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
JAKMIP1	152789	hgsc.bcm.edu	37	4	6086694	6086695	+	Splice_Site	INS	-	-	AA	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	46	11	57	0	0.23913	0	.	.	none	.	JAKMIP1	250	.	NM_001099433	exon6	c.835-2->TT	.	.	.	PASS	Atlas-Indel
KRTAP9-1	728318	hgsc.bcm.edu	37	17	39346595	39346596	+	In_Frame_Ins	INS	-	-	GCTGTGGGTCCAGCTGCTGCCAGCCTA	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	46	21	56	0	0.456522	0	.	.	none	KRTAP9-1_ENST00000398470,rectum,carcinoma,0,2	KRTAP9-1	34	2	NM_001190460	exon1	c.457_458insGCTGTGGGTCCAGCTGCTGCCAGCCTA	p.C153delinsCCGSSCCQPS	.	.	PASS	Atlas-Indel
KTN1	3895	hgsc.bcm.edu	37	14	56079010	56079010	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	145	19	188	0	0.131034	0	.	.	none	.	KTN1	147	.	NM_004986	exon2	c.C244T	p.R82X	GTACCTCGAGACT	.	PASS	Atlas-SNP
MESP2	145873	hgsc.bcm.edu	37	15	90320146	90320146	+	Silent	SNP	G	G	A	rs28546919	bycluster	TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	24	17	3	0	0.708333	0	A|1.000;|0.000	1.000	weak	.	MESP2	20	.	NM_001039958	exon1	c.G558A	p.Q186Q	GGGGCAGGGGCAG	.	PASS	Atlas-SNP
PKN2	5586	hgsc.bcm.edu	37	1	89271287	89271287	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	122	8	148	0	0.0655738	0	.	.	none	.	PKN2	109	.	NM_006256	exon11	c.C1609G	p.Q537E	AGCCCTCAAGCTC	.	PASS	Atlas-SNP
MN1	4330	hgsc.bcm.edu	37	22	28194933	28194933	+	Silent	SNP	T	T	C	rs373314940		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	25	5	41	0	0.2	0	.	.	weak	MN1,caecum,carcinoma,0,2	MN1	122	2	NM_002430	exon1	c.A1599G	p.Q533Q	CTGCTGTTGCTGC	.	PASS	Atlas-SNP
CDH3	1001	hgsc.bcm.edu	37	16	68712537	68712537	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	35	6	56	0	0.171429	0	.	.	none	.	CDH3	68	.	NM_001793	exon5	c.G524A	p.R175Q	TGGACCGGGAGGA	.	PASS	Atlas-SNP
MAP1B	4131	hgsc.bcm.edu	37	5	71495880	71495880	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	50	5	61	0	0.1	0	.	.	none	.	MAP1B	243	.	NM_005909	exon5	c.A6698C	p.K2233T	TGGGCAAAGCTCT	.	PASS	Atlas-SNP
TRPM3	80036	hgsc.bcm.edu	37	9	73225579	73225579	+	Silent	SNP	G	G	T	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	99	9	112	0	0.0909091	0	.	.	none	TRPM3_ENST00000423814,NS,carcinoma,-2,3	TRPM3	700	3	NM_001007471	exon18	c.C2577A	p.G859G	TTTTCTGCCGAGG	.	PASS	Atlas-SNP
KIAA1549L	25758	hgsc.bcm.edu	37	11	33581343	33581343	+	Missense_Mutation	SNP	G	G	A	rs369439478		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	53	9	73	0	0.169811	0	.	.	weak	.	.	.	.	NM_012194	exon6	c.G3013A	p.V1005M	TACGTCGTGGGCA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506005	195506005	+	Missense_Mutation	SNP	A	A	C	rs202017381	bycluster	TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	67	7	90	3	0.104478	0.0333333	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.T12446G	p.I4149S	GAAGGGATGGTGA	.	scavenged	Atlas-SNP
H2AFV	94239	hgsc.bcm.edu	37	7	44874131	44874131	+	Missense_Mutation	SNP	A	A	G	rs114398265	bycluster	TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	87	3	95	2	0.0344828	0.0210526	A|0.999;G|0.001	0.001	weak	H2AFV,NS,carcinoma,0,1	H2AFV	14	1	NM_012412	exon5	c.T356C	p.I119T	TTTCCAATCAGAG	.	scavenged	Atlas-SNP
MYH7B	57644	hgsc.bcm.edu	37	20	33588659	33588659	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	42	6	40	0	0.142857	0	.	.	none	MYH7B,NS,carcinoma,+1,1	MYH7B	145	1	NM_020884	exon40	c.G5393A	p.R1798Q	AGAGGCGGGAGGC	.	PASS	Atlas-SNP
RANBP2	5903	hgsc.bcm.edu	37	2	109371659	109371659	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	487	7	594	4	0.0143737	0.00673401	.	.	none	RANBP2_ENST00000283195,NS,carcinoma,0,2	RANBP2	488	2	NM_006267	exon17	c.G2410A	p.A804T	CGATGGGCAGAAG	.	scavenged	Atlas-SNP
GRIN2A	2903	hgsc.bcm.edu	37	16	9916205	9916205	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	127	7	177	0	0.0551181	0	.	.	none	.	GRIN2A	366	.	NM_000833	exon11	c.G2084A	p.R695Q	TTATTCCGAATGT	.	PASS	Atlas-SNP
CAMTA1	23261	hgsc.bcm.edu	37	1	7796527	7796527	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	92	9	96	0	0.0978261	0	.	.	none	.	CAMTA1	226	.	NM_015215	exon13	c.C3190G	p.R1064G	ACTTTCCGCGGAA	.	PASS	Atlas-SNP
RAB40A	142684	hgsc.bcm.edu	37	X	102755451	102755451	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	350	25	461	0	0.0714286	0	.	.	none	.	RAB40A	30	.	NM_080879	exon3	c.C234T	p.T78T	GAATATGGTACAA	.	PASS	Atlas-SNP
UBE2R2	54926	hgsc.bcm.edu	37	9	33900200	33900200	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	153	11	141	0	0.0718954	0	.	.	none	UBE2R2,NS,carcinoma,+1,1	UBE2R2	19	1	NM_017811	exon3	c.A293T	p.H98L	TTCTTCATCCGCC	.	PASS	Atlas-SNP
GAL3ST4	79690	hgsc.bcm.edu	37	7	99757593	99757593	+	Silent	SNP	G	G	C	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	63	6	76	0	0.0952381	0	.	.	none	.	GAL3ST4	59	.	NM_024637	exon4	c.C1419G	p.T473T	TGAGACGGTAGGG	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17086450	17086450	+	Missense_Mutation	SNP	C	C	G	rs75068156	byfrequency	TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	84	27	119	42	0.321429	0.352941	C|0.500;G|0.500	0.500	strong	Q13209_HUMAN,NS,other,0,2	.	.	2	NM_001271733	exon6	c.G649C	p.E217Q	GCCGCTCGGAGCC	.	scavenged	Atlas-SNP
MICA	100507436	hgsc.bcm.edu	37	6	31380153	31380153	+	Missense_Mutation	SNP	T	T	C	rs199843678	bycluster;byfrequency	TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	76	10	83	1	0.131579	0.0120482	T|0.973;C|0.027	0.027	strong	MICA,uveal_tract,malignant_melanoma,0,1	MICA	21	1	NM_001177519	exon5	c.T944C	p.V315A	CTGCTGTTGCTGC	.	scavenged	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1017068	1017068	+	Silent	SNP	C	C	T	rs78992004		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	332	47	442	62	0.141566	0.140271	C|0.500;T|0.500	0.500	weak	MUC6,NS,carcinoma,-1,1	MUC6	408	1	NM_005961	exon31	c.G5733A	p.T1911T	TTTGGCCGTGCTA	.	scavenged	Atlas-SNP
DLGAP3	58512	hgsc.bcm.edu	37	1	35370945	35370945	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	63	8	88	0	0.126984	0	.	.	none	.	DLGAP3	107	.	NM_001080418	exon1	c.C40T	p.P14S	GGGCTGGGCGGGG	.	PASS	Atlas-SNP
MYH10	4628	hgsc.bcm.edu	37	17	8455392	8455392	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	161	15	168	0	0.0931677	0	.	.	none	.	MYH10	148	.	NM_001256012	exon9	c.G891A	p.L297L	AGATAACAACTGG	.	PASS	Atlas-SNP
PMFBP1	83449	hgsc.bcm.edu	37	16	72198813	72198813	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	33	6	45	0	0.181818	0	.	.	none	PMFBP1,NS,carcinoma,-1,2	PMFBP1	101	2	NM_031293	exon3	c.G15A	p.A5A	CTCCCCCGCCTAG	.	PASS	Atlas-SNP
PRB4	5545	hgsc.bcm.edu	37	12	11461738	11461738	+	Missense_Mutation	SNP	G	G	C	rs79562958	bycluster	TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	143	9	197	10	0.0629371	0.0507614	C|1.000;|0.000	1.000	weak	PRB4,NS,carcinoma,0,1	PRB4	59	1	NM_001261399	exon3	c.C179G	p.P60R	GGGGGTGGTCCTT	.	scavenged	Atlas-SNP
ARHGAP23	57636	hgsc.bcm.edu	37	17	36628191	36628191	+	Missense_Mutation	SNP	G	G	A	rs199655106	byfrequency	TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	45	3	55	3	0.0666667	0.0545455	G|0.986;A|0.014	0.014	strong	ARHGAP23,NS,carcinoma,0,1	ARHGAP23	48	1	NM_001199417	exon11	c.G2062A	p.D688N	TTCAGCGATATCA	.	scavenged	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88537426	88537426	+	Silent	SNP	T	T	C	rs371154871		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	67	7	92	8	0.104478	0.0869565	.	.	weak	DSPP,NS,carcinoma,0,2	DSPP	174	2	NM_014208	exon5	c.T3612C	p.S1204S	CGATAGTAGTGAT	.	scavenged	Atlas-SNP
NEK1	4750	hgsc.bcm.edu	37	4	170509869	170509869	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	176	23	275	0	0.130682	0	.	.	none	.	NEK1	203	.	NM_001199399	exon8	c.G482A	p.R161Q	CAAGTTCGAGCCA	.	PASS	Atlas-SNP
TRIM22	10346	hgsc.bcm.edu	37	11	5730437	5730437	+	Silent	SNP	G	G	A	rs140700337	bycluster;by1000genomes	TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	116	11	132	0	0.0948276	0	G|0.993;A|0.007	0.007	strong	.	TRIM22	66	.	NM_006074	exon8	c.G1056A	p.S352S	CTCTTCGGGGAAA	.	PASS	Atlas-SNP
RGPD8	727851	hgsc.bcm.edu	37	2	113127775	113127775	+	Missense_Mutation	SNP	G	G	C	rs370761877		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	429	10	620	7	0.02331	0.0112903	.	.	weak	RGPD8_ENST00000302558,NS,carcinoma,0,18	RGPD8	81	18	NM_001164463	exon23	c.C5278G	p.P1760A	GGGAAGGATTTTC	.	scavenged	Atlas-SNP
CNGB1	1258	hgsc.bcm.edu	37	16	57918303	57918303	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	64	16	72	0	0.25	0	.	.	none	.	CNGB1	105	.	NM_001297	exon33	c.C3521T	p.T1174M	GGGTGCGTGTGCT	.	PASS	Atlas-SNP
RIMBP3	85376	hgsc.bcm.edu	37	22	20457514	20457514	+	Missense_Mutation	SNP	T	T	G	rs200584390		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	147	34	140	31	0.231293	0.221429	.	.	weak	RIMBP3,colon,carcinoma,0,1	RIMBP3	42	1	NM_015672	exon1	c.A3788C	p.E1263A	TCTCCTTCTGAGC	.	scavenged	Atlas-SNP
KCNN3	3782	hgsc.bcm.edu	37	1	154842244	154842244	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	46	12	43	10	0.26087	0.232558	.	.	none	KCNN3,NS,carcinoma,+1,3	KCNN3	141	3	NM_001204087	exon1	c.T197A	p.L66H	TGCTGAAGCTGCG	.	scavenged	Atlas-SNP
HLA-DQA1	3117	hgsc.bcm.edu	37	6	32609169	32609169	+	Silent	SNP	T	T	C	rs1048027	bycluster;byfrequency;by1000genomes	TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	25	25	13	13	1	1	T|0.665;C|0.335	0.335	strong	HLA-DQA1,NS,neuroblastoma,+2,1	HLA-DQA1	52	1	NM_002122	exon2	c.T165C	p.D55D	TGGAGATGAGCAG	.	scavenged	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385714	58385714	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	343	4	442	4	0.0116618	0.00904977	.	.	none	ZNF814,NS,carcinoma,0,2	ZNF814	93	2	NM_001144989	exon3	c.A1044C	p.E348D	TTTTTTTTCAGTG	.	scavenged	Atlas-SNP
TNKS1BP1	85456	hgsc.bcm.edu	37	11	57081004	57081004	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	50	13	35	0	0.26	0	.	.	none	.	TNKS1BP1	148	.	NM_033396	exon5	c.C1158T	p.T386T	GGGTGAGGTGGCA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505772	195505772	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	76	6	93	5	0.0789474	0.0537634	.	.	none	MUC4_ENST00000463781,bladder,carcinoma,0,4	MUC4	1505	4	NM_018406	exon2	c.G12679C	p.V4227L	TGGTGACAGGAAG	.	scavenged	Atlas-SNP
MESP2	145873	hgsc.bcm.edu	37	15	90320149	90320149	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	22	8	23	0	0.363636	0	.	.	none	.	MESP2	20	.	NM_001039958	exon1	c.G561A	p.G187G	GCAGGGGCAGGGG	.	PASS	Atlas-SNP
HHLA3	11147	hgsc.bcm.edu	37	1	70832174	70832174	+	Missense_Mutation	SNP	C	C	G	rs143161214	bycluster;by1000genomes;alternate_allele	TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	140	8	152	0	0.0571429	0	C|1.000;A|0.000	.	alt	.	HHLA3	11	.	NM_001036645	exon2	c.C305G	p.S102C	AGCATTCTTGGAT	.	PASS	Atlas-SNP
KCNN3	3782	hgsc.bcm.edu	37	1	154842243	154842243	+	Silent	SNP	A	A	C	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	46	12	42	10	0.26087	0.238095	.	.	none	KCNN3,NS,carcinoma,0,3	KCNN3	141	3	NM_001204087	exon1	c.T198G	p.L66L	CTGCTGAAGCTGC	.	scavenged	Atlas-SNP
RGPD8	727851	hgsc.bcm.edu	37	2	113147666	113147666	+	Missense_Mutation	SNP	C	C	A	rs71227755		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	684	63	793	52	0.0921053	0.0655738	C|0.500;A|0.500	0.500	weak	RGPD8_ENST00000302558,NS,carcinoma,-1,2	RGPD8	81	2	NM_001164463	exon20	c.G2856T	p.R952S	CCGGCCCCTAATA	.	scavenged	Atlas-SNP
MED12	9968	hgsc.bcm.edu	37	X	70352367	70352367	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	106	11	94	0	0.103774	0	.	.	none	.	MED12	984	.	NM_005120	exon31	c.G4394A	p.R1465H	AAGAACGTGATCG	.	PASS	Atlas-SNP
RPL37	6167	hgsc.bcm.edu	37	5	40832665	40832665	+	Missense_Mutation	SNP	G	G	A	rs368304251		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	145	8	193	0	0.0551724	0	.	.	weak	RPL37,NS,carcinoma,0,1	RPL37	7	1	NM_000997	exon4	c.C235T	p.R79C	CTTCACGGAATCC	.	PASS	Atlas-SNP
TRPM3	80036	hgsc.bcm.edu	37	9	73225580	73225580	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	100	9	114	0	0.09	0	.	.	none	TRPM3_ENST00000423814,NS,carcinoma,-1,3	TRPM3	700	3	NM_001007471	exon18	c.G2576C	p.G859A	TTTCTGCCGAGGG	.	PASS	Atlas-SNP
OTOGL	283310	hgsc.bcm.edu	37	12	80714313	80714313	+	Missense_Mutation	SNP	G	G	A	rs369089877		TCGA-GS-A9U4-01A-11D-A38X-10	TCGA-GS-A9U4-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	4b7512d6-8e65-47d9-98ca-1fe4bd7c455f	22fb535e-5b36-4add-ba3f-997cb70efcff	93	9	127	0	0.0967742	0	.	.	weak	OTOGL_ENST00000458043,NS,carcinoma,+1,1	OTOGL	235	1	NM_173591	exon33	c.G3887A	p.R1296Q	TTCATCGGAGAGC	.	PASS	Atlas-SNP
