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
ATXN1	6310	hgsc.bcm.edu	37	6	16327915	16327916	+	In_Frame_Ins	INS	-	-	TGC	rs71806515		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	51	17	47	0	0.333333	0	.	.	weak	ATXN1,colon,carcinoma,0,1	ATXN1	117	1	NM_000332	exon8	c.627_628insGCA	p.H209delinsQH	.	.	PASS	Atlas-Indel
SHKBP1	92799	hgsc.bcm.edu	37	19	41095087	41095112	+	Splice_Site	DEL	GAGGACAGTCCTGTCCAACAGGGAGG	GAGGACAGTCCTGTCCAACAGGGAGG	-	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	GAGGACAGTCCTGTCCAACAGGGAGG	GAGGACAGTCCTGTCCAACAGGGAGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	84	12	66	0	0.142857	0	.	.	none	.	SHKBP1	68	.	.	.	.	.	.	.	PASS	Atlas-Indel
TPRX1	284355	hgsc.bcm.edu	37	19	48305613	48305624	+	In_Frame_Del	DEL	TTGGGCCTGAGA	TTGGGCCTGAGA	-	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	TTGGGCCTGAGA	TTGGGCCTGAGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	39	11	32	0	0.282051	0	.	.	none	TPRX1,NS,carcinoma,0,1	TPRX1	46	1	NM_198479	exon2	c.645_656del	p.215_219del	.	.	PASS	Atlas-Indel
DSPP	1834	hgsc.bcm.edu	37	4	88537205	88537213	+	In_Frame_Del	DEL	GACAGCAGT	GACAGCAGT	-	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	GACAGCAGT	GACAGCAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	57	30	107	0	0.526316	0	.	.	none	.	DSPP	174	.	NM_014208	exon5	c.3390_3398del	p.1130_1133del	.	.	PASS	Atlas-Indel
TBP	6908	hgsc.bcm.edu	37	6	170871013	170871014	+	In_Frame_Ins	INS	-	-	CAG	rs201732168	by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	67	41	53	0	0.61194	0	-|0.138;CAG|0.862	0.862	strong	TBP,NS,carcinoma,0,5	TBP	58	5	NM_003194	exon3	c.189_190insCAG	p.Q63delinsQQ	.	.	PASS	Atlas-Indel
DUSP27	92235	hgsc.bcm.edu	37	1	167095865	167095865	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	186	48	155	.	0.258	.	.	.	none	.	DUSP27	235	.	NM_001080426	exon5	c.1496delG	p.S499fs	.	.	PASS	Pindel,Atlas-Indel
LCE1F	353137	hgsc.bcm.edu	37	1	152749003	152749008	+	In_Frame_Del	DEL	TGGCTC	TGGCTC	-	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	TGGCTC	TGGCTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	118	14	109	0	0.118644	0	.	.	none	.	LCE1F	42	.	NM_178354	exon1	c.155_160del	p.52_54del	.	.	PASS	Atlas-Indel
DGKB	1607	hgsc.bcm.edu	37	7	14775822	14775822	+	Splice_Site	DEL	G	G	-	rs139628753	bycluster;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	69	28	90	0	0.405797	0	G|0.405;-|0.595	0.595	strong	.	DGKB	166	.	NM_004080	exon5	c.169-2C>-	.	.	.	PASS	Atlas-Indel
BTG1	694	hgsc.bcm.edu	37	12	92539174	92539180	+	Frame_Shift_Del	DEL	CTCCTGC	CTCCTGC	-	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	CTCCTGC	CTCCTGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	110	25	110	.	0.227	.	.	.	none	.	BTG1	30	.	NM_001731	exon1	c.133_139del	p.45_47del	.	.	PASS	Pindel,Atlas-Indel
MLL2	8085	hgsc.bcm.edu	37	12	49445046	49445047	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	286	172	125	0	0.601399	0	.	.	none	.	MLL2	1173	.	NM_003482	exon10	c.2420_2421insT	p.S807fs	.	.	PASS	Atlas-Indel
KIAA0125	9834	hgsc.bcm.edu	37	14	106388019	106388094	+	RNA	DEL	CCAGACCATCAGATGGCCTCCTCACCTACCCCTCTTCAGACAGGGCCTCAGACCTAAGGCAGGAGCACCCCCTATG	CCAGACCATCAGATGGCCTCCTCACCTACCCCTCTTCAGACAGGGCCTCAGACCTAAGGCAGGAGCACCCCCTATG	-	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	CCAGACCATCAGATGGCCTCCTCACCTACCCCTCTTCAGACAGGGCCTCAGACCTAAGGCAGGAGCACCCCCTATG	CCAGACCATCAGATGGCCTCCTCACCTACCCCTCTTCAGACAGGGCCTCAGACCTAAGGCAGGAGCACCCCCTATG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	28	17	109	.	0.607	.	.	.	none	.	.	.	.	.	.	.	.	.	.	PASS	Pindel
MLL2	8085	hgsc.bcm.edu	37	12	49445040	49445041	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	286	80	126	.	0.280	.	.	.	none	.	MLL2	1173	.	NM_003482	exon10	c.2426_2427insC	p.Q809fs	.	.	PASS	Pindel
RIMBP3C	150221	hgsc.bcm.edu	37	22	21739333	21739335	+	In_Frame_Del	DEL	GAG	GAG	-	rs201364657	by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	114	24	206	.	0.211	.	GAG|0.990;-|0.010	0.010	strong	.	RIMBP3C	6	.	NM_001128633	exon1	c.1185_1187del	p.395_396del	.	.	PASS	Pindel
RIMBP3	85376	hgsc.bcm.edu	37	22	20460113	20460115	+	In_Frame_Del	DEL	CCG	CCG	-	rs77846076	alternate_allele	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	CCG	CCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	35	27	24	.	0.771	.	.	.	alt	.	RIMBP3	42	.	NM_015672	exon1	c.1188_1190del	p.396_397del	.	.	PASS	Pindel
RIMBP3C	150221	hgsc.bcm.edu	37	22	21904075	21904077	+	In_Frame_Del	DEL	CTC	CTC	-	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	130	41	210	.	0.315	.	.	.	none	.	RIMBP3C	6	.	NM_001128633	exon1	c.1190_1192del	p.397_398del	.	.	PASS	Pindel
ELFN1	392617	hgsc.bcm.edu	37	7	1785563	1785563	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	48	19	31	0	0.395833	0	.	.	none	.	ELFN1	22	.	NM_001128636	exon2	c.G1331A	p.R444Q	GGCGGCGGCGCCA	.	PASS	Atlas-SNP
ATPBD4	89978	hgsc.bcm.edu	37	15	35830516	35830516	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	163	127	283	0	0.779141	0	.	.	none	.	ATPBD4	30	.	NM_001141972	exon3	c.G271A	p.D91N	CCTCATCACCTTC	.	PASS	Atlas-SNP
CCP110	9738	hgsc.bcm.edu	37	16	19556216	19556216	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	405	159	195	0	0.392593	0	.	.	none	.	CCP110	57	.	NM_001199022	exon9	c.C2582T	p.A861V	TGTTAGCTCAGGT	.	PASS	Atlas-SNP
TMEM119	338773	hgsc.bcm.edu	37	12	108986031	108986031	+	Silent	SNP	C	C	T	rs74504010	bycluster;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	15	8	4	2	0.533333	0.5	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
MLXIP	22877	hgsc.bcm.edu	37	12	122516989	122516989	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	38	17	32	0	0.447368	0	.	.	none	.	MLXIP	46	.	NM_014938	exon1	c.T230C	p.I77T	AGATCATCCACAG	.	PASS	Atlas-SNP
DTX1	1840	hgsc.bcm.edu	37	12	113496135	113496135	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	93	38	111	0	0.408602	0	.	.	none	.	DTX1	83	.	NM_004416	exon1	c.C138T	p.H46H	GTGCCACCACATT	.	PASS	Atlas-SNP
ZNF234	10780	hgsc.bcm.edu	37	19	44660855	44660855	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	138	2	122	0	0.0144928	0	.	.	none	ZNF234,colon,carcinoma,-1,1	ZNF234	132	1	NM_006630	exon6	c.A686T	p.E229V	CTGTAGAGAAACC	.	scavenged	Atlas-SNP
NLRP6	171389	hgsc.bcm.edu	37	11	279844	279844	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	42	7	38	0	0.166667	0	.	.	none	.	NLRP6	4	.	NM_138329	exon3	c.C321T	p.L107L	CGGGCTCGGCTCC	.	PASS	Atlas-SNP
PMEPA1	56937	hgsc.bcm.edu	37	20	56227142	56227142	+	Silent	SNP	T	T	C	rs138355480		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	115	6	95	0	0.0521739	0	T|1.000;C|0.000	0.000	weak	.	PMEPA1	29	.	NM_020182	exon4	c.A831G	p.K277K	CTTCTCTTTGCTC	.	PASS	Atlas-SNP
RTP1	132112	hgsc.bcm.edu	37	3	186915368	186915368	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	235	4	202	0	0.0170213	0	.	.	none	RTP1,NS,carcinoma,-1,1	RTP1	51	1	NM_153708	exon1	c.T65C	p.F22S	CCGTGTTCTCACT	.	scavenged	Atlas-SNP
ZNF419	79744	hgsc.bcm.edu	37	19	58005146	58005146	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	121	3	86	4	0.0247934	0.0465116	.	.	none	ZNF419_ENST00000424930,NS,carcinoma,0,3	ZNF419	134	3	NM_001098491	exon5	c.C1224G	p.F408L	GAGATTCTTTAGA	.	scavenged	Atlas-SNP
FNDC7	163479	hgsc.bcm.edu	37	1	109280146	109280146	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	125	3	170	0	0.024	0	.	.	none	FNDC7_ENST00000370017,NS,carcinoma,0,2	FNDC7	113	2	NM_001144937	exon11	c.G2170A	p.V724M	GGAATGGGTAAGT	.	scavenged	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45234327	45234327	+	Missense_Mutation	SNP	C	C	T	rs7350889	bycluster;byhapmap	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	52	4	58	1	0.0769231	0.0172414	C|1.000;|0.000	.	weak	CDC27_ENST00000531206,NS,adenoma,0,4	CDC27	337	4	NM_001114091	exon7	c.G794A	p.G265D	CTTCGACCAGTTT	.	scavenged	Atlas-SNP
MRGPRX3	117195	hgsc.bcm.edu	37	11	18159093	18159093	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	187	2	159	1	0.0106952	0.00628931	.	.	none	MRGPRX3,colon,carcinoma,+1,1	MRGPRX3	59	1	NM_054031	exon3	c.C344T	p.A115V	TGAGCGCCATCAG	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505858	195505858	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	160	6	104	2	0.0375	0.0192308	.	.	none	MUC4_ENST00000463781,NS,carcinoma,-1,3	MUC4	1505	3	NM_018406	exon2	c.C12593T	p.T4198I	GAGGAAGTGTCGG	.	scavenged	Atlas-SNP
SEPT4	5414	hgsc.bcm.edu	37	17	56599152	56599152	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	375	4	276	0	0.0106667	0	.	.	none	SEPT4,NS,carcinoma,-1,1	SEPT4	48	1	NM_001256782	exon8	c.T905C	p.I302T	GCCAGGATAGGCA	.	scavenged	Atlas-SNP
IGSF22	283284	hgsc.bcm.edu	37	11	18735652	18735652	+	Silent	SNP	C	C	T	rs377071364		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	202	3	196	1	0.0148515	0.00510204	.	.	weak	IGSF22_ENST00000513874,NS,carcinoma,0,2	IGSF22	211	2	NM_173588	exon14	c.G1842A	p.A614A	GGCGTGCGCAGCC	.	scavenged	Atlas-SNP
HRC	3270	hgsc.bcm.edu	37	19	49657713	49657713	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	61	2	63	1	0.0327869	0.015873	.	.	none	HRC,NS,carcinoma,0,1	HRC	85	1	NM_002152	exon1	c.A782T	p.D261V	GAGACATCATCAT	.	scavenged	Atlas-SNP
C17orf82	388407	hgsc.bcm.edu	37	17	59489893	59489893	+	Missense_Mutation	SNP	T	T	C	rs9907379	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	7	6	0	0	0.857143	.	T|0.261;C|0.739	0.739	strong	C17orf82_ENST00000335108,NS,carcinoma,0,2	C17orf82	16	2	NM_203425	exon1	c.T557C	p.L186P	AACTCCTCACAGG	.	PASS	Atlas-SNP
NRXN2	9379	hgsc.bcm.edu	37	11	64434761	64434761	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	199	4	139	0	0.0201005	0	.	.	none	NRXN2,caecum,carcinoma,0,2	NRXN2	247	2	NM_015080	exon9	c.G1759A	p.E587K	ACCACTCGCCATC	.	scavenged	Atlas-SNP
SPATA3	130560	hgsc.bcm.edu	37	2	231861057	231861057	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	100	19	66	9	0.19	0.136364	.	.	none	SPATA3,NS,carcinoma,-2,4	SPATA3	52	4	NM_139073	exon1	c.C109T	p.P37S	TCCACACCACAGC	.	scavenged	Atlas-SNP
OR10G7	390265	hgsc.bcm.edu	37	11	123909644	123909644	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	341	68	236	0	0.199413	0	.	.	none	OR10G7,NS,carcinoma,+1,1	OR10G7	103	1	NM_001004463	exon1	c.A65G	p.D22G	GGGGCGTCCAGCC	.	PASS	Atlas-SNP
OVOL1	5017	hgsc.bcm.edu	37	11	65562092	65562092	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	179	3	94	0	0.0167598	0	.	.	none	OVOL1,brain,glioma,0,1	OVOL1	15	1	NM_004561	exon3	c.C402T	p.N134N	GCTGAACCGCCAC	.	scavenged	Atlas-SNP
RTBDN	83546	hgsc.bcm.edu	37	19	12936596	12936596	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	131	53	123	0	0.40458	0	.	.	none	.	RTBDN	26	.	NM_031429	exon7	c.G710A	p.R237H	CGGGAACGCCGGG	.	PASS	Atlas-SNP
SMG1	23049	hgsc.bcm.edu	37	16	18887501	18887501	+	Missense_Mutation	SNP	A	A	T	rs17842615	bycluster;byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	443	5	256	0	0.0112867	0	A|0.660;T|0.340	0.340	strong	SMG1_ENST00000446231,NS,carcinoma,0,1	SMG1	401	1	NM_015092	exon13	c.T1835A	p.I612K	TCAAATATAACTA	.	scavenged	Atlas-SNP
TFG	10342	hgsc.bcm.edu	37	3	100467168	100467168	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	165	62	143	0	0.375758	0	.	.	none	.	TFG	42	.	NM_006070	exon8	c.A996T	p.Q332H	TGCCCAAACTTCT	.	PASS	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	37	10	17157519	17157519	+	Missense_Mutation	SNP	C	C	T	rs139891639	byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	135	4	128	0	0.0296296	0	C|0.999;T|0.001	0.001	strong	CUBN,NS,NS,-1,1	CUBN	515	1	NM_001081	exon7	c.G671A	p.R224H	ACACAGCGTGCCA	.	scavenged	Atlas-SNP
SDHA	6389	hgsc.bcm.edu	37	5	236617	236617	+	Silent	SNP	G	G	T	rs200223188	byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	372	4	331	1	0.0107527	0.00302115	A|0.002;G|0.988;T|0.011	0.011	strong	SDHA,NS,carcinoma,0,1	SDHA	80	1	NM_004168	exon10	c.G1335T	p.S445S	TGCCTCGGTACAT	.	scavenged	Atlas-SNP
ABCC1	4363	hgsc.bcm.edu	37	16	16162160	16162160	+	Splice_Site	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	159	102	108	0	0.641509	0	.	.	none	.	ABCC1	156	.	NM_004996	exon13	c.1824+1G>A	.	GTGCAGGTACAGG	.	PASS	Atlas-SNP
SLC44A5	204962	hgsc.bcm.edu	37	1	75684254	75684254	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	127	3	132	0	0.023622	0	.	.	none	SLC44A5_ENST00000370859,NS,carcinoma,0,2	SLC44A5	231	2	NM_152697	exon17	c.G1450A	p.A484T	AAGTAGCGAATGC	.	scavenged	Atlas-SNP
COL14A1	7373	hgsc.bcm.edu	37	8	121174763	121174763	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	335	4	239	0	0.0119403	0	.	.	none	COL14A1,right_upper_lobe,carcinoma,-2,1	COL14A1	292	1	NM_021110	exon4	c.T304C	p.Y102H	ATTGCATACAATA	.	scavenged	Atlas-SNP
SALL3	27164	hgsc.bcm.edu	37	18	76753588	76753588	+	Missense_Mutation	SNP	A	A	G	rs7240860	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	7	3	3	1	0.428571	0.333333	A|0.251;G|0.749	0.749	strong	SALL3,NS,carcinoma,0,1	SALL3	162	1	NM_171999	exon2	c.A1597G	p.T533A	CCGCCCACTGTCC	.	scavenged	Atlas-SNP
INADL	10207	hgsc.bcm.edu	37	1	62545164	62545164	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	414	7	405	1	0.0169082	0.00246914	.	.	none	INADL_ENST00000543708,NS,carcinoma,-1,2	INADL	179	2	NM_176877	exon32	c.T4168C	p.S1390P	AAAGTCTCCTTCA	.	scavenged	Atlas-SNP
HOXC13	3229	hgsc.bcm.edu	37	12	54333307	54333307	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	57	11	43	0	0.192982	0	.	.	none	.	HOXC13	24	.	NM_017410	exon1	c.A617G	p.D206G	GTCACGACGCCCT	.	PASS	Atlas-SNP
MEPCE	56257	hgsc.bcm.edu	37	7	100028914	100028914	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	214	3	183	0	0.0140187	0	.	.	none	MEPCE,NS,carcinoma,-1,1	MEPCE	52	1	NM_019606	exon1	c.C1273T	p.R425C	GGGTACCGCAATC	.	scavenged	Atlas-SNP
WNT5A	7474	hgsc.bcm.edu	37	3	55508445	55508445	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	172	86	149	2	0.5	0.0134228	.	.	none	WNT5A,NS,carcinoma,+1,1	WNT5A	43	1	NM_003392	exon4	c.C604T	p.R202W	GCTCCCGCTCGCG	.	scavenged	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152186490	152186490	+	Missense_Mutation	SNP	C	C	T	rs80110809	byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	75	31	155	56	0.413333	0.36129	C|0.500;T|0.500	0.500	strong	HRNR,NS,carcinoma,0,2	HRNR	403	2	NM_001009931	exon3	c.G7615A	p.G2539S	GCTGGCCGTGGCC	.	scavenged	Atlas-SNP
EXOG	9941	hgsc.bcm.edu	37	3	38537954	38537954	+	Silent	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	98	50	61	0	0.510204	0	.	.	none	.	EXOG	29	.	NM_005107	exon1	c.G96A	p.G32G	AGCTGGGCTCGCG	.	PASS	Atlas-SNP
ANKRA2	57763	hgsc.bcm.edu	37	5	72857086	72857086	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	206	3	156	0	0.0145631	0	.	.	none	ANKRA2,colon,carcinoma,0,1	ANKRA2	23	1	NM_023039	exon3	c.C317T	p.S106F	CCCGGAGAAGGAG	.	scavenged	Atlas-SNP
ASXL3	80816	hgsc.bcm.edu	37	18	31323877	31323877	+	Silent	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	270	3	168	0	0.0111111	0	.	.	none	ASXL3_ENST00000269197,NS,carcinoma,0,1	ASXL3	405	1	NM_030632	exon12	c.T4065C	p.T1355T	CTCCACTAGCTCT	.	scavenged	Atlas-SNP
VAV1	7409	hgsc.bcm.edu	37	19	6828475	6828475	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	243	3	220	0	0.0123457	0	.	.	none	VAV1,NS,carcinoma,0,1	VAV1	140	1	NM_005428	exon11	c.C1069T	p.R357W	AACCTGCGGCTGG	.	scavenged	Atlas-SNP
KRTAP2-4	85294	hgsc.bcm.edu	37	17	39221736	39221736	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	53	22	61	0	0.415094	0	.	.	none	.	KRTAP2-4	2	.	NM_033184	exon1	c.C362T	p.T121I	CAGGTGGTGCTGC	.	PASS	Atlas-SNP
PRUNE2	158471	hgsc.bcm.edu	37	9	79323927	79323927	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	332	5	312	1	0.0150602	0.00320513	.	.	none	PRUNE2_ENST00000376718,NS,carcinoma,+1,1	PRUNE2	331	1	NM_015225	exon8	c.A3263G	p.Y1088C	TCATTGTACAGTT	.	scavenged	Atlas-SNP
BCAP29	55973	hgsc.bcm.edu	37	7	107221236	107221236	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	123	42	113	0	0.341463	0	.	.	none	.	BCAP29	46	.	NM_018844	exon2	c.G19A	p.A7T	TGGGCTGCAGTGG	.	PASS	Atlas-SNP
EPHA3	2042	hgsc.bcm.edu	37	3	89259340	89259340	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	179	2	143	0	0.0111732	0	.	.	none	EPHA3_ENST00000452448,colon,carcinoma,-1,7	EPHA3	501	7	NM_005233	exon3	c.C484T	p.L162L	CGTATTCTGAAGC	.	scavenged	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9002612	9002612	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	249	23	178	14	0.0923695	0.0786517	.	.	none	MUC16_ENST00000397910,NS,lymphoid_neoplasm,0,2	MUC16	4315	2	NM_024690	exon51	c.A40204C	p.K13402Q	GGCTTTTGGGGTC	.	scavenged	Atlas-SNP
VSX2	338917	hgsc.bcm.edu	37	14	74726455	74726455	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	120	2	120	0	0.0166667	0	.	.	none	VSX2,NS,carcinoma,-2,1	VSX2	32	1	NM_182894	exon4	c.A730G	p.I244V	GATGGCATCATGG	.	scavenged	Atlas-SNP
PIK3R4	30849	hgsc.bcm.edu	37	3	130447403	130447403	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	290	4	278	0	0.0137931	0	.	.	none	PIK3R4,NS,carcinoma,0,1	PIK3R4	145	1	NM_014602	exon6	c.C1711A	p.Q571K	CTTTCTGACGTCC	.	scavenged	Atlas-SNP
IFT122	55764	hgsc.bcm.edu	37	3	129214405	129214405	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	198	2	175	1	0.010101	0.00571429	.	.	none	IFT122,NS,carcinoma,+2,1	IFT122	117	1	NM_052985	exon19	c.C2316T	p.L772L	GAACCTCGCGCTT	.	scavenged	Atlas-SNP
AADAC	13	hgsc.bcm.edu	37	3	151542519	151542519	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	123	5	103	0	0.0406504	0	.	.	none	.	AADAC	49	.	NM_001086	exon4	c.T500C	p.F167S	GGTGGTTCTTACG	.	PASS	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88536460	88536460	+	Silent	SNP	C	C	T	rs199691318	bycluster	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	91	18	177	0	0.197802	0	.	.	weak	.	DSPP	174	.	NM_014208	exon5	c.C2646T	p.S882S	TGATAGCAGTGAC	.	PASS	Atlas-SNP
NAV1	89796	hgsc.bcm.edu	37	1	201779198	201779198	+	Missense_Mutation	SNP	G	G	A	rs201416032	bycluster	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	164	10	122	0	0.0609756	0	G|0.999;A|0.001	0.001	weak	NAV1,right_upper_lobe,carcinoma,0,2	NAV1	143	2	NM_020443	exon23	c.G4526A	p.R1509H	CTTGCCGTCGAGG	.	PASS	Atlas-SNP
CDH5	1003	hgsc.bcm.edu	37	16	66423409	66423409	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	82	5	129	0	0.0609756	0	.	.	none	.	CDH5	111	.	NM_001795	exon5	c.C765T	p.F255F	CAACTTCCCCTTC	.	PASS	Atlas-SNP
ZNF285	26974	hgsc.bcm.edu	37	19	44891202	44891202	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	52	4	53	1	0.0769231	0.0188679	.	.	none	ZNF285,NS,carcinoma,0,2	ZNF285	86	2	NM_152354	exon4	c.G1205C	p.C402S	TCACTGCATTTGT	.	scavenged	Atlas-SNP
ALMS1	7840	hgsc.bcm.edu	37	2	73680673	73680673	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	110	2	70	0	0.0181818	0	.	.	none	ALMS1,colon,carcinoma,-1,1	ALMS1	384	1	NM_015120	exon8	c.C7016T	p.T2339M	CACAGACGAATTT	.	scavenged	Atlas-SNP
ZNF799	90576	hgsc.bcm.edu	37	19	12501466	12501466	+	Silent	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	232	4	174	2	0.0172414	0.0114943	.	.	none	ZNF799_ENST00000430385,NS,malignant_melanoma,0,2	ZNF799	111	2	NM_001080821	exon4	c.T1746C	p.H582H	TCCAGTATGAGTT	.	scavenged	Atlas-SNP
KIAA0226L	80183	hgsc.bcm.edu	37	13	46942917	46942917	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	74	7	61	4	0.0945946	0.0655738	.	.	none	KIAA0226L,colon,carcinoma,+1,1	KIAA0226L	63	1	NM_025113	exon4	c.C569T	p.S190L	GAATTCGAAGAAA	.	scavenged	Atlas-SNP
KCNQ3	3786	hgsc.bcm.edu	37	8	133186530	133186530	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	150	45	94	0	0.3	0	.	.	none	.	KCNQ3	164	.	NM_004519	exon6	c.G1000A	p.A334T	AGGTGGCGGCAAT	.	PASS	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	37	8	3141793	3141793	+	Silent	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	64	22	51	0	0.34375	0	.	.	none	.	CSMD1	1469	.	NM_033225	exon26	c.C4026T	p.D1342D	CAGGATGTCACTG	.	PASS	Atlas-SNP
ALDH9A1	223	hgsc.bcm.edu	37	1	165652258	165652258	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	92	4	64	0	0.0434783	0	.	.	none	.	ALDH9A1	75	.	NM_000696	exon3	c.G417A	p.Q139Q	CAGGCACTGCCAG	.	PASS	Atlas-SNP
NQO1	1728	hgsc.bcm.edu	37	16	69745172	69745172	+	Missense_Mutation	SNP	G	G	A	rs148539025	bycluster	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	86	4	76	0	0.0465116	0	G|1.000;A|0.000	0.000	weak	.	NQO1	21	.	NM_000903	exon6	c.C532T	p.H178Y	AGAAATGCAGAAT	.	PASS	Atlas-SNP
SCN1A	6323	hgsc.bcm.edu	37	2	166930113	166930113	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	154	2	136	0	0.012987	0	.	.	none	SCN1A,NS,carcinoma,0,1	SCN1A	641	1	NM_001165964	exon1	c.G19T	p.V7L	GTGGTACAAGCAC	.	scavenged	Atlas-SNP
MMP20	9313	hgsc.bcm.edu	37	11	102487591	102487591	+	Missense_Mutation	SNP	C	C	T	rs146053692	bycluster;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	324	6	211	0	0.0185185	0	C|0.999;T|0.001	0.001	strong	MMP20,NS,carcinoma,-1,1	MMP20	52	1	NM_004771	exon2	c.G326A	p.R109H	AAGAGGCGATAAT	.	scavenged	Atlas-SNP
ZNF628	89887	hgsc.bcm.edu	37	19	55994387	55994387	+	Silent	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	121	3	93	0	0.0247934	0	.	.	none	ZNF628_ENST00000391718,NS,carcinoma,+2,2	ZNF628	75	2	NM_033113	exon3	c.G1827A	p.L609L	CAACCTGCTGCTG	.	scavenged	Atlas-SNP
RAPGEF3	10411	hgsc.bcm.edu	37	12	48144895	48144895	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	184	42	91	0	0.228261	0	.	.	none	.	RAPGEF3	98	.	NM_001098531	exon6	c.G607A	p.E203K	CAGCTTCGGCCAA	.	PASS	Atlas-SNP
OR5H1	26341	hgsc.bcm.edu	37	3	97851689	97851689	+	Missense_Mutation	SNP	T	T	C	rs201501927	byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	1097	15	913	8	0.0136737	0.00876232	T|0.796;C|0.204	0.204	strong	OR5H1,NS,carcinoma,0,4	OR5H1	71	4	NM_001005338	exon1	c.T148C	p.W50R	GTCATCTGGAAAG	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506482	195506482	+	Missense_Mutation	SNP	G	G	T	rs113936020	bycluster	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	18	6	7	1	0.333333	0.142857	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,-1,1	MUC4	1505	1	NM_018406	exon2	c.C11969A	p.T3990N	GAGGAAGTGTCGG	.	scavenged	Atlas-SNP
C6	729	hgsc.bcm.edu	37	5	41199992	41199992	+	Missense_Mutation	SNP	C	C	T	rs200213547	bycluster	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	144	64	95	0	0.444444	0	.	.	weak	.	C6	197	.	NM_001115131	exon4	c.G323A	p.R108H	CTGGGACGCAAGA	.	PASS	Atlas-SNP
WFDC9	259240	hgsc.bcm.edu	37	20	44238795	44238795	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	120	54	131	0	0.45	0	.	.	none	.	WFDC9	10	.	NM_147198	exon3	c.T26C	p.V9A	AACATGACGAGTA	.	PASS	Atlas-SNP
SLC5A5	6528	hgsc.bcm.edu	37	19	17992828	17992828	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	166	2	135	0	0.0120482	0	.	.	none	SLC5A5,rectum,carcinoma,-1,1	SLC5A5	67	1	NM_000453	exon9	c.C1118T	p.P373L	TCAAACCTCGGCT	.	scavenged	Atlas-SNP
CES3	23491	hgsc.bcm.edu	37	16	67005096	67005096	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	76	2	114	2	0.0263158	0.0175439	.	.	none	CES3,NS,carcinoma,0,1	CES3	56	1	NM_024922	exon10	c.C1165T	p.P389S	ATGATGCCCACCG	.	scavenged	Atlas-SNP
ZNF880	400713	hgsc.bcm.edu	37	19	52888050	52888050	+	Missense_Mutation	SNP	A	A	G	rs76053634	bycluster;byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	38	13	33	6	0.342105	0.181818	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
SRRM1	10250	hgsc.bcm.edu	37	1	24993374	24993374	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	238	5	170	1	0.0210084	0.00588235	.	.	none	SRRM1,bladder,carcinoma,0,2	SRRM1	81	2	NM_005839	exon13	c.C1697A	p.P566H	CCCCTCCTCCTCG	.	scavenged	Atlas-SNP
CUL1	8454	hgsc.bcm.edu	37	7	148486911	148486911	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	138	3	105	0	0.0217391	0	.	.	none	CUL1,NS,carcinoma,0,1	CUL1	80	1	NM_003592	exon15	c.C1667T	p.P556L	CCTTGCCGTCAGA	.	scavenged	Atlas-SNP
RYR2	6262	hgsc.bcm.edu	37	1	237777420	237777420	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	114	2	178	0	0.0175439	0	.	.	none	RYR2,NS,carcinoma,+2,1	RYR2	1273	1	NM_001035	exon37	c.C4992T	p.V1664V	AGCCGTCTGTGCT	.	scavenged	Atlas-SNP
RPS15	6209	hgsc.bcm.edu	37	19	1440068	1440068	+	Missense_Mutation	SNP	G	G	C	rs61746286	byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	41	5	30	0	0.121951	0	G|0.442;C|0.558	0.558	strong	RPS15,extremity,malignant_melanoma,0,1	RPS15	11	1	NM_001018	exon3	c.G140C	p.R47P	TGAACCGGGGCCT	.	scavenged	Atlas-SNP
PCDHA7	56141	hgsc.bcm.edu	37	5	140215022	140215022	+	Missense_Mutation	SNP	C	C	A	rs150063888	alternate_allele	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	389	8	355	4	0.0205656	0.0112676	.	.	alt	PCDHA7,shoulder,malignant_melanoma,0,1	PCDHA7	367	1	NM_031852	exon1	c.C1054A	p.L352I	TTGACTCTCACTT	.	scavenged	Atlas-SNP
JAG1	182	hgsc.bcm.edu	37	20	10639293	10639293	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	190	2	128	0	0.0105263	0	.	.	none	JAG1_ENST00000254958,NS,carcinoma,+2,2	JAG1	213	2	NM_000214	exon4	c.A517G	p.N173D	CCGTGTTCTGCTT	.	scavenged	Atlas-SNP
SUPT6H	6830	hgsc.bcm.edu	37	17	27010108	27010108	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	70	31	56	0	0.442857	0	.	.	none	.	SUPT6H	165	.	NM_003170	exon15	c.A1876G	p.K626E	GGTAGAAAGGTGA	.	PASS	Atlas-SNP
ARMC4	55130	hgsc.bcm.edu	37	10	28250635	28250635	+	Silent	SNP	A	A	C	rs75389371		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	155	12	139	2	0.0774194	0.0143885	.	.	weak	ARMC4,NS,carcinoma,0,1	ARMC4	177	1	NM_018076	exon10	c.T1248G	p.A416A	CTTTTCAGCACTC	.	scavenged	Atlas-SNP
AFM	173	hgsc.bcm.edu	37	4	74361142	74361142	+	Missense_Mutation	SNP	G	G	A	rs41265665	bycluster;byfrequency;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	26	18	63	0	0.692308	0	G|0.966;A|0.034	0.034	strong	.	AFM	101	.	NM_001133	exon9	c.G1184A	p.R395H	GTTACCGTTACGC	.	PASS	Atlas-SNP
P2RX3	5024	hgsc.bcm.edu	37	11	57106058	57106058	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	336	8	218	1	0.0238095	0.00458716	.	.	none	P2RX3,NS,carcinoma,-2,1	P2RX3	55	1	NM_002559	exon1	c.A34G	p.T12A	TATGAGACCACCA	.	scavenged	Atlas-SNP
GPRIN3	285513	hgsc.bcm.edu	37	4	90170368	90170368	+	Silent	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	115	5	141	0	0.0434783	0	.	.	none	.	GPRIN3	90	.	NM_198281	exon2	c.C894T	p.A298A	CGTACTGGCTTCT	.	PASS	Atlas-SNP
H2AFY2	55506	hgsc.bcm.edu	37	10	71835546	71835546	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	162	73	136	0	0.450617	0	.	.	none	.	H2AFY2	30	.	NM_018649	exon2	c.C132T	p.G44G	CGTGGGCGCCCCT	.	PASS	Atlas-SNP
ORC1	4998	hgsc.bcm.edu	37	1	52838903	52838903	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	148	61	146	0	0.412162	0	.	.	none	.	ORC1	79	.	NM_004153	exon17	c.C2536T	p.R846W	TGAGCCGCACCCG	.	PASS	Atlas-SNP
ANO7	50636	hgsc.bcm.edu	37	2	242149776	242149776	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	191	4	159	3	0.0209424	0.0188679	.	.	none	ANO7,leg,malignant_melanoma,-2,2	ANO7	136	2	NM_001001891	exon14	c.T1588C	p.S530P	GTGGTGTCCAGGT	.	scavenged	Atlas-SNP
MED12L	116931	hgsc.bcm.edu	37	3	150881802	150881802	+	Silent	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	134	2	105	0	0.0149254	0	.	.	none	MED12L,NS,carcinoma,+1,1	MED12L	271	1	NM_053002	exon8	c.G1230A	p.P410P	CATGCCGGGTGGG	.	scavenged	Atlas-SNP
COL22A1	169044	hgsc.bcm.edu	37	8	139833539	139833539	+	Missense_Mutation	SNP	C	C	T	rs146329974	bycluster;byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	228	6	172	0	0.0263158	0	C|1.000;T|0.000	0.000	strong	COL22A1,colon,carcinoma,0,1	COL22A1	390	1	NM_152888	exon7	c.G1085A	p.R362Q	CAGTCCCGGTCAA	.	scavenged	Atlas-SNP
CDHR5	53841	hgsc.bcm.edu	37	11	618688	618688	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	286	4	304	1	0.013986	0.00328947	.	.	none	CDHR5,NS,carcinoma,-1,1	CDHR5	77	1	NM_021924	exon13	c.A1871G	p.Q624R	GTTGGTTGGTGGG	.	scavenged	Atlas-SNP
POC5	134359	hgsc.bcm.edu	37	5	74970335	74970335	+	Silent	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	271	3	222	0	0.0110701	0	.	.	none	POC5_ENST00000428202,NS,neuroblastoma,-2,2	POC5	82	2	NM_001099271	exon12	c.T1653C	p.A551A	TCTGGAAGCTGAG	.	scavenged	Atlas-SNP
HSPD1	3329	hgsc.bcm.edu	37	2	198363534	198363534	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	263	7	291	3	0.026616	0.0103093	.	.	none	HSPD1_ENST00000426480,NS,haematopoietic_neoplasm,0,3	HSPD1	68	3	NM_002156	exon2	c.G39A	p.P13P	GGACACCGGTCTC	.	scavenged	Atlas-SNP
ZNF195	7748	hgsc.bcm.edu	37	11	3380465	3380465	+	Silent	SNP	T	T	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	65	2	66	2	0.0307692	0.030303	.	.	none	ZNF195,NS,carcinoma,-2,1	ZNF195	77	1	NM_001130520	exon6	c.A1773C	p.S591S	AAGGTTTGAGGAC	.	scavenged	Atlas-SNP
ACIN1	22985	hgsc.bcm.edu	37	14	23548793	23548793	+	Missense_Mutation	SNP	C	C	T	rs80007670	bycluster;byfrequency;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	204	11	160	0	0.0539216	0	C|0.994;T|0.006	0.006	strong	.	ACIN1	147	.	NM_001164814	exon6	c.G1925A	p.R642H	CGTGAACGTGACC	.	PASS	Atlas-SNP
CLN5	1203	hgsc.bcm.edu	37	13	77570183	77570183	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	110	3	184	0	0.0272727	0	.	.	none	CLN5,caecum,carcinoma,0,1	CLN5	32	1	NM_006493	exon3	c.C633T	p.G211G	TCAAGGCGCTGCC	.	scavenged	Atlas-SNP
ZNF224	7767	hgsc.bcm.edu	37	19	44605366	44605366	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	43	21	87	0	0.488372	0	.	.	none	.	ZNF224	70	.	NM_013398	exon5	c.G223T	p.E75X	CAAAGGGAAGGGA	.	PASS	Atlas-SNP
TECPR2	9895	hgsc.bcm.edu	37	14	102843128	102843128	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	314	4	210	2	0.0127389	0.00952381	.	.	none	TECPR2,caecum,carcinoma,-2,1	TECPR2	114	1	NM_001172631	exon2	c.C70T	p.P24S	GCCATTCCGACAA	.	scavenged	Atlas-SNP
WTAP	9589	hgsc.bcm.edu	37	6	160174529	160174529	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	158	2	148	0	0.0126582	0	.	.	none	WTAP,bladder,carcinoma,-1,1	WTAP	44	1	NM_001270531	exon7	c.C490T	p.L164F	CGAATGCTTATCC	.	scavenged	Atlas-SNP
RNF40	9810	hgsc.bcm.edu	37	16	30776604	30776604	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	118	2	87	0	0.0169492	0	.	.	none	RNF40,NS,carcinoma,-1,2	RNF40	83	2	NM_014771	exon7	c.C874T	p.R292X	CGGAAGCGAGAGC	.	scavenged	Atlas-SNP
MAGI2	9863	hgsc.bcm.edu	37	7	77885700	77885700	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	278	124	267	0	0.446043	0	.	.	none	.	MAGI2	246	.	NM_012301	exon10	c.T1607C	p.V536A	ACCATCACTGGAG	.	PASS	Atlas-SNP
RNF213	57674	hgsc.bcm.edu	37	17	78332155	78332155	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	123	6	121	0	0.0487805	0	.	.	none	.	RNF213	766	.	NM_001256071	exon37	c.G10930A	p.D3644N	TTCATCGACAGAG	.	PASS	Atlas-SNP
OR6Q1	219952	hgsc.bcm.edu	37	11	57799050	57799050	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	450	6	230	1	0.0133333	0.00434783	.	.	none	OR6Q1,NS,carcinoma,+1,1	OR6Q1	58	1	NM_001005186	exon1	c.C626T	p.A209V	CTCTGGCTGTGCT	.	scavenged	Atlas-SNP
CDH5	1003	hgsc.bcm.edu	37	16	66423379	66423379	+	Silent	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	91	57	144	0	0.626374	0	.	.	none	.	CDH5	111	.	NM_001795	exon5	c.G735A	p.L245L	CGTGCTGGTCACT	.	PASS	Atlas-SNP
KRTAP19-7	337974	hgsc.bcm.edu	37	21	31933581	31933581	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	304	4	198	0	0.0131579	0	.	.	none	KRTAP19-7,colon,carcinoma,0,1	KRTAP19-7	23	1	NM_181614	exon1	c.G28A	p.G10S	CTAGGCCTCCATA	.	scavenged	Atlas-SNP
ATF7IP	55729	hgsc.bcm.edu	37	12	14578150	14578150	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	126	49	118	0	0.388889	0	.	.	none	.	ATF7IP	136	.	NM_018179	exon2	c.A1301G	p.E434G	CAGATGAAATCAT	.	PASS	Atlas-SNP
ZNF285	26974	hgsc.bcm.edu	37	19	44891126	44891126	+	Silent	SNP	T	T	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	90	3	75	0	0.0333333	0	.	.	none	ZNF285,NS,carcinoma,0,1	ZNF285	86	1	NM_152354	exon4	c.A1281T	p.P427P	CCTATATGGTTTC	.	scavenged	Atlas-SNP
SSR1	6745	hgsc.bcm.edu	37	6	7313275	7313275	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	80	42	69	0	0.525	0	.	.	none	.	SSR1	21	.	NM_003144	exon1	c.G79A	p.G27S	CCTCACCTCTGGG	.	PASS	Atlas-SNP
POMT2	29954	hgsc.bcm.edu	37	14	77746416	77746416	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	116	54	114	0	0.465517	0	.	.	none	POMT2,colon,carcinoma,-1,2	POMT2	47	2	NM_013382	exon17	c.G1733A	p.R578H	GAGAAGCGTAGGC	.	PASS	Atlas-SNP
NPHS2	7827	hgsc.bcm.edu	37	1	179526214	179526214	+	Missense_Mutation	SNP	C	C	T	rs61747728	bycluster;byfrequency;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	281	4	259	0	0.0142349	0	C|0.974;T|0.026	0.026	strong	NPHS2,caecum,carcinoma,-1,1	NPHS2	46	1	NM_014625	exon5	c.G686A	p.R229Q	AGGGATCGATGTG	.	scavenged	Atlas-SNP
GPR20	2843	hgsc.bcm.edu	37	8	142367400	142367400	+	Silent	SNP	G	G	A	rs11167054	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	8	4	2	1	0.5	0.5	G|0.248;A|0.752	0.752	strong	GPR20,NS,carcinoma,0,2	GPR20	43	2	NM_005293	exon2	c.C624T	p.P208P	CAGCAGGGGCAGC	.	scavenged	Atlas-SNP
LITAF	9516	hgsc.bcm.edu	37	16	11650529	11650529	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	309	40	177	0	0.12945	0	.	.	none	.	LITAF	16	.	NM_001136473	exon2	c.C58T	p.P20S	ATGGAGGTGCGGA	.	PASS	Atlas-SNP
SLC44A5	204962	hgsc.bcm.edu	37	1	75685006	75685006	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	87	3	83	0	0.0344828	0	.	.	none	SLC44A5,caecum,carcinoma,-1,1	SLC44A5	231	1	NM_152697	exon16	c.C1202A	p.P401H	TATACAGGTACCC	.	scavenged	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50746166	50746166	+	Silent	SNP	G	G	C	rs368983791		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	854	12	277	3	0.0140515	0.0108303	.	.	weak	FAM186A_ENST00000327337,NS,carcinoma,0,3	FAM186A	181	3	NM_001145475	exon4	c.C4449G	p.L1483L	AGGGATGAGAGGG	.	scavenged	Atlas-SNP
SMC5	23137	hgsc.bcm.edu	37	9	72897468	72897468	+	Missense_Mutation	SNP	G	G	A	rs115131883	bycluster;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	247	103	257	0	0.417004	0	G|1.000;A|0.000	0.000	strong	.	SMC5	96	.	NM_015110	exon7	c.G950A	p.R317H	ACGAGCGTCACAA	.	PASS	Atlas-SNP
OR8U1	219417	hgsc.bcm.edu	37	11	56143360	56143360	+	Silent	SNP	C	C	T	rs79469149	bycluster;byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	177	17	90	7	0.0960452	0.0777778	C|0.852;T|0.148	0.148	strong	OR8U1,rectum,carcinoma,0,1	OR8U1	59	1	NM_001005204	exon1	c.C261T	p.Y87Y	CTTGTACAAACAA	.	scavenged	Atlas-SNP
RRAS2	22800	hgsc.bcm.edu	37	11	14300971	14300971	+	Splice_Site	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	107	5	124	0	0.046729	0	.	.	none	.	RRAS2	29	.	NM_012250	exon7	c.528-1G>A	.	AATTTCCTGTAAG	.	PASS	Atlas-SNP
KCNT1	57582	hgsc.bcm.edu	37	9	138671231	138671231	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	101	46	92	0	0.455446	0	.	.	none	.	KCNT1	139	.	NM_020822	exon24	c.C2756T	p.T919M	TCACCACGGAGCT	.	PASS	Atlas-SNP
SFXN5	94097	hgsc.bcm.edu	37	2	73215387	73215387	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	91	4	61	0	0.043956	0	.	.	none	.	SFXN5	31	.	NM_144579	exon10	c.G625A	p.A209T	TCTTACCTACAGC	.	PASS	Atlas-SNP
PRAMEF1	65121	hgsc.bcm.edu	37	1	12855752	12855752	+	Silent	SNP	G	G	A	rs80197258	bycluster;byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	862	13	764	9	0.0150812	0.0117801	G|0.997;A|0.003	0.003	strong	PRAMEF1,NS,carcinoma,0,2	PRAMEF1	78	2	NM_023013	exon4	c.G1032A	p.L344L	TCTGCTGGAGAAA	.	scavenged	Atlas-SNP
LCE1F	353137	hgsc.bcm.edu	37	1	152749039	152749039	+	Silent	SNP	T	T	C	rs202038292	byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	46	12	81	1	0.26087	0.0123457	T|0.954;C|0.046	0.046	strong	LCE1F,NS,carcinoma,+2,1	LCE1F	42	1	NM_178354	exon1	c.T192C	p.G64G	TGGGGGTGGTGGC	.	scavenged	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88536451	88536451	+	Silent	SNP	C	C	T	rs141946550		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	95	18	180	0	0.189474	0	.	.	weak	DSPP,colon,carcinoma,0,1	DSPP	174	1	NM_014208	exon5	c.C2637T	p.S879S	TGACAGCAGTGAT	.	PASS	Atlas-SNP
XPNPEP3	63929	hgsc.bcm.edu	37	22	41305142	41305142	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	190	4	303	2	0.0210526	0.00660066	.	.	none	XPNPEP3,NS,carcinoma,0,1	XPNPEP3	46	1	NM_022098	exon6	c.G872A	p.R291Q	AATGCCGGGCTCG	.	scavenged	Atlas-SNP
UBXN11	91544	hgsc.bcm.edu	37	1	26608867	26608867	+	Missense_Mutation	SNP	C	C	A	rs193142354	bycluster;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	26	7	26	2	0.269231	0.0769231	C|0.880;A|0.120	0.120	strong	UBXN11,colon,carcinoma,0,2	UBXN11	54	2	NM_183008	exon16	c.G1486T	p.G496C	CGGGACCGGGACT	.	scavenged	Atlas-SNP
PLEKHA7	144100	hgsc.bcm.edu	37	11	17035718	17035718	+	Silent	SNP	A	A	G	rs61881311	bycluster;byfrequency;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	15	15	0	0	1	.	A|0.305;G|0.695	0.695	strong	.	PLEKHA7	120	.	NM_175058	exon2	c.T117C	p.H39H	GCGCGGATGCAGC	.	PASS	Atlas-SNP
PDE9A	5152	hgsc.bcm.edu	37	21	44181017	44181017	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	144	3	86	0	0.0208333	0	.	.	none	PDE9A,NS,carcinoma,0,1	PDE9A	69	1	NM_002606	exon13	c.C1085T	p.T362M	ACAACACGTATGT	.	scavenged	Atlas-SNP
PEG3	5178	hgsc.bcm.edu	37	19	57325511	57325511	+	Silent	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	179	3	156	0	0.0167598	0	.	.	none	ZIM2_ENST00000326441,NS,carcinoma,-1,2	PEG3	414	2	NM_001146184	exon9	c.T4299C	p.I1433I	CTCTCCAATGGGC	.	scavenged	Atlas-SNP
FLT1	2321	hgsc.bcm.edu	37	13	28964201	28964201	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	99	2	91	0	0.020202	0	.	.	none	FLT1_ENST00000541932,rectum,carcinoma,-1,2	FLT1	393	2	NM_002019	exon13	c.G1701A	p.P567P	TTCCGTCGGCATT	.	scavenged	Atlas-SNP
MTF1	4520	hgsc.bcm.edu	37	1	38305756	38305756	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	301	3	226	0	0.00996678	0	.	.	none	MTF1,NS,NS,0,1	MTF1	67	1	NM_005955	exon3	c.G483A	p.Q161Q	AGTCTTCTGGTGG	.	scavenged	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152284649	152284649	+	Missense_Mutation	SNP	C	C	T	rs142623038	bycluster;byfrequency;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	265	5	419	5	0.0188679	0.0119332	C|0.995;T|0.005	0.005	strong	FLG,NS,carcinoma,+1,1	FLG	900	1	NM_002016	exon3	c.G2713A	p.G905S	TGGAGCCGTCTCT	.	scavenged	Atlas-SNP
DST	667	hgsc.bcm.edu	37	6	56374517	56374517	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	239	94	219	0	0.393305	0	.	.	none	.	DST	1427	.	NM_015548	exon55	c.T11066C	p.L3689S	TCATACAACGGCT	.	PASS	Atlas-SNP
MAML2	84441	hgsc.bcm.edu	37	11	95825404	95825404	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	194	4	117	2	0.0206186	0.017094	.	.	none	MAML2,caecum,carcinoma,0,1	MAML2	94	1	NM_032427	exon2	c.G1791A	p.Q597Q	CTGCTGCTGCTGC	.	scavenged	Atlas-SNP
CD8B	926	hgsc.bcm.edu	37	2	87085302	87085302	+	Missense_Mutation	SNP	C	C	G	rs201066720	bycluster;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	480	17	317	12	0.0354167	0.0378549	C|0.921;G|0.079	0.079	strong	CD8B,colon,carcinoma,-1,1	CD8B	37	1	NM_004931	exon2	c.G281C	p.R94P	GCATCCCGAAACA	.	scavenged	Atlas-SNP
TMEM169	92691	hgsc.bcm.edu	37	2	216965057	216965057	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	259	3	174	0	0.011583	0	.	.	none	TMEM169,NS,carcinoma,+1,1	TMEM169	46	1	NM_001142310	exon4	c.C686T	p.A229V	TCTACGCTGCTGT	.	scavenged	Atlas-SNP
PHGR1	644844	hgsc.bcm.edu	37	15	40648372	40648372	+	Silent	SNP	T	T	C	rs12900982	bycluster;byfrequency;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	5	4	4	0	0.8	0	T|0.839;C|0.161	0.161	strong	PHGR1,rectum,carcinoma,0,2	PHGR1	14	2	NM_001145643	exon3	c.T117C	p.G39G	CCATGGTCCAGGG	.	scavenged	Atlas-SNP
TNFRSF10C	8794	hgsc.bcm.edu	37	8	22974360	22974360	+	Missense_Mutation	SNP	C	C	A	rs12550828	bycluster;by2hit2allele;byhapmap	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	181	9	148	6	0.0497238	0.0405405	C|1.000;|0.000	.	weak	TNFRSF10C,colon,carcinoma,0,3	TNFRSF10C	30	3	NM_003841	exon5	c.C596A	p.T199N	CAATGACCACCAG	.	scavenged	Atlas-SNP
TBC1D3F	84218	hgsc.bcm.edu	37	17	36339597	36339597	+	Missense_Mutation	SNP	G	G	T	rs373252714		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	9	5	5	0	0.555556	0	.	.	weak	TBC1D3_ENST00000537432,NS,carcinoma,0,4	TBC1D3F	14	4	NM_032258	exon13	c.C1060A	p.Q354K	CCCCCTGCTTTCT	.	scavenged	Atlas-SNP
FAM47C	442444	hgsc.bcm.edu	37	X	37028314	37028314	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	227	94	178	0	0.414097	0	.	.	none	.	FAM47C	267	.	NM_001013736	exon1	c.C1831T	p.P611S	GAGCCTCCAGAGA	.	PASS	Atlas-SNP
ARNTL2	56938	hgsc.bcm.edu	37	12	27573380	27573380	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	121	2	107	2	0.0165289	0.0186916	.	.	none	ARNTL2,NS,carcinoma,-1,1	ARNTL2	54	1	NM_020183	exon17	c.C1826T	p.A609V	ACACAGCCATGGC	.	scavenged	Atlas-SNP
CUL2	8453	hgsc.bcm.edu	37	10	35317807	35317807	+	Silent	SNP	C	C	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	113	2	133	0	0.0176991	0	.	.	none	CUL2,caecum,carcinoma,-1,2	CUL2	63	2	NM_001198778	exon16	c.G1605T	p.A535A	AGGCCACGCACCA	.	scavenged	Atlas-SNP
GAD2	2572	hgsc.bcm.edu	37	10	26508109	26508109	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	87	4	81	0	0.045977	0	.	.	none	.	GAD2	116	.	NM_000818	exon4	c.C424T	p.L142F	GAGCTTCTCCAAG	.	PASS	Atlas-SNP
PRAMEF11	440560	hgsc.bcm.edu	37	1	12887686	12887686	+	Silent	SNP	T	T	C	rs59802947	bycluster;byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	53	5	41	0	0.0943396	0	T|0.986;C|0.014	0.014	strong	PRAMEF11,NS,carcinoma,0,1	PRAMEF11	72	1	NM_001146344	exon3	c.A171G	p.R57R	TTTCCATCTCCTG	.	scavenged	Atlas-SNP
CYP2J2	1573	hgsc.bcm.edu	37	1	60381646	60381646	+	Missense_Mutation	SNP	C	C	T	rs11572242	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	128	44	88	0	0.34375	0	C|0.998;T|0.002	0.002	strong	CYP2J2,colon,carcinoma,0,1	CYP2J2	34	1	NM_000775	exon2	c.G337A	p.V113M	GGGTCACGGGGCG	.	PASS	Atlas-SNP
XYLB	9942	hgsc.bcm.edu	37	3	38415956	38415956	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	240	3	218	0	0.0125	0	.	.	none	XYLB,bladder,carcinoma,0,2	XYLB	50	2	NM_005108	exon11	c.C851T	p.S284L	CAGCGTCGCTGGC	.	scavenged	Atlas-SNP
TMC7	79905	hgsc.bcm.edu	37	16	19027805	19027805	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	322	4	113	0	0.0124224	0	.	.	none	TMC7,NS,carcinoma,+1,1	TMC7	75	1	NM_024847	exon3	c.C345T	p.S115S	TCTCTCCGAATGG	.	scavenged	Atlas-SNP
POTEF	728378	hgsc.bcm.edu	37	2	130872529	130872529	+	Silent	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	816	2	1281	2	0.00245098	0.00156128	.	.	none	POTEF,NS,carcinoma,0,2	POTEF	140	2	NM_001099771	exon5	c.C735T	p.Y245Y	GATAGCGTAGTGC	.	scavenged	Atlas-SNP
KRTAP5-4	387267	hgsc.bcm.edu	37	11	1643246	1643246	+	Silent	SNP	A	A	G	rs142004120	by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	197	33	120	12	0.167513	0.1	A|0.886;G|0.114	0.114	strong	KRTAP5-4,colon,carcinoma,0,2	KRTAP5-4	78	2	NM_001012709	exon1	c.T78C	p.S26S	ACAGCCAGAGCCA	.	scavenged	Atlas-SNP
RUNX1	861	hgsc.bcm.edu	37	21	36252870	36252870	+	Silent	SNP	G	G	A	rs200907577	bycluster	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	213	4	122	0	0.0187793	0	G|0.999;A|0.001	0.001	weak	RUNX1,NS,lymphoid_neoplasm,-1,1	RUNX1	687	1	NM_001754	exon5	c.C492T	p.V164V	TCGACCGACAAAC	.	scavenged	Atlas-SNP
ULK4	54986	hgsc.bcm.edu	37	3	41723017	41723017	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	161	4	135	1	0.0248447	0.00740741	.	.	none	ULK4_ENST00000301831,colon,carcinoma,0,2	ULK4	150	2	NM_017886	exon29	c.G2960A	p.R987Q	ACATCTCGAATGA	.	scavenged	Atlas-SNP
MICU1	10367	hgsc.bcm.edu	37	10	74183072	74183072	+	Silent	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	149	54	136	0	0.362416	0	.	.	none	.	.	.	.	NM_001195518	exon9	c.C991T	p.L331L	CAAGTAGCATGCC	.	PASS	Atlas-SNP
ZNF285	26974	hgsc.bcm.edu	37	19	44891217	44891217	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	57	4	53	0	0.0701754	0	.	.	none	ZNF285,NS,carcinoma,0,2	ZNF285	86	2	NM_152354	exon4	c.A1190G	p.E397G	GGCTTCTCTCCAG	.	scavenged	Atlas-SNP
BRSK2	9024	hgsc.bcm.edu	37	11	1467077	1467077	+	Missense_Mutation	SNP	C	C	T	rs368418167		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	61	32	43	0	0.52459	0	.	.	weak	.	BRSK2	97	.	NM_001256630	exon12	c.C1304T	p.T435M	GCGTGACGGACGG	.	PASS	Atlas-SNP
DOCK1	1793	hgsc.bcm.edu	37	10	129209114	129209114	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	60	23	70	0	0.383333	0	.	.	none	.	DOCK1	188	.	NM_001380	exon43	c.G4291T	p.V1431L	TACAGGGTGAACG	.	PASS	Atlas-SNP
SIRPA	140885	hgsc.bcm.edu	37	20	1896052	1896052	+	Silent	SNP	C	C	T	rs202172737	by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	110	107	69	68	0.972727	0.985507	C|0.872;T|0.128	0.128	strong	SIRPA,NS,carcinoma,0,1	SIRPA	83	1	NM_001040022	exon3	c.C387T	p.P129P	GAGCCCCGATGAC	.	scavenged	Atlas-SNP
C17orf78	284099	hgsc.bcm.edu	37	17	35736170	35736170	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	124	2	97	0	0.016129	0	.	.	none	C17orf78,colon,carcinoma,0,1	C17orf78	23	1	NM_173625	exon3	c.C241T	p.L81F	GTCAACCTTGTAT	.	scavenged	Atlas-SNP
KRTAP10-2	386679	hgsc.bcm.edu	37	21	45970774	45970774	+	Missense_Mutation	SNP	G	G	A	rs76536096	bycluster;byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	201	12	95	0	0.0597015	0	G|0.917;A|0.083	0.083	strong	.	KRTAP10-2	21	.	NM_198693	exon1	c.C568T	p.P190S	AGACAGGCTTGCA	.	PASS	Atlas-SNP
DGKB	1607	hgsc.bcm.edu	37	7	14378196	14378196	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	180	64	156	0	0.355556	0	.	.	none	DGKB,NS,carcinoma,0,1	DGKB	166	1	NM_145695	exon22	c.G2069T	p.G690V	TCAGACCCTTTTT	.	PASS	Atlas-SNP
ZNF443	10224	hgsc.bcm.edu	37	19	12541141	12541141	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	212	5	218	2	0.0235849	0.00917431	.	.	none	ZNF443,lower_third,carcinoma,-1,1	ZNF443	63	1	NM_005815	exon4	c.G1845A	p.P615P	TTCATACGGGTTC	.	scavenged	Atlas-SNP
FKBP9	11328	hgsc.bcm.edu	37	7	33014908	33014908	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	110	7	137	4	0.0636364	0.0291971	.	.	none	FKBP9,brain,glioma,0,9	FKBP9	335	9	NM_007270	exon3	c.G482A	p.R161Q	GCCCTCGGACCAT	.	scavenged	Atlas-SNP
SUMO2	6613	hgsc.bcm.edu	37	17	73177275	73177275	+	Silent	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	115	60	131	0	0.521739	0	.	.	none	.	SUMO2	4	.	NM_006937	exon2	c.C30T	p.V10V	AGTCTTGACTCCT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509497	195509497	+	Missense_Mutation	SNP	G	G	A	rs201925754		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	147	27	116	19	0.183673	0.163793	G|0.998;A|0.002	0.002	weak	MUC4_ENST00000463781,NS,carcinoma,-1,3	MUC4	1505	3	NM_018406	exon2	c.C8954T	p.A2985V	GTGGATGCTGAGG	.	scavenged	Atlas-SNP
FGF14	2259	hgsc.bcm.edu	37	13	102375281	102375281	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	138	3	165	0	0.0217391	0	.	.	none	FGF14_ENST00000376143,NS,carcinoma,-1,2	FGF14	86	2	NM_175929	exon5	c.G659A	p.G220E	GTTTCCCCAACAT	.	scavenged	Atlas-SNP
PLXNA4	91584	hgsc.bcm.edu	37	7	132174144	132174144	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	132	57	109	0	0.431818	0	.	.	none	.	PLXNA4	873	.	NM_001105543	exon3	c.G1278A	p.T426T	GTCCTCCGTGAAG	.	PASS	Atlas-SNP
SFSWAP	6433	hgsc.bcm.edu	37	12	132198771	132198771	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	92	4	59	0	0.0434783	0	.	.	none	.	SFSWAP	69	.	NM_001261411	exon2	c.A374G	p.E125G	TTGAGGAGGAGGC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195513590	195513590	+	Missense_Mutation	SNP	C	C	T	rs74192533	alternate_allele	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	699	29	562	16	0.0414878	0.0284698	CGGTGACAG|0.500;TGGTGACAA|0.500	.	alt	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.G4861A	p.D1621N	AAGTGTCGGTGAC	.	scavenged	Atlas-SNP
LYPLA2	11313	hgsc.bcm.edu	37	1	24121214	24121214	+	Missense_Mutation	SNP	C	C	T	rs143915461		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	185	3	174	0	0.0162162	0	.	.	weak	LYPLA2,arm,malignant_melanoma,0,1	LYPLA2	16	1	NM_007260	exon10	c.C688T	p.P230S	CTGCCTCCTGTCT	.	scavenged	Atlas-SNP
MLF1	4291	hgsc.bcm.edu	37	3	158289125	158289125	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	276	120	223	0	0.434783	0	.	.	none	.	MLF1	62	.	NM_022443	exon1	c.C36T	p.D12D	GGATGACCCCTTC	.	PASS	Atlas-SNP
KCNN3	3782	hgsc.bcm.edu	37	1	154842243	154842243	+	Silent	SNP	A	A	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	40	14	26	0	0.35	0	.	.	none	KCNN3,NS,carcinoma,0,3	KCNN3	141	3	NM_001204087	exon1	c.T198G	p.L66L	CTGCTGAAGCTGC	.	PASS	Atlas-SNP
DGKB	1607	hgsc.bcm.edu	37	7	14217692	14217692	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	48	17	62	0	0.354167	0	.	.	none	DGKB,NS,carcinoma,0,1	DGKB	166	1	NM_145695	exon23	c.G2210T	p.G737V	CGCCGGCCAGCAC	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10470003	10470003	+	Silent	SNP	C	C	T	rs200772091	bycluster	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	38	13	42	0	0.342105	0	C|0.999;T|0.001	0.001	weak	.	RP1L1	453	.	NM_178857	exon4	c.G1605A	p.S535S	GGCTGACGAGTCC	.	PASS	Atlas-SNP
TESK1	7016	hgsc.bcm.edu	37	9	35608460	35608460	+	Silent	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	68	30	60	0	0.441176	0	.	.	none	TESK1,NS,neuroblastoma,0,1	TESK1	46	1	NM_006285	exon9	c.G954A	p.L318L	GCAGCTGCCTGAG	.	PASS	Atlas-SNP
SULT1A1	6817	hgsc.bcm.edu	37	16	28618318	28618318	+	Missense_Mutation	SNP	C	C	G	rs1042014	bycluster;byfrequency;byhapmap	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	393	248	239	0	0.631043	0	C|0.970;G|0.030	0.030	strong	.	SULT1A1	53	.	NM_177534	exon4	c.G453C	p.E151D	CCCAGGCTCAGGG	.	PASS	Atlas-SNP
TCF4	6925	hgsc.bcm.edu	37	18	52896251	52896251	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	248	3	157	0	0.0120968	0	.	.	none	TCF4_ENST00000398339,right_upper_lobe,carcinoma,0,2	TCF4	178	2	NM_001243226	exon19	c.G2012A	p.R671Q	ATCCTCCGCTCCT	.	scavenged	Atlas-SNP
C1orf27	54953	hgsc.bcm.edu	37	1	186363119	186363119	+	Missense_Mutation	SNP	C	C	G	rs12084264	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	245	3	236	0	0.0122449	0	C|0.756;G|0.244	0.244	strong	C1orf27_ENST00000287859,NS,carcinoma,0,2	C1orf27	41	2	NM_017847	exon9	c.C752G	p.S251C	GTCATTCTTTTGA	.	scavenged	Atlas-SNP
POU2F2	5452	hgsc.bcm.edu	37	19	42626522	42626522	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	193	5	145	0	0.0259067	0	.	.	none	POU2F2_ENST00000292077,NS,carcinoma,+1,2	POU2F2	106	2	NM_002698	exon3	c.A103G	p.R35G	CATTTCTTTCGGT	.	scavenged	Atlas-SNP
RPUSD4	84881	hgsc.bcm.edu	37	11	126075445	126075445	+	Silent	SNP	C	C	T	rs201545291	bycluster;alternate_allele	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	226	63	111	0	0.278761	0	C|0.999;A|0.001	.	alt	.	RPUSD4	36	.	NM_032795	exon5	c.G714A	p.R238R	CGCATTCCGGCTG	.	PASS	Atlas-SNP
TDRKH	11022	hgsc.bcm.edu	37	1	151747586	151747586	+	Silent	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	151	2	258	0	0.013245	0	.	.	none	TDRKH,NS,carcinoma,0,1	TDRKH	45	1	NM_001083965	exon11	c.A1491G	p.E497E	TATGTCTTCAGGA	.	scavenged	Atlas-SNP
SF3B1	23451	hgsc.bcm.edu	37	2	198260985	198260985	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	173	3	168	0	0.017341	0	.	.	none	SF3B1,NS,malignant_melanoma,+2,2	SF3B1	1038	2	NM_012433	exon23	c.A3334G	p.T1112A	CAGTGGTACAAAC	.	scavenged	Atlas-SNP
HIAT1	64645	hgsc.bcm.edu	37	1	100547630	100547630	+	Silent	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	257	112	214	0	0.435798	0	.	.	none	.	HIAT1	46	.	NM_033055	exon12	c.G1338A	p.L446L	TGCCTTGTTTATT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506555	195506555	+	Missense_Mutation	SNP	C	C	T	rs368695884		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	44	8	35	2	0.181818	0.0571429	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.G11896A	p.A3966T	AGGTGGCGTGACC	.	scavenged	Atlas-SNP
TRIP11	9321	hgsc.bcm.edu	37	14	92472612	92472612	+	Missense_Mutation	SNP	C	C	T	rs376096662	alternate_allele	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	243	3	242	0	0.0123457	0	.	.	alt	TRIP11,NS,carcinoma,+2,1	TRIP11	184	1	NM_004239	exon11	c.G1708A	p.A570T	TTAGGGCCACTTC	.	scavenged	Atlas-SNP
CHD5	26038	hgsc.bcm.edu	37	1	6186637	6186637	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	220	6	166	1	0.0272727	0.0060241	.	.	none	CHD5_ENST00000262450,right_upper_lobe,carcinoma,-1,1	CHD5	267	1	NM_015557	exon26	c.A4073G	p.D1358G	CCCTGGTCCTCCT	.	scavenged	Atlas-SNP
UBE2E3	10477	hgsc.bcm.edu	37	2	181927517	181927517	+	Splice_Site	SNP	G	G	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	266	5	207	0	0.018797	0	.	.	none	UBE2E3,NS,carcinoma,-2,1	UBE2E3	26	1	NM_182678	exon7	c.527-1G>T	.	TTTCCAGCGGATC	.	scavenged	Atlas-SNP
KRT19	3880	hgsc.bcm.edu	37	17	39684410	39684410	+	Silent	SNP	G	G	A	rs11550883	bycluster;byfrequency;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	2	2	1	1	1	1	G|0.323;A|0.677	0.677	strong	KRT19,NS,carcinoma,0,1	KRT19	41	1	NM_002276	exon1	c.C90T	p.A30A	GCGAAAGGCGACC	.	scavenged	Atlas-SNP
P2RY8	286530	hgsc.bcm.edu	37	X	1585400	1585400	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	52	44	32	0	0.846154	0	.	.	none	.	P2RY8	53	.	NM_178129	exon2	c.C52T	p.R18W	GGTTCCGCAGCAT	.	PASS	Atlas-SNP
NPLOC4	55666	hgsc.bcm.edu	37	17	79532602	79532602	+	Missense_Mutation	SNP	C	C	T	rs371370139		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	32	4	34	0	0.125	0	.	.	weak	.	NPLOC4	27	.	NM_017921	exon16	c.G1598A	p.R533Q	CTGGTCCGCACGG	.	PASS	Atlas-SNP
INPP5F	22876	hgsc.bcm.edu	37	10	121586927	121586927	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	142	4	124	0	0.028169	0	.	.	none	INPP5F,colon,carcinoma,-2,3	INPP5F	112	3	NM_014937	exon20	c.T3034C	p.S1012P	CGGCCATCGCAAT	.	scavenged	Atlas-SNP
COX10	1352	hgsc.bcm.edu	37	17	14095348	14095348	+	Silent	SNP	G	G	A	rs34362247	byfrequency;alternate_allele	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	133	8	108	2	0.0601504	0.0185185	T|0.054;A|0.946	0.946	alt	COX10,NS,carcinoma,+1,1	COX10	36	1	NM_001303	exon6	c.G738A	p.P246P	TGTTCCGGGAGTT	.	scavenged	Atlas-SNP
SPATA3	130560	hgsc.bcm.edu	37	2	231861059	231861059	+	Silent	SNP	A	A	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	103	27	66	11	0.262136	0.166667	.	.	none	SPATA3,NS,carcinoma,0,4	SPATA3	52	4	NM_139073	exon1	c.A111T	p.P37P	CACACCACAGCAG	.	scavenged	Atlas-SNP
SRRM1	10250	hgsc.bcm.edu	37	1	24993386	24993386	+	Missense_Mutation	SNP	G	G	T	rs78787676	bycluster;byfrequency;alternate_allele	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	237	6	160	1	0.0253165	0.00625	G|0.999;A|0.001	.	alt	SRRM1,bladder,carcinoma,0,2	SRRM1	81	2	NM_005839	exon13	c.G1709T	p.R570L	GACGGCGCAGGAC	.	scavenged	Atlas-SNP
SORBS2	8470	hgsc.bcm.edu	37	4	186544315	186544315	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	90	2	115	1	0.0222222	0.00869565	.	.	none	SORBS2_ENST00000418609,NS,carcinoma,-1,3	SORBS2	300	3	NM_001270771	exon16	c.G2556A	p.P852P	GTTGTCCGGCAAG	.	scavenged	Atlas-SNP
MBD1	4152	hgsc.bcm.edu	37	18	47802076	47802076	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	183	2	110	1	0.010929	0.00909091	.	.	none	MBD1_ENST00000457839,NS,carcinoma,0,4	MBD1	228	4	NM_001204137	exon8	c.G686A	p.R229Q	CAGCCCCGGCATA	.	scavenged	Atlas-SNP
GYPB	2994	hgsc.bcm.edu	37	4	144922415	144922415	+	Missense_Mutation	SNP	A	A	G	rs189622883	bycluster;by1000genomes;alternate_allele	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	392	4	700	3	0.0102041	0.00428571	A|0.986;C|0.014	.	alt	GYPB_ENST00000502664,brain,glioma,0,2	GYPB	17	2	NM_002100	exon2	c.T59C	p.L20S	GTACTTAATGCTG	.	scavenged	Atlas-SNP
ZNF347	84671	hgsc.bcm.edu	37	19	53652059	53652059	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	150	2	143	0	0.0133333	0	.	.	none	ZNF347,NS,carcinoma,+1,1	ZNF347	87	1	NM_001172675	exon4	c.T149C	p.I50T	CAAGAGATTCCTG	.	scavenged	Atlas-SNP
TROAP	10024	hgsc.bcm.edu	37	12	49724403	49724403	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	321	16	157	1	0.0498442	0.00636943	.	.	none	TROAP,bladder,carcinoma,0,3	TROAP	80	3	NM_005480	exon13	c.A1775G	p.Y592C	AGTCCTACTGTAG	.	scavenged	Atlas-SNP
ASPM	259266	hgsc.bcm.edu	37	1	197070312	197070312	+	Missense_Mutation	SNP	C	C	T	rs191126815	bycluster;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	219	3	154	0	0.0136986	0	C|1.000;T|0.000	0.000	strong	ASPM,NS,carcinoma,+1,1	ASPM	444	1	NM_018136	exon18	c.G8069A	p.R2690Q	GCAGCCCGGTGCA	.	scavenged	Atlas-SNP
KRTAP9-2	83899	hgsc.bcm.edu	37	17	39383041	39383041	+	Silent	SNP	C	C	T	rs71371479		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	74	3	58	3	0.0405405	0.0517241	C|0.500;T|0.500	0.500	weak	KRTAP9-2,NS,carcinoma,0,1	KRTAP9-2	24	1	NM_031961	exon1	c.C135T	p.S45S	TGTGTCCAGCTGC	.	scavenged	Atlas-SNP
NBPF4	148545	hgsc.bcm.edu	37	1	108769307	108769307	+	Silent	SNP	G	G	A	rs2582071		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	439	10	370	12	0.022779	0.0324324	G|0.500;A|0.500	0.500	weak	NBPF4,NS,carcinoma,0,2	NBPF4	4	2	NM_001143989	exon14	c.C1869T	p.S623S	CTCTGCGCTCTCA	.	scavenged	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	37	6	152590378	152590378	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	157	2	152	0	0.0127389	0	.	.	none	SYNE1_ENST00000265368,colon,carcinoma,0,2	SYNE1	3227	2	NM_182961	exon99	c.C18617T	p.A6206V	TGCGTGGCTGTTA	.	scavenged	Atlas-SNP
CD300C	10871	hgsc.bcm.edu	37	17	72540836	72540836	+	Silent	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	322	6	264	2	0.0186335	0.00757576	.	.	none	CD300C,NS,carcinoma,0,1	CD300C	41	1	NM_006678	exon2	c.C312T	p.D104D	GCCTGCGTCCTCC	.	scavenged	Atlas-SNP
RABL3	285282	hgsc.bcm.edu	37	3	120409318	120409318	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	237	102	199	0	0.43038	0	.	.	none	.	RABL3	23	.	NM_173825	exon7	c.A623G	p.Y208C	AAAAAGTATCTCT	.	PASS	Atlas-SNP
BMP2	650	hgsc.bcm.edu	37	20	6750880	6750880	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	43	14	27	0	0.325581	0	.	.	none	.	BMP2	45	.	NM_001200	exon2	c.C107T	p.A36V	CGGCGGCGTCGTC	.	PASS	Atlas-SNP
GJA1	2697	hgsc.bcm.edu	37	6	121768112	121768112	+	Missense_Mutation	SNP	C	C	T	rs2228971		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	241	3	166	0	0.0124481	0	.	.	weak	GJA1,caecum,carcinoma,0,1	GJA1	61	1	NM_000165	exon2	c.C119T	p.A40V	GGACAGCGGTTGA	.	scavenged	Atlas-SNP
NEUROG3	50674	hgsc.bcm.edu	37	10	71332204	71332204	+	Missense_Mutation	SNP	A	A	G	rs4536103	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	12	8	4	0	0.666667	0	A|0.573;G|0.427	0.427	strong	.	NEUROG3	33	.	NM_020999	exon2	c.T596C	p.F199S	GCGGAAAAGGTGG	.	PASS	Atlas-SNP
HPS3	84343	hgsc.bcm.edu	37	3	148863210	148863210	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	194	4	147	0	0.0206186	0	.	.	none	HPS3,NS,carcinoma,-1,1	HPS3	104	1	NM_032383	exon5	c.C1040T	p.S347F	TTTTCTCCTTACC	.	scavenged	Atlas-SNP
TUBG2	27175	hgsc.bcm.edu	37	17	40818353	40818353	+	Silent	SNP	C	C	T	rs523338	bycluster;byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	371	28	348	21	0.0754717	0.0603448	C|0.801;T|0.199	0.199	strong	TUBG2,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1	TUBG2	43	1	NM_016437	exon10	c.C1009T	p.L337L	AAGAGCCTGCAGA	.	scavenged	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1093368	1093368	+	Silent	SNP	G	G	A	rs111440994		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	88	4	76	3	0.0454545	0.0394737	.	.	weak	MUC2_ENST00000441003,NS,carcinoma,0,8	MUC2	614	8	NM_002457	exon30	c.G5187A	p.T1729T	CACTACGGTGACC	.	scavenged	Atlas-SNP
AMOTL1	154810	hgsc.bcm.edu	37	11	94583290	94583290	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	89	22	34	0	0.247191	0	.	.	none	.	AMOTL1	95	.	NM_130847	exon7	c.T1660G	p.L554V	GAATTCTTGAAGG	.	PASS	Atlas-SNP
EBF3	253738	hgsc.bcm.edu	37	10	131761680	131761680	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	142	65	127	1	0.457746	0.00787402	.	.	none	EBF3_ENST00000355311,NS,carcinoma,+1,2	EBF3	193	2	NM_001005463	exon2	c.C242T	p.P81L	TCCACCGGCTGCC	.	scavenged	Atlas-SNP
RECK	8434	hgsc.bcm.edu	37	9	36117028	36117028	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	282	3	236	1	0.0106383	0.00423729	.	.	none	RECK,NS,carcinoma,-2,1	RECK	73	1	NM_021111	exon17	c.G2107T	p.G703X	AAATTTGGATGTA	.	scavenged	Atlas-SNP
VPS41	27072	hgsc.bcm.edu	37	7	38783071	38783071	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	184	3	184	0	0.0163043	0	.	.	none	VPS41,NS,carcinoma,0,1	VPS41	102	1	NM_014396	exon24	c.G2053A	p.E685K	CAAATTCGATTGC	.	scavenged	Atlas-SNP
WT1	7490	hgsc.bcm.edu	37	11	32456397	32456397	+	Silent	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	109	41	90	0	0.376147	0	.	.	none	.	WT1	744	.	NM_024424	exon1	c.C495T	p.S165S	CTGGCCGGAAAAG	.	PASS	Atlas-SNP
TTLL12	23170	hgsc.bcm.edu	37	22	43576904	43576904	+	Silent	SNP	G	G	A	rs2071723	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	67	2	124	0	0.0298507	0	A|0.339;C|0.000;G|0.661	0.339	strong	TTLL12,NS,carcinoma,0,1	TTLL12	50	1	NM_015140	exon3	c.C390T	p.H130H	GCGCGCGTGCTCC	.	scavenged	Atlas-SNP
ARAP3	64411	hgsc.bcm.edu	37	5	141033945	141033945	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	78	36	69	0	0.461538	0	.	.	none	.	ARAP3	139	.	NM_022481	exon33	c.T4207C	p.Y1403H	CCTCGTACACAGG	.	PASS	Atlas-SNP
NCAM2	4685	hgsc.bcm.edu	37	21	22656612	22656612	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	130	31	83	0	0.238462	0	.	.	none	NCAM2,colon,carcinoma,0,2	NCAM2	220	2	NM_004540	exon3	c.C229T	p.R77W	AGGTCACGGTTAA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509563	195509563	+	Missense_Mutation	SNP	A	A	T	rs28605870	bycluster	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	269	8	222	4	0.0297398	0.018018	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,5	MUC4	1505	5	NM_018406	exon2	c.T8888A	p.V2963D	TCGGTGACAGGAA	.	scavenged	Atlas-SNP
KIRREL3	84623	hgsc.bcm.edu	37	11	126318983	126318983	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	296	3	193	0	0.0101351	0	.	.	none	KIRREL3_ENST00000525704,NS,carcinoma,0,3	KIRREL3	183	3	NM_032531	exon8	c.G918A	p.T306T	GAAGTACGTGTAG	.	scavenged	Atlas-SNP
SENP6	26054	hgsc.bcm.edu	37	6	76357488	76357488	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	158	5	131	0	0.0316456	0	.	.	none	SENP6_ENST00000447266,NS,carcinoma,0,2	SENP6	189	2	NM_015571	exon7	c.C521T	p.P174L	TTAATCCTGTAAG	.	scavenged	Atlas-SNP
IRF4	3662	hgsc.bcm.edu	37	6	393224	393224	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	124	46	84	0	0.370968	0	.	.	none	.	IRF4	65	.	NM_001195286	exon2	c.C72T	p.L24L	GAAGCTCCGCCAG	.	PASS	Atlas-SNP
PRKRA	8575	hgsc.bcm.edu	37	2	179306336	179306336	+	Splice_Site	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	268	5	280	3	0.0186567	0.0107143	.	.	none	PRKRA,NS,carcinoma,0,1	PRKRA	56	1	NM_001139518	exon7	c.534+1G>A	.	TACTCACTAAAGA	.	scavenged	Atlas-SNP
ADAMTS7	11173	hgsc.bcm.edu	37	15	79066981	79066981	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	51	25	75	0	0.490196	0	.	.	none	.	ADAMTS7	142	.	NM_014272	exon12	c.C1861G	p.P621A	CCACGGGCACCCA	.	PASS	Atlas-SNP
HNRNPCL1	343069	hgsc.bcm.edu	37	1	12907708	12907708	+	Silent	SNP	A	A	G	rs4026149	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	341	23	299	10	0.0674487	0.0334448	A|0.667;G|0.333	0.333	strong	HNRNPCL1,NS,carcinoma,-1,1	HNRNPCL1	68	1	NM_001013631	exon2	c.T435C	p.R145R	ACGTTGACGTTTC	.	scavenged	Atlas-SNP
CSGALNACT2	55454	hgsc.bcm.edu	37	10	43659372	43659372	+	Nonsense_Mutation	SNP	C	C	T	rs76607193	bycluster;byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	187	3	237	2	0.0160428	0.00843882	C|0.997;T|0.003	0.003	strong	CSGALNACT2,trunk,malignant_melanoma,0,1	CSGALNACT2	67	1	NM_018590	exon5	c.C1039T	p.R347X	CGTGGACGAGGAC	.	scavenged	Atlas-SNP
RP1	6101	hgsc.bcm.edu	37	8	55534023	55534023	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	212	91	163	0	0.429245	0	.	.	none	RP1,NS,carcinoma,0,1	RP1	429	1	NM_006269	exon2	c.C497T	p.T166M	CGAAGACGAGGCG	.	PASS	Atlas-SNP
PPP2R3C	55012	hgsc.bcm.edu	37	14	35554804	35554804	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	106	3	69	0	0.0283019	0	.	.	none	PPP2R3C,NS,carcinoma,0,1	PPP2R3C	44	1	NM_017917	exon13	c.G1354A	p.D452N	ATGTATCATCAAG	.	scavenged	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50746094	50746094	+	Silent	SNP	G	G	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	394	11	122	0	0.0279188	0	.	.	none	FAM186A_ENST00000327337,NS,carcinoma,0,8	FAM186A	181	8	NM_001145475	exon4	c.C4521G	p.L1507L	AGGGATGAGAAGG	.	scavenged	Atlas-SNP
OR4X1	390113	hgsc.bcm.edu	37	11	48286318	48286318	+	Silent	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	154	2	84	1	0.012987	0.0119048	.	.	none	OR4X1,extremity,malignant_melanoma,+1,1	OR4X1	75	1	NM_001004726	exon1	c.A906G	p.G302G	TGGGGGAAAAGTA	.	scavenged	Atlas-SNP
SMCR8	140775	hgsc.bcm.edu	37	17	18220270	18220270	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	137	6	115	0	0.0437956	0	.	.	none	.	SMCR8	62	.	NM_144775	exon1	c.A1167G	p.I389M	AAGCATACCCTCT	.	PASS	Atlas-SNP
FANCC	2176	hgsc.bcm.edu	37	9	97887407	97887407	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	173	4	136	0	0.0231214	0	.	.	none	FANCC_ENST00000289081,pharynx,carcinoma,-1,2	FANCC	53	2	NM_001243743	exon10	c.G957A	p.T319T	GCACTGCGTAAAC	.	scavenged	Atlas-SNP
NEK5	341676	hgsc.bcm.edu	37	13	52684696	52684696	+	Silent	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	175	3	131	0	0.0171429	0	.	.	none	NEK5,mouth,carcinoma,-2,1	NEK5	189	1	NM_199289	exon6	c.A330G	p.V110V	AATCTGTACAAAC	.	scavenged	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88537078	88537078	+	Silent	SNP	T	T	C	rs373805744	bycluster	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	49	15	112	5	0.306122	0.0446429	.	.	weak	DSPP,colon,carcinoma,0,1	DSPP	174	1	NM_014208	exon5	c.T3264C	p.S1088S	TAGCAGTGACAGC	.	scavenged	Atlas-SNP
SIPA1L1	26037	hgsc.bcm.edu	37	14	72054698	72054698	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	158	3	124	0	0.0189873	0	.	.	none	SIPA1L1,NS,carcinoma,0,2	SIPA1L1	219	2	NM_015556	exon2	c.C109T	p.R37W	TACATGCGGCGCT	.	scavenged	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88536472	88536472	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	93	10	160	0	0.107527	0	.	.	none	.	DSPP	174	.	NM_014208	exon5	c.C2658T	p.N886N	CAGCAACGAAAGC	.	PASS	Atlas-SNP
FAM43A	131583	hgsc.bcm.edu	37	3	194408350	194408350	+	Silent	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	183	88	121	0	0.480874	0	.	.	none	.	FAM43A	24	.	NM_153690	exon1	c.G795A	p.E265E	GCAGGAGCTGCAG	.	PASS	Atlas-SNP
COL11A1	1301	hgsc.bcm.edu	37	1	103484376	103484376	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	130	53	94	0	0.407692	0	.	.	none	.	COL11A1	972	.	NM_080629	exon10	c.G1384A	p.A462T	ATACTGCAGGTCC	.	PASS	Atlas-SNP
JSRP1	126306	hgsc.bcm.edu	37	19	2254194	2254194	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	62	24	60	0	0.387097	0	.	.	none	.	JSRP1	18	.	NM_144616	exon4	c.C254A	p.A85D	GCTCCGGCTTTCA	.	PASS	Atlas-SNP
SMOX	54498	hgsc.bcm.edu	37	20	4158174	4158174	+	Missense_Mutation	SNP	C	C	T	rs147730753	bycluster	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	84	3	62	0	0.0357143	0	C|1.000;T|0.000	0.000	weak	SMOX_ENST00000278795,NS,carcinoma,-1,2	SMOX	119	2	NM_175839	exon3	c.C385T	p.R129C	CACGGCCGCAGGA	.	scavenged	Atlas-SNP
UBXN11	91544	hgsc.bcm.edu	37	1	26608866	26608866	+	Missense_Mutation	SNP	C	C	G	rs188535926	bycluster;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	25	7	25	2	0.28	0.08	C|0.991;G|0.009	0.009	strong	UBXN11,colon,carcinoma,-1,2	UBXN11	54	2	NM_183008	exon16	c.G1487C	p.G496A	CCGGGACCGGGAC	.	scavenged	Atlas-SNP
ZNF20	7568	hgsc.bcm.edu	37	19	12243529	12243529	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	78	38	85	0	0.487179	0	.	.	none	.	ZNF20	86	.	NM_021143	exon4	c.A1472G	p.N491S	ATGTAATTGGAAA	.	PASS	Atlas-SNP
ZNF749	388567	hgsc.bcm.edu	37	19	57955884	57955884	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	195	7	210	4	0.0358974	0.0190476	.	.	none	ZNF749,NS,carcinoma,0,2	ZNF749	75	2	NM_001023561	exon3	c.C1368T	p.H456H	TCAGCACCAGAAA	.	scavenged	Atlas-SNP
PLCXD3	345557	hgsc.bcm.edu	37	5	41382437	41382437	+	Silent	SNP	G	G	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	195	2	155	0	0.0102564	0	.	.	none	PLCXD3,NS,carcinoma,0,1	PLCXD3	86	1	NM_001005473	exon2	c.C303A	p.T101T	GGGCTTGGTGGAA	.	scavenged	Atlas-SNP
OR10H5	284433	hgsc.bcm.edu	37	19	15905664	15905664	+	Missense_Mutation	SNP	C	C	T	rs144567857	bycluster;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	173	63	222	1	0.364162	0.0045045	C|0.998;T|0.002	0.002	strong	OR10H5,NS,carcinoma,-1,1	OR10H5	49	1	NM_001004466	exon1	c.C806T	p.P269L	AGTCTCCGGAAGG	.	scavenged	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105418008	105418008	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	209	86	197	0	0.411483	0	.	.	none	.	AHNAK2	719	.	NM_138420	exon7	c.C3780A	p.D1260E	CTTGAGGTCCACT	.	PASS	Atlas-SNP
ASH1L	55870	hgsc.bcm.edu	37	1	155491066	155491066	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	222	4	260	1	0.018018	0.00384615	.	.	none	ASH1L,colon,carcinoma,+1,1	ASH1L	279	1	NM_018489	exon2	c.A245G	p.E82G	TTTCCCTCTGAAA	.	scavenged	Atlas-SNP
ZNF749	388567	hgsc.bcm.edu	37	19	57955885	57955885	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	197	5	210	4	0.0253807	0.0190476	.	.	none	ZNF749,right_upper_lobe,carcinoma,0,14	ZNF749	75	14	NM_001023561	exon3	c.C1369G	p.Q457E	CAGCACCAGAAAA	.	scavenged	Atlas-SNP
EPHA10	284656	hgsc.bcm.edu	37	1	38227086	38227086	+	Missense_Mutation	SNP	A	A	T	rs4653328	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	8	8	0	0	1	.	A|0.665;T|0.335	0.335	strong	.	EPHA10	120	.	NM_001099439	exon3	c.T841A	p.F281I	CGCAGAAGTCACC	.	PASS	Atlas-SNP
FEM1B	10116	hgsc.bcm.edu	37	15	68582376	68582376	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	61	2	85	0	0.0327869	0	.	.	none	FEM1B,colon,carcinoma,+1,2	FEM1B	38	2	NM_015322	exon2	c.C680T	p.A227V	TAGCTGCCGAAAG	.	scavenged	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88536448	88536448	+	Silent	SNP	C	C	T	rs142168734		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	102	15	182	0	0.147059	0	.	.	weak	.	DSPP	174	.	NM_014208	exon5	c.C2634T	p.D878D	CAGTGACAGCAGT	.	PASS	Atlas-SNP
NR2C1	7181	hgsc.bcm.edu	37	12	95442844	95442844	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	67	24	93	0	0.358209	0	.	.	none	.	NR2C1	56	.	NM_001032287	exon9	c.G1131A	p.R377R	AAATACCCTGAAA	.	PASS	Atlas-SNP
WDR7	23335	hgsc.bcm.edu	37	18	54353208	54353208	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	97	3	104	0	0.0309278	0	.	.	none	WDR7,NS,carcinoma,-1,1	WDR7	166	1	NM_052834	exon6	c.C542T	p.S181L	CACTCTCGGTGAC	.	scavenged	Atlas-SNP
NMNAT1	64802	hgsc.bcm.edu	37	1	10042628	10042628	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	163	2	181	1	0.0122699	0.00552486	.	.	none	NMNAT1,NS,adenocarcinoma,-1,1	NMNAT1	18	1	NM_022787	exon5	c.C709T	p.R237C	AGCATTCGCTACT	.	scavenged	Atlas-SNP
SMAD9	4093	hgsc.bcm.edu	37	13	37441511	37441511	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	99	2	90	0	0.020202	0	.	.	none	SMAD9_ENST00000379826,colon,carcinoma,0,1	SMAD9	91	1	NM_001127217	exon4	c.C680A	p.P227Q	AGGGGTGGTGTGT	.	scavenged	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45232075	45232075	+	Missense_Mutation	SNP	A	A	T	rs199711781	bycluster	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	51	3	51	1	0.0588235	0.0196078	A|0.999;T|0.001	0.001	weak	CDC27_ENST00000531206,NS,carcinoma,0,2	CDC27	337	2	NM_001114091	exon8	c.T920A	p.V307E	TCAATTACAGGAG	.	scavenged	Atlas-SNP
TP53	7157	hgsc.bcm.edu	37	17	7578419	7578419	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	83	72	137	0	0.86747	0	.	.	none	TP53_ENST00000545858,bladder,carcinoma,0,47	TP53	33396	47	NM_000546	exon5	c.G511T	p.E171X	CAACCTCCGTCAT	.	PASS	Atlas-SNP
DNAH1	25981	hgsc.bcm.edu	37	3	52427469	52427469	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	161	2	126	0	0.0124224	0	.	.	none	DNAH1_ENST00000420323,NS,carcinoma,0,3	DNAH1	534	3	NM_015512	exon66	c.C10594T	p.R3532C	TGTGTTCGCATCA	.	scavenged	Atlas-SNP
CTSH	1512	hgsc.bcm.edu	37	15	79220112	79220112	+	Missense_Mutation	SNP	G	G	C	rs142506062	alternate_allele	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	44	28	58	0	0.636364	0	G|1.000;A|0.000	.	alt	.	CTSH	23	.	NM_004390	exon9	c.C642G	p.C214W	GAACTTGCAATAA	.	PASS	Atlas-SNP
ATF7IP2	80063	hgsc.bcm.edu	37	16	10575768	10575768	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	80	2	100	0	0.025	0	.	.	none	ATF7IP2_ENST00000396560,NS,carcinoma,0,1	ATF7IP2	40	1	NM_024997	exon12	c.C1711T	p.R571X	AAAACCCGAGACA	.	scavenged	Atlas-SNP
SLC1A4	6509	hgsc.bcm.edu	37	2	65245351	65245351	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	339	4	101	0	0.0117994	0	.	.	none	SLC1A4,NS,carcinoma,-1,1	SLC1A4	33	1	NM_003038	exon6	c.C1181T	p.A394V	TCATTGCGCAACT	.	scavenged	Atlas-SNP
KRTAP10-1	386677	hgsc.bcm.edu	37	21	45959773	45959773	+	Silent	SNP	C	C	T	rs79593866		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	203	7	123	4	0.0344828	0.0325203	.	.	weak	KRTAP10-1,NS,carcinoma,0,1	KRTAP10-1	34	1	NM_198691	exon1	c.G261A	p.P87P	GCAAGCCGGCTGG	.	scavenged	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	37	1	22201196	22201196	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	289	3	265	0	0.0103806	0	.	.	none	HSPG2,colon,carcinoma,0,1	HSPG2	311	1	NM_005529	exon27	c.G3441A	p.T1147T	ACTGGGCGTGCGT	.	scavenged	Atlas-SNP
HSP90AA1	3320	hgsc.bcm.edu	37	14	102551314	102551314	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	182	4	170	0	0.021978	0	.	.	none	HSP90AA1,NS,carcinoma,0,1	HSP90AA1	65	1	NM_001017963	exon6	c.G1051A	p.E351K	TTACTTCTTTATC	.	scavenged	Atlas-SNP
PAK7	57144	hgsc.bcm.edu	37	20	9560944	9560944	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	400	125	266	0	0.3125	0	.	.	none	.	PAK7	194	.	NM_177990	exon4	c.C838T	p.P280S	TGGTGGGCTGAGG	.	PASS	Atlas-SNP
ZNF880	400713	hgsc.bcm.edu	37	19	52888049	52888049	+	Missense_Mutation	SNP	C	C	A	rs75346003	bycluster;byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	37	12	33	7	0.324324	0.212121	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
SALL3	27164	hgsc.bcm.edu	37	18	76753768	76753768	+	Missense_Mutation	SNP	C	C	G	rs2447437	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	2	2	0	0	1	.	C|0.211;G|0.789	0.789	strong	SALL3,NS,carcinoma,0,1	SALL3	162	1	NM_171999	exon2	c.C1777G	p.L593V	CCGCCCCTCACTA	.	scavenged	Atlas-SNP
KRTAP5-4	387267	hgsc.bcm.edu	37	11	1643255	1643255	+	Silent	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	226	20	135	5	0.0884956	0.037037	.	.	none	KRTAP5-4,NS,carcinoma,0,1	KRTAP5-4	78	1	NM_001012709	exon1	c.C69T	p.G23G	GCCACAGCCCCCA	.	scavenged	Atlas-SNP
SLC35G6	643664	hgsc.bcm.edu	37	17	7386301	7386301	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	98	6	142	4	0.0612245	0.028169	.	.	none	POLR2A_ENST00000412468,NS,carcinoma,0,1	.	.	1	NM_001102614	exon2	c.A998C	p.E333A	AGAGGGAAGGGAA	.	scavenged	Atlas-SNP
EP400	57634	hgsc.bcm.edu	37	12	132547096	132547096	+	Silent	SNP	G	G	A	rs74479394	bycluster	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	94	3	82	0	0.0319149	0	.	.	weak	EP400,colon,carcinoma,0,3	EP400	370	3	NM_015409	exon47	c.G8184A	p.Q2728Q	ACAACAGCAGCAG	.	scavenged	Atlas-SNP
PTPRZ1	5803	hgsc.bcm.edu	37	7	121650463	121650463	+	Silent	SNP	A	A	C	rs199595173		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	80	38	78	0	0.475	0	A|0.999;C|0.001	0.001	weak	.	PTPRZ1	605	.	NM_001206838	exon12	c.A1363C	p.R455R	CAAATCAGGAAAA	.	PASS	Atlas-SNP
AMN	81693	hgsc.bcm.edu	37	14	103394811	103394811	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	103	43	84	0	0.417476	0	.	.	none	.	AMN	13	.	NM_030943	exon4	c.G256A	p.G86S	GGATTCGGCGTCT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195513589	195513589	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	703	22	563	14	0.0312945	0.0248668	.	.	none	MUC4_ENST00000463781,NS,carcinoma,-1,2	MUC4	1505	2	NM_018406	exon2	c.A4862G	p.D1621G	GAAGTGTCGGTGA	.	scavenged	Atlas-SNP
ENPP7	339221	hgsc.bcm.edu	37	17	77709108	77709108	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	41	17	35	0	0.414634	0	.	.	none	.	ENPP7	63	.	NM_178543	exon3	c.C666T	p.T222T	CCGGACCGTGGGC	.	PASS	Atlas-SNP
PTGER3	5733	hgsc.bcm.edu	37	1	71318536	71318536	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	122	45	118	0	0.368852	0	.	.	none	PTGER3_ENST00000460330,NS,carcinoma,0,1	PTGER3	246	1	NM_198716	exon4	c.T1111G	p.F371V	CCCAAAATTCCTC	.	PASS	Atlas-SNP
ITPRIPL1	150771	hgsc.bcm.edu	37	2	96993026	96993026	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	75	2	53	0	0.0266667	0	.	.	none	ITPRIPL1,NS,carcinoma,0,1	ITPRIPL1	58	1	NM_178495	exon1	c.C681T	p.I227I	GGGCATCGGGGCT	.	scavenged	Atlas-SNP
DDB2	1643	hgsc.bcm.edu	37	11	47259476	47259476	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	169	6	144	1	0.035503	0.00694444	.	.	none	DDB2,NS,carcinoma,0,2	DDB2	31	2	NM_000107	exon8	c.C1112T	p.T371M	TGAGGACGATCGA	.	scavenged	Atlas-SNP
PRDM7	11105	hgsc.bcm.edu	37	16	90126766	90126766	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	175	5	294	0	0.0285714	0	.	.	none	PRDM7_ENST00000449207,rectum,carcinoma,+2,1	PRDM7	53	1	NM_001098173	exon9	c.A1216G	p.S406G	ATGAGCTCTTTCT	.	scavenged	Atlas-SNP
CCR1	1230	hgsc.bcm.edu	37	3	46245407	46245407	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	159	2	137	0	0.0125786	0	.	.	none	CCR1,colon,carcinoma,0,1	CCR1	36	1	NM_001295	exon2	c.T398C	p.L133P	ATGGCCAGGTACC	.	scavenged	Atlas-SNP
KIF19	124602	hgsc.bcm.edu	37	17	72350412	72350412	+	Missense_Mutation	SNP	G	G	A	rs2271535	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	14	5	4	1	0.357143	0.25	G|0.631;A|0.369	0.369	strong	KIF19,NS,carcinoma,0,1	KIF19	102	1	NM_153209	exon18	c.G2420A	p.R807H	CAGAGCGCAGCAG	.	scavenged	Atlas-SNP
ATP6V0B	533	hgsc.bcm.edu	37	1	44442793	44442793	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	243	4	218	0	0.0164609	0	.	.	none	ATP6V0B,NS,carcinoma,0,1	ATP6V0B	22	1	NM_004047	exon7	c.G496A	p.D166N	CTGGCCGATGCTC	.	scavenged	Atlas-SNP
KBTBD13	390594	hgsc.bcm.edu	37	15	65369951	65369951	+	Silent	SNP	A	A	G	rs2919359	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	8	8	0	0	1	.	A|0.109;G|0.891	0.891	strong	.	KBTBD13	9	.	NM_001101362	exon1	c.A798G	p.E266E	CGGCGAATTCCAG	.	PASS	Atlas-SNP
ANKRD30A	91074	hgsc.bcm.edu	37	10	37486392	37486392	+	Silent	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	336	5	260	0	0.014881	0	.	.	none	ANKRD30A_ENST00000602533,NS,carcinoma,+2,2	ANKRD30A	448	2	NM_052997	exon29	c.A2532G	p.E844E	GAATGAACAAACA	.	scavenged	Atlas-SNP
LILRB3	11025	hgsc.bcm.edu	37	19	54725980	54725980	+	Silent	SNP	G	G	A	rs150024950	byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	137	6	120	4	0.0437956	0.0333333	G|0.947;A|0.053	0.053	strong	LILRB3,NS,carcinoma,0,1	LILRB3	67	1	NM_006864	exon4	c.C378T	p.L126L	GGCTGAGAGGGTG	.	scavenged	Atlas-SNP
KCNN3	3782	hgsc.bcm.edu	37	1	154842244	154842244	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	40	13	26	0	0.325	0	.	.	none	KCNN3,NS,carcinoma,+1,3	KCNN3	141	3	NM_001204087	exon1	c.T197A	p.L66H	TGCTGAAGCTGCG	.	scavenged	Atlas-SNP
HIVEP1	3096	hgsc.bcm.edu	37	6	12124727	12124727	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	192	4	148	0	0.0208333	0	.	.	none	HIVEP1,NS,carcinoma,-2,1	HIVEP1	242	1	NM_002114	exon4	c.T4699C	p.F1567L	CAGGTTTTCACTT	.	scavenged	Atlas-SNP
TUFM	7284	hgsc.bcm.edu	37	16	28854369	28854369	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	98	4	170	0	0.0408163	0	.	.	none	TUFM,colon,carcinoma,-1,1	TUFM	33	1	NM_003321	exon10	c.G1295A	p.R432Q	ATAGTCCGGTTGC	.	PASS	Atlas-SNP
SCN10A	6336	hgsc.bcm.edu	37	3	38739806	38739806	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	160	2	141	0	0.0125	0	.	.	none	SCN10A,bladder,carcinoma,-1,1	SCN10A	359	1	NM_006514	exon27	c.G4905A	p.E1635E	GCCAGCCTCCCAC	.	scavenged	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228522538	228522538	+	Silent	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	42	32	62	0	0.761905	0	.	.	none	.	OBSCN	2142	.	NM_001271223	exon72	c.G18981A	p.P6327P	GGTGCCGCCCCGA	.	PASS	Atlas-SNP
PCDHGB3	56102	hgsc.bcm.edu	37	5	140750729	140750729	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	155	4	125	0	0.0258065	0	.	.	none	PCDHGB3_ENST00000576222,NS,carcinoma,+1,2	PCDHGB3	168	2	NM_018924	exon1	c.C768T	p.P256P	CCTGCCCGCTGGC	.	scavenged	Atlas-SNP
MSRB3	253827	hgsc.bcm.edu	37	12	65857048	65857048	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	190	55	126	0	0.289474	0	.	.	none	MSRB3_ENST00000355192,colon,carcinoma,+2,4	MSRB3	80	4	NM_198080	exon6	c.C525T	p.A175A	CACCGCCGAGGGA	.	PASS	Atlas-SNP
NRG2	9542	hgsc.bcm.edu	37	5	139260442	139260442	+	Silent	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	86	26	67	0	0.302326	0	.	.	none	NRG2,NS,carcinoma,0,1	NRG2	69	1	NM_013982	exon3	c.C990T	p.S330S	CCTACCGCTGTTG	.	PASS	Atlas-SNP
RHPN2	85415	hgsc.bcm.edu	37	19	33493842	33493842	+	Missense_Mutation	SNP	C	C	A	rs137892450	bycluster;byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	111	4	100	4	0.036036	0.04	A|0.000;C|0.999;T|0.000	0.000	strong	RHPN2,NS,neuroblastoma,0,1	RHPN2	107	1	NM_033103	exon8	c.G825T	p.M275I	GCTGAGCATGGCA	.	scavenged	Atlas-SNP
DMBT1	1755	hgsc.bcm.edu	37	10	124358568	124358568	+	Missense_Mutation	SNP	T	T	A	rs201802690		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	224	14	184	2	0.0625	0.0108696	.	.	weak	DMBT1_ENST00000368915,NS,carcinoma,0,3	DMBT1	677	3	NM_007329	exon26	c.T3235A	p.S1079T	TGGCTCTCCCACA	.	scavenged	Atlas-SNP
LEFTY2	7044	hgsc.bcm.edu	37	1	226127479	226127479	+	Silent	SNP	G	G	A	rs188858500	by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	14	12	1	0	0.857143	0	G|0.990;A|0.010	0.010	strong	.	LEFTY2	25	.	NM_003240	exon2	c.C474T	p.N158N	GGTGCGGTTGGAG	.	PASS	Atlas-SNP
ATF7	11016	hgsc.bcm.edu	37	12	53911012	53911012	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	147	7	74	0	0.047619	0	.	.	none	.	ATF7	51	.	NM_006856	exon12	c.T1361C	p.L454P	TGAGTGAGGACCG	.	PASS	Atlas-SNP
MYH4	4622	hgsc.bcm.edu	37	17	10369672	10369672	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	195	4	294	0	0.0205128	0	.	.	none	MYH4,caecum,carcinoma,-1,1	MYH4	349	1	NM_017533	exon4	c.A266G	p.E89G	ATGTCCTCGATCT	.	scavenged	Atlas-SNP
HNRNPL	3191	hgsc.bcm.edu	37	19	39330801	39330801	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	208	5	167	6	0.0240385	0.0359281	.	.	none	HNRPL,NS,carcinoma,0,7	HNRNPL	67	7	NM_001533	exon8	c.G1168C	p.D390H	ATTGATCCAAGCC	.	scavenged	Atlas-SNP
IFITM3	10410	hgsc.bcm.edu	37	11	320723	320723	+	Missense_Mutation	SNP	C	C	T	rs56227617		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	86	4	53	1	0.0465116	0.0188679	.	.	weak	IFITM3,brain,glioma,0,1	IFITM3	132	1	NM_021034	exon1	c.G91A	p.V31M	CCAGCACAGCCAC	.	scavenged	Atlas-SNP
HOMEZ	57594	hgsc.bcm.edu	37	14	23744829	23744829	+	Silent	SNP	C	C	T	rs79723196	bycluster	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	108	18	54	0	0.166667	0	.	.	weak	.	HOMEZ	80	.	NM_020834	exon2	c.G1608A	p.E536E	ATCTTCCTCCTCC	.	PASS	Atlas-SNP
AOX1	316	hgsc.bcm.edu	37	2	201457926	201457926	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	237	4	162	0	0.0168776	0	.	.	none	AOX1,caecum,carcinoma,0,1	AOX1	152	1	NM_001159	exon2	c.C103T	p.L35F	AAGAAGCGTATCC	.	scavenged	Atlas-SNP
OR5R1	219479	hgsc.bcm.edu	37	11	56185039	56185039	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	200	2	124	0	0.01	0	.	.	none	OR5R1,NS,carcinoma,0,1	OR5R1	83	1	NM_001004744	exon1	c.G670A	p.A224T	GGATAGCGGCAAT	.	scavenged	Atlas-SNP
NIPBL	25836	hgsc.bcm.edu	37	5	37045655	37045655	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	231	3	178	0	0.012987	0	.	.	none	NIPBL_ENST00000448238,NS,carcinoma,-1,2	NIPBL	513	2	NM_015384	exon37	c.C6454T	p.R2152W	CTATGTCGGCATT	.	scavenged	Atlas-SNP
EYS	346007	hgsc.bcm.edu	37	6	65612316	65612316	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	98	43	119	0	0.438776	0	.	.	none	EYS_ENST00000370621,NS,carcinoma,+2,1	EYS	527	1	NM_001142800	exon17	c.G2719T	p.D907Y	CCATATCTTCACA	.	PASS	Atlas-SNP
ZNF326	284695	hgsc.bcm.edu	37	1	90487882	90487882	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	225	4	205	1	0.0177778	0.00487805	.	.	none	ZNF326,caecum,carcinoma,0,1	ZNF326	60	1	NM_182976	exon11	c.C1379T	p.A460V	TGAAGGCGCGATA	.	scavenged	Atlas-SNP
RAPH1	65059	hgsc.bcm.edu	37	2	204304225	204304225	+	Silent	SNP	G	G	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	87	4	62	0	0.045977	0	.	.	none	.	RAPH1	118	.	NM_213589	exon14	c.C3688A	p.R1230R	CTCTCCGCAACGT	.	PASS	Atlas-SNP
ANKRD30B	374860	hgsc.bcm.edu	37	18	14848786	14848786	+	Missense_Mutation	SNP	A	A	C	rs71323608		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	229	10	159	6	0.0436681	0.0377358	A|0.500;C|0.500	0.500	weak	ANKRD30B_ENST00000358984,trunk,malignant_melanoma,0,1	ANKRD30B	237	1	NM_001145029	exon34	c.A2896C	p.N966H	AAAGATAACTGTG	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511051	195511051	+	Missense_Mutation	SNP	C	C	A	rs74867514	bycluster	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	418	38	352	28	0.0909091	0.0795455	C|0.500;A|0.500	0.500	weak	MUC4_ENST00000463781,NS,carcinoma,+1,5	MUC4	1505	5	NM_018406	exon2	c.G7400T	p.G2467V	TCGGTGCCAGGAA	.	scavenged	Atlas-SNP
BTG1	694	hgsc.bcm.edu	37	12	92538187	92538187	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	131	39	118	0	0.29771	0	.	.	none	.	BTG1	30	.	NM_001731	exon2	c.G185A	p.C62Y	CCCTTGCATGGCT	.	PASS	Atlas-SNP
PSG2	5670	hgsc.bcm.edu	37	19	43585253	43585253	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	245	13	218	7	0.0530612	0.0321101	.	.	none	PSG2,NS,carcinoma,0,2	PSG2	84	2	NM_031246	exon2	c.G210A	p.G70G	GATTTGCCCTTTG	.	scavenged	Atlas-SNP
VARS2	57176	hgsc.bcm.edu	37	6	30893890	30893890	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	307	128	263	0	0.416938	0	.	.	none	.	VARS2	60	.	NM_001167734	exon30	c.C3185T	p.S1062F	AGCTTTCTTCCCT	.	PASS	Atlas-SNP
DNASE1L3	1776	hgsc.bcm.edu	37	3	58190568	58190568	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	157	3	133	0	0.0191083	0	.	.	none	DNASE1L3,NS,carcinoma,0,2	DNASE1L3	36	2	NM_004944	exon4	c.G361A	p.D121N	GATAGTCATGGTA	.	scavenged	Atlas-SNP
TMEM198	130612	hgsc.bcm.edu	37	2	220413913	220413913	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	215	3	216	0	0.0139535	0	.	.	none	TMEM198,NS,carcinoma,+1,2	TMEM198	36	2	NM_001005209	exon4	c.G782A	p.R261Q	TGATGCGGATTCG	.	scavenged	Atlas-SNP
HGS	9146	hgsc.bcm.edu	37	17	79668552	79668552	+	Silent	SNP	C	C	T	rs34897798	bycluster;byfrequency;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	19	15	3	0	0.789474	0	C|0.900;T|0.100	0.100	strong	HGS,NS,carcinoma,0,1	HGS	54	1	NM_004712	exon22	c.C2238T	p.G746G	CTCTGGCGGTCCC	.	PASS	Atlas-SNP
MTUS2	23281	hgsc.bcm.edu	37	13	29608098	29608098	+	Missense_Mutation	SNP	G	G	A	rs376698099		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	256	3	190	1	0.0117188	0.00526316	.	.	weak	MTUS2_ENST00000431530,NS,carcinoma,+1,2	MTUS2	279	2	NM_001033602	exon2	c.G2312A	p.R771Q	TCTATCGGTCAGC	.	scavenged	Atlas-SNP
BMP15	9210	hgsc.bcm.edu	37	X	50659280	50659280	+	Silent	SNP	C	C	T	rs17003221	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	201	168	167	1	0.835821	0.00598802	C|0.811;0|0.015	.	strong	.	BMP15	62	.	NM_005448	exon2	c.C852T	p.S284S	ACATAGCGGGCCT	.	PASS	Atlas-SNP
ZBTB22	9278	hgsc.bcm.edu	37	6	33283277	33283277	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	78	35	69	0	0.448718	0	.	.	none	.	ZBTB22	48	.	NM_001145338	exon2	c.G1417C	p.V473L	CAGGGACCCCACC	.	PASS	Atlas-SNP
SLC22A4	6583	hgsc.bcm.edu	37	5	131630691	131630691	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	124	3	94	0	0.0241935	0	.	.	none	SLC22A4,NS,carcinoma,-2,1	SLC22A4	45	1	NM_003059	exon1	c.G382A	p.V128I	TCCACCGTCGTGA	.	scavenged	Atlas-SNP
SMO	6608	hgsc.bcm.edu	37	7	128846041	128846041	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	370	4	346	0	0.0108108	0	.	.	none	SMO,bile_duct,carcinoma,+1,4	SMO	145	4	NM_005631	exon5	c.C971T	p.A324V	ACTACGCCCTGAT	.	scavenged	Atlas-SNP
METTL13	51603	hgsc.bcm.edu	37	1	171759644	171759644	+	Silent	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	300	3	271	4	0.01	0.0147601	.	.	none	METTL13,middle_lobe,carcinoma,+2,1	METTL13	67	1	NM_015935	exon5	c.G1362A	p.E454E	TGCGGAGGACCTC	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506569	195506569	+	Missense_Mutation	SNP	A	A	G	rs201891747	bycluster	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	49	26	35	23	0.530612	0.657143	.	.	weak	MUC4_ENST00000463781,NS,lymphoid_neoplasm,0,1	MUC4	1505	1	NM_018406	exon2	c.T11882C	p.V3961A	GTGGATACTGAGG	.	scavenged	Atlas-SNP
ACIN1	22985	hgsc.bcm.edu	37	14	23548787	23548787	+	Missense_Mutation	SNP	C	C	T	rs61741619	bycluster;byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	198	34	150	0	0.171717	0	C|0.985;T|0.015	0.015	strong	.	ACIN1	147	.	NM_001164814	exon6	c.G1931A	p.R644H	CGAGAACGTGAAC	.	PASS	Atlas-SNP
SMPD2	6610	hgsc.bcm.edu	37	6	109764054	109764054	+	Silent	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	81	2	78	0	0.0246914	0	.	.	none	SMPD2,NS,carcinoma,+2,1	SMPD2	25	1	NM_003080	exon7	c.T591C	p.L197L	AGGGCTTCATGAT	.	scavenged	Atlas-SNP
CCNY	219771	hgsc.bcm.edu	37	10	35819129	35819129	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	100	2	87	0	0.02	0	.	.	none	CCNY,NS,carcinoma,0,1	CCNY	22	1	NM_145012	exon7	c.C537T	p.F179F	ACTGTTCAGTGCT	.	scavenged	Atlas-SNP
AHCTF1	25909	hgsc.bcm.edu	37	1	247014689	247014689	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	272	6	223	1	0.0220588	0.00448431	.	.	none	AHCTF1,NS,carcinoma,-1,2	AHCTF1	187	2	NM_015446	exon33	c.T4646C	p.L1549P	AATGAAAGATTCC	.	scavenged	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45234300	45234300	+	Missense_Mutation	SNP	G	G	T	rs199588670		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	56	3	64	0	0.0535714	0	.	.	weak	CDC27_ENST00000531206,NS,carcinoma,0,10	CDC27	337	10	NM_001114091	exon7	c.C821A	p.A274D	CTAAGAGCTGCTG	.	scavenged	Atlas-SNP
MST1	4485	hgsc.bcm.edu	37	3	49723296	49723296	+	Missense_Mutation	SNP	G	G	A	rs80308386	byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	187	6	175	8	0.0320856	0.0457143	G|0.375;A|0.625	0.625	strong	MST1,trunk,malignant_melanoma,0,3	MST1	84	3	NM_020998	exon10	c.C1247T	p.P416L	CACTGCGGCTTGT	.	scavenged	Atlas-SNP
TEX15	56154	hgsc.bcm.edu	37	8	30701914	30701914	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	196	75	172	0	0.382653	0	.	.	none	.	TEX15	350	.	NM_031271	exon1	c.G4620A	p.E1540E	CTTCTTCTCTCTT	.	PASS	Atlas-SNP
OR2T2	401992	hgsc.bcm.edu	37	1	248616764	248616764	+	Silent	SNP	C	C	T	rs77869864	byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	569	22	475	14	0.0386643	0.0294737	C|0.500;T|0.500	0.500	strong	OR2T2,NS,carcinoma,0,1	OR2T2	73	1	NM_001004136	exon1	c.C666T	p.I222I	GCACATCCTCCTG	.	scavenged	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954754	30954754	+	Missense_Mutation	SNP	G	G	A	rs9262365	bycluster;byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	188	9	128	7	0.0478723	0.0546875	G|0.901;A|0.099	0.099	strong	MUC21,NS,carcinoma,0,1	MUC21	98	1	NM_001010909	exon2	c.G802A	p.G268S	GGGGCCGGCACAG	.	scavenged	Atlas-SNP
TUBB4A	10382	hgsc.bcm.edu	37	19	6495416	6495416	+	Missense_Mutation	SNP	G	G	A	rs1053267		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	108	57	98	1	0.527778	0.0102041	G|1.000;|0.000	.	weak	TUBB4,colon,carcinoma,+1,1	.	.	1	NM_006087	exon4	c.C1094T	p.A365V	AAGGTCGCGGCCA	.	scavenged	Atlas-SNP
OR2T2	401992	hgsc.bcm.edu	37	1	248616749	248616749	+	Silent	SNP	C	C	G	rs1770044	byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	577	10	496	4	0.017331	0.00806452	C|0.500;G|0.500	0.500	strong	OR2T2,NS,carcinoma,0,1	OR2T2	73	1	NM_001004136	exon1	c.C651G	p.V217V	CTCTGTCTCCTAC	.	scavenged	Atlas-SNP
SLC35G6	643664	hgsc.bcm.edu	37	17	7386300	7386300	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	100	6	142	3	0.06	0.0211268	.	.	none	POLR2A_ENST00000412468,NS,carcinoma,-1,1	.	.	1	NM_001102614	exon2	c.G997A	p.E333K	GAGAGGGAAGGGA	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509611	195509611	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	320	8	286	1	0.025	0.0034965	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,3	MUC4	1505	3	NM_018406	exon2	c.T8840A	p.V2947D	TCGGTGACAGGAA	.	scavenged	Atlas-SNP
CCDC11	220136	hgsc.bcm.edu	37	18	47777943	47777943	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	267	4	167	0	0.0149813	0	.	.	none	CCDC11,NS,carcinoma,+1,1	CCDC11	59	1	NM_145020	exon4	c.A685G	p.N229D	GTGTGTTCTCCAT	.	scavenged	Atlas-SNP
PACRG	135138	hgsc.bcm.edu	37	6	163735921	163735921	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	217	3	127	0	0.0138249	0	.	.	none	PACRG,larynx,carcinoma,-2,1	PACRG	48	1	NM_152410	exon7	c.C793T	p.Q265X	TTGATCCAGGAGA	.	scavenged	Atlas-SNP
SCAND3	114821	hgsc.bcm.edu	37	6	28540209	28540209	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	242	3	208	1	0.0123967	0.00480769	.	.	none	SCAND3,bladder,carcinoma,0,1	SCAND3	156	1	NM_052923	exon4	c.G3457A	p.D1153N	ACATGTCATAACA	.	scavenged	Atlas-SNP
IGSF3	3321	hgsc.bcm.edu	37	1	117158983	117158983	+	Missense_Mutation	SNP	T	T	G	rs75884067		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	139	6	88	2	0.0431655	0.0227273	T|0.500;G|0.500	0.500	weak	IGSF3_ENST00000369483,NS,carcinoma,+1,2	IGSF3	294	2	NM_001542	exon3	c.A140C	p.Y47S	CCCTGGTAGCCAC	.	scavenged	Atlas-SNP
DLG5	9231	hgsc.bcm.edu	37	10	79590551	79590551	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	103	4	110	0	0.038835	0	.	.	none	DLG5,colon,carcinoma,-1,1	DLG5	154	1	NM_004747	exon10	c.A1829G	p.D610G	TCCGTGTCAATGG	.	scavenged	Atlas-SNP
SPATA3	130560	hgsc.bcm.edu	37	2	231861056	231861056	+	Silent	SNP	A	A	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	100	22	65	10	0.22	0.153846	.	.	none	SPATA3,rectum,carcinoma,0,1	SPATA3	52	1	NM_139073	exon1	c.A108C	p.T36T	ATCCACACCACAG	.	scavenged	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28483809	28483809	+	Silent	SNP	G	G	A	rs149204675	bycluster;byfrequency;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	311	9	482	6	0.0289389	0.0124481	G|0.998;A|0.002	0.002	strong	HERC2,NS,carcinoma,0,1	HERC2	501	1	NM_004667	exon24	c.C3687T	p.D1229D	CTTCCCGTCAATC	.	scavenged	Atlas-SNP
CLCN2	1181	hgsc.bcm.edu	37	3	184071474	184071474	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	74	30	76	0	0.405405	0	.	.	none	.	CLCN2	74	.	NM_004366	exon16	c.A1831C	p.M611L	CCAGCATTCGGCC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195507539	195507539	+	Missense_Mutation	SNP	G	G	A	rs112530244		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	275	6	239	2	0.0218182	0.0083682	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C10912T	p.L3638F	AGGAAAGGCTGGT	.	scavenged	Atlas-SNP
ABCA12	26154	hgsc.bcm.edu	37	2	215843661	215843661	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	264	6	226	1	0.0227273	0.00442478	.	.	none	ABCA12,NS,carcinoma,+1,1	ABCA12	368	1	NM_173076	exon32	c.A4844G	p.E1615G	ACAAGCTCTCCCC	.	scavenged	Atlas-SNP
PSME4	23198	hgsc.bcm.edu	37	2	54135501	54135501	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	57	43	64	0	0.754386	0	.	.	none	PSME4,rectum,carcinoma,+1,1	PSME4	247	1	NM_014614	exon24	c.C2740T	p.R914X	TCCATCGGGAGTC	.	PASS	Atlas-SNP
TMC5	79838	hgsc.bcm.edu	37	16	19481009	19481009	+	Silent	SNP	C	C	T	rs145726955	bycluster;byfrequency;by1000genomes	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	304	94	113	0	0.309211	0	C|0.999;T|0.001	0.001	strong	.	TMC5	169	.	NM_001105249	exon10	c.C1644T	p.A548A	CATGGCCAAGTAT	.	PASS	Atlas-SNP
CCDC82	79780	hgsc.bcm.edu	37	11	96117573	96117573	+	Silent	SNP	C	C	T	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	435	6	264	0	0.0137931	0	.	.	none	CCDC82,NS,carcinoma,0,1	CCDC82	63	1	NM_024725	exon4	c.G339A	p.T113T	TTTGTTCGTTTCT	.	scavenged	Atlas-SNP
PCDHA8	56140	hgsc.bcm.edu	37	5	140221195	140221195	+	Missense_Mutation	SNP	G	G	C	rs61730626	byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	100	12	71	0	0.12	0	G|0.921;C|0.079	0.079	strong	PCDHA8_ENST00000531613,NS,carcinoma,0,8	PCDHA8	366	8	NM_031856	exon1	c.G289C	p.G97R	CTGTGCGGGCGGA	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511237	195511237	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	471	15	396	5	0.0318471	0.0126263	.	.	none	MUC4_ENST00000463781,NS,carcinoma,-1,3	MUC4	1505	3	NM_018406	exon2	c.A7214G	p.D2405G	GAAGTGTCGGTGA	.	scavenged	Atlas-SNP
POTEH	23784	hgsc.bcm.edu	37	22	16287562	16287562	+	Missense_Mutation	SNP	G	G	C	rs202187764	bycluster;byfrequency	TCGA-FF-8043-01A-11D-2210-10	TCGA-FF-8043-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e89e9c69-ffcd-4a4c-818d-1dee43ddc76a	dfa74511-2a52-4bd5-88f2-dad8c7450be4	525	17	443	14	0.032381	0.0316027	G|0.975;C|0.025	0.025	strong	POTEH,NS,carcinoma,0,1	POTEH	114	1	NM_001136213	exon1	c.C324G	p.C108W	CCTGCAGCAGGGG	.	scavenged	Atlas-SNP
