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
ATR	545	hgsc.bcm.edu	37	3	142274739	142274740	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	153	12	124	0	0.0784314	0	.	.	none	.	ATR	285	.	NM_001184	exon10	c.2321_2322insA	p.I774fs	.	.	PASS	Atlas-Indel
SMCHD1	23347	hgsc.bcm.edu	37	18	2732488	2732491	+	Frame_Shift_Del	DEL	AAAG	AAAG	-	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	AAAG	AAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	144	16	84	0	0.111111	0	.	.	none	.	SMCHD1	88	.	NM_015295	exon25	c.3273_3276del	p.1091_1092del	.	.	PASS	Atlas-Indel
EPS8L2	64787	hgsc.bcm.edu	37	11	726654	726655	+	Frame_Shift_Ins	INS	-	-	GCTC	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	106	18	103	.	0.170	.	.	.	none	.	EPS8L2	42	.	NM_022772	exon20	c.1970_1971insGCTC	p.Q657fs	.	.	PASS	Pindel,Atlas-Indel
IGLL5	100423062	hgsc.bcm.edu	37	22	23235883	23235884	+	Frame_Shift_Del	DEL	CC	CC	-	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	26	12	48	0	0.461538	0	.	.	none	.	IGLL5	26	.	NM_001178126	exon2	c.209_210del	p.70_70del	.	.	PASS	Atlas-Indel
PIM1	5292	hgsc.bcm.edu	37	6	37139046	37139047	+	In_Frame_Ins	INS	-	-	CTTCGA	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	123	14	110	0	0.113821	0	.	.	none	.	PIM1	71	.	NM_001243186	exon4	c.659_660insCTTCGA	p.L220delinsLFD	.	.	PASS	Atlas-Indel
MEF2BNB-MEF2B	4207	hgsc.bcm.edu	37	19	19261528	19261529	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	180	37	154	.	0.206	.	.	.	none	.	MEF2BNB-MEF2B	29	.	NM_005919	exon4	c.17_18insA	p.I6fs	.	.	PASS	Pindel,Atlas-Indel
CD79B	974	hgsc.bcm.edu	37	17	62007630	62007635	+	In_Frame_Del	DEL	CCAGAG	CCAGAG	-	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	CCAGAG	CCAGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	67	11	104	.	0.164	.	.	.	none	.	CD79B	38	.	NM_001039933	exon3	c.233_238del	p.78_80del	.	.	PASS	Pindel,Atlas-Indel
NEFH	4744	hgsc.bcm.edu	37	22	29885567	29885568	+	In_Frame_Ins	INS	-	-	AAGTCCCCTGAGAAGGCC	rs147489453	bycluster;by1000genomes	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	46	16	47	0	0.347826	0	.	.	strong	NEFH,rectum,carcinoma,0,1	NEFH	178	1	NM_021076	exon4	c.1938_1939insAAGTCCCCTGAGAAGGCC	p.A646delinsAKSPEKA	.	.	PASS	Atlas-Indel
CD58	965	hgsc.bcm.edu	37	1	117087138	117087139	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	203	45	276	.	0.222	.	.	.	none	.	CD58	40	.	NM_001144822	exon2	c.159_160del	p.53_54del	.	.	PASS	Pindel,Atlas-Indel
IL22RA2	116379	hgsc.bcm.edu	37	6	137468925	137468926	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	248	51	238	0	0.205645	0	.	.	none	.	IL22RA2	17	.	NM_052962	exon6	c.576_577insA	p.N192fs	.	.	PASS	Atlas-Indel
FAM194A	131831	hgsc.bcm.edu	37	3	150421591	150421593	+	In_Frame_Del	DEL	TCC	TCC	-	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	TCC	TCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	96	14	84	0	0.145833	0	.	.	none	.	FAM194A	91	.	NM_152394	exon1	c.94_96del	p.32_32del	.	.	PASS	Atlas-Indel
PCDH7	5099	hgsc.bcm.edu	37	4	30724220	30724221	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	86	13	103	.	0.151	.	.	.	none	.	PCDH7	215	.	NM_032457	exon1	c.1176_1177insC	p.Q392fs	.	.	PASS	Pindel,Atlas-Indel
C2orf81	388963	hgsc.bcm.edu	37	2	74642265	74642266	+	In_Frame_Ins	INS	-	-	CGCGGAGGGGCGGGTGGCGCCGCC	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	65	16	68	0	0.246154	0	.	.	none	C2orf81,colon,carcinoma,0,1	C2orf81	23	1	NM_001145054	exon4	c.958_959insGGCGGCGCCACCCGCCCCTCCGCG	p.S320delinsGGATRPSAS	.	.	PASS	Atlas-Indel
TPTE2	93492	hgsc.bcm.edu	37	13	20006716	20006716	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	129	4	130	0	0.0310078	0	.	.	none	TPTE2_ENST00000400230,NS,carcinoma,0,2	TPTE2	225	2	NM_199254	exon17	c.T1119G	p.N373K	ATATCTATTCTGA	.	scavenged	Atlas-SNP
CD79B	974	hgsc.bcm.edu	37	17	62006798	62006798	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	72	24	74	0	0.333333	0	.	.	none	CD79B,NS,lymphoid_neoplasm,-1,13	CD79B	38	13	NM_001039933	exon5	c.A590G	p.Y197C	ACCTCGTAGGTGT	.	PASS	Atlas-SNP
POM121	9883	hgsc.bcm.edu	37	7	72412793	72412793	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	437	4	420	1	0.00915332	0.00238095	.	.	none	POM121_ENST00000395270,NS,carcinoma,0,2	POM121	131	2	NM_172020	exon11	c.C1466T	p.A489V	CCACAGCGCCCTC	.	scavenged	Atlas-SNP
STAP2	55620	hgsc.bcm.edu	37	19	4328706	4328706	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	114	36	102	0	0.315789	0	.	.	none	.	STAP2	38	.	NM_001013841	exon6	c.G556A	p.G186S	ACACGCCGTCGGC	.	PASS	Atlas-SNP
CCDC127	133957	hgsc.bcm.edu	37	5	205863	205863	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	194	4	228	0	0.0206186	0	.	.	none	CCDC127,caecum,carcinoma,-1,1	CCDC127	27	1	NM_145265	exon3	c.G332A	p.R111H	AACTTGCGTCCCT	.	scavenged	Atlas-SNP
POU4F2	5458	hgsc.bcm.edu	37	4	147560457	147560457	+	Silent	SNP	T	T	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	81	5	105	0	0.0617284	0	.	.	none	.	POU4F2	83	.	NM_004575	exon1	c.T165C	p.G55G	TGGTGGTGGCGGC	.	PASS	Atlas-SNP
EFHB	151651	hgsc.bcm.edu	37	3	19974810	19974810	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	122	38	152	0	0.311475	0	.	.	none	.	EFHB	186	.	NM_144715	exon1	c.G701A	p.G234E	ATGTTTCCAGCCT	.	PASS	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	37	1	145323667	145323667	+	Missense_Mutation	SNP	C	C	G	rs199626421		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	92	6	60	0	0.0652174	0	.	.	weak	NBPF10,NS,carcinoma,0,6	NBPF10	221	6	NM_001039703	exon27	c.C3504G	p.D1168E	AAAGGACGAAGAA	.	scavenged	Atlas-SNP
KRTAP4-11	653240	hgsc.bcm.edu	37	17	39274426	39274426	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	97	4	90	2	0.0412371	0.0222222	.	.	none	KRTAP4-11,NS,carcinoma,+2,4	KRTAP4-11	94	4	NM_033059	exon1	c.A142T	p.S48C	AGCAGCTGGACAC	.	scavenged	Atlas-SNP
WDR70	55100	hgsc.bcm.edu	37	5	37703146	37703146	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	194	44	188	0	0.226804	0	.	.	none	.	WDR70	76	.	NM_018034	exon13	c.G1373A	p.R458H	TTGAGCGTAGGAC	.	PASS	Atlas-SNP
EPS8L1	54869	hgsc.bcm.edu	37	19	55593906	55593906	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	64	14	74	0	0.21875	0	.	.	none	.	EPS8L1	122	.	NM_133180	exon12	c.G1150A	p.D384N	CTGCGGGACAACG	.	PASS	Atlas-SNP
PHF20	51230	hgsc.bcm.edu	37	20	34458897	34458897	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	67	20	51	0	0.298507	0	.	.	none	.	PHF20	94	.	NM_016436	exon8	c.T943G	p.Y315D	AAAAACTACTCGG	.	PASS	Atlas-SNP
CNBD1	168975	hgsc.bcm.edu	37	8	88298781	88298781	+	Silent	SNP	T	T	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	70	19	82	0	0.271429	0	.	.	none	.	CNBD1	206	.	NM_173538	exon8	c.T924A	p.L308L	AAAACTTGAAAAT	.	PASS	Atlas-SNP
FAM179B	23116	hgsc.bcm.edu	37	14	45535938	45535938	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	106	31	113	0	0.292453	0	.	.	none	.	FAM179B	115	.	NM_015091	exon16	c.A4558G	p.N1520D	GAAAATAATCAAG	.	PASS	Atlas-SNP
TAS2R30	259293	hgsc.bcm.edu	37	12	11286093	11286093	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	178	41	170	0	0.230337	0	.	.	none	.	TAS2R30	28	.	NM_001097643	exon1	c.A751C	p.N251H	CAAAATTACAAAC	.	PASS	Atlas-SNP
ELAVL1	1994	hgsc.bcm.edu	37	19	8046064	8046064	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	86	26	90	0	0.302326	0	.	.	none	.	ELAVL1	44	.	NM_001419	exon3	c.G179A	p.S60N	CCCAAGCTGTGTC	.	PASS	Atlas-SNP
CDH7	1005	hgsc.bcm.edu	37	18	63527021	63527021	+	Silent	SNP	T	T	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	161	19	95	0	0.118012	0	.	.	none	.	CDH7	362	.	NM_004361	exon10	c.T1572C	p.D524D	AACGGATGCAACA	.	PASS	Atlas-SNP
SETD1B	23067	hgsc.bcm.edu	37	12	122248130	122248130	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	40	9	41	0	0.225	0	.	.	none	.	SETD1B	105	.	NM_015048	exon5	c.G1279T	p.E427X	AGTGGGGAGTTCC	.	PASS	Atlas-SNP
KRTAP4-3	85290	hgsc.bcm.edu	37	17	39324333	39324333	+	Missense_Mutation	SNP	T	T	A	rs12953139	bycluster;byfrequency	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	148	29	122	4	0.195946	0.0327869	A|0.046;T|0.954	0.046	strong	KRTAP4-3,NS,carcinoma,0,1	KRTAP4-3	40	1	NM_033187	exon1	c.A92T	p.Q31L	GTGGTCTGGCAGC	.	scavenged	Atlas-SNP
AGGF1	55109	hgsc.bcm.edu	37	5	76332530	76332530	+	Silent	SNP	T	T	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	129	3	163	0	0.0232558	0	.	.	none	AGGF1,NS,carcinoma,+2,1	AGGF1	71	1	NM_018046	exon4	c.T666G	p.G222G	CACTGGTTTCTAT	.	scavenged	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1016851	1016851	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	629	28	715	31	0.0445151	0.0433566	.	.	none	MUC6_ENST00000421673,NS,carcinoma,+2,2	MUC6	408	2	NM_005961	exon31	c.A5950G	p.M1984V	CAGTCATAGGACC	.	scavenged	Atlas-SNP
FAM205A	259308	hgsc.bcm.edu	37	9	34724155	34724155	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	128	35	103	0	0.273438	0	.	.	none	.	FAM205A	45	.	NM_001141917	exon4	c.G3082T	p.E1028X	GAGGCTCAGGGCC	.	PASS	Atlas-SNP
PLXNB2	23654	hgsc.bcm.edu	37	22	50720155	50720155	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	53	14	69	0	0.264151	0	.	.	none	.	PLXNB2	172	.	NM_012401	exon21	c.A3362T	p.K1121M	ATCGCCTTGTTCA	.	PASS	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385790	58385790	+	Missense_Mutation	SNP	G	G	T	rs111727691	bycluster	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	214	29	218	0	0.135514	0	G|0.500;T|0.500	0.500	weak	.	ZNF814	93	.	NM_001144989	exon3	c.C968A	p.P323H	TCATAAGGTCTTT	.	PASS	Atlas-SNP
ZNF780A	284323	hgsc.bcm.edu	37	19	40581535	40581535	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	227	3	207	0	0.0132159	0	.	.	none	ZNF780A,NS,carcinoma,0,2	ZNF780A	156	2	NM_001142577	exon6	c.T817G	p.S273A	CACCAGAATGAAT	.	scavenged	Atlas-SNP
PRSS33	260429	hgsc.bcm.edu	37	16	2835579	2835579	+	Missense_Mutation	SNP	G	G	A	rs7202954	bycluster;byfrequency;by1000genomes	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	11	6	2	2	0.545455	1	G|0.887;A|0.113	0.113	strong	PRSS33,NS,carcinoma,0,1	PRSS33	7	1	NM_152891	exon4	c.C311T	p.T104M	GAGAGCGTGCGGG	.	scavenged	Atlas-SNP
SKIDA1	387640	hgsc.bcm.edu	37	10	21805480	21805480	+	Silent	SNP	T	T	C	rs201836118	bycluster	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	39	10	46	0	0.25641	0	.	.	weak	C10orf140_ENST00000449193,colon,carcinoma,0,6	.	.	6	NM_207371	exon4	c.A1272G	p.E424E	CTCCTCTTCCTCC	.	PASS	Atlas-SNP
VSIG10L	147645	hgsc.bcm.edu	37	19	51841333	51841333	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	38	10	56	0	0.263158	0	.	.	none	.	VSIG10L	40	.	NM_001163922	exon6	c.T1859C	p.L620P	GGAGCCAGGGGCC	.	PASS	Atlas-SNP
PDZD8	118987	hgsc.bcm.edu	37	10	119133946	119133946	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	70	16	90	0	0.228571	0	.	.	none	.	PDZD8	85	.	NM_173791	exon1	c.C793T	p.P265S	GCTGGGGCATGGG	.	PASS	Atlas-SNP
C6orf48	50854	hgsc.bcm.edu	37	6	31805113	31805113	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	258	69	258	0	0.267442	0	.	.	none	.	C6orf48	8	.	NM_001040437	exon4	c.G8A	p.R3K	TGGAGAGAAGCTT	.	PASS	Atlas-SNP
IRF4	3662	hgsc.bcm.edu	37	6	393329	393329	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	68	19	81	0	0.279412	0	.	.	none	.	IRF4	65	.	NM_001195286	exon2	c.G177A	p.K59K	GGGCAAGCAGGAC	.	PASS	Atlas-SNP
PPP3R2	5535	hgsc.bcm.edu	37	9	104357008	104357008	+	Missense_Mutation	SNP	C	C	T	rs202237297	bycluster	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	87	7	76	0	0.0804598	0	.	.	weak	.	PPP3R2	38	.	NM_147180	exon1	c.G205A	p.G69S	CATCACCGTCGGT	.	PASS	Atlas-SNP
AKAP11	11215	hgsc.bcm.edu	37	13	42876626	42876626	+	Silent	SNP	C	C	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	97	26	104	0	0.268041	0	.	.	none	.	AKAP11	146	.	NM_016248	exon8	c.C3744A	p.P1248P	AAACCCCTCAGAC	.	PASS	Atlas-SNP
PCDH15	65217	hgsc.bcm.edu	37	10	55663021	55663021	+	Silent	SNP	A	A	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	121	29	173	0	0.239669	0	.	.	none	.	PCDH15	1715	.	NM_001142763	exon27	c.T3498C	p.T1166T	TACAGAAGTAAAC	.	PASS	Atlas-SNP
ARHGEF4	50649	hgsc.bcm.edu	37	2	131799003	131799003	+	Silent	SNP	C	C	T	rs374604987		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	42	9	66	0	0.214286	0	.	.	weak	.	ARHGEF4	89	.	NM_032995	exon9	c.C1305T	p.A435A	GCTGGCCGAGCTG	.	PASS	Atlas-SNP
ANAPC1	64682	hgsc.bcm.edu	37	2	112608394	112608394	+	Missense_Mutation	SNP	T	T	C	rs12466309	bycluster;byfrequency;byhapmap	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	442	6	368	1	0.0135747	0.00271739	T|0.500;C|0.500	0.500	strong	ANAPC1,NS,carcinoma,0,9	ANAPC1	116	9	NM_022662	exon14	c.A1609G	p.T537A	TTGGAGTACTAAC	.	scavenged	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238925	31238925	+	Missense_Mutation	SNP	C	C	T	rs141142418	bycluster;byfrequency	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	99	26	179	0	0.262626	0	C|0.971;T|0.029	0.029	strong	.	HLA-C	92	.	NM_002117	exon3	c.G544A	p.A182T	GGTAGGCTCTCAG	.	PASS	Atlas-SNP
UBE2D3	7323	hgsc.bcm.edu	37	4	103720570	103720570	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	505	137	512	1	0.271287	0.00195312	.	.	none	.	UBE2D3	25	.	NM_181893	exon6	c.G398A	p.R133K	TTATCTCTGTCTG	.	PASS	Atlas-SNP
BTG2	7832	hgsc.bcm.edu	37	1	203276261	203276261	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	63	16	57	0	0.253968	0	.	.	none	.	BTG2	16	.	NM_006763	exon2	c.A172C	p.K58Q	CCCGAAAAGCCGT	.	PASS	Atlas-SNP
CDK5RAP3	80279	hgsc.bcm.edu	37	17	46053334	46053334	+	Silent	SNP	A	A	G	rs202125432	byfrequency	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	52	5	58	2	0.0961538	0.0344828	A|0.949;G|0.051	0.051	strong	CDK5RAP3,NS,carcinoma,0,2	CDK5RAP3	38	2	NM_176096	exon8	c.A753G	p.E251E	GGTGGAACGACCC	.	scavenged	Atlas-SNP
MLL5	55904	hgsc.bcm.edu	37	7	104753240	104753240	+	Silent	SNP	A	A	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	42	33	48	29	0.785714	0.604167	.	.	none	MLL5,NS,carcinoma,0,2	MLL5	173	2	NM_018682	exon26	c.A5037C	p.P1679P	ACCCCCACCCCCA	.	scavenged	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37139063	37139063	+	Missense_Mutation	SNP	G	G	A	rs200523275	by1000genomes	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	125	22	120	0	0.176	0	G|1.000;A|0.000	0.000	strong	PIM1,NS,lymphoid_neoplasm,0,2	PIM1	71	2	NM_001243186	exon4	c.G676A	p.E226K	ATCACGGAAAGGG	.	PASS	Atlas-SNP
SEMA4C	54910	hgsc.bcm.edu	37	2	97531445	97531445	+	Silent	SNP	G	G	A	rs139208590	bycluster;byfrequency;by1000genomes	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	93	28	92	0	0.301075	0	G|1.000;A|0.000	0.000	strong	.	SEMA4C	56	.	NM_017789	exon5	c.C378T	p.Y126Y	ACAGACGTACAGG	.	PASS	Atlas-SNP
HIST1H2BC	8347	hgsc.bcm.edu	37	6	26123915	26123915	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	109	11	126	0	0.100917	0	.	.	none	.	HIST1H2BC	35	.	NM_003526	exon1	c.G218A	p.R73H	GCGATGCGCTCAA	.	PASS	Atlas-SNP
IRF4	3662	hgsc.bcm.edu	37	6	393360	393360	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	46	14	57	0	0.304348	0	.	.	none	.	IRF4	65	.	NM_001195286	exon2	c.C208G	p.L70V	GCCGCGCTCTTCA	.	PASS	Atlas-SNP
OSBPL10	114884	hgsc.bcm.edu	37	3	32022624	32022624	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	114	38	128	0	0.333333	0	.	.	none	.	OSBPL10	160	.	NM_017784	exon1	c.C48T	p.S16S	GCTGCTGCTGTTG	.	PASS	Atlas-SNP
VPS13A	23230	hgsc.bcm.edu	37	9	79875041	79875041	+	Silent	SNP	A	A	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	315	55	223	0	0.174603	0	.	.	none	VPS13A_ENST00000376634,colon,carcinoma,+2,3	VPS13A	735	3	NM_001018038	exon23	c.A2328T	p.R776R	TTTACGAATCTCA	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138416	37138416	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	80	12	70	0	0.15	0	.	.	none	.	PIM1	71	.	NM_001243186	exon1	c.C338T	p.A113V	TGCACGCCACCAA	.	PASS	Atlas-SNP
PCBP4	57060	hgsc.bcm.edu	37	3	51994890	51994890	+	Silent	SNP	G	G	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	73	4	91	0	0.0547945	0	.	.	none	.	PCBP4	35	.	NM_033008	exon4	c.C130A	p.R44R	GCTCCCGGATTCG	.	PASS	Atlas-SNP
C11orf40	143501	hgsc.bcm.edu	37	11	4592708	4592708	+	Missense_Mutation	SNP	C	C	G	rs79804156	bycluster	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	125	11	132	0	0.088	0	.	.	weak	.	C11orf40	37	.	NM_144663	exon4	c.G599C	p.C200S	TCCATACAGTTTT	.	PASS	Atlas-SNP
OR1S2	219958	hgsc.bcm.edu	37	11	57971351	57971351	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	335	6	399	9	0.0179104	0.0225564	.	.	none	OR1S2,NS,adenoma,-1,1	OR1S2	119	1	NM_001004459	exon1	c.C303G	p.N101K	TTGGCTGTTGGTT	.	scavenged	Atlas-SNP
TRDN	10345	hgsc.bcm.edu	37	6	123869636	123869636	+	Silent	SNP	A	A	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	103	26	99	0	0.252427	0	.	.	none	.	TRDN	88	.	NM_001256022	exon3	c.T354C	p.D118D	TTCTTCATCTTCA	.	PASS	Atlas-SNP
XKR4	114786	hgsc.bcm.edu	37	8	56270330	56270330	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	219	56	231	0	0.255708	0	.	.	none	XKR4,colon,carcinoma,0,1	XKR4	104	1	NM_052898	exon2	c.C899T	p.A300V	AGTATGCGGATGT	.	PASS	Atlas-SNP
PER3	8863	hgsc.bcm.edu	37	1	7890024	7890024	+	Missense_Mutation	SNP	T	T	G	rs201662971	bycluster	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	104	5	118	2	0.0480769	0.0169492	.	.	weak	PER3,NS,carcinoma,0,3	PER3	95	3	NM_016831	exon18	c.T2990G	p.M997R	CTCCCATGAAGAA	.	scavenged	Atlas-SNP
ALOXE3	59344	hgsc.bcm.edu	37	17	8012556	8012556	+	Missense_Mutation	SNP	C	C	T	rs121434232	alternate_allele	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	51	16	44	0	0.313726	0	.	.	alt	.	ALOXE3	145	.	NM_001165960	exon12	c.G1894A	p.V632I	CCAGGACGCCGCG	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1016849	1016849	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	639	29	718	33	0.0453834	0.045961	.	.	none	MUC6_ENST00000421673,NS,carcinoma,0,2	MUC6	408	2	NM_005961	exon31	c.G5952C	p.M1984I	TGCAGTCATAGGA	.	scavenged	Atlas-SNP
POTEH	23784	hgsc.bcm.edu	37	22	16287673	16287673	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	511	6	559	1	0.0117417	0.00178891	.	.	none	POTEH,NS,carcinoma,0,4	POTEH	114	4	NM_001136213	exon1	c.G213C	p.W71C	CCTGCACCAGGGG	.	scavenged	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	8993393	8993393	+	Missense_Mutation	SNP	C	C	A	rs376237412	alternate_allele	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	114	28	115	0	0.245614	0	.	.	alt	.	MUC16	4315	.	NM_024690	exon66	c.G41696T	p.R13899M	CTGTCCCTGTCCA	.	PASS	Atlas-SNP
IGJ	3512	hgsc.bcm.edu	37	4	71522967	71522967	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	87	18	91	0	0.206897	0	.	.	none	.	IGJ	13	.	NM_144646	exon3	c.C230T	p.S77L	AATGGTGAGGTGG	.	PASS	Atlas-SNP
IRF4	3662	hgsc.bcm.edu	37	6	393206	393206	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	67	22	89	1	0.328358	0.011236	.	.	none	IRF4_ENST00000380956,NS,carcinoma,+2,4	IRF4	65	4	NM_001195286	exon2	c.C54G	p.S18R	GGTGAGCTGCGGC	.	scavenged	Atlas-SNP
ALMS1	7840	hgsc.bcm.edu	37	2	73677421	73677421	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	92	2	104	1	0.0217391	0.00961538	.	.	none	ALMS1,NS,carcinoma,+1,1	ALMS1	384	1	NM_015120	exon8	c.A3764G	p.N1255S	CAGATAATCATCC	.	scavenged	Atlas-SNP
MMEL1	79258	hgsc.bcm.edu	37	1	2527447	2527447	+	Splice_Site	SNP	C	C	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	109	28	120	0	0.256881	0	.	.	none	.	MMEL1	64	.	NM_033467	exon16	c.1500+1G>T	.	CACATACCTTCTC	.	PASS	Atlas-SNP
FOXA2	3170	hgsc.bcm.edu	37	20	22562836	22562836	+	Silent	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	74	20	99	0	0.27027	0	.	.	none	.	FOXA2	48	.	NM_021784	exon2	c.G1044A	p.Q348Q	CTGCTGCTGCTGC	.	PASS	Atlas-SNP
C15orf43	145645	hgsc.bcm.edu	37	15	45253735	45253735	+	Missense_Mutation	SNP	A	A	T	rs77033860	bycluster;byfrequency	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	256	9	232	3	0.0351562	0.012931	A|0.989;T|0.011	0.011	strong	C15orf43,NS,haematopoietic_neoplasm,0,2	C15orf43	19	2	NM_152448	exon4	c.A301T	p.I101F	AGAAAAATTGGTA	.	scavenged	Atlas-SNP
MYH14	79784	hgsc.bcm.edu	37	19	50753007	50753007	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	96	28	105	0	0.291667	0	.	.	none	MYH14_ENST00000262269,NS,carcinoma,+1,2	MYH14	261	2	NM_001077186	exon14	c.G1583A	p.R528H	ACCAGCGTGAGGG	.	PASS	Atlas-SNP
FAM47C	442444	hgsc.bcm.edu	37	X	37028925	37028925	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	68	35	79	0	0.514706	0	.	.	none	.	FAM47C	267	.	NM_001013736	exon1	c.G2442A	p.P814P	CTGCCCGGAGCCT	.	PASS	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	37	1	145299809	145299809	+	Missense_Mutation	SNP	G	G	A	rs61814630	bycluster	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	144	10	145	4	0.0694444	0.0275862	.	.	weak	NBPF10_ENST00000369338,extremity,malignant_melanoma,0,3	NBPF10	221	3	NM_001039703	exon6	c.G858A	p.M286I	AGAGATGAACATT	.	scavenged	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144856817	144856817	+	Missense_Mutation	SNP	T	T	C	rs3844239	bycluster	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	73	5	86	3	0.0684932	0.0348837	.	.	weak	PDE4DIP_ENST00000369356,caecum,carcinoma,0,4	PDE4DIP	817	4	NM_014644	exon40	c.A6668G	p.E2223G	ATTACCTCTGTGC	.	scavenged	Atlas-SNP
SDK1	221935	hgsc.bcm.edu	37	7	4153851	4153851	+	Silent	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	94	32	101	0	0.340426	0	.	.	none	.	SDK1	361	.	NM_152744	exon25	c.C3768T	p.N1256N	CTTCAACGCCGTC	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138919	37138919	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	63	11	53	0	0.174603	0	.	.	none	.	PIM1	71	.	NM_001243186	exon4	c.C532T	p.P178S	CGAGTGCCCATGG	.	PASS	Atlas-SNP
KCNT2	343450	hgsc.bcm.edu	37	1	196451484	196451484	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	229	53	227	0	0.231441	0	.	.	none	.	KCNT2	243	.	NM_198503	exon4	c.A301T	p.S101C	GTAGACTTCTGTT	.	PASS	Atlas-SNP
TNF	7124	hgsc.bcm.edu	37	6	31544592	31544592	+	Splice_Site	SNP	G	G	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	164	61	243	0	0.371951	0	.	.	none	.	TNF	15	.	NM_000594	exon3	c.280+1G>C	.	TTGTAGGTAAGAG	.	PASS	Atlas-SNP
DOCK3	1795	hgsc.bcm.edu	37	3	51315142	51315142	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	255	62	242	0	0.243137	0	.	.	none	DOCK3_ENST00000266037,colon,carcinoma,0,1	DOCK3	397	1	NM_004947	exon26	c.C2780T	p.A927V	AGGAGGCGGTAAG	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1017068	1017068	+	Silent	SNP	C	C	T	rs78992004		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	496	47	661	68	0.0947581	0.102874	C|0.500;T|0.500	0.500	weak	MUC6,NS,carcinoma,-1,1	MUC6	408	1	NM_005961	exon31	c.G5733A	p.T1911T	TTTGGCCGTGCTA	.	scavenged	Atlas-SNP
MPEG1	219972	hgsc.bcm.edu	37	11	58980009	58980009	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	133	45	121	0	0.338346	0	.	.	none	.	MPEG1	72	.	NM_001039396	exon1	c.C330T	p.S110S	GGAGGTGCTACTC	.	PASS	Atlas-SNP
RNF145	153830	hgsc.bcm.edu	37	5	158630642	158630642	+	Missense_Mutation	SNP	T	T	C	rs202186112		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	72	2	63	2	0.0277778	0.031746	.	.	weak	RNF145,NS,carcinoma,0,2	RNF145	110	2	NM_001199380	exon2	c.A74G	p.K25R	TTTTTCTTTTTTT	.	scavenged	Atlas-SNP
BAAT	570	hgsc.bcm.edu	37	9	104125078	104125078	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	171	31	170	0	0.181287	0	.	.	none	BAAT,NS,carcinoma,+1,2	BAAT	52	2	NM_001127610	exon4	c.C889T	p.R297C	AAGTGCGATAGAG	.	PASS	Atlas-SNP
IRF4	3662	hgsc.bcm.edu	37	6	393328	393328	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	68	20	83	0	0.294118	0	.	.	none	.	IRF4	65	.	NM_001195286	exon2	c.A176G	p.K59R	CGGGCAAGCAGGA	.	PASS	Atlas-SNP
UNC80	285175	hgsc.bcm.edu	37	2	210690724	210690724	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	95	28	94	0	0.294737	0	.	.	none	UNC80_ENST00000439458,NS,carcinoma,0,1	UNC80	280	1	NM_182587	exon14	c.G2425A	p.G809R	GGTGAAGGACACC	.	PASS	Atlas-SNP
KIAA1244	57221	hgsc.bcm.edu	37	6	138528237	138528237	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	85	18	101	0	0.211765	0	.	.	none	.	KIAA1244	236	.	NM_020340	exon3	c.C196A	p.Q66K	CTGGCCCAACATG	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138609	37138609	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	106	19	99	0	0.179245	0	.	.	none	.	PIM1	71	.	NM_001243186	exon2	c.G416A	p.G139D	GCGGCGGCTTCGG	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138267	37138267	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	39	9	30	0	0.230769	0	.	.	none	.	PIM1	71	.	NM_001243186	exon1	c.G189A	p.R63R	CCCCAGGCATAGC	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37139042	37139042	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	125	57	111	0	0.456	0	.	.	none	.	PIM1	71	.	NM_001243186	exon4	c.G655A	p.D219N	GTGCAAGATCTCT	.	PASS	Atlas-SNP
GAL3ST1	9514	hgsc.bcm.edu	37	22	30951371	30951371	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	31	10	40	0	0.322581	0	.	.	none	.	GAL3ST1	44	.	NM_004861	exon4	c.C841T	p.R281C	CGCGGCGGGCGTT	.	PASS	Atlas-SNP
STOML2	30968	hgsc.bcm.edu	37	9	35100654	35100654	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	129	12	113	0	0.0930233	0	.	.	none	.	STOML2	27	.	NM_013442	exon9	c.G874A	p.D292N	TGGAGTCCTTGGC	.	PASS	Atlas-SNP
EIF3A	8661	hgsc.bcm.edu	37	10	120824953	120824953	+	Silent	SNP	A	A	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	129	35	136	0	0.271318	0	.	.	none	.	EIF3A	142	.	NM_003750	exon7	c.T1080G	p.G360G	TTGAAGACCTAGT	.	PASS	Atlas-SNP
VPS13B	157680	hgsc.bcm.edu	37	8	100887760	100887760	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	162	61	172	0	0.376543	0	.	.	none	.	VPS13B	811	.	NM_017890	exon62	c.C11935T	p.P3979S	CCATGCCCTGTGG	.	PASS	Atlas-SNP
PRKCH	5583	hgsc.bcm.edu	37	14	61857975	61857975	+	Silent	SNP	G	G	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	106	29	106	0	0.273585	0	.	.	none	.	PRKCH	89	.	NM_006255	exon2	c.G396T	p.V132V	ATTTGTGGTAATA	.	PASS	Atlas-SNP
ZNF677	342926	hgsc.bcm.edu	37	19	53740528	53740528	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	139	46	139	0	0.330935	0	.	.	none	ZNF677,colon,carcinoma,0,2	ZNF677	94	2	NM_182609	exon5	c.G1452C	p.E484D	AGGTTTCTCTCCA	.	PASS	Atlas-SNP
CDH20	28316	hgsc.bcm.edu	37	18	59203733	59203733	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	252	41	126	0	0.162698	0	.	.	none	.	CDH20	117	.	NM_031891	exon7	c.A1279C	p.I427L	TACTCCATTGATA	.	PASS	Atlas-SNP
PDZD8	118987	hgsc.bcm.edu	37	10	119133982	119133982	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	70	14	92	0	0.2	0	.	.	none	.	PDZD8	85	.	NM_173791	exon1	c.T757C	p.F253L	CCTCGAAGTCGAT	.	PASS	Atlas-SNP
INTS12	57117	hgsc.bcm.edu	37	4	106621116	106621116	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	113	27	112	0	0.238938	0	.	.	none	.	INTS12	35	.	NM_020395	exon3	c.C47T	p.A16V	CCTAGTGCTTTCA	.	PASS	Atlas-SNP
PLCB1	23236	hgsc.bcm.edu	37	20	8130945	8130945	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	263	61	311	0	0.231939	0	.	.	none	.	PLCB1	394	.	NM_015192	exon2	c.T104A	p.V35D	AGGACTCAACTAT	.	PASS	Atlas-SNP
HS6ST3	266722	hgsc.bcm.edu	37	13	96743654	96743654	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	35	15	22	0	0.428571	0	.	.	none	.	HS6ST3	54	.	NM_153456	exon1	c.G538A	p.G180S	AAAGCGGGTCAGA	.	PASS	Atlas-SNP
HAS2	3037	hgsc.bcm.edu	37	8	122641110	122641110	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	172	42	213	0	0.244186	0	.	.	none	.	HAS2	87	.	NM_005328	exon2	c.C471T	p.P157P	CTCACCGGGACCC	.	PASS	Atlas-SNP
PTMA	5757	hgsc.bcm.edu	37	2	232577559	232577559	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	50	3	53	1	0.06	0.0188679	.	.	none	PTMA,NS,carcinoma,0,2	PTMA	12	2	NM_001099285	exon5	c.T334C	p.X112Q	GATGACTAGACAG	.	scavenged	Atlas-SNP
MAGEL2	54551	hgsc.bcm.edu	37	15	23889331	23889331	+	Nonsense_Mutation	SNP	G	G	A	rs368965952	alternate_allele	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	87	26	97	0	0.298851	0	.	.	alt	.	MAGEL2	108	.	NM_019066	exon1	c.C3559T	p.R1187X	ATGCTCGAGGGCC	.	PASS	Atlas-SNP
FKBP5	2289	hgsc.bcm.edu	37	6	35610531	35610531	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	278	111	228	0	0.399281	0	.	.	none	.	FKBP5	64	.	NM_001145775	exon3	c.A71C	p.D24A	GTAATATCCTCTC	.	PASS	Atlas-SNP
NR3C2	4306	hgsc.bcm.edu	37	4	149002555	149002555	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	103	36	110	0	0.349515	0	.	.	none	NR3C2,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1	NR3C2	94	1	NM_000901	exon9	c.C2895T	p.S965S	CTGGTCGCTGATG	.	PASS	Atlas-SNP
SRGAP1	57522	hgsc.bcm.edu	37	12	64485076	64485076	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	61	11	73	0	0.180328	0	.	.	none	.	SRGAP1	146	.	NM_020762	exon12	c.A1457C	p.K486T	CCCCTAAGCCCCA	.	PASS	Atlas-SNP
MESP2	145873	hgsc.bcm.edu	37	15	90320146	90320146	+	Silent	SNP	G	G	A	rs28546919	bycluster	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	29	27	9	0	0.931035	0	A|1.000;|0.000	1.000	weak	.	MESP2	20	.	NM_001039958	exon1	c.G558A	p.Q186Q	GGGGCAGGGGCAG	.	PASS	Atlas-SNP
TTLL6	284076	hgsc.bcm.edu	37	17	46847276	46847276	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	420	120	440	0	0.285714	0	.	.	none	.	TTLL6	113	.	NM_001130918	exon14	c.A2224G	p.K742E	AAGATTTTAACAT	.	PASS	Atlas-SNP
FAM171B	165215	hgsc.bcm.edu	37	2	187559047	187559047	+	Silent	SNP	G	G	A	rs73979342	bycluster	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	73	15	66	0	0.205479	0	G|0.500;A|0.500	0.500	weak	FAM171B,NS,carcinoma,0,1	FAM171B	146	1	NM_177454	exon1	c.G147A	p.Q49Q	GCAGCAGCAACAA	.	PASS	Atlas-SNP
ZNF425	155054	hgsc.bcm.edu	37	7	148801430	148801430	+	Silent	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	74	27	84	0	0.364865	0	.	.	none	ZNF425,NS,carcinoma,0,1	ZNF425	99	1	NM_001001661	exon4	c.G1533A	p.S511S	GAGCCGCGACTGC	.	PASS	Atlas-SNP
SLC35G5	83650	hgsc.bcm.edu	37	8	11188806	11188806	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	148	8	153	8	0.0540541	0.0522876	.	.	none	AMAC1L2,trunk,malignant_melanoma,0,1	.	.	1	NM_054028	exon1	c.G191C	p.G64A	ACCAGGGTTCCAA	.	scavenged	Atlas-SNP
AKR1B15	441282	hgsc.bcm.edu	37	7	134260279	134260279	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	92	40	103	0	0.434783	0	.	.	none	.	AKR1B15	105	.	NM_001080538	exon7	c.A621T	p.K207N	ATATAAACCAGTG	.	PASS	Atlas-SNP
MTNR1B	4544	hgsc.bcm.edu	37	11	92703057	92703057	+	Missense_Mutation	SNP	G	G	A	rs148309052		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	52	11	57	0	0.211538	0	G|1.000;A|0.000	0.000	weak	.	MTNR1B	75	.	NM_005959	exon1	c.G166A	p.V56M	GACGTCGTGGGCA	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230278	23230278	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	103	35	171	1	0.339806	0.00584795	.	.	none	IGLL5,NS,lymphoid_neoplasm,0,1	IGLL5	26	1	NM_001178126	exon1	c.G45A	p.E15E	TGAGGAGCTGGGC	.	scavenged	Atlas-SNP
CPAMD8	27151	hgsc.bcm.edu	37	19	17081795	17081795	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	43	11	43	0	0.255814	0	.	.	none	CPAMD8,right_upper_lobe,carcinoma,+1,1	CPAMD8	192	1	NM_015692	exon18	c.C2260T	p.Q754X	CGTCCTGCCGGTG	.	PASS	Atlas-SNP
ANKHD1	54882	hgsc.bcm.edu	37	5	139818110	139818110	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	109	19	127	0	0.174312	0	.	.	none	.	ANKHD1	233	.	NM_024668	exon3	c.G525A	p.L175L	GAGACTGACATCC	.	PASS	Atlas-SNP
CCDC47	57003	hgsc.bcm.edu	37	17	61833644	61833644	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	171	40	159	0	0.233918	0	.	.	none	.	CCDC47	34	.	NM_020198	exon8	c.C904G	p.L302V	CTGACAGGATGGC	.	PASS	Atlas-SNP
MAEA	10296	hgsc.bcm.edu	37	4	1326571	1326571	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	122	40	136	0	0.327869	0	.	.	none	.	MAEA	39	.	NM_001017405	exon6	c.C683T	p.A228V	GCCAAGCAGAAGG	.	PASS	Atlas-SNP
SHANK2	22941	hgsc.bcm.edu	37	11	70332437	70332437	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	86	26	114	0	0.302326	0	.	.	none	.	SHANK2	340	.	NM_133266	exon10	c.G2197A	p.A733T	TAGTGGCGTCCAC	.	PASS	Atlas-SNP
PPP2R2B	5521	hgsc.bcm.edu	37	5	145979852	145979852	+	Splice_Site	SNP	A	A	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	131	36	210	0	0.274809	0	.	.	none	.	PPP2R2B	271	.	NM_001271948	exon9	c.927+2T>G	.	TTCTATACCTGGT	.	PASS	Atlas-SNP
NLRP9	338321	hgsc.bcm.edu	37	19	56244737	56244737	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	138	41	163	0	0.297101	0	.	.	none	.	NLRP9	163	.	NM_176820	exon2	c.G460A	p.D154N	TTCCATCAGGACC	.	PASS	Atlas-SNP
TRIM51	84767	hgsc.bcm.edu	37	11	55655597	55655597	+	Silent	SNP	A	A	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	417	25	446	14	0.059952	0.0313901	.	.	none	SPRYD5_ENST00000327733,NS,carcinoma,+2,2	.	.	2	NM_032681	exon4	c.A597G	p.E199E	CTTGGAAAGGCTG	.	scavenged	Atlas-SNP
PER3	8863	hgsc.bcm.edu	37	1	7890026	7890026	+	Missense_Mutation	SNP	A	A	G	rs199947375	bycluster	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	103	6	118	3	0.0582524	0.0254237	.	.	weak	PER3,NS,carcinoma,0,4	PER3	95	4	NM_016831	exon18	c.A2992G	p.K998E	CCCATGAAGAATC	.	scavenged	Atlas-SNP
UNC80	285175	hgsc.bcm.edu	37	2	210694100	210694100	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	131	40	166	0	0.305344	0	.	.	none	.	UNC80	280	.	NM_032504	exon15	c.G2623A	p.D875N	GTCACTGACAGTA	.	PASS	Atlas-SNP
POSTN	10631	hgsc.bcm.edu	37	13	38158888	38158888	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	217	59	234	2	0.271889	0.00854701	.	.	none	POSTN,colon,carcinoma,0,1	POSTN	161	1	NM_006475	exon8	c.T1073C	p.I358T	AAATGGATCACAC	.	scavenged	Atlas-SNP
SDPR	8436	hgsc.bcm.edu	37	2	192700851	192700851	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	154	43	136	1	0.279221	0.00735294	.	.	none	SDPR,right_upper_lobe,carcinoma,+1,1	SDPR	67	1	NM_004657	exon2	c.C1076T	p.A359V	GAGGTCGCCTTCT	.	scavenged	Atlas-SNP
CRYBG3	131544	hgsc.bcm.edu	37	3	97607289	97607289	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	276	50	261	2	0.181159	0.00766284	.	.	none	CRYBG3,NS,carcinoma,-1,1	CRYBG3	86	1	NM_153605	exon9	c.C7394T	p.P2465L	TACATCCGCTTCA	.	scavenged	Atlas-SNP
ITGB4	3691	hgsc.bcm.edu	37	17	73727034	73727034	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	37	8	36	0	0.216216	0	.	.	none	.	ITGB4	165	.	NM_001005731	exon9	c.G1081A	p.E361K	CTGGAGGAGGCCT	.	PASS	Atlas-SNP
PLK5	126520	hgsc.bcm.edu	37	19	1535205	1535205	+	Missense_Mutation	SNP	G	G	C	rs265282	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	6	6	0	0	1	.	G|0.681;C|0.319	0.319	strong	.	PLK5	1	.	NM_001243079	exon14	c.G967C	p.G323R	ACCACCGGACAGC	.	PASS	Atlas-SNP
FAM171B	165215	hgsc.bcm.edu	37	2	187559069	187559069	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	85	3	71	0	0.0352941	0	.	.	none	FAM171B,NS,carcinoma,0,1	FAM171B	146	1	NM_177454	exon1	c.A169C	p.K57Q	CAGCAAAAGCAGC	.	scavenged	Atlas-SNP
PPP2R2C	5522	hgsc.bcm.edu	37	4	6325285	6325285	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	65	17	93	0	0.261538	0	.	.	none	.	PPP2R2C	63	.	NM_181876	exon9	c.G1088A	p.R363H	AACATGCGGAAGA	.	PASS	Atlas-SNP
NFYA	4800	hgsc.bcm.edu	37	6	41060751	41060751	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	127	53	76	0	0.417323	0	.	.	none	.	NFYA	33	.	NM_002505	exon8	c.A815G	p.Y272C	AACAATACCACCG	.	PASS	Atlas-SNP
OR7G1	125962	hgsc.bcm.edu	37	19	9226244	9226244	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	135	42	107	0	0.311111	0	.	.	none	.	OR7G1	53	.	NM_001005192	exon1	c.C196G	p.L66V	AGGAGAGATTAAA	.	PASS	Atlas-SNP
CHIT1	1118	hgsc.bcm.edu	37	1	203186947	203186947	+	Missense_Mutation	SNP	G	G	C	rs201682373	byfrequency	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	47	7	44	0	0.148936	0	G|0.988;C|0.012	0.012	strong	CHIT1,NS,carcinoma,0,1	CHIT1	61	1	NM_003465	exon10	c.C1076G	p.A359G	TCCAGTGCCCAGA	.	scavenged	Atlas-SNP
MDGA1	266727	hgsc.bcm.edu	37	6	37605198	37605198	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	105	47	94	0	0.447619	0	.	.	none	.	MDGA1	104	.	NM_153487	exon17	c.C2814T	p.S938S	TGGGCTGGACTGG	.	PASS	Atlas-SNP
LRRC7	57554	hgsc.bcm.edu	37	1	70501838	70501838	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	153	46	136	0	0.300654	0	.	.	none	.	LRRC7	400	.	NM_020794	exon17	c.T1916C	p.I639T	TGAGGATTGGGGA	.	PASS	Atlas-SNP
CRYBB3	1417	hgsc.bcm.edu	37	22	25603042	25603042	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	73	17	68	0	0.232877	0	.	.	none	.	CRYBB3	13	.	NM_004076	exon6	c.C499T	p.P167S	GGCTACCGTGGGC	.	PASS	Atlas-SNP
FRG2B	441581	hgsc.bcm.edu	37	10	135438933	135438933	+	Silent	SNP	C	C	T	rs200793608		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	435	7	439	6	0.016092	0.0136674	C|0.996;T|0.004	0.004	weak	FRG2B,colon,carcinoma,-1,1	FRG2B	47	1	NM_001080998	exon4	c.G507A	p.P169P	AATTGACGGTGTT	.	scavenged	Atlas-SNP
RFX2	5990	hgsc.bcm.edu	37	19	6016117	6016117	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	69	20	54	0	0.289855	0	.	.	none	.	RFX2	60	.	NM_000635	exon7	c.C763T	p.R255W	GCCGCCGCGTTCT	.	PASS	Atlas-SNP
MPEG1	219972	hgsc.bcm.edu	37	11	58978697	58978697	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	64	16	77	0	0.25	0	.	.	none	.	MPEG1	72	.	NM_001039396	exon1	c.G1642A	p.D548N	CTAAATCTCTGGA	.	PASS	Atlas-SNP
MTRNR2L7	100288485	hgsc.bcm.edu	37	10	37890955	37890955	+	Silent	SNP	G	G	A	rs2180706	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	12	6	2	0	0.5	0	G|0.434;A|0.566	0.566	strong	.	.	.	.	NM_001190489	exon1	c.C18T	p.F6F	GCAGCCGAACCCT	.	PASS	Atlas-SNP
FEM1B	10116	hgsc.bcm.edu	37	15	68583506	68583506	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	109	26	135	0	0.238532	0	.	.	none	.	FEM1B	38	.	NM_015322	exon2	c.G1810A	p.A604T	GCCCGAGCAGTTC	.	PASS	Atlas-SNP
RGPD3	653489	hgsc.bcm.edu	37	2	107049681	107049681	+	Missense_Mutation	SNP	T	T	C	rs369310197		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	790	8	819	6	0.0101266	0.00732601	.	.	weak	RGPD3_ENST00000304514,NS,carcinoma,0,6	RGPD3	316	6	NM_001144013	exon16	c.A2266G	p.N756D	TATAGTTTTCGAG	.	scavenged	Atlas-SNP
RFPL1	5988	hgsc.bcm.edu	37	22	29837827	29837827	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	245	11	237	6	0.044898	0.0253165	.	.	none	RFPL1,NS,carcinoma,0,1	RFPL1	43	1	NM_021026	exon2	c.A670G	p.S224G	GATGGAAGCCGCC	.	scavenged	Atlas-SNP
ZNF707	286075	hgsc.bcm.edu	37	8	144775926	144775926	+	Silent	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	111	27	102	0	0.243243	0	.	.	none	.	ZNF707	21	.	NM_001100598	exon6	c.C342T	p.A114A	AAGAGCCAGGGAA	.	PASS	Atlas-SNP
TUBA3E	112714	hgsc.bcm.edu	37	2	130951638	130951638	+	Silent	SNP	G	G	T	rs141240951	bycluster;byfrequency;by1000genomes	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	164	8	170	5	0.0487805	0.0294118	G|0.989;T|0.011	0.011	strong	TUBA3E,colon,carcinoma,0,1	TUBA3E	73	1	NM_207312	exon4	c.C777A	p.L259L	CGGCACGAGGTTG	.	scavenged	Atlas-SNP
ZNF648	127665	hgsc.bcm.edu	37	1	182026466	182026466	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	64	20	69	0	0.3125	0	.	.	none	.	ZNF648	111	.	NM_001009992	exon2	c.C680T	p.A227V	TTCCGCGCTTTTG	.	PASS	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385799	58385799	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	189	29	203	1	0.153439	0.00492611	.	.	none	ZNF814,brain,primitive_neuroectodermal_tumour-medulloblastoma,+1,2	ZNF814	93	2	NM_001144989	exon3	c.G959A	p.G320E	CTTTTCCCAGTGT	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511911	195511911	+	Silent	SNP	G	G	A	rs200732241		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	244	6	242	5	0.0245902	0.0206612	G|0.998;A|0.002	0.002	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C6540T	p.T2180T	AGTGTCGGTGACA	.	scavenged	Atlas-SNP
FN1	2335	hgsc.bcm.edu	37	2	216257691	216257691	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	126	31	135	0	0.246032	0	.	.	none	.	FN1	521	.	NM_212482	exon25	c.C4032T	p.G1344G	CTCGCCGCCATTA	.	PASS	Atlas-SNP
ZSCAN25	221785	hgsc.bcm.edu	37	7	99219100	99219100	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	83	31	55	0	0.373494	0	.	.	none	.	.	.	.	NM_145115	exon5	c.G492A	p.G164G	ATGGGGGATGCCC	.	PASS	Atlas-SNP
TMEM54	113452	hgsc.bcm.edu	37	1	33363889	33363889	+	Silent	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	68	21	90	0	0.308824	0	.	.	none	.	TMEM54	12	.	NM_033504	exon2	c.G48A	p.V16V	CATCAGCACCTTC	.	PASS	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	37	4	126242688	126242688	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	126	26	147	0	0.206349	0	.	.	none	.	FAT4	1752	.	NM_024582	exon1	c.G5122A	p.D1708N	CTGGTGGATGTTT	.	PASS	Atlas-SNP
KLHL14	57565	hgsc.bcm.edu	37	18	30350266	30350266	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	204	38	165	0	0.186275	0	.	.	none	.	KLHL14	92	.	NM_020805	exon2	c.C289T	p.Q97X	GCGGCTGCTGCTG	.	PASS	Atlas-SNP
HIST1H2AI	8329	hgsc.bcm.edu	37	6	27776072	27776072	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	272	20	224	0	0.0735294	0	.	.	none	.	HIST1H2AI	9	.	NM_003509	exon1	c.G85A	p.G29S	CCCGTAGGCCGAG	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230279	23230279	+	Silent	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	102	34	166	0	0.333333	0	.	.	none	.	IGLL5	26	.	NM_001178126	exon1	c.C46T	p.L16L	GAGGAGCTGGGCC	.	PASS	Atlas-SNP
DGKD	8527	hgsc.bcm.edu	37	2	234363499	234363499	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	53	10	46	0	0.188679	0	.	.	none	.	DGKD	106	.	NM_152879	exon19	c.T2355A	p.D785E	GCGCGATGAGCAC	.	PASS	Atlas-SNP
KRTAP4-11	653240	hgsc.bcm.edu	37	17	39274415	39274415	+	Silent	SNP	C	C	T	rs425487		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	94	6	85	2	0.0638298	0.0235294	.	.	weak	KRTAP4-11,NS,carcinoma,-1,11	KRTAP4-11	94	11	NM_033059	exon1	c.G153A	p.R51R	CTGGGGCCTGCAG	.	scavenged	Atlas-SNP
KANK2	25959	hgsc.bcm.edu	37	19	11289041	11289041	+	Silent	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	82	20	63	0	0.243902	0	.	.	none	.	KANK2	47	.	NM_015493	exon4	c.G1524A	p.Q508Q	CACGAACTGGAGG	.	PASS	Atlas-SNP
MESP2	145873	hgsc.bcm.edu	37	15	90320149	90320149	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	26	11	43	0	0.423077	0	.	.	none	.	MESP2	20	.	NM_001039958	exon1	c.G561A	p.G187G	GCAGGGGCAGGGG	.	PASS	Atlas-SNP
GGT1	2678	hgsc.bcm.edu	37	22	25016462	25016462	+	Missense_Mutation	SNP	G	G	A	rs28621555		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	304	13	325	5	0.0427632	0.0153846	.	.	weak	GGT1,trunk,malignant_melanoma,0,1	GGT1	68	1	NM_013430	exon8	c.G550A	p.V184I	CGGACCGTCATCG	.	scavenged	Atlas-SNP
HIST1H1E	3008	hgsc.bcm.edu	37	6	26157108	26157108	+	Missense_Mutation	SNP	G	G	A	rs201935674	by1000genomes	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	70	20	102	0	0.285714	0	G|0.999;A|0.001	0.001	strong	HIST1H1E,NS,lymphoid_neoplasm,-1,3	HIST1H1E	69	3	NM_005321	exon1	c.G490A	p.A164T	GCTGCAGCTGCTG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508070	195508070	+	Missense_Mutation	SNP	C	C	T	rs374027103		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	128	12	128	9	0.09375	0.0703125	.	.	weak	MUC4_ENST00000463781,caecum,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.G10381A	p.D3461N	AAGTGTCGGTGAC	.	scavenged	Atlas-SNP
OR10A5	144124	hgsc.bcm.edu	37	11	6867462	6867462	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	203	5	231	2	0.0246305	0.00865801	.	.	none	OR10A5,NS,carcinoma,0,3	OR10A5	48	3	NM_178168	exon1	c.G549A	p.P183P	CAGCCCGCCTGTG	.	scavenged	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9017365	9017365	+	Silent	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	209	11	241	8	0.0526316	0.033195	.	.	none	MUC16_ENST00000397910,bladder,carcinoma,-1,2	MUC16	4315	2	NM_024690	exon26	c.G37959A	p.R12653R	ACTGTTCCTGTCC	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508069	195508069	+	Missense_Mutation	SNP	T	T	C	rs370596732		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	127	9	126	7	0.0708661	0.0555556	.	.	weak	MUC4_ENST00000463781,caecum,carcinoma,-1,1	MUC4	1505	1	NM_018406	exon2	c.A10382G	p.D3461G	GAAGTGTCGGTGA	.	scavenged	Atlas-SNP
TGIF1	7050	hgsc.bcm.edu	37	18	3451989	3451989	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	226	28	152	0	0.123894	0	.	.	none	.	TGIF1	41	.	NM_170695	exon1	c.G12A	p.A4A	TCTAGCGCAGAGC	.	PASS	Atlas-SNP
FOXC1	2296	hgsc.bcm.edu	37	6	1610821	1610821	+	Nonsense_Mutation	SNP	C	C	G	rs372857241	alternate_allele	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	32	10	39	0	0.3125	0	.	.	alt	.	FOXC1	19	.	NM_001453	exon1	c.C141G	p.Y47X	CGTGTACTCGCAC	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138392	37138392	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	98	30	79	1	0.306122	0.0126582	.	.	none	PIM1,right_lower_lobe,carcinoma,-1,1	PIM1	71	1	NM_001243186	exon1	c.C314T	p.A105V	TGCGCGCCGCGCC	.	scavenged	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37139203	37139203	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	96	21	85	0	0.21875	0	.	.	none	PIM1,NS,lymphoid_neoplasm,0,1	PIM1	71	1	NM_001243186	exon4	c.G816A	p.E272E	CGGCGAGCTCAAG	.	PASS	Atlas-SNP
CCDC178	374864	hgsc.bcm.edu	37	18	30950118	30950118	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	129	41	126	0	0.317829	0	.	.	none	.	.	.	.	NM_001105528	exon5	c.C244T	p.R82X	GACGTCGACATGG	.	PASS	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88533881	88533881	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	124	42	141	0	0.33871	0	.	.	none	.	DSPP	174	.	NM_014208	exon4	c.A543T	p.E181D	CCAAGAAGATGGA	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23235887	23235887	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	28	13	49	0	0.464286	0	.	.	none	.	IGLL5	26	.	NM_001178126	exon2	c.C214G	p.L72V	CTCCTGCTCCAGC	.	PASS	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385869	58385869	+	Nonsense_Mutation	SNP	C	C	A	rs199684163		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	92	25	79	0	0.271739	0	.	.	weak	ZNF814,NS,carcinoma,0,1	ZNF814	93	1	NM_001144989	exon3	c.G889T	p.E297X	CACATTCATGTTT	.	scavenged	Atlas-SNP
TMEM168	64418	hgsc.bcm.edu	37	7	112415375	112415375	+	Splice_Site	SNP	T	T	C	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	72	4	67	0	0.0555556	0	.	.	none	.	TMEM168	84	.	NM_022484	exon4	c.1129-2A>G	.	GTTGGCTAAAAGA	.	PASS	Atlas-SNP
OR2L8	391190	hgsc.bcm.edu	37	1	248112303	248112303	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	358	99	405	0	0.276536	0	.	.	none	OR2L8,right_lower_lobe,carcinoma,0,1	OR2L8	92	1	NM_001001963	exon1	c.C144G	p.I48M	TCTCATCTTCTTG	.	PASS	Atlas-SNP
AUP1	550	hgsc.bcm.edu	37	2	74756626	74756626	+	Silent	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	93	21	91	0	0.225806	0	.	.	none	.	AUP1	29	.	NM_181575	exon2	c.G51A	p.R17R	CGGAAGCCTGGGG	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138908	37138908	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	61	14	54	0	0.229508	0	.	.	none	PIM1,NS,lymphoid_neoplasm,0,1	PIM1	71	1	NM_001243186	exon4	c.G521A	p.G174D	CTAATGGCACTCG	.	PASS	Atlas-SNP
AQP7	364	hgsc.bcm.edu	37	9	33385235	33385235	+	Missense_Mutation	SNP	T	T	G	rs202043723	bycluster;byfrequency	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	15	3	17	0	0.2	0	G|0.184;T|0.816	0.184	strong	AQP7,NS,malignant_melanoma,0,2	AQP7	58	2	NM_001170	exon8	c.A797C	p.Y266S	CCTAGATAGGCAC	.	scavenged	Atlas-SNP
RGS6	9628	hgsc.bcm.edu	37	14	72943455	72943455	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	92	13	112	0	0.141304	0	.	.	none	RGS6,NS,carcinoma,+1,1	RGS6	92	1	NM_001204424	exon11	c.G699A	p.V233V	GTCCGTGTATGGC	.	PASS	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385798	58385798	+	Silent	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	190	29	207	0	0.152632	0	.	.	none	ZNF814,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,2	ZNF814	93	2	NM_001144989	exon3	c.G960A	p.G320G	TCTTTTCCCAGTG	.	PASS	Atlas-SNP
RAB3GAP2	25782	hgsc.bcm.edu	37	1	220326665	220326665	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	284	72	295	0	0.253521	0	.	.	none	.	RAB3GAP2	120	.	NM_012414	exon33	c.C3729T	p.P1243P	AGGAGTGGGTGTG	.	PASS	Atlas-SNP
ADAMTS1	9510	hgsc.bcm.edu	37	21	28214839	28214839	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	139	40	120	0	0.28777	0	.	.	none	.	ADAMTS1	131	.	NM_006988	exon2	c.G896T	p.R299L	GAATTACGAATGC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508418	195508418	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	130	8	158	10	0.0615385	0.0632911	.	.	none	MUC4_ENST00000463781,rectum,carcinoma,+2,1	MUC4	1505	1	NM_018406	exon2	c.G10033C	p.V3345L	CAGGCACAGGGGT	.	scavenged	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385793	58385793	+	Missense_Mutation	SNP	C	C	T	rs113623532	bycluster	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	203	28	216	0	0.137931	0	C|0.500;T|0.500	0.500	weak	.	ZNF814	93	.	NM_001144989	exon3	c.G965A	p.R322K	TAAGGTCTTTTCC	.	PASS	Atlas-SNP
VWDE	221806	hgsc.bcm.edu	37	7	12409653	12409653	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	238	4	207	0	0.0168067	0	.	.	none	VWDE_ENST00000275358,colon,carcinoma,0,2	VWDE	123	2	NM_001135924	exon12	c.C2279A	p.P760H	AACAAAGGAGGAA	.	scavenged	Atlas-SNP
VCAM1	7412	hgsc.bcm.edu	37	1	101200181	101200181	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	165	47	161	0	0.284848	0	.	.	none	VCAM1,NS,carcinoma,0,1	VCAM1	111	1	NM_001078	exon8	c.C1916T	p.A639V	AAAAAGCGGAGAC	.	PASS	Atlas-SNP
PRAMEF2	65122	hgsc.bcm.edu	37	1	12919589	12919589	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	208	8	194	1	0.0384615	0.00515464	.	.	none	PRAMEF2,NS,carcinoma,+1,1	PRAMEF2	85	1	NM_023014	exon3	c.A329G	p.E110G	TTGATGAGAATTT	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506482	195506482	+	Missense_Mutation	SNP	G	G	T	rs113936020	bycluster	TCGA-FF-A7CQ-01A-11D-A382-10	TCGA-FF-A7CQ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2e4fe50f-0ee6-46c2-9795-2e2c1c8a86bf	5f7ab27c-4bb5-430c-a173-433d42f767d5	33	5	33	2	0.151515	0.0606061	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,-1,1	MUC4	1505	1	NM_018406	exon2	c.C11969A	p.T3990N	GAGGAAGTGTCGG	.	scavenged	Atlas-SNP
