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	COSMIC_Codon	COSMIC_Gene	Transcript_Id	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	TTotCov_SOL	TVarCov_SOL	TVaf_SOL	NTotCov_SOL	NVarCov_SOL	NVaf_SOL	dbSNPPopFreq	COSMIC_Gene_Freq	COSMIC_Site_Freq	Ttot_rna	Tvar_rna	Tvaf_rna	note	germline-maf-frequency	IGV
SKI	6497	broad.mit.edu	37	1	2160966	2160966	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	SKI	NM_003036	exon1	c.A761C	p.Y254S	TCATGTACCCGCC		30	6	0.20	27	3	0.1111111111		33		42	1	0.02			
PER3	8863	mdanderson.org	37	1	7902773	7902773	+	Silent	SNP	G	G	A	rs144281505		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_016831	exon21	c.G3564A	p.A1188A	TGGTGCGGCCACA		63	3	0.05	101	0	0	0			10	0	0.00			
UBE4B	10277	mdanderson.org	37	1	10182134	10182134	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_001105562	exon10	c.G1554T	p.Q518H	CAAGCAGGTACGG		54	3	0.06	101	0	0				36	0	0.00			
EPB41	2035	broad.mit.edu	37	1	29379772	29379772	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	EPB41	NM_001166006	exon12	c.A1793G	p.K598R	TGAAAAAGGAAGA		360	7	0.02	423	0	0		118		58	0	0.00			
PRKAA2	5563	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	1	57111084	57111084	+	Missense_Mutation	SNP	C	C	A	rs200643979	by1000genomes;alternate_allele	TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_006252	exon1	c.C24A	p.D8E	GCACGACGGGCGG		109	9	0.08	100	0	0				0	0				
SRGAP2D	0	broad.mit.edu	37	1	121116645	121116645	+	RNA	DEL	T	T	-	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	.	.	.	.	CCCCCCTTTAAAA		170	13	0.08	157	0	0				0	0				
OR2B11	127623	mdanderson.org	37	1	247614868	247614868	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_001004492	exon1	c.C417A	p.L139L	GTGCATGAGAACG		43	3	0.07	57	0	0				0	0				
WDFY4	57705	mdanderson.org	37	10	50165215	50165215	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_020945	exon52	c.G8019T	p.V2673V	CAGTGTGAAGAGC		40	3	0.08	87	0	0				19	0	0.00			
FAM170B	170370	mdanderson.org	37	10	50339897	50339897	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_001164484	exon2	c.C613T	p.R205C	CGCAGCGCACCCC		19	3	0.16	19	0	0				1	0	0.00			
C10orf128	170371	mdanderson.org	37	10	50374968	50374968	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_001010863	exon3	c.C184A	p.H62N	ATAAGTGCCTCCT		45	3	0.07	65	0	0				32	0	0.00			
MSMB	4477	mdanderson.org	37	10	51562390	51562390	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_138634	exon3	c.G229T	p.G77X	GTGAATGGATAAT		48	3	0.06	45	0	0				1	0	0.00			
HHEX	3087	broad.mit.edu	37	10	94449787	94449787	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	HHEX	NM_002729	exon1	c.T44G	p.V15G	TGGGGGTGCCGCT		44	29	0.66	40	13	0.325		22		4	0	0.00			
MYOD1	4654	mdanderson.org	37	11	17741614	17741614	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_002478	exon1	c.G285T	p.L95L	CCTACTGTGGGCC		39	3	0.08	42	0	0				0	0				
ANO3	63982	broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	26547227	26547227	+	Splice_Site	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	ANO3	NM_031418	exon7	c.737+1G>T	.	GGGCAGGTTGGTG		106	31	0.29	182	1	0.0054945055		145		0	0				
AMBRA1	55626	broad.mit.edu	37	11	46439570	46439570	+	Silent	SNP	G	G	A	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	AMBRA1	NM_001267782	exon17	c.C3018T	p.A1006A	CTGGTCGGCAGGC		87	3	0.03	92	0	0		201		49	0	0.00			
OR10S1	219873	mdanderson.org	37	11	123848345	123848345	+	Missense_Mutation	SNP	G	G	T	rs201821946	alternate_allele	TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_001004474	exon1	c.C54A	p.N18K	AGTCTGGTTGGGG		10	2	0.20	18	0	0				0	0				
ADAMTS15	170689	broad.mit.edu	37	11	130343024	130343024	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	ADAMTS15,NS,carcinoma,0,3	ADAMTS15	NM_139055	exon8	c.G2161T	p.G721W	CTGATCGGGGATG		121	3	0.02	137	0	0		103	3	4	0	0.00			
LPAR5	57121	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	12	6729744	6729744	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_001142961	exon2	c.C671A	p.T224K	CTCTGCGTGGCGT		108	11	0.10	58	0	0				9	0	0.00			
PDE3A	0	broad.mit.edu	37	12	20522114	20522115	+	RNA	INS	-	-	GCGT	rs138187101	bycluster;by1000genomes	TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	PDE3A	.	.	.	.	GGGAAGAGCGTGC		24	11	0.46	9	0	0		184		6	0	0.00			
ADAMTS20	80070	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	43771347	43771347	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_025003	exon32	c.T4816C	p.F1606L	AACTAAATCCACA		133	23	0.17	183	0	0				0	0				
PROSER1	80209	mdanderson.org	37	13	39588565	39588565	+	Missense_Mutation	SNP	G	G	T	rs141612774	bycluster;byfrequency;alternate_allele	TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_025138	exon11	c.C824A	p.P275H	GTTGAAGGATTAG		42	3	0.07	65	0	0				52	0	0.00			
DZIP1	22873	mdanderson.org	37	13	96239894	96239894	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	DZIP1_ENST00000347108,NS,carcinoma,0,3	DZIP1_ENST00000347108	NM_198968	exon20	c.C2117A	p.P706Q	TTTTGTGGTGGCG		119	5	0.04	156	0	0		0	3	36	0	0.00			
ARID4A	5926	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	58832861	58832861	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	ARID4A_ENST00000355431,NS,carcinoma,-2,2	ARID4A_ENST00000355431	NM_002892	exon22	c.C3436G	p.P1146A	ATATCCCCGCACA		152	31	0.20	172	0	0		-2	2	28	8	0.29			
LOC646278	0	broad.mit.edu	37	15	29052465	29052465	+	RNA	DEL	T	T	-	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	.	.	.	.	TATTTATTTTTTT		6	3	0.50	9	0	0				0	0				
EIF3J	8669	broad.mit.edu	37	15	44829571	44829571	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	EIF3J	NM_003758	exon2	c.C93T	p.G31G	GGGCGGCGGCACT		74	3	0.04	78	0	0		29		40	0	0.00			
SPG11	80208	mdanderson.org	37	15	44955776	44955776	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_025137	exon1	c.C70A	p.R24R	GAACCCGCCCCAT		23	2	0.09	33	0	0				4	0	0.00			
RASGRF1	5923	mdanderson.org	37	15	79382584	79382584	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_002891	exon1	c.A257G	p.K86R	GGCTCCTTGGCCG		26	2	0.08	42	0	0				0	0				
LRRK1	79705	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	101555582	101555582	+	Silent	SNP	T	T	A	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_024652	exon12	c.T1584A	p.G528G	CAGAGGTCGCCAG		83	20	0.24	107	0	0				9	2	0.22			
HN1L	90861	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	16	1748931	1748931	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	HN1L,NS,carcinoma,-1,1	HN1L	NM_144570	exon5	c.C505G	p.P169A	CTGGGGCCGCGGC		61	8	0.13	55	0	0		-1	1	145	45	0.31			
TBL3	10607	mdanderson.org	37	16	2027606	2027606	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_006453	exon17	c.C1834T	p.H612Y	GGGCTGCACTGCA		70	4	0.06	70	0	0				137	0	0.00			
CREBBP	1387	mdanderson.org	37	16	3777828	3777828	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_004380	exon31	c.C7220T	p.A2407V	AGCATTGCACTCT		70	5	0.07	79	0	0				222	0	0.00			
KAT8	84148	mdanderson.org	37	16	31142271	31142271	+	Silent	SNP	A	A	T	rs17855606	bycluster;byfrequency;byhapmap;by1000genomes;alternate_allele	TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_182958	exon10	c.A1362T	p.I454I	CAGTATATGGACT		32	3	0.09	29	0	0				1	0	0.00			
FTSJD1	0	ucsc.edu	37	16	71317853	71317853	+	Silent	SNP	A	A	C	rs200001480	byfrequency	TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	A	A					Unknown	Untested	Somatic		RNA-Seq	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	FTSJD1	NM_018348	exon3	c.T1971G	p.G657G	GATCAAACCAGCC		69	4	0.06	95	6	0.0631578947		70		39	5	0.13			
ZFPM1	161882	ucsc.edu;bcgsc.ca	37	16	88552419	88552419	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	ZFPM1	NM_153813	exon2	c.C113T	p.T38M	AGGCCACGGCACC		38	4	0.11	61	0	0		32		26	0	0.00			
CDK10	8558	mdanderson.org	37	16	89761464	89761464	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_052988	exon11	c.C918T	p.Y306Y	CATGTACGACCCT		56	3	0.05	46	0	0				92	0	0.00			
SRCIN1	80725	mdanderson.org	37	17	36705442	36705442	+	Missense_Mutation	SNP	C	C	A	rs372264724	alternate_allele	TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_025248	exon16	c.G2967T	p.E989D	GGTCAACTCATCT		27	3	0.11	35	0	0				7	0	0.00			
PYY	5697	broad.mit.edu	37	17	42030831	42030831	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	PYY	NM_004160	exon5	c.G21A	p.P7P	GGGCCACGGCCTG		152	6	0.04	136	0	0		11		37	0	0.00			
RNF126P1	376412	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	55123140	55123140	+	RNA	SNP	A	A	C	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	.	.	.	.	TCTTTGACGACAG		48	7	0.15	40	0	0				1	0	0.00			
MRC2	9902	mdanderson.org	37	17	60742301	60742301	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_006039	exon2	c.C511T	p.P171S	GCTCTGCCCTACC		21	2	0.10	27	0	0				101	0	0.00			
LAMA1	284217	broad.mit.edu	37	18	7023227	7023227	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	LAMA1	NM_005559	exon19	c.C2637A	p.G879G	GTGGGCGCCATCT		104	4	0.04	99	0	0		458		15	0	0.00			
KATNAL2	83473	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	44584611	44584611	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_031303	exon4	c.T122C	p.M41T	GGATGATGAACGA		81	13	0.16	103	0	0				3	2	0.67			
APC2	10297	mdanderson.org	37	19	1470177	1470177	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_005883	exon15	c.G6877T	p.A2293S	GAGAAAGCCCCGG		38	3	0.08	44	0	0				0	0				
ZNF555	148254	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	2853172	2853172	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_152791	exon4	c.G1109A	p.C370Y	ACGAATGCAAACA		115	12	0.10	183	0	0				5	3	0.60			
LPHN1	22859	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	14273727	14273727	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_001008701	exon6	c.C901T	p.R301C	CAAAGCGCAGTGT		63	12	0.19	70	0	0				46	16	0.35			
CHERP	10523	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	19	16636107	16636107	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_006387	exon10	c.G1687A	p.E563K	GCCGCTCGAAGGG		85	14	0.16	75	0	0				80	28	0.35			
ZNF14	7561	broad.mit.edu	37	19	19823097	19823097	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	ZNF14,NS,carcinoma,-1,1	ZNF14	NM_021030	exon4	c.G993A	p.G331G	TCGAGCCCCAGTG		101	3	0.03	143	0	0		89	1	4	0	0.00			
APOB	338	broad.mit.edu	37	2	21266752	21266754	+	In_Frame_Del	DEL	CAG	CAG	-	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	CAG	CAG					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	APOB	NM_000384	exon1	c.64_66del	p.22_22del	GCCCGCCAGCAGC		6	2	0.33	4	0	0		761		0	0				
SCN7A	6332	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	167313390	167313390	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_002976	exon10	c.A1280T	p.E427V	TCTGTTTCATTTC		59	11	0.19	82	0	0				3	1	0.33			
.	0	bcgsc.ca	37	2	186412033	186412033	+	RNA	SNP	C	C	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	.	.	.	.	TGCTTCCGATTTA		106	15	0.14	136	0	0				8	0	0.00			
SMARCAL1	50485	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	217329366	217329366	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_014140	exon13	c.C2117T	p.A706V	GAACAGCTGAAGC		68	10	0.15	70	0	0				63	14	0.22			
ZCCHC3	85364	broad.mit.edu	37	20	279150	279150	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	ZCCHC3	NM_033089	exon1	c.A923G	p.E308G	AGGGGGAGGGCGG		66	3	0.05	110	3	0.0272727273		20		12	0	0.00			
NDRG3	57446	broad.mit.edu;ucsc.edu;mdanderson.org	37	20	35284911	35284911	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	NDRG3	NM_032013	exon14	c.C883T	p.Q295X	CTACCTGGGGCAG		170	55	0.32	210	1	0.0047619048		32		26	0	0.00			
ZMYND8	23613	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	45874864	45874864	+	Silent	SNP	G	G	A	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_183047	exon14	c.C2172T	p.G724G	GTCCAGGCCCAAA		184	32	0.17	211	0	0				72	27	0.38			
MIR3648	0	broad.mit.edu	37	21	9825838	9825839	+	RNA	INS	-	-	GCG	rs372061766	bycluster	TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	.	.	.	.	CGCGACTGCGGCG		11	8	0.73	7	0	0				0	0				
CBS	875	mdanderson.org	37	21	44478969	44478969	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_001178009	exon14	c.C1333A	p.Q445K	GCGCCTGGTCGAA		24	3	0.13	32	0	0				174	0	0.00			
KREMEN1	83999	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	22	29521294	29521294	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_001039570	exon5	c.A521G	p.N174S	GAAACAATCCTGA		80	17	0.21	116	0	0				12	4	0.33			
TMEM115	11070	mdanderson.org	37	3	50396199	50396199	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_007024	exon1	c.T296C	p.L99P	AAGATGAGCAGCT		47	3	0.06	52	0	0				116	0	0.00			
RBM15B	29890	broad.mit.edu;bcgsc.ca	37	3	51430005	51430023	+	Frame_Shift_Del	DEL	GGGCTAAGGTGGCCATGTC	GGGCTAAGGTGGCCATGTC	-	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	GGGCTAAGGTGGCCATGTC	GGGCTAAGGTGGCCATGTC					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	RBM15B,colon,carcinoma,0,1	RBM15B	NM_013286	exon1	c.1175_1193del	p.392_398del	CCCATAGGGCTAA		109	9	0.08	146	0	0		47	1	64	0	0.00			
PARP9	83666	broad.mit.edu	37	3	122255025	122255025	+	Silent	SNP	C	C	G	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	PARP9	NM_031458	exon10	c.G2175C	p.S725S	AGGTGTCGAGTAC		277	6	0.02	283	0	0		72		140	6	0.04	rescued with RNA-seq		
CLSTN2	64084	mdanderson.org	37	3	140281041	140281041	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_022131	exon13	c.G2103T	p.V701V	TTTGGTGATCGGA		69	4	0.06	100	0	0				4	0	0.00			
CHST2	9435	broad.mit.edu	37	3	142840095	142840095	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	CHST2	NM_004267	exon2	c.T437G	p.V146G	CGGGGGTTGCGGC		45	12	0.27	44	13	0.2954545455		67		34	2	0.06			
PRSS12	8492	broad.mit.edu	37	4	119252936	119252936	+	Silent	SNP	T	T	G	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	PRSS12	NM_003619	exon4	c.A906C	p.G302G	AACGGTTCCCCAC		302	8	0.03	372	3	0.0080645161		71		10	0	0.00			
SLC6A19	340024	hgsc.bcm.edu	37	5	1216727	1216727	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	SLC6A19,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1	SLC6A19	NM_001003841	exon7	c.G942T	p.S314S	CACATCGGTGTAT		82	4	0.05	124	0	0		0	1	4	0	0.00			
PCDHGB1	0	broad.mit.edu	37	5	140730563	140730563	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	PCDHGB1	NM_018922	exon1	c.G736T	p.V246F	TACAGGGTTAGCC		114	3	0.03	135	0	0		198		0	0				
TBC1D9B	23061	mdanderson.org	37	5	179306156	179306156	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_015043	exon9	c.C1458A	p.F486L	CTCGAAGAAGTGG		12	2	0.17	27	0	0				90	0	0.00			
GNB2L1	10399	broad.mit.edu;mdanderson.org	37	5	180668627	180668627	+	Silent	SNP	C	C	A	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	GNB2L1	NM_006098	exon3	c.G294T	p.T98T	TCGCCTCGTGGTG		45	5	0.11	67	0	0		22		2875	862	0.30			
BTN2A2	10385	hgsc.bcm.edu	37	6	26384092	26384092	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	BTN2A2_ENST00000432533,bladder,carcinoma,-1,2	BTN2A2_ENST00000432533	NM_181531	exon2	c.C43T	p.L15F	GCCTCCCTCCTCC		100	5	0.05	92	1	0.0108695652		-1	2	36	0	0.00			
BTN2A3P	0	broad.mit.edu	37	6	26422353	26422353	+	RNA	SNP	C	C	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	BTN2A3,NS,carcinoma,0,9	.	.	.	.	.	ATGGAACCAGCTG		61	4	0.07	77	1	0.012987013			9	9	0	0.00			
NKAPL	222698	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	6	28228082	28228082	+	Silent	SNP	T	T	C	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	NKAPL,NS,carcinoma,0,1	NKAPL	NM_001007531	exon1	c.T933C	p.Y311Y	TGAGTATGTAAAA		113	11	0.10	115	0	0		0	1	4	0	0.00			
TNFAIP3	7128	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	138200293	138200293	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	TNFAIP3,rectum,carcinoma,-1,2	TNFAIP3	NM_001270507	exon7	c.G1711C	p.V571L	CGGCTCGTCCGGA		52	9	0.17	65	2	0.0307692308		-1	2	56	8	0.14			
HIVEP2	3097	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	143091135	143091135	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	HIVEP2	NM_006734	exon5	c.A4741G	p.S1581G	GTGGGCTCATGCT		159	32	0.20	165	1	0.0060606061		225		8	2	0.25			
CREB5	9586	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	28547354	28547354	+	Missense_Mutation	SNP	G	G	A	rs142741982	alternate_allele	TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	CREB5,rectum,carcinoma,+1,1	CREB5	NM_182898	exon4	c.G290A	p.R97Q	GCAAGCGGGTAGG		71	11	0.15	91	0	0	0	1	1	0	0				
VWC2	375567	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	7	49815586	49815586	+	Silent	SNP	G	G	C	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_198570	exon2	c.G555C	p.P185P	GGGGCCGCTGTGC		22	5	0.23	16	0	0				0	0				
TMEM229A	730130	broad.mit.edu;mdanderson.org	37	7	123672968	123672968	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	TMEM229A	NM_001136002	exon1	c.G90C	p.E30D	TGCCGCCTCGCTT		16	3	0.19	22	0	0		31		0	0				
ZC3HC1	51530	mdanderson.org	37	7	129691202	129691202	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_016478	exon1	c.C5T	p.A2V	GGCGCCGCCATCT		95	5	0.05	119	0	0				8	0	0.00			
SSPO	23145	mdanderson.org	37	7	149509500	149509500	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_198455	exon69	c.G9898T	p.V3300F	GGGGAGGTCTGCC		19	2	0.11	27	1	0.037037037				0	0				
FAM83A	84985	broad.mit.edu	37	8	124219616	124219616	+	Silent	SNP	C	C	G	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	FAM83A	NM_032899	exon4	c.C993G	p.S331S	CACGTCCTCCAAC		58	3	0.05	68	0	0		64		0	0				
.	0	broad.mit.edu	37	9	66459814	66459814	+	RNA	DEL	T	T	-	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	.	.	.	.	GATTTGTCCCCAG		6	2	0.33	6	0	0				4	0	0.00			
TRPM6	140803	mdanderson.org	37	9	77390989	77390989	+	Missense_Mutation	SNP	G	G	T	rs376920206	alternate_allele	TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_017662	exon24	c.C3213A	p.N1071K	GTAAACGTTGCTG		53	3	0.06	76	0	0				0	0				
ANKS6	203286	hgsc.bcm.edu	37	9	101546298	101546298	+	Missense_Mutation	SNP	G	G	T	rs376042242	alternate_allele	TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	ANKS6,NS,carcinoma,-1,1	ANKS6	NM_173551	exon4	c.C1049A	p.A350E	ACATCCGCGTGCC		49	2	0.04	61	0	0		-1	1	29	0	0.00			
LRRC37A5P	0	broad.mit.edu	37	9	114370697	114370698	+	RNA	INS	-	-	A	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	.	.	.	.	TAGTGAGAAAAAA		6	3	0.50	4	0	0				0	0				
SURF6	6838	bcgsc.ca	37	9	136198944	136198944	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	SURF6	NM_006753	exon5	c.C847A	p.R283S	CGTCACGGATCTT		44	4	0.09	50	0	0		32		126	0	0.00			
ARSF	416	broad.mit.edu	37	X	3030575	3030575	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	ARSF	NM_004042	exon11	c.G1751A	p.R584Q	AGCCTCGGGGTCC		141	6	0.04	70	0	0		97		1	0	0.00			
RAI2	10742	broad.mit.edu	37	X	17819967	17819967	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	RAI2	NM_001172739	exon3	c.C164A	p.A55D	GATGGGGCTGGCA		208	5	0.02	120	0	0		66		25	0	0.00			
CHDC2	286464	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	36091305	36091305	+	Silent	SNP	A	A	C	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_173695	exon4	c.A240C	p.S80S	AACATCAGAGGAA		363	177	0.49	287	0	0				0	0				
ZNF182	7569	mdanderson.org	37	X	47847944	47847944	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	NM_006962	exon4	c.C52A	p.Q18K	CCTTCTGCCATGA		38	3	0.08	29	0	0				0	0				
ATRX	546	broad.mit.edu	37	X	76938655	76938655	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	ATRX	NM_000489	exon9	c.A2093G	p.K698R	TTATCCTTTTTTC		140	3	0.02	81	0	0		833		36	0	0.00			
.	648283	bcgsc.ca	37	X	83004277	83004277	+	RNA	SNP	A	A	T	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	.	.	.	.	ATCCAAATTAGCT		36	7	0.19	34	0	0				1	0	0.00			
.	359996	bcgsc.ca	37	Y	4669795	4669795	+	RNA	SNP	G	G	A	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	.	.	.	.	AGTCCTGCTGCTG		20	4	0.20	24	0	0				0	0				
SEPHS2	22928	mdanderson.org	37	16	30456664	30456664	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2G-AAGP-01A-11D-A42Y-10	TCGA-2G-AAGP-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	79a36367-9e68-4e76-af66-085a68c13add	2f54fd19-65e9-4992-a984-fc446f349244	.	.	.	.	.	.	GGCCCCCGTGCCT		38	3	0.08	44	0	0				134	0	0.00			
