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	115.0	19.0	135.0	0.0	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	181.0	30.0	180.0	0.0	0.166	.	.	.	none	.	ANKRD11	195	.	NM_001256183	exon9	c.1229_1230insA	p.T410fs	.	.	PASS	Pindel,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	38.0	10.0	62.0	0.0	0.263158	0	.	.	none	.	SETD1B	105	.	NM_015048	exon5	c.1272_1273del	p.424_425del	.	.	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	178.0	35.0	172.0	0.0	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	338.0	51.0	377.0	0.0	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	44.0	11.0	49.0	0.0	0.250	.	.	.	none	.	EXOSC10	59	.	.	.	.	.	.	.	PASS	Pindel
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	35.0	7.0	40.0	0.0	0.2	0	.	.	none	ICT1,NS,carcinoma,-1,1	ICT1	17	1	NM_001545	exon1	c.C22G	p.R8G	TGCCTGCGCTGGG	.	PASS	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	84.0	15.0	74.0	0.0	0.178571	0	.	.	none	.	NACAD	44	.	NM_001146334	exon2	c.C660T	p.Y220Y	CGTAATGTAGGAG	.	PASS	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	92.0	4.0	76.0	1.0	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	96.0	20.0	111.0	0.0	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	88.0	4.0	80.0	0.0	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	71.0	14.0	94.0	0.0	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	65.0	20.0	94.0	0.0	0.307692	0	.	.	none	.	APEH	45	.	NM_001640	exon15	c.G1308A	p.G436G	AGTTGGGTTCCTG	.	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	121.0	7.0	123.0	0.0	0.0578512	0	.	.	weak	.	MUC13	57	.	NM_033049	exon2	c.A180T	p.T60T	GAAAGGTGTATTT	.	PASS	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	160.0	37.0	132.0	0.0	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	40.0	19.0	23.0	0.0	0.475	0	.	.	none	.	FLNC	339	.	NM_001127487	exon2	c.G593A	p.C198Y	ACAACTGCGCCCC	.	PASS	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	50.0	10.0	49.0	0.0	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	116.0	24.0	125.0	0.0	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	195.0	49.0	203.0	0.0	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	69.0	22.0	92.0	0.0	0.318841	0	.	.	none	.	PKMYT1	23	.	NM_182687	exon3	c.T116A	p.F39Y	AGGGAGAATCCAG	.	PASS	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	24.0	3.0	23.0	1.0	0.125	0.0434783	.	.	none	RHPN2,face,carcinoma,0,2	RHPN2	107	2	NM_033103	exon3	c.G217A	p.V73M	GCCGCACTTGCTC	.	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	91.0	31.0	126.0	0.0	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	47.0	12.0	63.0	0.0	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	209.0	53.0	246.0	0.0	0.253589	0	.	.	none	.	SLC17A4	79	.	NM_005495	exon6	c.G706C	p.G236R	ATCTTTGGTGAGT	.	PASS	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	129.0	28.0	92.0	0.0	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	74.0	12.0	95.0	0.0	0.162162	0	.	.	none	.	ZC3H12A	58	.	NM_025079	exon4	c.G641A	p.R214Q	CATCACGACGCGT	.	PASS	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	60.0	17.0	63.0	0.0	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	570.0	104.0	524.0	0.0	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	221.0	27.0	140.0	0.0	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	53.0	16.0	50.0	0.0	0.301887	0	.	.	weak	.	DYSF	536	.	NM_001130982	exon20	c.C1759T	p.R587W	CGTGGCCGGCTTC	.	PASS	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	113.0	26.0	110.0	0.0	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
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	556.0	130.0	577.0	0.0	0.233813	0	.	.	none	.	CASC1	146	.	NM_001082972	exon9	c.G1132T	p.E378X	TTATTTCTTCCTC	.	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	104.0	11.0	70.0	0.0	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	105.0	32.0	124.0	0.0	0.304762	0	.	.	none	.	DNAH9	695	.	NM_001372	exon36	c.C7146T	p.F2382F	GGCTTTCGGCGGA	.	PASS	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	272.0	38.0	202.0	0.0	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
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	140.0	10.0	73.0	0.0	0.0714286	0	.	.	none	.	SLC6A16	62	.	NM_014037	exon6	c.C942T	p.L314L	TTCCAGGAGTAGA	.	PASS	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	204.0	49.0	168.0	0.0	0.240196	0	.	.	none	OR2A5,NS,carcinoma,0,1	OR2A5	78	1	NM_012365	exon1	c.G408A	p.M136I	CATCATGAGATGG	.	PASS	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	81.0	19.0	90.0	0.0	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	85.0	23.0	100.0	0.0	0.270588	0	.	.	none	FAT4_ENST00000394329,NS,carcinoma,+2,2	FAT4	1752	2	NM_024582	exon5	c.C6384T	p.D2128D	TACAGACAAAGGT	.	PASS	Atlas-SNP
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	70.0	21.0	94.0	0.0	0.3	0	.	.	none	.	EIF2B4	48	.	NM_172195	exon11	c.T1364A	p.L455Q	CAAACCAGCACTG	.	PASS	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	64.0	17.0	68.0	0.0	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	404.0	48.0	193.0	0.0	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
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	38.0	10.0	44.0	0.0	0.263158	0	.	.	none	.	ENPP7	63	.	NM_178543	exon1	c.C24T	p.L8L	CCTCCTCACTGTG	.	PASS	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	125.0	27.0	160.0	0.0	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	69.0	15.0	82.0	0.0	0.217391	0	.	.	none	CCND3,NS,lymphoid_neoplasm,0,2	CCND3	40	2	NM_001760	exon5	c.A847G	p.T283A	TAGGAGTGCTGGT	.	PASS	Atlas-SNP
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	123.0	28.0	140.0	0.0	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	74.0	13.0	71.0	0.0	0.175676	0	.	.	none	.	ZIC1	141	.	NM_003412	exon1	c.C909T	p.P303P	CTTTCCCTGCCCC	.	PASS	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	151.0	30.0	175.0	0.0	0.198675	0	.	.	none	.	SI	500	.	NM_001041	exon34	c.A4042G	p.T1348A	CTTCCGTTAGAGT	.	PASS	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	173.0	48.0	189.0	0.0	0.277457	0	.	.	none	.	PRRC2B	266	.	NM_013318	exon20	c.G5039A	p.R1680Q	AGTCTCGGGAGTC	.	PASS	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	299.0	31.0	127.0	0.0	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	20.0	9.0	28.0	0.0	0.45	0	.	.	none	.	MESP2	20	.	NM_001039958	exon1	c.G561A	p.G187G	GCAGGGGCAGGGG	.	PASS	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	149.0	56.0	134.0	0.0	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	140.0	29.0	192.0	0.0	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	47.0	12.0	49.0	0.0	0.255319	0	.	.	alt	.	CCDC33	160	.	NM_025055	exon14	c.G1548A	p.K516K	ACAGAAGAATGAT	.	PASS	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	177.0	41.0	202.0	0.0	0.231638	0	.	.	weak	.	CWC25	24	.	NM_017748	exon9	c.C1033T	p.R345W	CTTGCCGTTTTCG	.	PASS	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	85.0	16.0	91.0	0.0	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	230.0	43.0	203.0	0.0	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	103.0	54.0	109.0	0.0	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	110.0	38.0	95.0	0.0	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	190.0	45.0	219.0	0.0	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	89.0	19.0	124.0	0.0	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	232.0	57.0	229.0	0.0	0.24569	0	.	.	none	LRRTM4_ENST00000409093,colon,carcinoma,+1,2	LRRTM4	334	2	NM_024993	exon3	c.T203C	p.L68S	AACCTTAATGATA	.	PASS	Atlas-SNP