGGAAAAGTGAGGGTGGAAACTTCTCCAGTCTTTCCGT	TCGATATAAGAAGAAATGGGTAAGGTCCGGCTGGGGGCGCAGGAGGGAAAAGTGAGGGTGGAAACTTCTCCAGTCTTTCCGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	13	13	0	.	1.000	.	.	.	none	.	NSUN4	26	.	NM_199044	exon1	c.74_93del	p.25_31del	.	.	PASS	Pindel
KCTD20	222658	hgsc.bcm.edu	37	6	36452603	36452604	+	Splice_Site	INS	-	-	A	rs11450552	bycluster	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	11	11	0	.	1.000	.	.	.	weak	.	KCTD20	37	.	NM_173562	exon7	c.967+2->A	.	.	.	PASS	Pindel
CRIPAK	285464	hgsc.bcm.edu	37	4	1388594	1388622	+	Frame_Shift_Del	DEL	CACGTGCCCATGTGGAGTGCCCGCCTGCT	CACGTGCCCATGTGGAGTGCCCGCCTGCT	-	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	CACGTGCCCATGTGGAGTGCCCGCCTGCT	CACGTGCCCATGTGGAGTGCCCGCCTGCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	10	10	0	.	1.000	.	.	.	none	.	CRIPAK	185	.	NM_175918	exon1	c.294_322del	p.98_108del	.	.	PASS	Pindel
AIM2	9447	hgsc.bcm.edu	37	1	159032486	159032487	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	13	13	0	.	1.000	.	.	.	none	AIM2,NS,carcinoma,-1,1	AIM2	70	1	NM_004833	exon6	c.1028_1029insA	p.T343fs	.	.	PASS	Pindel
EML6	400954	hgsc.bcm.edu	37	2	55138129	55138130	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	10	10	0	.	1.000	.	.	.	none	.	EML6	85	.	NM_001039753	exon24	c.3448_3449insT	p.L1150fs	.	.	PASS	Pindel
ITPKB	3707	hgsc.bcm.edu	37	1	226924876	226924884	+	In_Frame_Del	DEL	CTGCCGCTG	CTGCCGCTG	-	rs147889095	bycluster;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	CTGCCGCTG	CTGCCGCTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	14	14	0	.	1.000	.	CTGCCGCTG|0.711;-|0.289	0.289	strong	.	ITPKB	158	.	NM_002221	exon2	c.277_285del	p.93_95del	.	.	PASS	Pindel
PPIP5K2	23262	hgsc.bcm.edu	37	5	102537308	102537309	+	Frame_Shift_Ins	INS	-	-	A	rs201392612	by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	12	12	0	.	1.000	.	-|0.990;A|0.010	0.010	strong	.	PPIP5K2	98	.	NM_001276277	exon31	c.3705_3706insA	p.H1235fs	.	.	PASS	Pindel
ASTE1	28990	hgsc.bcm.edu	37	3	130733046	130733047	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	10	10	0	.	1.000	.	.	.	none	.	ASTE1	67	.	NM_014065	exon6	c.1895_1896insA	p.R632fs	.	.	PASS	Pindel
FNBP4	23360	hgsc.bcm.edu	37	11	47788664	47788669	+	In_Frame_Del	DEL	GGTGGT	GGTGGT	-	rs67450550	bycluster;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	GGTGGT	GGTGGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	10	10	0	.	1.000	.	GGTGGT|0.680;-|0.320	0.320	strong	.	FNBP4	99	.	NM_015308	exon1	c.173_178del	p.58_60del	.	.	PASS	Pindel
BDNF	627	hgsc.bcm.edu	37	11	27681179	27681180	+	RNA	INS	-	-	GT	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	13	13	0	.	1.000	.	.	.	none	.	BDNF	63	.	.	.	.	.	.	.	PASS	Pindel
TEX2	55852	hgsc.bcm.edu	37	17	62290117	62290117	+	Silent	SNP	G	G	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	146	44	119	0	0.30137	0	.	.	none	.	TEX2	89	.	NM_018469	exon2	c.C1461A	p.L487L	GAGGATGAGGTAC	.	PASS	Atlas-SNP
PODNL1	79883	hgsc.bcm.edu	37	19	14043787	14043787	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	39	14	19	0	0.358974	0	.	.	none	.	PODNL1	27	.	NM_024825	exon8	c.C1270T	p.P424S	CCATGGGCAGCCG	.	PASS	Atlas-SNP
AMOTL1	154810	hgsc.bcm.edu	37	11	94602519	94602519	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	87	25	103	0	0.287356	0	.	.	none	.	AMOTL1	95	.	NM_130847	exon12	c.G2645A	p.S882N	ACAAGAGTGCCGA	.	PASS	Atlas-SNP
POTEE	445582	hgsc.bcm.edu	37	2	132021860	132021860	+	Silent	SNP	T	T	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	160	8	129	6	0.05	0.0465116	.	.	none	ENSG00000188219,NS,carcinoma,+1,1	.	.	1	NM_001083538	exon15	c.T2832C	p.D944D	GCCCGATGGCCAG	.	scavenged	Atlas-SNP
ZNF706	51123	hgsc.bcm.edu	37	8	102212299	102212299	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	110	5	130	0	0.0454545	0	.	.	none	.	ZNF706	12	.	NM_001042510	exon4	c.C162A	p.F54L	CTGCTTGAAGGTC	.	PASS	Atlas-SNP
TCF3	6929	hgsc.bcm.edu	37	19	1619339	1619339	+	Silent	SNP	T	T	C	rs8140	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	17	8	2	0	0.470588	0	T|0.403;C|0.597	0.597	strong	.	TCF3	72	.	NM_003200	exon15	c.A1302G	p.S434S	GCCCAGTGACATG	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1017797	1017797	+	Silent	SNP	C	C	G	rs76800954	bycluster;byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	419	42	373	36	0.100239	0.0965147	C|0.500;G|0.500	0.500	strong	MUC6_ENST00000421673,NS,carcinoma,-1,2	MUC6	408	2	NM_005961	exon31	c.G5004C	p.A1668A	TGTTGGCGCTGTG	.	scavenged	Atlas-SNP
SLC7A2	6542	hgsc.bcm.edu	37	8	17409482	17409482	+	Missense_Mutation	SNP	G	G	A	rs139867348		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	134	41	149	0	0.30597	0	G|1.000;A|0.000	0.000	weak	SLC7A2_ENST00000470360,NS,carcinoma,0,4	SLC7A2	157	4	NM_001164771	exon6	c.G1162A	p.A388T	CTCTGCGCCTTGT	.	PASS	Atlas-SNP
ENC1	8507	hgsc.bcm.edu	37	5	73930903	73930903	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	59	21	61	0	0.355932	0	.	.	none	.	ENC1	56	.	NM_003633	exon2	c.A1408G	p.N470D	ACCTGTTTTCACA	.	PASS	Atlas-SNP
SLC4A1	6521	hgsc.bcm.edu	37	17	42336903	42336903	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	95	4	74	0	0.0421053	0	.	.	none	.	SLC4A1	104	.	NM_000342	exon8	c.A656G	p.K219R	GGAATCTTTTCCA	.	PASS	Atlas-SNP
ABI3BP	25890	hgsc.bcm.edu	37	3	100497214	100497214	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	52	3	57	0	0.0576923	0	.	.	none	ABI3BP_ENST00000383691,colon,carcinoma,-1,2	ABI3BP	305	2	NM_015429	exon26	c.G2114A	p.R705H	GGGCGGCGAGTCC	.	scavenged	Atlas-SNP
CADM3	57863	hgsc.bcm.edu	37	1	159166170	159166170	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	86	22	109	0	0.255814	0	.	.	none	.	CADM3	118	.	NM_021189	exon7	c.G810C	p.M270I	TGCGATGATTAGG	.	PASS	Atlas-SNP
CENPJ	55835	hgsc.bcm.edu	37	13	25479846	25479846	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	50	23	94	0	0.46	0	.	.	none	.	CENPJ	116	.	NM_018451	exon7	c.T2330C	p.V777A	TCAGACACTTTAT	.	PASS	Atlas-SNP
TENM2	57451	hgsc.bcm.edu	37	5	167645245	167645245	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	102	28	110	0	0.27451	0	.	.	none	ODZ2_ENST00000519204,NS,carcinoma,-1,3	.	.	3	NM_001122679	exon23	c.C4322T	p.A1441V	TCATTGCGGGACG	.	PASS	Atlas-SNP
RNF145	153830	hgsc.bcm.edu	37	5	158630642	158630642	+	Missense_Mutation	SNP	T	T	C	rs202186112		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	58	4	64	0	0.0689655	0	.	.	weak	RNF145,NS,carcinoma,0,2	RNF145	110	2	NM_001199380	exon2	c.A74G	p.K25R	TTTTTCTTTTTTT	.	scavenged	Atlas-SNP
LRP8	7804	hgsc.bcm.edu	37	1	53755315	53755315	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	40	9	35	0	0.225	0	.	.	none	.	LRP8	58	.	NM_004631	exon3	c.C291G	p.H97Q	GATGCAGTGGCCG	.	PASS	Atlas-SNP
TBCE	6905	hgsc.bcm.edu	37	1	235590506	235590506	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	80	28	69	0	0.35	0	.	.	none	.	TBCE	40	.	NM_003193	exon6	c.T512C	p.V171A	ATGAAGTGATACA	.	PASS	Atlas-SNP
LRP11	84918	hgsc.bcm.edu	37	6	150184882	150184882	+	Missense_Mutation	SNP	G	G	C	rs9322225	bycluster;by2hit2allele;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	13	8	0	0	0.615385	.	G|0.491;C|0.509	0.509	strong	.	LRP11	27	.	NM_032832	exon1	c.C275G	p.P92R	CTGCCCGGGCCCG	.	PASS	Atlas-SNP
CHTF18	63922	hgsc.bcm.edu	37	16	841239	841239	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	55	29	31	0	0.527273	0	.	.	none	.	CHTF18	52	.	NM_022092	exon8	c.C973T	p.P325S	CGGAAGCCCAGGC	.	PASS	Atlas-SNP
DYRK1A	1859	hgsc.bcm.edu	37	21	38862627	38862627	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	142	36	148	0	0.253521	0	.	.	none	.	DYRK1A	85	.	NM_001396	exon6	c.C815T	p.A272V	GCACTGCACTGCT	.	PASS	Atlas-SNP
POTEF	728378	hgsc.bcm.edu	37	2	130877761	130877761	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	147	2	136	0	0.0136054	0	.	.	none	POTEF,NS,carcinoma,+2,2	POTEF	140	2	NM_001099771	exon3	c.A328G	p.R110G	TCCCCCTGCAGCA	.	scavenged	Atlas-SNP
POU2F2	5452	hgsc.bcm.edu	37	19	42600030	42600030	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	94	29	73	0	0.308511	0	.	.	none	POU2F2_ENST00000292077,NS,lymphoid_neoplasm,0,8	POU2F2	106	8	NM_001207025	exon9	c.A715G	p.T239A	TGGTCGTCTGGCT	.	PASS	Atlas-SNP
TEK	7010	hgsc.bcm.edu	37	9	27204915	27204915	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	57	17	65	0	0.298246	0	.	.	none	.	TEK	250	.	NM_000459	exon14	c.C2216T	p.A739V	CACCAGCGGACCT	.	PASS	Atlas-SNP
HDAC2	3066	hgsc.bcm.edu	37	6	114262912	114262912	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	76	20	95	0	0.263158	0	.	.	none	.	HDAC2	102	.	NM_001527	exon13	c.A1396C	p.K466Q	TGGATTTATCTTC	.	PASS	Atlas-SNP
KNG1	3827	hgsc.bcm.edu	37	3	186437941	186437941	+	Silent	SNP	G	G	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	182	3	153	0	0.0164835	0	.	.	none	KNG1_ENST00000265023,right_lower_lobe,carcinoma,+2,2	KNG1	129	2	NM_000893	exon2	c.G243T	p.G81G	GGAGGGGGATTGT	.	scavenged	Atlas-SNP
OR5H1	26341	hgsc.bcm.edu	37	3	97851900	97851900	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	320	10	426	8	0.03125	0.0187793	.	.	none	OR5H1,NS,carcinoma,0,1	OR5H1	71	1	NM_001005338	exon1	c.A359G	p.Y120C	TGGCATATGATCG	.	scavenged	Atlas-SNP
CARS2	79587	hgsc.bcm.edu	37	13	111340323	111340323	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	55	16	90	0	0.290909	0	.	.	none	.	CARS2	37	.	NM_024537	exon4	c.G436T	p.D146Y	TGAAGTCTTCCTC	.	PASS	Atlas-SNP
INTS4	92105	hgsc.bcm.edu	37	11	77614592	77614592	+	Silent	SNP	C	C	T	rs12532775	by2hit2allele;byhapmap	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	221	13	195	12	0.0588235	0.0615385	.	.	weak	INTS4,NS,carcinoma,0,2	INTS4	89	2	NM_033547	exon17	c.G2091A	p.A697A	CTGTTTCGCTGCT	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505742	195505742	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	125	8	81	4	0.064	0.0493827	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C12709G	p.H4237D	TGGCGTGACCTGT	.	scavenged	Atlas-SNP
RAP1GAP	5909	hgsc.bcm.edu	37	1	21928279	21928279	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	28	6	31	0	0.214286	0	.	.	none	.	RAP1GAP	119	.	NM_001145658	exon20	c.C1742T	p.P581L	CCAGCCGGAGGGC	.	PASS	Atlas-SNP
COL21A1	81578	hgsc.bcm.edu	37	6	56006741	56006741	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	125	27	155	0	0.216	0	.	.	none	.	COL21A1	201	.	NM_030820	exon11	c.C1475A	p.S492Y	CCTGGAGATCCTG	.	PASS	Atlas-SNP
ABCC9	10060	hgsc.bcm.edu	37	12	21998615	21998615	+	Silent	SNP	C	C	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	47	17	81	0	0.361702	0	.	.	none	ABCC9,colon,carcinoma,-1,1	ABCC9	411	1	NM_005691	exon24	c.G3018A	p.S1006S	AATGACCGAATGC	.	PASS	Atlas-SNP
FNTA	2339	hgsc.bcm.edu	37	8	42940407	42940407	+	Silent	SNP	A	A	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	343	97	379	0	0.282799	0	.	.	none	.	FNTA	34	.	NM_002027	exon9	c.A1122T	p.P374P	CTCACCAACAAAT	.	PASS	Atlas-SNP
BBS1	582	hgsc.bcm.edu	37	11	66294208	66294208	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	125	23	118	0	0.184	0	.	.	none	.	BBS1	58	.	NM_024649	exon13	c.G1269T	p.M423I	GGCCATGAAACTC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505829	195505829	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	127	19	103	10	0.149606	0.0970874	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,3	MUC4	1505	3	NM_018406	exon2	c.C12622T	p.P4208S	GAAGAGGGGTGGC	.	scavenged	Atlas-SNP
SOWAHD	347454	hgsc.bcm.edu	37	X	118892888	118892888	+	Silent	SNP	G	G	C	rs2782222	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	11	8	0	0	0.727273	.	G|0.401;C|0.599	0.599	strong	.	.	.	.	NM_001105576	exon1	c.G258C	p.A86A	TCCTGCGGGGTGG	.	PASS	Atlas-SNP
SPHKAP	80309	hgsc.bcm.edu	37	2	228881444	228881444	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	80	19	103	0	0.2375	0	.	.	none	.	SPHKAP	750	.	NM_030623	exon7	c.G4126A	p.V1376I	CGGTAACAGAGTC	.	PASS	Atlas-SNP
TRIM66	9866	hgsc.bcm.edu	37	11	8646767	8646767	+	Silent	SNP	G	G	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	34	8	43	0	0.235294	0	.	.	none	.	TRIM66	45	.	NM_014818	exon11	c.C1884T	p.T628T	CAGCGAGGTGGAG	.	PASS	Atlas-SNP
KIAA2018	205717	hgsc.bcm.edu	37	3	113376119	113376119	+	Silent	SNP	C	C	T	rs62265538		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	46	9	51	0	0.195652	0	C|0.500;T|0.500	0.500	weak	KIAA2018,rectum,carcinoma,0,1	KIAA2018	180	1	NM_001009899	exon7	c.G4410A	p.Q1470Q	CTGCTGCTGCTGC	.	PASS	Atlas-SNP
FAM171B	165215	hgsc.bcm.edu	37	2	187559050	187559050	+	Silent	SNP	A	A	G	rs2370705	bycluster;byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	75	4	88	1	0.0533333	0.0113636	A|0.462;G|0.538	0.538	strong	FAM171B,colon,carcinoma,0,2	FAM171B	146	2	NM_177454	exon1	c.A150G	p.Q50Q	GCAGCAACAACAA	.	scavenged	Atlas-SNP
CEP128	145508	hgsc.bcm.edu	37	14	81329188	81329188	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	39	19	52	0	0.487179	0	.	.	none	.	CEP128	146	.	NM_152446	exon8	c.G675T	p.Q225H	CAGTTCCTGAAGC	.	PASS	Atlas-SNP
ZP4	57829	hgsc.bcm.edu	37	1	238049158	238049158	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	70	19	80	0	0.271429	0	.	.	none	.	ZP4	161	.	NM_021186	exon7	c.A868C	p.S290R	TGCTACTTACTGA	.	PASS	Atlas-SNP
DGKZ	8525	hgsc.bcm.edu	37	11	46397091	46397091	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	76	21	59	0	0.276316	0	.	.	none	.	DGKZ	199	.	NM_001105540	exon21	c.T2384G	p.L795R	GCAAGCTTGCAGC	.	PASS	Atlas-SNP
ANKRD36	375248	hgsc.bcm.edu	37	2	97790211	97790211	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	295	9	296	13	0.0305085	0.0439189	.	.	none	ANKRD36_ENST00000420699,extremity,malignant_melanoma,0,2	ANKRD36	170	2	NM_001164315	exon5	c.A608T	p.H203L	TCATACATGCTGT	.	scavenged	Atlas-SNP
GSPT1	2935	hgsc.bcm.edu	37	16	12009383	12009383	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	101	22	47	0	0.217822	0	.	.	none	.	GSPT1	71	.	NM_001130006	exon1	c.C195G	p.F65L	CCGGCTGAAGGCC	.	PASS	Atlas-SNP
KIF26A	26153	hgsc.bcm.edu	37	14	104643409	104643409	+	Silent	SNP	A	A	G	rs2487303	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	19	8	10	2	0.421053	0.2	A|0.242;G|0.758	0.758	strong	KIF26A,NS,carcinoma,0,1	KIF26A	84	1	NM_015656	exon12	c.A4284G	p.A1428A	AGAAGCAGCACAC	.	scavenged	Atlas-SNP
FOXD4L1	200350	hgsc.bcm.edu	37	2	114257354	114257354	+	Missense_Mutation	SNP	A	A	G	rs202243377		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	77	13	66	6	0.168831	0.0909091	A|0.999;G|0.001	0.001	weak	FOXD4L1,NS,carcinoma,0,1	FOXD4L1	48	1	NM_012184	exon1	c.A521G	p.H174R	CGGGCCACCCAGG	.	scavenged	Atlas-SNP
CARS2	79587	hgsc.bcm.edu	37	13	111340366	111340366	+	Splice_Site	SNP	C	C	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	42	13	57	0	0.309524	0	.	.	none	.	CARS2	37	.	NM_024537	exon5	c.394-1G>T	.	ATTCATCTGCAGA	.	PASS	Atlas-SNP
ANKRD44	91526	hgsc.bcm.edu	37	2	197878306	197878306	+	Missense_Mutation	SNP	G	G	A	rs145800695	bycluster;byfrequency;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	130	32	134	1	0.246154	0.00746269	G|0.997;A|0.003	0.003	strong	ANKRD44_ENST00000424317,NS,carcinoma,+1,2	ANKRD44	281	2	NM_001195144	exon18	c.C1853T	p.A618V	ATAAGCGCTTCCA	.	scavenged	Atlas-SNP
FAM108A1	81926	hgsc.bcm.edu	37	19	1881418	1881418	+	Missense_Mutation	SNP	C	C	T	rs200761633	bycluster;byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	53	8	27	1	0.150943	0.037037	C|0.954;T|0.046	0.046	strong	FAM108A1,NS,carcinoma,0,1	FAM108A1	29	1	NM_031213	exon2	c.G148A	p.A50T	GGGCGGCCCCGGC	.	scavenged	Atlas-SNP
CREBBP	1387	hgsc.bcm.edu	37	16	3786764	3786764	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	194	43	160	0	0.221649	0	.	.	none	CREBBP,colon,carcinoma,+1,4	CREBBP	546	4	NM_004380	exon27	c.A4447T	p.I1483F	GGAAGATGTAATC	.	PASS	Atlas-SNP
AQP7	364	hgsc.bcm.edu	37	9	33385235	33385235	+	Missense_Mutation	SNP	T	T	G	rs202043723	bycluster;byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	41	5	39	1	0.121951	0.025641	G|0.184;T|0.816	0.184	strong	AQP7,NS,malignant_melanoma,0,2	AQP7	58	2	NM_001170	exon8	c.A797C	p.Y266S	CCTAGATAGGCAC	.	scavenged	Atlas-SNP
PTPRA	5786	hgsc.bcm.edu	37	20	3007337	3007337	+	Nonsense_Mutation	SNP	T	T	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	80	24	89	0	0.3	0	.	.	none	.	PTPRA	75	.	NM_002836	exon22	c.T1619G	p.L540X	AGAAGTTAACATC	.	PASS	Atlas-SNP
MED13L	23389	hgsc.bcm.edu	37	12	116408551	116408551	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	94	14	94	0	0.148936	0	.	.	none	.	MED13L	193	.	NM_015335	exon27	c.T5915G	p.F1972C	CGGCCAAAAACAG	.	PASS	Atlas-SNP
KIAA1967	57805	hgsc.bcm.edu	37	8	22472491	22472491	+	Silent	SNP	T	T	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	46	14	38	0	0.304348	0	.	.	none	.	KIAA1967	72	.	NM_021174	exon11	c.T1182A	p.I394I	TGGCATTGATTTG	.	PASS	Atlas-SNP
MUC7	4589	hgsc.bcm.edu	37	4	71347060	71347060	+	Missense_Mutation	SNP	A	A	C	rs74904873	bycluster;byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	172	4	190	6	0.0232558	0.0315789	A|0.500;C|0.500	0.500	strong	MUC7,pharynx,carcinoma,0,1	MUC7	91	1	NM_001145007	exon4	c.A599C	p.Q200P	CTACACAAGCTCC	.	scavenged	Atlas-SNP
RNF214	257160	hgsc.bcm.edu	37	11	117109653	117109653	+	Silent	SNP	T	T	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	67	14	78	0	0.208955	0	.	.	none	.	RNF214	54	.	NM_207343	exon3	c.T444C	p.N148N	CAGGAATTGCTCT	.	PASS	Atlas-SNP
SRD5A1	6715	hgsc.bcm.edu	37	5	6633779	6633779	+	Silent	SNP	C	C	G	rs248793	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	11	10	0	0	0.909091	.	C|0.454;G|0.546	0.546	strong	.	SRD5A1	31	.	NM_001047	exon1	c.C90G	p.R30R	CGCGCGCAATCGT	.	PASS	Atlas-SNP
MAP3K10	4294	hgsc.bcm.edu	37	19	40720079	40720079	+	Silent	SNP	C	C	T	rs3746005	bycluster;by2hit2allele;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	6	6	0	0	1	.	C|0.261;T|0.739	0.739	strong	.	MAP3K10	70	.	NM_002446	exon9	c.C2493T	p.D831D	ATCGGACGGGGCG	.	PASS	Atlas-SNP
C10orf111	221060	hgsc.bcm.edu	37	10	15138568	15138568	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	199	4	186	0	0.0201005	0	.	.	none	C10orf111,mouth,carcinoma,+2,1	C10orf111	11	1	NM_153244	exon2	c.C256T	p.P86S	TATTCGGCCGCTT	.	scavenged	Atlas-SNP
HDAC2	3066	hgsc.bcm.edu	37	6	114262899	114262899	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	74	20	98	0	0.27027	0	.	.	none	.	HDAC2	102	.	NM_001527	exon13	c.A1409T	p.N470I	CCACTGTTGTCCT	.	PASS	Atlas-SNP
POM121	9883	hgsc.bcm.edu	37	7	72413896	72413896	+	Missense_Mutation	SNP	A	A	G	rs71554689		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	549	8	416	3	0.0145719	0.00721154	A|0.500;G|0.500	0.500	weak	POM121_ENST00000395270,NS,carcinoma,0,8	POM121	131	8	NM_172020	exon11	c.A2569G	p.T857A	TCCAGCACCACCA	.	scavenged	Atlas-SNP
FAM73B	84895	hgsc.bcm.edu	37	9	131821550	131821550	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	72	20	65	0	0.277778	0	.	.	none	.	FAM73B	37	.	NM_032809	exon7	c.G793A	p.E265K	GACCTCGGTGAGC	.	PASS	Atlas-SNP
PRB3	5544	hgsc.bcm.edu	37	12	11420563	11420563	+	Missense_Mutation	SNP	G	G	T	rs200902635	bycluster	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	36	5	64	1	0.138889	0.015625	.	.	weak	PRB3_ENST00000538488,NS,carcinoma,0,1	PRB3	84	1	NM_006249	exon3	c.C620A	p.P207Q	GGGGGTGGTCCTT	.	scavenged	Atlas-SNP
ANKRD10	55608	hgsc.bcm.edu	37	13	111532094	111532094	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	35	19	58	0	0.542857	0	.	.	none	ANKRD10,NS,carcinoma,0,1	ANKRD10	24	1	NM_017664	exon6	c.G1153C	p.E385Q	TGCTTTCAGCAGT	.	PASS	Atlas-SNP
ASPM	259266	hgsc.bcm.edu	37	1	197069752	197069752	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	110	30	151	0	0.272727	0	.	.	none	.	ASPM	444	.	NM_018136	exon18	c.A8629C	p.K2877Q	ACTGTTTTCTGGT	.	PASS	Atlas-SNP
SPOP	8405	hgsc.bcm.edu	37	17	47696644	47696644	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	114	33	98	0	0.289474	0	.	.	none	SPOP,NS,adenoma,+1,3	SPOP	91	3	NM_001007228	exon4	c.T304A	p.F102I	ATTTGAATTTTGC	.	PASS	Atlas-SNP
CS	1431	hgsc.bcm.edu	37	12	56676766	56676766	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	55	16	45	0	0.290909	0	.	.	none	.	CS	44	.	NM_004077	exon5	c.T277G	p.F93V	CTCGGAAACGGAT	.	PASS	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240627	39240627	+	Missense_Mutation	SNP	T	T	C	rs189343211	bycluster	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	48	9	39	2	0.1875	0.0512821	.	.	weak	KRTAP4-9_ENST00000377734,NS,carcinoma,0,22	KRTAP4-7	49	22	NM_033061	exon1	c.T169C	p.S57P	TGCCAGTCTGTGT	.	scavenged	Atlas-SNP
KCTD20	222658	hgsc.bcm.edu	37	6	36454876	36454876	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	184	40	186	1	0.217391	0.00537634	.	.	none	KCTD20,NS,lymphoid_neoplasm,+1,1	KCTD20	37	1	NM_173562	exon8	c.A1184C	p.H395P	TGCATCACCCACC	.	scavenged	Atlas-SNP
KRTAP5-4	387267	hgsc.bcm.edu	37	11	1643254	1643254	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	182	15	155	7	0.0824176	0.0451613	.	.	none	KRTAP5-4,NS,carcinoma,+2,6	KRTAP5-4	78	6	NM_001012709	exon1	c.T70C	p.C24R	AGCCACAGCCCCC	.	scavenged	Atlas-SNP
KISS1R	84634	hgsc.bcm.edu	37	19	917526	917526	+	Silent	SNP	A	A	G	rs10407968	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	23	9	11	0	0.391304	0	A|0.821;G|0.179	0.179	strong	.	KISS1R	10	.	NM_032551	exon1	c.A24G	p.G8G	GTCCGGACCCAAC	.	PASS	Atlas-SNP
TCF3	6929	hgsc.bcm.edu	37	19	1619333	1619333	+	Silent	SNP	G	G	A	rs1140828	bycluster;byfrequency;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	18	9	2	0	0.5	0	G|0.749;A|0.251	0.251	strong	.	TCF3	72	.	NM_003200	exon15	c.C1308T	p.G436G	CCGCCCGCCCAGT	.	PASS	Atlas-SNP
CYTB	0	hgsc.bcm.edu	37	MT	15326	15326	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	4	4	0	0	1	.	.	.	none	.	.	.	.	ENST00000361789	exon1	c.A580G	p.T194A	CTAGCAACACTCC	.	PASS	Atlas-SNP
ZSWIM6	57688	hgsc.bcm.edu	37	5	60831355	60831355	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	148	46	136	0	0.310811	0	.	.	none	ZSWIM6,colon,carcinoma,0,1	ZSWIM6	51	1	NM_020928	exon10	c.G2290A	p.V764I	GAGAGCGTTCCAA	.	PASS	Atlas-SNP
ZFP36L2	678	hgsc.bcm.edu	37	2	43452183	43452183	+	Silent	SNP	A	A	G	rs7933	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	6	4	1	1	0.666667	1	A|0.568;G|0.432	0.432	strong	ZFP36L2,NS,carcinoma,0,2	ZFP36L2	56	2	NM_006887	exon2	c.T760C	p.L254L	GGTGCAACTTGGG	.	scavenged	Atlas-SNP
KANK3	256949	hgsc.bcm.edu	37	19	8399635	8399635	+	Missense_Mutation	SNP	C	C	T	rs890853	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	8	6	2	0	0.75	0	C|0.769;T|0.231	0.231	strong	.	KANK3	35	.	NM_198471	exon3	c.G1076A	p.R359H	CTGGCGCGCAGCA	.	PASS	Atlas-SNP
RYR1	6261	hgsc.bcm.edu	37	19	38931449	38931449	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	92	29	116	0	0.315217	0	.	.	none	.	RYR1	708	.	NM_001042723	exon2	c.C110T	p.A37V	GCCTGGCCGCCGA	.	PASS	Atlas-SNP
KRTAP1-1	81851	hgsc.bcm.edu	37	17	39197593	39197593	+	Silent	SNP	G	G	T	rs145621540	by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	133	6	146	4	0.0451128	0.0273973	G|0.983;A|0.017	.	strong	KRTAP1-1,NS,carcinoma,0,1	KRTAP1-1	23	1	NM_030967	exon1	c.C57A	p.T19T	GCCGCAGGTCCCA	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508478	195508478	+	Missense_Mutation	SNP	G	G	C	rs76305071	bycluster;byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	84	7	41	2	0.0833333	0.0487805	G|0.990;C|0.010	0.010	strong	MUC4_ENST00000463781,NS,carcinoma,+2,3	MUC4	1505	3	NM_018406	exon2	c.C9973G	p.H3325D	TGGCGTGACCTGT	.	scavenged	Atlas-SNP
FEZ2	9637	hgsc.bcm.edu	37	2	36825170	36825170	+	Missense_Mutation	SNP	T	T	C	rs2287104	bycluster;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	15	7	1	0	0.466667	0	T|0.211;C|0.789	0.789	strong	.	FEZ2	13	.	NM_001042548	exon1	c.A116G	p.E39G	CCCGCCTCGGCCC	.	PASS	Atlas-SNP
TBC1D10B	26000	hgsc.bcm.edu	37	16	30381303	30381303	+	Missense_Mutation	SNP	C	C	G	rs12930787	bycluster;byfrequency;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	5	5	0	0	1	.	C|0.776;G|0.224	0.224	strong	.	TBC1D10B	32	.	NM_015527	exon1	c.G202C	p.E68Q	AGGTCTCGGCCGA	.	PASS	Atlas-SNP
ZNF141	7700	hgsc.bcm.edu	37	4	367267	367267	+	Silent	SNP	T	T	C	rs201021508		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	78	4	85	2	0.0512821	0.0235294	T|0.999;C|0.001	0.001	weak	ZNF141,rectum,carcinoma,0,1	ZNF141	48	1	NM_003441	exon4	c.T1041C	p.A347A	CAAAGCTTTTAGA	.	scavenged	Atlas-SNP
UBR4	23352	hgsc.bcm.edu	37	1	19503103	19503103	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	99	30	100	0	0.30303	0	.	.	none	.	UBR4	415	.	NM_020765	exon20	c.C2756G	p.S919C	TGCTTAGACCAGT	.	PASS	Atlas-SNP
TPSAB1	7177	hgsc.bcm.edu	37	16	1290983	1290983	+	Missense_Mutation	SNP	G	G	C	rs61729112	byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	249	22	190	7	0.0883534	0.0368421	G|0.667;C|0.333	0.333	strong	TPSAB1,trunk,malignant_melanoma,0,2	TPSAB1	24	2	NM_003294	exon2	c.G44C	p.R15P	CGAGCCGCGCCTA	.	scavenged	Atlas-SNP
KRTAP9-2	83899	hgsc.bcm.edu	37	17	39383027	39383027	+	Missense_Mutation	SNP	G	G	T	rs71371478	bycluster;byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	49	9	67	7	0.183673	0.104478	G|0.997;T|0.003	0.003	strong	KRTAP9-2,extremity,malignant_melanoma,0,1	KRTAP9-2	24	1	NM_031961	exon1	c.G121T	p.A41S	CAGCCCGCCTGCT	.	scavenged	Atlas-SNP
CS	1431	hgsc.bcm.edu	37	12	56676685	56676685	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	83	23	71	0	0.277108	0	.	.	none	.	CS	44	.	NM_004077	exon5	c.T358G	p.F120V	GCCAAAATAAGCC	.	PASS	Atlas-SNP
TP53	7157	hgsc.bcm.edu	37	17	7574035	7574035	+	Splice_Site	SNP	T	T	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	63	26	93	0	0.412698	0	.	.	none	TP53_ENST00000269305,NS,carcinoma,0,13	TP53	33396	13	NM_000546	exon11	c.994-2A>G	.	CGGATCTGCAGCA	.	PASS	Atlas-SNP
PTCH1	5727	hgsc.bcm.edu	37	9	98241333	98241333	+	Missense_Mutation	SNP	G	G	C	rs201602238	bycluster;by1000genomes;alternate_allele	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	105	30	108	0	0.285714	0	G|1.000;A|0.000	.	alt	.	PTCH1	1850	.	NM_000264	exon8	c.C1164G	p.N388K	GTCCTCGTTCCAG	.	PASS	Atlas-SNP
RBBP6	5930	hgsc.bcm.edu	37	16	24557518	24557518	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	107	31	82	0	0.28972	0	.	.	none	.	RBBP6	158	.	NM_018703	exon2	c.T201A	p.N67K	TAAGAATTCTTCT	.	PASS	Atlas-SNP
SETD1B	23067	hgsc.bcm.edu	37	12	122257461	122257461	+	Silent	SNP	G	G	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	58	4	50	0	0.0689655	0	.	.	none	.	SETD1B	105	.	NM_015048	exon11	c.G3441A	p.E1147E	AGAAGAGGAGGAG	.	PASS	Atlas-SNP
RNF145	153830	hgsc.bcm.edu	37	5	158630641	158630641	+	Silent	SNP	C	C	T	rs74841177	bycluster	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	59	9	64	3	0.152542	0.046875	.	.	weak	RNF145,NS,carcinoma,-1,2	RNF145	110	2	NM_001199380	exon2	c.G75A	p.K25K	TTTTTTCTTTTTT	.	scavenged	Atlas-SNP
CMYA5	202333	hgsc.bcm.edu	37	5	79032562	79032562	+	Silent	SNP	A	A	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	194	3	207	0	0.0154639	0	.	.	none	CMYA5_ENST00000446378,lower_third,carcinoma,0,2	CMYA5	643	2	NM_153610	exon2	c.A7974G	p.V2658V	TCTAGTATTAGAA	.	scavenged	Atlas-SNP
FAM108A1	81926	hgsc.bcm.edu	37	19	1881453	1881453	+	Missense_Mutation	SNP	A	A	C	rs201595201	bycluster;byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	63	6	26	1	0.0952381	0.0384615	A|0.960;C|0.040	0.040	strong	FAM108A1,NS,carcinoma,0,1	FAM108A1	29	1	NM_031213	exon2	c.T113G	p.V38G	TCAGGCACCAGGG	.	scavenged	Atlas-SNP
FBXO34	55030	hgsc.bcm.edu	37	14	55817618	55817618	+	Silent	SNP	T	T	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	109	26	134	0	0.238532	0	.	.	none	.	FBXO34	61	.	NM_017943	exon2	c.T510G	p.V170V	GGAGGTTAACAGC	.	PASS	Atlas-SNP
SIGLEC1	6614	hgsc.bcm.edu	37	20	3679921	3679921	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	117	5	99	0	0.042735	0	.	.	none	.	SIGLEC1	210	.	NM_023068	exon7	c.T1714C	p.S572P	GGTATGAGCCGGC	.	PASS	Atlas-SNP
TRIM49	57093	hgsc.bcm.edu	37	11	89531568	89531568	+	Silent	SNP	T	T	C	rs673598	bycluster	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	166	3	183	1	0.0180723	0.00546448	T|0.500;C|0.500	0.500	weak	TRIM49,NS,carcinoma,0,3	TRIM49	45	3	NM_020358	exon8	c.A1089G	p.K363K	CTTCTCTTTCCGA	.	scavenged	Atlas-SNP
ATG4C	84938	hgsc.bcm.edu	37	1	63300503	63300503	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	135	28	167	0	0.207407	0	.	.	none	.	ATG4C	96	.	NM_178221	exon9	c.A1069C	p.I357L	GTCAGCATAAAGG	.	PASS	Atlas-SNP
ANKRD46	157567	hgsc.bcm.edu	37	8	101541987	101541987	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	138	38	150	0	0.275362	0	.	.	none	.	ANKRD46	13	.	NM_001270378	exon3	c.T75A	p.F25L	ATAATTAAAGTCC	.	PASS	Atlas-SNP
POTEF	728378	hgsc.bcm.edu	37	2	130872871	130872871	+	Silent	SNP	C	C	T	rs199770435	bycluster	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	871	14	922	12	0.0160735	0.0130152	C|0.998;T|0.002	0.002	weak	POTEF,NS,carcinoma,0,5	POTEF	140	5	NM_001099771	exon4	c.G552A	p.G184G	TGAATTCCCATTG	.	scavenged	Atlas-SNP
GLP1R	2740	hgsc.bcm.edu	37	6	39016636	39016636	+	Missense_Mutation	SNP	C	C	T	rs10305420	bycluster;byfrequency;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	8	8	1	0	1	0	C|0.770;T|0.230	0.230	strong	.	GLP1R	64	.	NM_002062	exon1	c.C20T	p.P7L	CCGGCCCGCTGCG	.	PASS	Atlas-SNP
MTHFD1	4522	hgsc.bcm.edu	37	14	64921449	64921449	+	Silent	SNP	G	G	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	75	27	79	0	0.36	0	.	.	none	.	MTHFD1	61	.	NM_005956	exon26	c.G2574A	p.G858G	CTTTGGGAATCTC	.	PASS	Atlas-SNP
MN1	4330	hgsc.bcm.edu	37	22	28194933	28194933	+	Silent	SNP	T	T	C	rs373314940		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	55	4	49	1	0.0727273	0.0204082	.	.	weak	MN1,caecum,carcinoma,0,2	MN1	122	2	NM_002430	exon1	c.A1599G	p.Q533Q	CTGCTGTTGCTGC	.	scavenged	Atlas-SNP
RBM23	55147	hgsc.bcm.edu	37	14	23371265	23371265	+	Silent	SNP	G	G	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	65	6	63	0	0.0923077	0	.	.	none	.	RBM23	44	.	NM_001077351	exon12	c.C1170T	p.A390A	GGCGGCGGCAGCA	.	PASS	Atlas-SNP
C1orf51	148523	hgsc.bcm.edu	37	1	150256253	150256253	+	Silent	SNP	C	C	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	121	36	155	0	0.297521	0	.	.	none	.	C1orf51	35	.	NM_144697	exon2	c.C405T	p.D135D	CACAGACCTACTC	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1093342	1093342	+	Missense_Mutation	SNP	C	C	A	rs55695633	alternate_allele	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	74	9	68	2	0.121622	0.0294118	.	.	alt	MUC2_ENST00000441003,NS,carcinoma,-2,2	MUC2	614	2	NM_002457	exon30	c.C5161A	p.P1721T	CCAACCCCGACAC	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508902	195508902	+	Silent	SNP	C	C	G	rs79929234		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	111	7	82	8	0.0630631	0.097561	C|0.500;G|0.500	0.500	weak	MUC4_ENST00000463781,NS,malignant_melanoma,-1,2	MUC4	1505	2	NM_018406	exon2	c.G9549C	p.T3183T	AAGAGGCGTGGTG	.	scavenged	Atlas-SNP
HLA-DPB1	3115	hgsc.bcm.edu	37	6	33048603	33048603	+	Silent	SNP	G	G	C	rs80330773	bycluster;byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	76	6	63	1	0.0789474	0.015873	C|0.207;G|0.793	0.207	strong	HLA-DPB1,colon,carcinoma,0,2	HLA-DPB1	28	2	NM_002121	exon2	c.G255C	p.A85A	TGCTGCGGAGTAC	.	scavenged	Atlas-SNP
KRTAP10-6	386674	hgsc.bcm.edu	37	21	46012160	46012160	+	Missense_Mutation	SNP	G	G	C	rs62220887	bycluster;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	77	23	73	22	0.298701	0.30137	G|0.911;C|0.089	0.089	strong	KRTAP10-6,trunk,malignant_melanoma,0,1	KRTAP10-6	57	1	NM_198688	exon1	c.C206G	p.P69R	GTCACTGGGCAGC	.	scavenged	Atlas-SNP
AGA	175	hgsc.bcm.edu	37	4	178355534	178355534	+	Splice_Site	SNP	A	A	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	199	55	235	0	0.276382	0	.	.	none	.	AGA	39	.	NM_000027	exon8	c.806+2T>C	.	AGTCATACCTTGG	.	PASS	Atlas-SNP
CARS2	79587	hgsc.bcm.edu	37	13	111340329	111340329	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	52	16	81	0	0.307692	0	.	.	none	.	CARS2	37	.	NM_024537	exon4	c.G430A	p.E144K	CTTCCTCATAAAG	.	PASS	Atlas-SNP
FKRP	79147	hgsc.bcm.edu	37	19	47258887	47258887	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	46	26	61	0	0.565217	0	.	.	none	.	FKRP	16	.	NM_024301	exon4	c.C180G	p.D60E	ATTTGACAACGCG	.	PASS	Atlas-SNP
TMEM119	338773	hgsc.bcm.edu	37	12	108986031	108986031	+	Silent	SNP	C	C	T	rs74504010	bycluster;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	34	16	28	12	0.470588	0.428571	C|0.827;T|0.173	0.173	strong	TMEM119,NS,carcinoma,0,1	TMEM119	31	1	NM_181724	exon2	c.G129A	p.E43E	CTCGGCCTCCCCA	.	scavenged	Atlas-SNP
FAM161A	84140	hgsc.bcm.edu	37	2	62065671	62065671	+	Splice_Site	SNP	A	A	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	105	27	119	0	0.257143	0	.	.	none	.	FAM161A	200	.	NM_001201543	exon5	c.1751+2T>C	.	CATGATACCTGAG	.	PASS	Atlas-SNP
PPP1R18	170954	hgsc.bcm.edu	37	6	30652888	30652888	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	65	5	56	0	0.0769231	0	.	.	none	KIAA1949,rectum,carcinoma,0,1	.	.	1	NM_001134870	exon2	c.C908A	p.A303D	CCTTGGGCCTCCC	.	PASS	Atlas-SNP
ZNF32	7580	hgsc.bcm.edu	37	10	44140097	44140097	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	113	3	123	0	0.0265487	0	.	.	none	ZNF32,bladder,carcinoma,+1,1	ZNF32	27	1	NM_001005368	exon3	c.A223G	p.R75G	AGACCCTTTGTCT	.	scavenged	Atlas-SNP
APOBR	55911	hgsc.bcm.edu	37	16	28507424	28507424	+	Silent	SNP	C	C	T	rs441214	bycluster;byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	18	6	17	0	0.333333	0	C|0.500;T|0.500	0.500	strong	.	APOBR	89	.	NM_018690	exon2	c.C1062T	p.A354A	GGAGGCCGGGACA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506007	195506007	+	Silent	SNP	G	G	A	rs71635085		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	108	5	62	2	0.0462963	0.0322581	G|1.000;|0.000	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C12444T	p.T4148T	AGGGATGGTGACA	.	scavenged	Atlas-SNP
COL4A3	1285	hgsc.bcm.edu	37	2	228172583	228172583	+	Silent	SNP	G	G	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	147	38	180	0	0.258503	0	.	.	none	.	COL4A3	293	.	NM_000091	exon48	c.G4410A	p.G1470G	CAGTGGGTTTTCT	.	PASS	Atlas-SNP
TPR	7175	hgsc.bcm.edu	37	1	186306183	186306183	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	89	18	103	0	0.202247	0	.	.	none	.	TPR	441	.	NM_003292	exon32	c.T4468A	p.S1490T	ATTTTGATTTTGT	.	PASS	Atlas-SNP
APOBEC3F	200316	hgsc.bcm.edu	37	22	39441197	39441197	+	Silent	SNP	G	G	A	rs200983508	byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	87	2	99	3	0.0229885	0.030303	G|0.998;A|0.002	0.002	strong	APOBEC3F,NS,carcinoma,0,1	APOBEC3F	37	1	NM_145298	exon3	c.G423A	p.G141G	GGCAGGGGCCCGC	.	scavenged	Atlas-SNP
RGPD3	653489	hgsc.bcm.edu	37	2	107049631	107049631	+	Silent	SNP	C	C	T	rs2912696		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	770	12	830	9	0.0155844	0.0108434	.	.	weak	RGPD3_ENST00000304514,bladder,carcinoma,0,6	RGPD3	316	6	NM_001144013	exon16	c.G2316A	p.A772A	TGAATCCGCATTT	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505944	195505944	+	Silent	SNP	C	C	T	rs199963450		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	32	18	19	6	0.5625	0.315789	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,3	MUC4	1505	3	NM_018406	exon2	c.G12507A	p.V4169V	TGTGGACACTGAG	.	scavenged	Atlas-SNP
FPGT	8790	hgsc.bcm.edu	37	1	74670196	74670196	+	Silent	SNP	C	C	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	154	54	152	0	0.350649	0	.	.	none	.	FPGT	77	.	NM_003838	exon4	c.C465T	p.P155P	TTTCCCCTTAAAT	.	PASS	Atlas-SNP
SGPP1	81537	hgsc.bcm.edu	37	14	64165346	64165346	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	457	97	449	0	0.212254	0	.	.	none	.	SGPP1	29	.	NM_030791	exon2	c.C715A	p.P239T	AGCAGGGAATAAG	.	PASS	Atlas-SNP
ACCS	84680	hgsc.bcm.edu	37	11	44092850	44092850	+	Silent	SNP	C	C	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	87	18	112	0	0.206897	0	.	.	none	.	ACCS	64	.	NM_032592	exon3	c.C333T	p.D111D	CTTTGACCTGCTG	.	PASS	Atlas-SNP
OCIAD1	54940	hgsc.bcm.edu	37	4	48835428	48835428	+	Silent	SNP	T	T	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	324	82	290	0	0.253086	0	.	.	none	.	OCIAD1	27	.	NM_001168254	exon3	c.T84A	p.P28P	AGGGCCTGATTAC	.	PASS	Atlas-SNP
STAB2	55576	hgsc.bcm.edu	37	12	104071379	104071379	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	60	9	56	0	0.15	0	.	.	none	.	STAB2	370	.	NM_017564	exon25	c.G2795A	p.G932D	ATGTGGGTCCCGG	.	PASS	Atlas-SNP
TMEM132A	54972	hgsc.bcm.edu	37	11	60701987	60701987	+	Silent	SNP	G	G	A	rs7715	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	7	5	3	0	0.714286	0	G|0.582;A|0.418	0.418	strong	.	TMEM132A	135	.	NM_017870	exon9	c.G1590A	p.S530S	GGCGTCGGATGAG	.	PASS	Atlas-SNP
ZNF880	400713	hgsc.bcm.edu	37	19	52888050	52888050	+	Missense_Mutation	SNP	A	A	G	rs76053634	bycluster;byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	20	9	50	7	0.45	0.14	A|0.867;G|0.133	0.133	strong	ZNF880,colon,carcinoma,0,2	ZNF880	45	2	NM_001145434	exon4	c.A1217G	p.Q406R	GAGAGCAACCTTA	.	scavenged	Atlas-SNP
FEZ2	9637	hgsc.bcm.edu	37	2	36825137	36825137	+	Missense_Mutation	SNP	G	G	A	rs1544655	bycluster;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	15	6	1	0	0.4	0	G|0.181;A|0.819	0.819	strong	.	FEZ2	13	.	NM_001042548	exon1	c.C149T	p.P50L	CAGGCCGGGGCCG	.	PASS	Atlas-SNP
MAML2	84441	hgsc.bcm.edu	37	11	95825368	95825368	+	Silent	SNP	C	C	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	69	4	87	1	0.057971	0.0114943	.	.	none	MAML2,caecum,carcinoma,0,1	MAML2	94	1	NM_032427	exon2	c.G1827A	p.Q609Q	CTGCTGCTGCTGT	.	scavenged	Atlas-SNP
CDH6	1004	hgsc.bcm.edu	37	5	31323132	31323132	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	121	2	123	1	0.0165289	0.00813008	.	.	none	CDH6,neck,malignant_melanoma,+1,1	CDH6	175	1	NM_004932	exon12	c.T2090C	p.L697P	AAGCCCTTTTCCT	.	scavenged	Atlas-SNP
CYTH4	27128	hgsc.bcm.edu	37	22	37695333	37695333	+	Silent	SNP	C	C	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	181	4	215	0	0.0220994	0	.	.	none	CYTH4,NS,carcinoma,0,1	CYTH4	51	1	NM_013385	exon6	c.C420A	p.L140L	CAACCTCGTCCAG	.	scavenged	Atlas-SNP
DND1	373863	hgsc.bcm.edu	37	5	140052407	140052407	+	Missense_Mutation	SNP	G	G	A	rs75523379		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	26	6	21	1	0.230769	0.047619	.	.	weak	DND1,NS,carcinoma,0,1	DND1	15	1	NM_194249	exon3	c.C227T	p.P76L	AACAGCGGGATAA	.	scavenged	Atlas-SNP
STRBP	55342	hgsc.bcm.edu	37	9	125923280	125923280	+	Silent	SNP	A	A	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	318	95	298	0	0.298742	0	.	.	none	.	STRBP	73	.	NM_018387	exon7	c.T603C	p.S201S	TCGAAGAGACGCC	.	PASS	Atlas-SNP
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32487170	32487170	+	Missense_Mutation	SNP	G	G	A	rs17423930	byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	106	11	86	4	0.103774	0.0465116	G|0.440;A|0.560	0.560	strong	HLA-DRB5,NS,carcinoma,+1,1	HLA-DRB5	31	1	NM_002125	exon3	c.C629T	p.T210M	GGGCTCGTCACGC	.	scavenged	Atlas-SNP
ATM	472	hgsc.bcm.edu	37	11	108202718	108202718	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	116	30	125	0	0.258621	0	.	.	none	.	ATM	1657	.	NM_000051	exon52	c.G7742C	p.S2581T	GAAGAAGCAGAAT	.	PASS	Atlas-SNP
ATXN7L1	222255	hgsc.bcm.edu	37	7	105254603	105254603	+	Silent	SNP	G	G	A	rs147930086	by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	81	24	57	0	0.296296	0	G|0.998;A|0.002	0.002	strong	.	ATXN7L1	56	.	NM_020725	exon10	c.C2178T	p.P726P	GTCCGCGGGGCCG	.	PASS	Atlas-SNP
ART5	116969	hgsc.bcm.edu	37	11	3661044	3661044	+	Silent	SNP	G	G	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	94	28	144	0	0.297872	0	.	.	none	.	ART5	38	.	NM_053017	exon2	c.C615T	p.C205C	CCCAAAGCAAGTT	.	PASS	Atlas-SNP
IFNA4	3441	hgsc.bcm.edu	37	9	21187406	21187406	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	294	9	319	9	0.0306122	0.0282132	.	.	none	IFNA4,colon,carcinoma,0,1	IFNA4	34	1	NM_021068	exon1	c.C125G	p.A42G	ATTTGTGCCAGGA	.	scavenged	Atlas-SNP
KIAA2018	205717	hgsc.bcm.edu	37	3	113376107	113376107	+	Silent	SNP	C	C	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	48	5	72	4	0.104167	0.0555556	.	.	none	KIAA2018,colon,carcinoma,0,1	KIAA2018	180	1	NM_001009899	exon7	c.G4422A	p.Q1474Q	TTGTTGCTGTTGC	.	scavenged	Atlas-SNP
HIST1H1C	3006	hgsc.bcm.edu	37	6	26056500	26056500	+	Missense_Mutation	SNP	C	C	T	rs372319415	alternate_allele	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	117	66	108	0	0.564103	0	.	.	alt	.	HIST1H1C	80	.	NM_005319	exon1	c.G157A	p.E53K	TACGCTCTTTAGA	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228564799	228564799	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	52	17	31	0	0.326923	0	.	.	none	.	OBSCN	2142	.	NM_001271223	exon112	c.C25957T	p.R8653W	AGCGGGCGGGCGC	.	PASS	Atlas-SNP
ZNF768	79724	hgsc.bcm.edu	37	16	30537265	30537265	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	87	18	56	0	0.206897	0	.	.	none	.	ZNF768	28	.	NM_024671	exon2	c.G196C	p.E66Q	GTGGCTCAAACCC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509374	195509374	+	Missense_Mutation	SNP	T	T	G	rs62282479		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	170	7	122	12	0.0411765	0.0983607	.	.	weak	MUC4_ENST00000463781,extremity,malignant_melanoma,0,1	MUC4	1505	1	NM_018406	exon2	c.A9077C	p.H3026P	GTGACATGAAGAG	.	scavenged	Atlas-SNP
PITPNC1	26207	hgsc.bcm.edu	37	17	65574302	65574302	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	53	19	65	0	0.358491	0	.	.	none	.	PITPNC1	47	.	NM_012417	exon5	c.T295A	p.C99S	CCACAGTGTTCCT	.	PASS	Atlas-SNP
NME8	51314	hgsc.bcm.edu	37	7	37907335	37907335	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	138	29	145	0	0.210145	0	.	.	none	.	.	.	.	NM_016616	exon11	c.C653G	p.T218R	TTATGACAAGTGG	.	PASS	Atlas-SNP
CD8B	926	hgsc.bcm.edu	37	2	87088964	87088964	+	Silent	SNP	A	A	G	rs62146888	bycluster;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	10	4	1	0	0.4	0	A|0.476;G|0.524	0.524	strong	.	CD8B	37	.	NM_004931	exon1	c.T25C	p.L9L	CGGCCAAGAGGAG	.	PASS	Atlas-SNP
SALL1	6299	hgsc.bcm.edu	37	16	51175658	51175658	+	Missense_Mutation	SNP	T	T	C	rs13336129	bycluster;byfrequency;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	44	3	68	1	0.0681818	0.0147059	T|0.933;C|0.067	0.067	strong	SALL1,NS,carcinoma,0,1	SALL1	301	1	NM_002968	exon2	c.A475G	p.S159G	CGCCGCTGCTGCT	.	scavenged	Atlas-SNP
FAS	355	hgsc.bcm.edu	37	10	90770574	90770574	+	Splice_Site	SNP	T	T	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	92	35	153	0	0.380435	0	.	.	none	.	FAS	47	.	NM_152872	exon6	c.568+2T>A	.	TTGGGGTAAGTTC	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092951	1092951	+	Silent	SNP	T	T	C	rs187978467	bycluster	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	70	9	68	4	0.128571	0.0588235	.	.	weak	MUC2_ENST00000441003,NS,carcinoma,+1,2	MUC2	614	2	NM_002457	exon30	c.T4770C	p.T1590T	CACCACTACGGTG	.	scavenged	Atlas-SNP
RANBP2	5903	hgsc.bcm.edu	37	2	109381816	109381816	+	Silent	SNP	G	G	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	520	4	609	0	0.00769231	0	.	.	none	RANBP2_ENST00000283195,NS,carcinoma,0,4	RANBP2	488	4	NM_006267	exon20	c.G4821A	p.E1607E	GAAGGAGGGACAG	.	scavenged	Atlas-SNP
DHX34	9704	hgsc.bcm.edu	37	19	47870310	47870310	+	Missense_Mutation	SNP	A	A	G	rs76218701	bycluster	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	187	8	225	9	0.0427807	0.04	G|1.000;|0.000	1.000	weak	DHX34,NS,carcinoma,-2,2	DHX34	98	2	NM_014681	exon7	c.A1666G	p.T556A	CTGGAAACCGCCA	.	scavenged	Atlas-SNP
ZNF880	400713	hgsc.bcm.edu	37	19	52888049	52888049	+	Missense_Mutation	SNP	C	C	A	rs75346003	bycluster;byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	19	8	50	7	0.421053	0.14	C|0.872;A|0.128	0.128	strong	ZNF880,colon,carcinoma,-1,2	ZNF880	45	2	NM_001145434	exon4	c.C1216A	p.Q406K	GGAGAGCAACCTT	.	scavenged	Atlas-SNP
KCNJ18	100134444	hgsc.bcm.edu	37	17	21318951	21318951	+	Silent	SNP	C	C	T	rs75757803		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	68	18	71	16	0.264706	0.225352	C|0.500;T|0.500	0.500	weak	KCNJ12,NS,carcinoma,+2,1	.	.	1	NM_001194958	exon3	c.C297T	p.G99G	GTTCGGCATCATC	.	scavenged	Atlas-SNP
MST1	4485	hgsc.bcm.edu	37	3	49723881	49723881	+	Missense_Mutation	SNP	G	G	C	rs6777426	bycluster;byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	190	12	167	10	0.0631579	0.0598802	G|0.986;C|0.014	0.014	strong	MST1,extremity,malignant_melanoma,0,1	MST1	84	1	NM_020998	exon8	c.C881G	p.T294S	CTGACAGTTGTGG	.	scavenged	Atlas-SNP
PCDHB8	56128	hgsc.bcm.edu	37	5	140559493	140559493	+	Silent	SNP	C	C	T	rs34866056	bycluster	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	63	6	46	1	0.0952381	0.0217391	.	.	weak	PCDHB8,NS,carcinoma,0,3	PCDHB8	199	3	NM_019120	exon1	c.C1878T	p.R626R	GGTGCGCACCGCC	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506005	195506005	+	Missense_Mutation	SNP	A	A	C	rs202017381	bycluster	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	108	7	63	6	0.0648148	0.0952381	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.T12446G	p.I4149S	GAAGGGATGGTGA	.	scavenged	Atlas-SNP
STRADB	55437	hgsc.bcm.edu	37	2	202344861	202344861	+	Missense_Mutation	SNP	A	A	G	rs139900078	bycluster	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	203	3	216	2	0.0147783	0.00925926	.	.	weak	STRADB,hand,malignant_melanoma,0,1	STRADB	33	1	NM_018571	exon12	c.A1220G	p.D407G	AATGTGATTTTCC	.	scavenged	Atlas-SNP
SULF2	55959	hgsc.bcm.edu	37	20	46331406	46331406	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	52	12	42	0	0.230769	0	.	.	none	.	SULF2	131	.	NM_001161841	exon4	c.G424A	p.G142R	ACTTCCCGAAGAA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511446	195511446	+	Silent	SNP	C	C	G	rs78227722	bycluster;byfrequency;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	105	20	60	17	0.190476	0.283333	C|0.697;G|0.303	0.303	strong	MUC4_ENST00000463781,NS,carcinoma,-1,3	MUC4	1505	3	NM_018406	exon2	c.G7005C	p.T2335T	AAGAGGCGTGGTG	.	scavenged	Atlas-SNP
AARD	441376	hgsc.bcm.edu	37	8	117950758	117950758	+	Missense_Mutation	SNP	G	G	T	rs111477672	bycluster;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	11	10	1	0	0.909091	0	G|0.976;T|0.024	0.024	strong	.	.	.	.	NM_001025357	exon1	c.G276T	p.Q92H	GGAGCAGAGCTGG	.	PASS	Atlas-SNP
LPIN1	23175	hgsc.bcm.edu	37	2	11955228	11955228	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	119	23	125	0	0.193277	0	.	.	none	.	LPIN1	99	.	NM_001261428	exon19	c.T2411A	p.F804Y	ATAAATTTCTCTA	.	PASS	Atlas-SNP
PRSS3	5646	hgsc.bcm.edu	37	9	33797828	33797828	+	Missense_Mutation	SNP	C	C	T	rs143209949	bycluster;byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	110	9	111	6	0.0818182	0.0540541	C|0.999;T|0.001	0.001	strong	PRSS3_ENST00000361005,NS,carcinoma,-1,2	PRSS3	79	2	NM_007343	exon3	c.C373T	p.R125C	ATCAGCCGCATCC	.	scavenged	Atlas-SNP
PCDHB16	57717	hgsc.bcm.edu	37	5	140563763	140563763	+	Missense_Mutation	SNP	C	C	A	rs17844658	bycluster;byfrequency;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	41	7	31	1	0.170732	0.0322581	C|0.686;A|0.314	0.314	strong	PCDHB16,colon,carcinoma,0,2	PCDHB16	159	2	NM_020957	exon1	c.C1629A	p.S543R	GAGCAGCGAGGCG	.	scavenged	Atlas-SNP
NBPF14	25832	hgsc.bcm.edu	37	1	148010926	148010926	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	363	2	345	1	0.00550964	0.00289855	.	.	none	NBPF14,NS,lymphoid_neoplasm,+1,1	NBPF14	107	1	NM_015383	exon14	c.A1696G	p.I566V	CCAATATGTAAAA	.	scavenged	Atlas-SNP
ROCK1	6093	hgsc.bcm.edu	37	18	18534948	18534948	+	Missense_Mutation	SNP	G	G	C	rs2847092	bycluster;byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	208	3	211	1	0.0144231	0.00473934	G|0.985;C|0.015	0.015	strong	ROCK1_ENST00000399799,NS,carcinoma,0,1	ROCK1	162	1	NM_005406	exon31	c.C3649G	p.Q1217E	CAGCTTGTTGTAC	.	scavenged	Atlas-SNP
FARSB	10056	hgsc.bcm.edu	37	2	223504317	223504317	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	101	20	94	0	0.19802	0	.	.	none	.	FARSB	49	.	NM_005687	exon5	c.T437A	p.L146X	TGATGTAATTTCT	.	PASS	Atlas-SNP
NT5C	30833	hgsc.bcm.edu	37	17	73127683	73127683	+	Silent	SNP	T	T	C	rs4788867	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	6	6	0	0	1	.	T|0.501;C|0.499	0.499	strong	.	NT5C	3	.	NM_001252377	exon1	c.A120G	p.Q40Q	GCGGCGTTGCTCC	.	PASS	Atlas-SNP
ERICH1	157697	hgsc.bcm.edu	37	8	623759	623759	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	69	10	73	0	0.144928	0	.	.	none	.	ERICH1	50	.	NM_207332	exon4	c.A593C	p.E198A	TCCCCTTCATTGC	.	PASS	Atlas-SNP
CACNG5	27091	hgsc.bcm.edu	37	17	64881273	64881273	+	Silent	SNP	C	C	T	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	45	16	37	0	0.355556	0	.	.	none	.	CACNG5	77	.	NM_145811	exon5	c.C744T	p.S248S	CTCCAGCGAGGCC	.	PASS	Atlas-SNP
CARD11	84433	hgsc.bcm.edu	37	7	2977614	2977614	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	44	23	48	0	0.522727	0	.	.	none	CARD11,NS,lymphoid_neoplasm,0,4	CARD11	339	4	NM_032415	exon8	c.A1070T	p.D357V	TCACAGTCCTTTC	.	PASS	Atlas-SNP
DYNC2H1	79659	hgsc.bcm.edu	37	11	103070165	103070165	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	88	30	121	0	0.340909	0	.	.	none	.	DYNC2H1	246	.	NM_001377	exon49	c.G8048C	p.R2683T	TTTCCAGAGGATA	.	PASS	Atlas-SNP
PCDHB8	56128	hgsc.bcm.edu	37	5	140559523	140559523	+	Silent	SNP	G	G	A	rs17844502	bycluster;byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	48	5	45	2	0.104167	0.0444444	G|0.568;A|0.432	0.432	strong	PCDHB8,colon,carcinoma,0,1	PCDHB8	199	1	NM_019120	exon1	c.G1908A	p.A636A	CGACGCGGCCAAG	.	scavenged	Atlas-SNP
MED16	10025	hgsc.bcm.edu	37	19	879943	879943	+	Missense_Mutation	SNP	G	G	C	rs76403059	bycluster	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	172	6	148	3	0.0348837	0.0202703	.	.	weak	MED16,colon,carcinoma,0,1	MED16	61	1	NM_005481	exon8	c.C1347G	p.H449Q	CTTCCCGTGGCTG	.	scavenged	Atlas-SNP
TCEB3C	162699	hgsc.bcm.edu	37	18	44555232	44555232	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	159	5	172	4	0.0314465	0.0232558	.	.	none	TCEB3C,NS,carcinoma,+1,1	TCEB3C	49	1	NM_145653	exon1	c.C982G	p.P328A	AGGCAGGCCTGGA	.	scavenged	Atlas-SNP
TPSAB1	7177	hgsc.bcm.edu	37	16	1290984	1290984	+	Silent	SNP	C	C	G	rs2272969		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	249	23	192	7	0.0923695	0.0364583	.	.	weak	TPSAB1,trunk,malignant_melanoma,+1,2	TPSAB1	24	2	NM_003294	exon2	c.C45G	p.R15R	GAGCCGCGCCTAC	.	scavenged	Atlas-SNP
KCNJ18	100134444	hgsc.bcm.edu	37	17	21319488	21319488	+	Silent	SNP	C	C	T	rs77176173	byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	135	20	158	19	0.148148	0.120253	C|0.625;T|0.375	0.375	strong	KCNJ12,NS,carcinoma,0,1	.	.	1	NM_001194958	exon3	c.C834T	p.S278S	GGCCAGCCCGCTC	.	scavenged	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	37	22	38119859	38119859	+	Silent	SNP	C	C	T	rs66505048	bycluster;byfrequency	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	220	4	229	2	0.0181818	0.00873362	C|0.500;T|0.500	0.500	strong	TRIOBP_ENST00000344404,NS,carcinoma,0,8	TRIOBP	262	8	NM_001039141	exon7	c.C1296T	p.C432C	ATCCTGCGCCCAG	.	scavenged	Atlas-SNP
ARID1A	8289	hgsc.bcm.edu	37	1	27101097	27101097	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	124	38	114	0	0.306452	0	.	.	none	.	ARID1A	842	.	NM_006015	exon18	c.G4379C	p.G1460A	AGTTTGGCCGAGA	.	PASS	Atlas-SNP
CHST2	9435	hgsc.bcm.edu	37	3	142839977	142839977	+	Missense_Mutation	SNP	G	G	A	rs185111962	bycluster;by1000genomes	TCGA-GR-A4D4-01A-11D-A31X-10	TCGA-GR-A4D4-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	8f63ab7f-314f-4c7f-92cc-4f512ca6478e	32dbeee5-dae4-41d3-ac37-873569dcc6a9	13	9	1	0	0.692308	0	G|0.990;A|0.010	0.010	strong	.	CHST2	67	.	NM_004267	exon2	c.G319A	p.G107R	CGCCCAGGGCCGC	.	PASS	Atlas-SNP
