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
BMP3	651	hgsc.bcm.edu	37	4	81967644	81967644	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	115	19	135	0	0.165217	0	.	.	none	.	BMP3	59	.	NM_001201	exon2	c.1068delG	p.L356fs	.	.	PASS	Atlas-Indel
ANKRD11	29123	hgsc.bcm.edu	37	16	89351721	89351722	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	181	30	180	.	0.166	.	.	.	none	.	ANKRD11	195	.	NM_001256183	exon9	c.1229_1230insA	p.T410fs	.	.	PASS	Pindel,Atlas-Indel
IRS1	3667	hgsc.bcm.edu	37	2	227661396	227661398	+	In_Frame_Del	DEL	TGC	TGC	-	rs138975702	bycluster;by1000genomes	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	TGC	TGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	104	10	104	0	0.0961538	0	.	.	strong	IRS1,right_upper_lobe,carcinoma,+1,1	IRS1	141	1	NM_005544	exon1	c.2058_2060del	p.686_687del	.	.	PASS	Atlas-Indel
SETD1B	23067	hgsc.bcm.edu	37	12	122248124	122248125	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	38	10	62	0	0.263158	0	.	.	none	.	SETD1B	105	.	NM_015048	exon5	c.1272_1273del	p.424_425del	.	.	PASS	Atlas-Indel
L1TD1	54596	hgsc.bcm.edu	37	1	62675645	62675674	+	In_Frame_Del	DEL	CCTCAGGGCTGGAGGAGGAGGAGGAAGAGC	CCTCAGGGCTGGAGGAGGAGGAGGAAGAGC	-	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	CCTCAGGGCTGGAGGAGGAGGAGGAAGAGC	CCTCAGGGCTGGAGGAGGAGGAGGAAGAGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	142	41	103	0	0.288732	0	.	.	none	L1TD1,NS,carcinoma,-2,1	L1TD1	114	1	NM_001164835	exon5	c.1198_1227del	p.400_409del	.	.	PASS	Atlas-Indel
OR6C74	254783	hgsc.bcm.edu	37	12	55641766	55641767	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	178	35	172	0	0.196629	0	.	.	none	.	OR6C74	52	.	NM_001005490	exon1	c.695_696insA	p.R232fs	.	.	PASS	Atlas-Indel
SCN1A	6323	hgsc.bcm.edu	37	2	166930005	166930006	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	338	51	377	.	0.151	.	.	.	none	.	SCN1A	641	.	NM_001165964	exon1	c.127_128insA	p.D43fs	.	.	PASS	Pindel,Atlas-Indel
EXOSC10	5394	hgsc.bcm.edu	37	1	11132231	11132403	+	Splice_Site	DEL	ATAATGAAAGCAAATATAACAAAAAAAACCCTCCAAAGTCAGCCACCTAAGTCTGTCTTACTTTTCATGAGGTGACGAAGGGCAGGTTAACCTAAGAAGTACACACATTCTAAGTCATAAATTTTCAAATCTAAGGGCATGAAAAATAAATTTCATGCTGGCTTTATTGCTAA	ATAATGAAAGCAAATATAACAAAAAAAACCCTCCAAAGTCAGCCACCTAAGTCTGTCTTACTTTTCATGAGGTGACGAAGGGCAGGTTAACCTAAGAAGTACACACATTCTAAGTCATAAATTTTCAAATCTAAGGGCATGAAAAATAAATTTCATGCTGGCTTTATTGCTAA	-	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	ATAATGAAAGCAAATATAACAAAAAAAACCCTCCAAAGTCAGCCACCTAAGTCTGTCTTACTTTTCATGAGGTGACGAAGGGCAGGTTAACCTAAGAAGTACACACATTCTAAGTCATAAATTTTCAAATCTAAGGGCATGAAAAATAAATTTCATGCTGGCTTTATTGCTAA	ATAATGAAAGCAAATATAACAAAAAAAACCCTCCAAAGTCAGCCACCTAAGTCTGTCTTACTTTTCATGAGGTGACGAAGGGCAGGTTAACCTAAGAAGTACACACATTCTAAGTCATAAATTTTCAAATCTAAGGGCATGAAAAATAAATTTCATGCTGGCTTTATTGCTAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	44	11	49	.	0.250	.	.	.	none	.	EXOSC10	59	.	.	.	.	.	.	.	PASS	Pindel
TMEM121	80757	hgsc.bcm.edu	37	14	105996050	105996052	+	In_Frame_Del	DEL	GCC	GCC	-	rs10569304	bycluster;by1000genomes	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	GCC	GCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	22	11	18	.	0.500	.	GCC|0.608;-|0.392	0.392	strong	.	TMEM121	13	.	NM_025268	exon2	c.878_880del	p.293_294del	.	.	PASS	Pindel
FAM21B	55747	hgsc.bcm.edu	37	10	47909792	47909792	+	Missense_Mutation	SNP	C	C	T	rs201373575	byfrequency	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	429	16	515	6	0.037296	0.0116505	C|0.949;T|0.051	0.051	strong	FAM21B_ENST00000358474,NS,carcinoma,0,2	FAM21B	31	2	NM_018232	exon11	c.C889T	p.R297W	CAGGATCGGCAAG	.	scavenged	Atlas-SNP
ICT1	3396	hgsc.bcm.edu	37	17	73008803	73008803	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	35	7	40	0	0.2	0	.	.	none	ICT1,NS,carcinoma,-1,1	ICT1	17	1	NM_001545	exon1	c.C22G	p.R8G	TGCCTGCGCTGGG	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1258241	1258241	+	Silent	SNP	A	A	G	rs79773885	bycluster	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	42	7	54	6	0.166667	0.111111	A|0.500;G|0.500	0.500	weak	MUC5B,NS,carcinoma,+2,2	MUC5B	473	2	NM_002458	exon25	c.A3144G	p.A1048A	GGACGCACTGGAG	.	scavenged	Atlas-SNP
NACAD	23148	hgsc.bcm.edu	37	7	45125119	45125119	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	84	15	74	0	0.178571	0	.	.	none	.	NACAD	44	.	NM_001146334	exon2	c.C660T	p.Y220Y	CGTAATGTAGGAG	.	PASS	Atlas-SNP
STK11	6794	hgsc.bcm.edu	37	19	1219343	1219343	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	207	5	221	0	0.0241546	0	.	.	none	STK11,colon,carcinoma,-1,2	STK11	410	2	NM_000455	exon3	c.G395T	p.C132F	AGTACTGCGTGTG	.	scavenged	Atlas-SNP
MAP3K19	80122	hgsc.bcm.edu	37	2	135745091	135745091	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	306	5	274	0	0.0163399	0	.	.	none	YSK4_ENST00000375845,NS,carcinoma,+1,1	.	.	1	NM_025052	exon7	c.C1351A	p.P451T	CAATGGGGTCATC	.	scavenged	Atlas-SNP
GTF3C3	9330	hgsc.bcm.edu	37	2	197657782	197657782	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	334	14	327	0	0.0419162	0	.	.	none	GTF3C3,NS,carcinoma,0,3	GTF3C3	96	3	NM_001206774	exon3	c.G309A	p.E103E	CTCCTCCTCTTCT	.	PASS	Atlas-SNP
CROCC	9696	hgsc.bcm.edu	37	1	17272044	17272044	+	Silent	SNP	A	A	G	rs2761550	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	65	7	73	3	0.107692	0.0410959	A|0.860;G|0.140	0.140	strong	CROCC,NS,carcinoma,0,3	CROCC	185	3	NM_014675	exon15	c.A2079G	p.T693T	CGCCACACTGCAA	.	scavenged	Atlas-SNP
FBXW10	10517	hgsc.bcm.edu	37	17	18653098	18653098	+	Missense_Mutation	SNP	G	G	C	rs3809727	bycluster	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	272	3	334	1	0.0110294	0.00299401	G|0.750;C|0.250	0.250	weak	FBXW10,NS,carcinoma,0,6	FBXW10	82	6	NM_001267585	exon3	c.G734C	p.G245A	GAAAAGGAGACAT	.	scavenged	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1016742	1016742	+	Missense_Mutation	SNP	C	C	T	rs201591120	bycluster;by1000genomes	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	446	6	566	6	0.0134529	0.0106007	C|0.976;T|0.024	0.024	strong	MUC6_ENST00000421673,NS,carcinoma,-1,2	MUC6	408	2	NM_005961	exon31	c.G6059A	p.S2020N	TGAGTACTTGGAG	.	scavenged	Atlas-SNP
POTEH	23784	hgsc.bcm.edu	37	22	16277852	16277852	+	Silent	SNP	C	C	T	rs200742649	bycluster;byfrequency	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	722	134	809	157	0.185596	0.194067	C|0.816;T|0.184	0.184	strong	POTEH,NS,carcinoma,0,1	POTEH	114	1	NM_001136213	exon5	c.G1062A	p.S354S	ACTTGCCGATCCA	.	scavenged	Atlas-SNP
ZNF285	26974	hgsc.bcm.edu	37	19	44891217	44891217	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	92	4	76	1	0.0434783	0.0131579	.	.	none	ZNF285,NS,carcinoma,0,2	ZNF285	86	2	NM_152354	exon4	c.A1190G	p.E397G	GGCTTCTCTCCAG	.	scavenged	Atlas-SNP
CYP4F12	66002	hgsc.bcm.edu	37	19	15794330	15794330	+	Silent	SNP	C	C	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	96	20	111	0	0.208333	0	.	.	none	.	CYP4F12	89	.	NM_023944	exon7	c.C675A	p.I225I	CACCATCTTGGAG	.	PASS	Atlas-SNP
SUPT6H	6830	hgsc.bcm.edu	37	17	27016480	27016480	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	88	4	80	0	0.0454545	0	.	.	none	.	SUPT6H	165	.	NM_003170	exon25	c.G3243T	p.E1081D	AGCCGAGGATGCC	.	PASS	Atlas-SNP
ASAP3	55616	hgsc.bcm.edu	37	1	23779193	23779193	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	71	14	94	0	0.197183	0	.	.	none	.	ASAP3	65	.	NM_001143778	exon4	c.A420G	p.R140R	CACCTGTCGACCG	.	PASS	Atlas-SNP
APEH	327	hgsc.bcm.edu	37	3	49718542	49718542	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	65	20	94	0	0.307692	0	.	.	none	.	APEH	45	.	NM_001640	exon15	c.G1308A	p.G436G	AGTTGGGTTCCTG	.	PASS	Atlas-SNP
CNTNAP2	26047	hgsc.bcm.edu	37	7	147914474	147914474	+	Silent	SNP	C	C	T	rs112483670	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	107	22	107	0	0.205607	0	C|0.997;T|0.003	0.003	strong	CNTNAP2,NS,carcinoma,0,1	CNTNAP2	392	1	NM_014141	exon19	c.C3105T	p.N1035N	AGACAACGCTCCC	.	PASS	Atlas-SNP
MUC13	56667	hgsc.bcm.edu	37	3	124646710	124646710	+	Silent	SNP	T	T	A	rs76825834		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	121	7	123	0	0.0578512	0	.	.	weak	.	MUC13	57	.	NM_033049	exon2	c.A180T	p.T60T	GAAAGGTGTATTT	.	PASS	Atlas-SNP
ZNF285	26974	hgsc.bcm.edu	37	19	44891202	44891202	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	94	3	76	1	0.0319149	0.0131579	.	.	none	ZNF285,NS,carcinoma,0,2	ZNF285	86	2	NM_152354	exon4	c.G1205C	p.C402S	TCACTGCATTTGT	.	scavenged	Atlas-SNP
ZNF804B	219578	hgsc.bcm.edu	37	7	88963200	88963200	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	160	37	132	0	0.23125	0	.	.	none	ZNF804B,NS,carcinoma,0,1	ZNF804B	322	1	NM_181646	exon4	c.A904C	p.I302L	TCTAAAATTTTGC	.	PASS	Atlas-SNP
FLNC	2318	hgsc.bcm.edu	37	7	128475620	128475620	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	40	19	23	0	0.475	0	.	.	none	.	FLNC	339	.	NM_001127487	exon2	c.G593A	p.C198Y	ACAACTGCGCCCC	.	PASS	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385869	58385869	+	Nonsense_Mutation	SNP	C	C	A	rs199684163		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	111	24	71	1	0.216216	0.0140845	.	.	weak	ZNF814,NS,carcinoma,0,1	ZNF814	93	1	NM_001144989	exon3	c.G889T	p.E297X	CACATTCATGTTT	.	scavenged	Atlas-SNP
CCDC60	160777	hgsc.bcm.edu	37	12	119942901	119942901	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	50	10	49	0	0.2	0	.	.	none	.	CCDC60	84	.	NM_178499	exon7	c.C676T	p.R226X	ACAATGCGAGTCA	.	PASS	Atlas-SNP
CPS1	1373	hgsc.bcm.edu	37	2	211464275	211464275	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	116	24	125	0	0.206897	0	.	.	none	.	CPS1	485	.	NM_001122633	exon15	c.T1557C	p.A519A	GACAGCTCTGAAC	.	PASS	Atlas-SNP
PRAMEF4	400735	hgsc.bcm.edu	37	1	12943023	12943023	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	195	49	203	0	0.251282	0	.	.	none	.	PRAMEF4	62	.	NM_001009611	exon2	c.C193T	p.R65C	GGAGGCGGCGGAA	.	PASS	Atlas-SNP
PKMYT1	9088	hgsc.bcm.edu	37	16	3026927	3026927	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	69	22	92	0	0.318841	0	.	.	none	.	PKMYT1	23	.	NM_182687	exon3	c.T116A	p.F39Y	AGGGAGAATCCAG	.	PASS	Atlas-SNP
MUC7	4589	hgsc.bcm.edu	37	4	71347207	71347207	+	Missense_Mutation	SNP	T	T	C	rs78564790	bycluster;byfrequency	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	204	12	200	9	0.0588235	0.045	T|0.935;C|0.065	0.065	strong	MUC7,NS,carcinoma,0,1	MUC7	91	1	NM_001145007	exon4	c.T746C	p.L249P	CTCCACTATCTTC	.	scavenged	Atlas-SNP
POTEE	445582	hgsc.bcm.edu	37	2	132021766	132021766	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	188	7	189	4	0.037234	0.021164	.	.	none	ENSG00000188219,rectum,NS,0,1	.	.	1	NM_001083538	exon15	c.A2738C	p.K913T	ACATCAAAGAGAA	.	scavenged	Atlas-SNP
RHPN2	85415	hgsc.bcm.edu	37	19	33517507	33517507	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	24	3	23	1	0.125	0.0434783	.	.	none	RHPN2,face,carcinoma,0,2	RHPN2	107	2	NM_033103	exon3	c.G217A	p.V73M	GCCGCACTTGCTC	.	scavenged	Atlas-SNP
CYP2A6	1548	hgsc.bcm.edu	37	19	41355765	41355765	+	Nonsense_Mutation	SNP	G	G	A	rs199545200	by1000genomes	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	247	13	209	4	0.0526316	0.0191388	G|1.000;A|0.000	0.000	strong	CYP2A6,brain,primitive_neuroectodermal_tumour-medulloblastoma,+1,1	CYP2A6	69	1	NM_000762	exon2	c.C301T	p.R101X	CGCCTCGCCCGCT	.	scavenged	Atlas-SNP
GCM2	9247	hgsc.bcm.edu	37	6	10875031	10875031	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	91	31	126	0	0.340659	0	.	.	none	.	GCM2	81	.	NM_004752	exon5	c.G718A	p.V240I	TGTAAACATCAGA	.	PASS	Atlas-SNP
THRA	7067	hgsc.bcm.edu	37	17	38244519	38244519	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	47	12	63	0	0.255319	0	.	.	none	.	THRA	88	.	NM_001190918	exon8	c.C748T	p.L250F	ATCATCCTCCTGA	.	PASS	Atlas-SNP
SLC17A4	10050	hgsc.bcm.edu	37	6	25771240	25771240	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	209	53	246	0	0.253589	0	.	.	none	.	SLC17A4	79	.	NM_005495	exon6	c.G706C	p.G236R	ATCTTTGGTGAGT	.	PASS	Atlas-SNP
NOTCH2NL	388677	hgsc.bcm.edu	37	1	145248876	145248876	+	Missense_Mutation	SNP	A	A	G	rs61788900	bycluster	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	2693	222	2957	294	0.0824359	0.0994251	.	.	weak	NOTCH2NL_ENST00000362074,colon,carcinoma,0,2	NOTCH2NL	100	2	NM_203458	exon2	c.A20G	p.N7S	ACCACAATGGCAC	.	scavenged	Atlas-SNP
AGTR1	185	hgsc.bcm.edu	37	3	148459567	148459567	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	129	28	92	0	0.217054	0	.	.	none	.	AGTR1	63	.	NM_031850	exon4	c.T850G	p.F284V	CTTTTCTTTTTCT	.	PASS	Atlas-SNP
ZC3H12A	80149	hgsc.bcm.edu	37	1	37947259	37947259	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	74	12	95	0	0.162162	0	.	.	none	.	ZC3H12A	58	.	NM_025079	exon4	c.G641A	p.R214Q	CATCACGACGCGT	.	PASS	Atlas-SNP
TUBA3E	112714	hgsc.bcm.edu	37	2	130951638	130951638	+	Silent	SNP	G	G	T	rs141240951	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	120	7	141	6	0.0583333	0.0425532	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
MADCAM1	8174	hgsc.bcm.edu	37	19	501801	501801	+	Missense_Mutation	SNP	A	A	C	rs76476234	bycluster	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	49	7	49	5	0.142857	0.102041	A|0.500;C|0.500	0.500	weak	MADCAM1,rectum,carcinoma,0,1	MADCAM1	29	1	NM_130760	exon4	c.A800C	p.K267T	CCGACAAGACCTC	.	scavenged	Atlas-SNP
ISYNA1	51477	hgsc.bcm.edu	37	19	18546466	18546466	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	60	17	63	0	0.283333	0	.	.	none	.	ISYNA1	31	.	NM_016368	exon9	c.G1161A	p.P387P	CACGTACGGCACA	.	PASS	Atlas-SNP
ZBBX	79740	hgsc.bcm.edu	37	3	167033615	167033615	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	570	104	524	0	0.182456	0	.	.	none	.	ZBBX	299	.	NM_024687	exon15	c.T1197C	p.T399T	TTCATAAGTCTTA	.	PASS	Atlas-SNP
DSC2	1824	hgsc.bcm.edu	37	18	28662381	28662381	+	Silent	SNP	T	T	G	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	221	27	140	0	0.122172	0	.	.	none	DSC2_ENST00000251081,NS,carcinoma,0,2	DSC2	168	2	NM_024422	exon9	c.A1086C	p.T362T	CACTGATGTCACA	.	PASS	Atlas-SNP
DYSF	8291	hgsc.bcm.edu	37	2	71778761	71778761	+	Missense_Mutation	SNP	C	C	T	rs377735262		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	53	16	50	0	0.301887	0	.	.	weak	.	DYSF	536	.	NM_001130982	exon20	c.C1759T	p.R587W	CGTGGCCGGCTTC	.	PASS	Atlas-SNP
NBPF14	25832	hgsc.bcm.edu	37	1	148004708	148004708	+	Missense_Mutation	SNP	T	T	A	rs200993524		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	374	12	401	11	0.0320856	0.0274314	T|0.999;A|0.001	0.001	weak	NBPF14,NS,carcinoma,+1,2	NBPF14	107	2	NM_015383	exon22	c.A2606T	p.Y869F	TCAAAGTACATTG	.	scavenged	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385799	58385799	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	247	36	186	1	0.145749	0.00537634	.	.	none	ZNF814,brain,primitive_neuroectodermal_tumour-medulloblastoma,+1,2	ZNF814	93	2	NM_001144989	exon3	c.G959A	p.G320E	CTTTTCCCAGTGT	.	scavenged	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151962257	151962257	+	Silent	SNP	C	C	T	rs62478357		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	214	12	213	4	0.0560748	0.0187793	.	.	weak	MLL3_ENST00000355193,NS,carcinoma,-1,2	MLL3	1564	2	NM_170606	exon8	c.G1050A	p.P350P	GTCTCCCGGGCTG	.	scavenged	Atlas-SNP
DHRS12	79758	hgsc.bcm.edu	37	13	52346027	52346027	+	Silent	SNP	C	C	T	rs151116008	bycluster;by1000genomes	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	113	26	110	0	0.230089	0	C|1.000;T|0.000	0.000	strong	.	DHRS12	28	.	NM_001270424	exon8	c.G636A	p.T212T	CCGCTCCGTCAGA	.	PASS	Atlas-SNP
OR4B1	119765	hgsc.bcm.edu	37	11	48238768	48238768	+	Missense_Mutation	SNP	G	G	T	rs149306992	bycluster;alternate_allele	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	280	3	283	0	0.0107143	0	G|1.000;A|0.000	.	alt	OR4B1,NS,carcinoma,0,1	OR4B1	52	1	NM_001005470	exon1	c.G407T	p.R136L	TCAGTCGTCAACT	.	scavenged	Atlas-SNP
CASC1	55259	hgsc.bcm.edu	37	12	25297343	25297343	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	556	130	577	0	0.233813	0	.	.	none	.	CASC1	146	.	NM_001082972	exon9	c.G1132T	p.E378X	TTATTTCTTCCTC	.	PASS	Atlas-SNP
OR1S2	219958	hgsc.bcm.edu	37	11	57971190	57971190	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	188	6	210	2	0.0319149	0.00952381	.	.	none	OR1S2,trunk,malignant_melanoma,0,1	OR1S2	119	1	NM_001004459	exon1	c.C464T	p.T155I	AGCAAAGTGCCGA	.	scavenged	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152280691	152280691	+	Missense_Mutation	SNP	A	A	T	rs117945779		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	342	39	332	24	0.114035	0.0722892	.	.	weak	FLG,NS,malignant_melanoma,+1,1	FLG	900	1	NM_002016	exon3	c.T6671A	p.L2224Q	CCCACCAGTGAGT	.	scavenged	Atlas-SNP
MLLT3	4300	hgsc.bcm.edu	37	9	20414310	20414310	+	Silent	SNP	A	A	G	rs148318848	bycluster	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	155	10	162	6	0.0645161	0.037037	.	.	weak	MLLT3,caecum,carcinoma,0,1	MLLT3	125	1	NM_004529	exon5	c.T534C	p.S178S	GCTGCTACTGCTG	.	scavenged	Atlas-SNP
MESP2	145873	hgsc.bcm.edu	37	15	90320161	90320161	+	Silent	SNP	G	G	A	rs113097169		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	17	7	34	0	0.411765	0	G|0.500;A|0.500	0.500	weak	.	MESP2	20	.	NM_001039958	exon1	c.G573A	p.G191G	GCAAGGGCAGGGG	.	PASS	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385867	58385867	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	104	11	70	0	0.105769	0	.	.	none	ZNF814,NS,carcinoma,-2,1	ZNF814	93	1	NM_001144989	exon3	c.A891T	p.E297D	TCCACATTCATGT	.	scavenged	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11666907	11666907	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	105	32	124	0	0.304762	0	.	.	none	.	DNAH9	695	.	NM_001372	exon36	c.C7146T	p.F2382F	GGCTTTCGGCGGA	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1016851	1016851	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	557	31	620	20	0.0556553	0.0322581	.	.	none	MUC6_ENST00000421673,NS,carcinoma,+2,2	MUC6	408	2	NM_005961	exon31	c.A5950G	p.M1984V	CAGTCATAGGACC	.	scavenged	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385793	58385793	+	Missense_Mutation	SNP	C	C	T	rs113623532	bycluster	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	272	38	202	0	0.139706	0	C|0.500;T|0.500	0.500	weak	.	ZNF814	93	.	NM_001144989	exon3	c.G965A	p.R322K	TAAGGTCTTTTCC	.	PASS	Atlas-SNP
PRAMEF1	65121	hgsc.bcm.edu	37	1	12854401	12854401	+	Nonsense_Mutation	SNP	G	G	T	rs78584260	alternate_allele	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	447	35	499	22	0.0782998	0.0440882	G|0.500;C|0.500	.	alt	PRAMEF1,NS,carcinoma,0,2	PRAMEF1	78	2	NM_023013	exon3	c.G625T	p.E209X	ATTCAAGAGCTGG	.	scavenged	Atlas-SNP
SLC6A16	28968	hgsc.bcm.edu	37	19	49812603	49812603	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	140	10	73	0	0.0714286	0	.	.	none	.	SLC6A16	62	.	NM_014037	exon6	c.C942T	p.L314L	TTCCAGGAGTAGA	.	PASS	Atlas-SNP
TNFSF11	8600	hgsc.bcm.edu	37	13	43180940	43180940	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	210	3	233	0	0.0142857	0	.	.	none	TNFSF11,NS,carcinoma,0,1	TNFSF11	43	1	NM_003701	exon5	c.T840C	p.F280F	TGGATTTTTTAAG	.	scavenged	Atlas-SNP
OR2A5	393046	hgsc.bcm.edu	37	7	143747902	143747902	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	204	49	168	0	0.240196	0	.	.	none	OR2A5,NS,carcinoma,0,1	OR2A5	78	1	NM_012365	exon1	c.G408A	p.M136I	CATCATGAGATGG	.	PASS	Atlas-SNP
MADCAM1	8174	hgsc.bcm.edu	37	19	501802	501802	+	Missense_Mutation	SNP	G	G	C	rs75905809	bycluster	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	51	7	50	5	0.137255	0.1	G|0.500;C|0.500	0.500	weak	MADCAM1,rectum,carcinoma,+1,1	MADCAM1	29	1	NM_130760	exon4	c.G801C	p.K267N	CGACAAGACCTCC	.	scavenged	Atlas-SNP
FAM47E-STBD1	0	hgsc.bcm.edu	37	4	77192845	77192845	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	81	19	90	0	0.234568	0	.	.	none	.	.	.	.	NM_001242939	exon5	c.G794T	p.S265I	AGCGTAGTGTGGG	.	PASS	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	37	4	126336502	126336502	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	85	23	100	0	0.270588	0	.	.	none	FAT4_ENST00000394329,NS,carcinoma,+2,2	FAT4	1752	2	NM_024582	exon5	c.C6384T	p.D2128D	TACAGACAAAGGT	.	PASS	Atlas-SNP
NBPF14	25832	hgsc.bcm.edu	37	1	148004717	148004717	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	328	9	342	3	0.027439	0.00877193	.	.	none	NBPF14,rectum,carcinoma,+1,1	NBPF14	107	1	NM_015383	exon22	c.C2597A	p.P866Q	ATTGACGGAGTCG	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195510030	195510030	+	Silent	SNP	C	C	G	rs374297426		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	304	19	206	15	0.0625	0.0728155	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.G8421C	p.S2807S	CACTGACGAAGCG	.	scavenged	Atlas-SNP
ZNF468	90333	hgsc.bcm.edu	37	19	53352388	53352388	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	39	2	44	1	0.0512821	0.0227273	.	.	none	ZNF468,colon,carcinoma,0,1	ZNF468	46	1	NM_001008801	exon3	c.T94C	p.L32L	TGTATAAAGTCCT	.	scavenged	Atlas-SNP
EIF2B4	8890	hgsc.bcm.edu	37	2	27587653	27587653	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	70	21	94	0	0.3	0	.	.	none	.	EIF2B4	48	.	NM_172195	exon11	c.T1364A	p.L455Q	CAAACCAGCACTG	.	PASS	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	37	1	145299805	145299805	+	Missense_Mutation	SNP	A	A	C	rs61814629	bycluster	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	106	4	122	8	0.0377358	0.0655738	A|0.999;G|0.001	.	weak	NBPF10_ENST00000369338,extremity,malignant_melanoma,0,2	NBPF10	221	2	NM_001039703	exon6	c.A854C	p.E285A	AGGCAGAGATGAA	.	scavenged	Atlas-SNP
FRG2B	441581	hgsc.bcm.edu	37	10	135438933	135438933	+	Silent	SNP	C	C	T	rs200793608		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	435	9	546	2	0.0206897	0.003663	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
ZDHHC11	79844	hgsc.bcm.edu	37	5	833915	833915	+	Missense_Mutation	SNP	G	G	T	rs62332110	bycluster;byfrequency	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	286	87	350	102	0.304196	0.291429	G|0.500;T|0.500	0.500	strong	ZDHHC11_ENST00000424784,NS,carcinoma,0,10	ZDHHC11	97	10	NM_024786	exon7	c.C908A	p.A303D	GCGCCAGCTCCTT	.	scavenged	Atlas-SNP
FRG2	448831	hgsc.bcm.edu	37	4	190947916	190947916	+	Silent	SNP	C	C	T	rs4863310		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	223	43	205	46	0.192825	0.22439	.	.	weak	FRG2,NS,carcinoma,0,1	FRG2	12	1	NM_001005217	exon2	c.G183A	p.S61S	GGGCTCCGATCCT	.	scavenged	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1016849	1016849	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	562	33	618	20	0.0587189	0.0323625	.	.	none	MUC6_ENST00000421673,NS,carcinoma,0,2	MUC6	408	2	NM_005961	exon31	c.G5952C	p.M1984I	TGCAGTCATAGGA	.	scavenged	Atlas-SNP
CELF3	11189	hgsc.bcm.edu	37	1	151678722	151678722	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	90	2	97	1	0.0222222	0.0103093	.	.	none	CELF3,caecum,carcinoma,0,1	CELF3	49	1	NM_007185	exon10	c.A1104G	p.Q368Q	CTGCTGTTGCTGC	.	scavenged	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385798	58385798	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	250	36	186	1	0.144	0.00537634	.	.	none	ZNF814,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,2	ZNF814	93	2	NM_001144989	exon3	c.G960A	p.G320G	TCTTTTCCCAGTG	.	scavenged	Atlas-SNP
RBMXL1	494115	hgsc.bcm.edu	37	1	89448539	89448539	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	244	4	232	6	0.0163934	0.0258621	.	.	none	CCBL2,NS,carcinoma,-1,1	.	.	1	NM_001162536	exon3	c.G971C	p.R324P	CTGTCTCGACTTC	.	scavenged	Atlas-SNP
SDHD	6392	hgsc.bcm.edu	37	11	111965573	111965573	+	Silent	SNP	T	T	C	rs200981457		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	180	3	199	0	0.0166667	0	.	.	weak	SDHD,NS,carcinoma,0,1	SDHD	19	1	NM_003002	exon4	c.C359C	p.A120A	ATGCCTTGCAGAA	.	scavenged	Atlas-SNP
HNRNPCL1	343069	hgsc.bcm.edu	37	1	12907385	12907385	+	Missense_Mutation	SNP	G	G	A	rs150590256	bycluster	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	214	23	252	28	0.107477	0.111111	.	.	weak	HNRNPCL1,NS,carcinoma,0,1	HNRNPCL1	68	1	NM_001013631	exon2	c.C758T	p.P253L	TCCAGTGGGTCCC	.	scavenged	Atlas-SNP
PRAMEF1	65121	hgsc.bcm.edu	37	1	12855647	12855647	+	Silent	SNP	C	C	T	rs200536957		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	179	25	245	29	0.139665	0.118367	C|0.999;T|0.001	0.001	weak	PRAMEF1,NS,carcinoma,+2,2	PRAMEF1	78	2	NM_023013	exon4	c.C927T	p.D309D	AGAAGACATGAAG	.	scavenged	Atlas-SNP
RNASEH2B	79621	hgsc.bcm.edu	37	13	51530597	51530597	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	306	8	362	3	0.0261438	0.00828729	.	.	none	RNASEH2B,NS,carcinoma,0,2	RNASEH2B	26	2	NM_024570	exon11	c.T926A	p.I309N	AAAAAATTGGAAA	.	scavenged	Atlas-SNP
OR7A5	26659	hgsc.bcm.edu	37	19	14938184	14938184	+	Silent	SNP	A	A	G	rs200531878		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	109	3	114	0	0.0275229	0	A|0.999;G|0.001	0.001	weak	OR7A5,NS,carcinoma,0,1	OR7A5	43	1	NM_017506	exon1	c.T870C	p.Y290Y	CAGACTATAGATA	.	scavenged	Atlas-SNP
KIAA0040	9674	hgsc.bcm.edu	37	1	175129933	175129933	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	89	9	85	0	0.101124	0	.	.	none	KIAA0040,colon,carcinoma,0,1	KIAA0040	2	1	NM_001162895	exon3	c.A217G	p.K73E	TCTTCTTCTTCTT	.	scavenged	Atlas-SNP
SNX21	90203	hgsc.bcm.edu	37	20	44469595	44469595	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	64	17	68	0	0.265625	0	.	.	none	.	SNX21	23	.	NM_033421	exon4	c.C765T	p.L255L	TGGCCTCTATCGT	.	PASS	Atlas-SNP
SERPINB3	6317	hgsc.bcm.edu	37	18	61323022	61323022	+	Missense_Mutation	SNP	C	C	T	rs111442409	bycluster;by1000genomes	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	404	48	193	0	0.118812	0	C|0.999;T|0.001	0.001	strong	.	SERPINB3	90	.	NM_006919	exon8	c.G1042A	p.A348T	CTACAGCGGTGGC	.	PASS	Atlas-SNP
FAM86B1	85002	hgsc.bcm.edu	37	8	12044264	12044264	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	268	36	269	19	0.134328	0.070632	.	.	none	FAM86B1,NS,carcinoma,+2,1	FAM86B1	7	1	NM_001083537	exon4	c.G319A	p.A107T	GGGCGGCATCCCA	.	scavenged	Atlas-SNP
ENPP7	339221	hgsc.bcm.edu	37	17	77704925	77704925	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	38	10	44	0	0.263158	0	.	.	none	.	ENPP7	63	.	NM_178543	exon1	c.C24T	p.L8L	CCTCCTCACTGTG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506746	195506746	+	Missense_Mutation	SNP	G	G	A	rs192522651	bycluster;by1000genomes	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	15	8	7	2	0.533333	0.285714	G|0.951;A|0.049	0.049	strong	MUC4_ENST00000463781,NS,carcinoma,-1,4	MUC4	1505	4	NM_018406	exon2	c.C11705T	p.A3902V	GGGGTGGCGTGAC	.	scavenged	Atlas-SNP
ANAPC1	64682	hgsc.bcm.edu	37	2	112625615	112625615	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	405	11	472	16	0.0271605	0.0338983	.	.	none	ANAPC1,NS,other,0,1	ANAPC1	116	1	NM_022662	exon7	c.G670C	p.V224L	TACAAACAAGTGG	.	scavenged	Atlas-SNP
SCN3A	6328	hgsc.bcm.edu	37	2	165948871	165948871	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	125	27	160	0	0.216	0	.	.	none	.	SCN3A	544	.	NM_006922	exon27	c.T4700G	p.V1567G	AACAGAACAATGA	.	PASS	Atlas-SNP
CCND3	896	hgsc.bcm.edu	37	6	41903710	41903710	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	69	15	82	0	0.217391	0	.	.	none	CCND3,NS,lymphoid_neoplasm,0,2	CCND3	40	2	NM_001760	exon5	c.A847G	p.T283A	TAGGAGTGCTGGT	.	PASS	Atlas-SNP
STAB2	55576	hgsc.bcm.edu	37	12	104031889	104031889	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	114	4	125	0	0.0350877	0	.	.	none	STAB2,rectum,carcinoma,-1,1	STAB2	370	1	NM_017564	exon8	c.C805T	p.R269C	GGCTACCGTGGGG	.	scavenged	Atlas-SNP
COASY	80347	hgsc.bcm.edu	37	17	40716134	40716134	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	123	28	140	0	0.227642	0	.	.	none	.	COASY	45	.	NM_001042532	exon4	c.G943A	p.V315M	TTCCTGGTGGTCA	.	PASS	Atlas-SNP
ZIC1	7545	hgsc.bcm.edu	37	3	147128808	147128808	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	74	13	71	0	0.175676	0	.	.	none	.	ZIC1	141	.	NM_003412	exon1	c.C909T	p.P303P	CTTTCCCTGCCCC	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151962265	151962265	+	Missense_Mutation	SNP	C	C	T	rs201834857		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	194	10	202	4	0.0515464	0.019802	.	.	weak	MLL3_ENST00000355193,trunk,malignant_melanoma,0,2	MLL3	1564	2	NM_170606	exon8	c.G1042A	p.D348N	GGCTGTCGCACAC	.	scavenged	Atlas-SNP
SI	6476	hgsc.bcm.edu	37	3	164730788	164730788	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	151	30	175	0	0.198675	0	.	.	none	.	SI	500	.	NM_001041	exon34	c.A4042G	p.T1348A	CTTCCGTTAGAGT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506626	195506626	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	19	5	19	5	0.263158	0.263158	.	.	none	MUC4_ENST00000463781,NS,carcinoma,-1,3	MUC4	1505	3	NM_018406	exon2	c.C11825T	p.T3942I	GAGGAAGTGCTGG	.	scavenged	Atlas-SNP
PRRC2B	84726	hgsc.bcm.edu	37	9	134357813	134357813	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	173	48	189	0	0.277457	0	.	.	none	.	PRRC2B	266	.	NM_013318	exon20	c.G5039A	p.R1680Q	AGTCTCGGGAGTC	.	PASS	Atlas-SNP
GGT1	2678	hgsc.bcm.edu	37	22	25011062	25011062	+	Missense_Mutation	SNP	C	C	G	rs201519055	bycluster;byfrequency	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	119	2	131	0	0.0168067	0	C|0.996;G|0.004	0.004	strong	GGT1,NS,carcinoma,0,7	GGT1	68	7	NM_013430	exon7	c.C350G	p.T117S	TTGCCACCATGTT	.	scavenged	Atlas-SNP
ZNF880	400713	hgsc.bcm.edu	37	19	52887146	52887146	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	221	9	195	0	0.040724	0	.	.	none	ZNF880,colon,carcinoma,-1,1	ZNF880	45	1	NM_001145434	exon4	c.A313T	p.K105X	TCTCTTAAAAATC	.	scavenged	Atlas-SNP
TPTE2	93492	hgsc.bcm.edu	37	13	20056679	20056679	+	Missense_Mutation	SNP	T	T	G	rs200244531		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	363	7	368	3	0.0192837	0.00815217	.	.	weak	TPTE2_ENST00000400230,NS,carcinoma,0,1	TPTE2	225	1	NM_199254	exon5	c.A128C	p.E43A	AGTCGTTCTAACA	.	scavenged	Atlas-SNP
DSG1	1828	hgsc.bcm.edu	37	18	28911696	28911696	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	299	31	127	0	0.103679	0	.	.	none	DSG1,colon,carcinoma,0,1	DSG1	176	1	NM_001942	exon6	c.G550A	p.A184T	ACTGACGCAGATG	.	PASS	Atlas-SNP
MESP2	145873	hgsc.bcm.edu	37	15	90320149	90320149	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	20	9	28	0	0.45	0	.	.	none	.	MESP2	20	.	NM_001039958	exon1	c.G561A	p.G187G	GCAGGGGCAGGGG	.	PASS	Atlas-SNP
FRG1	2483	hgsc.bcm.edu	37	4	190878658	190878658	+	Splice_Site	SNP	G	G	A	rs76810924		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	336	9	389	4	0.0267857	0.0102828	G|0.875;A|0.125	0.125	weak	FRG1,right_upper_lobe,carcinoma,0,1	FRG1	76	1	NM_004477	exon6	c.537+1G>A	.	ATCAAGGTAATGA	.	scavenged	Atlas-SNP
LRRN3	54674	hgsc.bcm.edu	37	7	110763849	110763849	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	149	56	134	0	0.375839	0	.	.	none	.	LRRN3	132	.	NM_018334	exon2	c.C1021A	p.L341M	CTCATGCTGAACA	.	PASS	Atlas-SNP
DCAF8	50717	hgsc.bcm.edu	37	1	160209665	160209665	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	140	29	192	0	0.207143	0	.	.	none	.	DCAF8	64	.	NM_015726	exon4	c.G545A	p.R182H	CGGAAACGCTGCA	.	PASS	Atlas-SNP
CCDC33	80125	hgsc.bcm.edu	37	15	74623324	74623324	+	Silent	SNP	G	G	A	rs370369621	alternate_allele	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	47	12	49	0	0.255319	0	.	.	alt	.	CCDC33	160	.	NM_025055	exon14	c.G1548A	p.K516K	ACAGAAGAATGAT	.	PASS	Atlas-SNP
NASP	4678	hgsc.bcm.edu	37	1	46073597	46073597	+	Silent	SNP	A	A	G	rs76379164	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	159	3	156	8	0.0188679	0.0512821	A|0.987;G|0.013	0.013	strong	NASP,NS,carcinoma,0,2	NASP	77	2	NM_002482	exon6	c.A1014G	p.V338V	AGAAGTACCACCT	.	scavenged	Atlas-SNP
CWC25	54883	hgsc.bcm.edu	37	17	36959083	36959083	+	Missense_Mutation	SNP	G	G	A	rs199944848	bycluster	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	177	41	202	0	0.231638	0	.	.	weak	.	CWC25	24	.	NM_017748	exon9	c.C1033T	p.R345W	CTTGCCGTTTTCG	.	PASS	Atlas-SNP
SIGLEC10	89790	hgsc.bcm.edu	37	19	51920119	51920119	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	176	8	143	1	0.0454545	0.00699301	.	.	none	SIGLEC10,NS,carcinoma,-1,1	SIGLEC10	112	1	NM_001171157	exon3	c.C507T	p.A169A	CTCAAAGGCCCAG	.	scavenged	Atlas-SNP
SIGLEC5	8778	hgsc.bcm.edu	37	19	52132668	52132668	+	Missense_Mutation	SNP	T	T	C	rs34553740	bycluster	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	684	11	583	4	0.0160819	0.00686106	.	.	weak	SIGLEC5,NS,carcinoma,0,1	SIGLEC5	67	1	NM_003830	exon3	c.A643G	p.M215V	GTTTCATCTGACA	.	scavenged	Atlas-SNP
SLC9B1	150159	hgsc.bcm.edu	37	4	103826800	103826800	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	198	15	247	14	0.0757576	0.0566802	.	.	none	NHEDC1,NS,carcinoma,0,3	.	.	3	NM_001100874	exon11	c.T1203C	p.S401S	GGCAACAGATATG	.	scavenged	Atlas-SNP
HMGB2	3148	hgsc.bcm.edu	37	4	174254780	174254780	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	85	16	91	0	0.188235	0	.	.	none	.	HMGB2	24	.	NM_001130689	exon1	c.C21G	p.N7K	CGGCTTGTTGGGG	.	PASS	Atlas-SNP
PTX3	5806	hgsc.bcm.edu	37	3	157160548	157160548	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	230	43	203	0	0.186957	0	.	.	none	.	PTX3	27	.	NM_002852	exon3	c.A926G	p.Q309R	TCCTGCAGATTGG	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230413	23230413	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	103	54	109	0	0.524272	0	.	.	none	.	IGLL5	26	.	NM_001256296	exon1	c.A74G	p.D25G	CAGCCGATCCAGC	.	PASS	Atlas-SNP
SRCAP	10847	hgsc.bcm.edu	37	16	30747922	30747922	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	110	38	95	0	0.345455	0	.	.	none	.	SRCAP	298	.	NM_006662	exon33	c.C6985T	p.R2329X	GTGAGCCGAGAGG	.	PASS	Atlas-SNP
MS4A8	83661	hgsc.bcm.edu	37	11	60470906	60470906	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	190	45	219	0	0.236842	0	.	.	none	.	.	.	.	NM_031457	exon3	c.C275T	p.T92M	TGGCGACGGTTCT	.	PASS	Atlas-SNP
UNC13A	23025	hgsc.bcm.edu	37	19	17751347	17751347	+	Silent	SNP	G	G	A	rs371816774		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	89	19	124	0	0.213483	0	.	.	weak	.	UNC13A	299	.	NM_001080421	exon21	c.C2760T	p.S920S	GCGGTCGGAGGCA	.	PASS	Atlas-SNP
LRRTM4	80059	hgsc.bcm.edu	37	2	77746792	77746792	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	232	57	229	0	0.24569	0	.	.	none	LRRTM4_ENST00000409093,colon,carcinoma,+1,2	LRRTM4	334	2	NM_024993	exon3	c.T203C	p.L68S	AACCTTAATGATA	.	PASS	Atlas-SNP
FAM171B	165215	hgsc.bcm.edu	37	2	187559050	187559050	+	Silent	SNP	A	A	G	rs2370705	bycluster;byfrequency	TCGA-GS-A9TU-01A-11D-A382-10	TCGA-GS-A9TU-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a588279b-b306-445f-9584-61586da9887f	758b8554-5e4a-469e-92dd-c459fbcd4e0e	65	4	64	2	0.0615385	0.03125	A|0.462;G|0.538	0.538	strong	FAM171B,colon,carcinoma,0,2	FAM171B	146	2	NM_177454	exon1	c.A150G	p.Q50Q	GCAGCAACAACAA	.	scavenged	Atlas-SNP
