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	TranscriptID	Exon	ChromChange	AAChange	COSMIC_Codon	COSMIC_Gene	Drug_Target
RELN	5649	hgsc.bcm.edu	36	7	102989562	102989562	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_005045	exon35	c.T5285C	p.V1762A	.	.	.
EPHA1	2041	hgsc.bcm.edu	36	7	142805642	142805642	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_005232	exon7	c.T1358A	p.L453Q	.	.	.
EPHA1	2041	hgsc.bcm.edu	36	7	142805647	142805647	+	Silent	SNP	C	C	G	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_005232	exon7	c.G1353C	p.L451L	.	.	.
ABCF2	10061	hgsc.bcm.edu	36	7	150552074	150552074	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_005692	exon4	c.G427A	p.D143N	.	.	.
HNRNPA2B1	3181	hgsc.bcm.edu	36	7	26202562	26202562	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_031243	exon7	c.C678A	p.N226K	.	.	.
C7orf43	55262	hgsc.bcm.edu	36	7	99590633	99590633	+	Silent	SNP	C	C	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_018275	exon11	c.G1680T	p.V560V	.	.	.
C20orf185	359710	hgsc.bcm.edu	36	20	31111459	31111459	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_182658	exon4	c.G488A	p.R163H	.	.	.
ZNF217	7764	hgsc.bcm.edu	36	20	51631699	51631699	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_006526	exon1	c.G1074A	p.A358A	.	.	.
NPAS3	64067	hgsc.bcm.edu	36	14	33339286	33339286	+	Silent	SNP	C	C	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_022123	exon11	c.C1926A	p.S642S	.	.	.
CYP46A1	10858	hgsc.bcm.edu	36	14	99235585	99235585	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_006668	exon4	c.G312T	p.K104N	.	.	.
DNMT1	1786	hgsc.bcm.edu	36	19	10107814	10107814	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_001130823	exon38	c.G4639C	p.E1547Q	.	.	.
CALR	811	hgsc.bcm.edu	36	19	12915418	12915418	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_004343	exon8	c.G1028A	p.G343D	.	.	.
SLC7A9	11136	hgsc.bcm.edu	36	19	38042639	38042639	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	T	T	T	T	T	T	Unknown	Wildtype	None	Phase_I	Capture	454			SOLID	NM_001126335	exon8	c.A821C	p.Y274S	.	.	.
HIPK4	147746	hgsc.bcm.edu	36	19	45587558	45587558	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_144685	exon1	c.G92A	p.R31Q	.	.	.
HNRNPUL1	11100	hgsc.bcm.edu	36	19	46478935	46478935	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_144732	exon7	c.G614C	p.G205A	.	.	.
RSHL1	81492	hgsc.bcm.edu	36	19	51010152	51010152	+	Silent	SNP	C	C	T	rs45598433	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_030785	exon1	c.G123A	p.E41E	.	.	.
STRN4	29888	hgsc.bcm.edu	36	19	51928190	51928190	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	C	C	C	Unknown	Wildtype	None	Phase_I	Capture	454			SOLID	NM_001039877	exon5	c.G683T	p.G228V	.	.	.
CSMD3	114788	hgsc.bcm.edu	36	8	113400294	113400294	+	Silent	SNP	C	C	G	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_198123	exon47	c.G7308C	p.T2436T	.	.	.
ESCO2	157570	hgsc.bcm.edu	36	8	27702382	27702382	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001017420	exon7	c.C1231T	p.H411Y	.	.	.
ADAM18	8749	hgsc.bcm.edu	36	8	39683526	39683526	+	Missense_Mutation	SNP	T	T	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_014237	exon18	c.T1963A	p.F655I	.	.	.
SLC20A2	6575	hgsc.bcm.edu	36	8	42405517	42405517	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_006749	exon10	c.C1710T	p.S570S	.	.	.
DPY19L4	286148	hgsc.bcm.edu	36	8	95816119	95816119	+	Silent	SNP	A	A	G	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_181787	exon3	c.A213G	p.S71S	.	.	.
KCNS2	3788	hgsc.bcm.edu	36	8	99510167	99510167	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_020697	exon2	c.C784A	p.L262I	.	.	.
SPAG17	200162	hgsc.bcm.edu	36	1	118332008	118332008	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_206996	exon40	c.C5641T	p.R1881C	.	.	.
ITGA10	8515	hgsc.bcm.edu	36	1	144243836	144243836	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_003637	exon9	c.G932A	p.R311Q	.	.	.
NBPF14	25832	hgsc.bcm.edu	36	1	146471340	146471340	+	Silent	SNP	C	C	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_015383	exon22	c.G2598T	p.P866P	.	.	.
PEAR1	375033	hgsc.bcm.edu	36	1	155143102	155143102	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001080471	exon6	c.C450G	p.C150W	.	.	.
ADAMTS4	9507	hgsc.bcm.edu	36	1	159432027	159432027	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_005099	exon4	c.T1113A	p.H371Q	.	.	.
HMCN1	83872	hgsc.bcm.edu	36	1	184388549	184388549	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_031935	exon96	c.G14941A	p.D4981N	.	.	.
KCNT2	343450	hgsc.bcm.edu	36	1	194551664	194551664	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_198503	exon21	c.A2464G	p.N822D	.	.	.
ZBTB41	360023	hgsc.bcm.edu	36	1	195427602	195427602	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_194314	exon2	c.T1171A	p.C391S	.	.	.
PTPRC	5788	hgsc.bcm.edu	36	1	196978026	196978026	+	Silent	SNP	C	C	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_080921	exon22	c.C2115A	p.A705A	.	.	.
DDX59	83479	hgsc.bcm.edu	36	1	198902080	198902080	+	Nonsense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001031725	exon2	c.C412T	p.Q138X	.	.	.
NFASC	23114	hgsc.bcm.edu	36	1	203210038	203210038	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001160331	exon11	c.G1421A	p.R474Q	.	.	.
TMCC2	9911	hgsc.bcm.edu	36	1	203507751	203507751	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_014858	exon5	c.C2006T	p.T669M	.	.	.
NBPF3	84224	hgsc.bcm.edu	36	1	21680843	21680843	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_032264	exon13	c.G1600A	p.V534M	.	.	.
JMJD4	65094	hgsc.bcm.edu	36	1	225988995	225988995	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_023007	exon2	c.C546T	p.L182L	.	.	.
ERO1LB	56605	hgsc.bcm.edu	36	1	234483347	234483347	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_019891	exon3	c.G304A	p.E102K	.	.	.
C1orf101	257044	hgsc.bcm.edu	36	1	242748607	242748607	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_173807	exon8	c.G520A	p.E174K	.	.	.
PIK3CD	5293	hgsc.bcm.edu	36	1	9706707	9706707	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_005026	exon21	c.C2688T	p.S896S	.	.	.
GALNTL4	374378	hgsc.bcm.edu	36	11	11410793	11410793	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_198516	exon3	c.C546T	p.P182P	.	.	.
REV3L	5980	hgsc.bcm.edu	36	6	111784925	111784925	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_002912	exon18	c.C7169G	p.A2390G	.	.	.
LAMA2	3908	hgsc.bcm.edu	36	6	129633548	129633548	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001079823	exon17	c.C2409T	p.D803D	.	.	.
TNFAIP3	7128	hgsc.bcm.edu	36	6	138242038	138242038	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_006290	exon7	c.C1763G	p.A588G	.	.	.
TRIM27	5987	hgsc.bcm.edu	36	6	28984817	28984817	+	Silent	SNP	A	A	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_006510	exon5	c.T798A	p.P266P	.	.	.
UBE2CBP	90025	hgsc.bcm.edu	36	6	83820607	83820607	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_198920	exon3	c.G344C	p.G115A	.	.	.
KRT15	3866	hgsc.bcm.edu	36	17	36928308	36928308	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_002275	exon1	c.C298G	p.L100V	.	.	.
WNT3	7473	hgsc.bcm.edu	36	17	42201275	42201275	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_030753	exon4	c.G648A	p.E216E	.	.	.
PRKCA	5578	hgsc.bcm.edu	36	17	61922800	61922800	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_002737	exon3	c.C225A	p.H75Q	.	.	.
WBP2	23558	hgsc.bcm.edu	36	17	71359301	71359301	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_012478	exon2	c.C111T	p.N37N	.	.	.
TP53	7157	hgsc.bcm.edu	36	17	7517819	7517819	+	Missense_Mutation	SNP	G	G	A	rs28934574	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_001126114	exon8	c.C844T	p.R282W	TP53,central_nervous_system,brain,Substitution - Missense,-2	.	.
TIAM1	7074	hgsc.bcm.edu	36	21	31430200	31430200	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_003253	exon24	c.T3805A	p.L1269M	.	.	.
DNAJC13	23317	hgsc.bcm.edu	36	3	133667879	133667879	+	Missense_Mutation	SNP	A	A	C	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_015268	exon19	c.A2015C	p.E672A	.	.	.
SPATA12	353324	hgsc.bcm.edu	36	3	57083278	57083278	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_181727	exon2	c.C516T	p.C172C	.	.	.
CNTN3	5067	hgsc.bcm.edu	36	3	74433586	74433586	+	Missense_Mutation	SNP	A	A	C	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_020872	exon14	c.T1847G	p.L616R	.	.	.
EPHA3	2042	hgsc.bcm.edu	36	3	89472868	89472868	+	Missense_Mutation	SNP	T	T	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_005233	exon4	c.T927A	p.N309K	.	.	.
RERGL	79785	hgsc.bcm.edu	36	12	18133438	18133438	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_024730	exon2	c.T47C	p.V16A	.	.	.
R3HDM2	22864	hgsc.bcm.edu	36	12	55949406	55949406	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_014925	exon14	c.G1639T	p.G547C	.	.	.
WNK1	65125	hgsc.bcm.edu	36	12	864557	864557	+	Silent	SNP	T	T	G	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001184985	exon19	c.T5106G	p.V1702V	.	.	.
EPYC	1833	hgsc.bcm.edu	36	12	89889767	89889767	+	Missense_Mutation	SNP	A	A	C	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_004950	exon5	c.T643G	p.F215V	.	.	.
ATP10A	57194	hgsc.bcm.edu	36	15	23577280	23577280	+	Silent	SNP	C	C	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_024490	exon2	c.G633T	p.V211V	.	.	.
ANPEP	290	hgsc.bcm.edu	36	15	88148201	88148201	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001150	exon7	c.G1216A	p.D406N	.	.	.
TLL1	7092	hgsc.bcm.edu	36	4	167215565	167215565	+	Missense_Mutation	SNP	T	T	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_012464	exon17	c.T2274A	p.N758K	.	.	.
GABRG1	2565	hgsc.bcm.edu	36	4	45755379	45755379	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_173536	exon6	c.G643A	p.E215K	.	.	.
GUCY2F	2986	hgsc.bcm.edu	36	X	108578045	108578045	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001522	exon6	c.G1478A	p.R493H	.	.	.
HTATSF1	27336	hgsc.bcm.edu	36	X	135407599	135407599	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_014500	exon1	c.C90T	p.T30T	.	.	.
MAGEA10	4109	hgsc.bcm.edu	36	X	151053966	151053966	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_021048	exon4	c.C783G	p.H261Q	.	.	.
POLA1	5422	hgsc.bcm.edu	36	X	24661848	24661848	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_016937	exon17	c.G1809T	p.E603D	.	.	.
MAOA	4128	hgsc.bcm.edu	36	X	43486221	43486221	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_000240	exon12	c.C1245G	p.I415M	.	.	.
TMEM182	130827	hgsc.bcm.edu	36	2	102797858	102797858	+	Silent	SNP	A	A	G	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_144632	exon5	c.A689G	p.X230X	.	.	.
GALNT5	11227	hgsc.bcm.edu	36	2	157860512	157860512	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_014568	exon4	c.A1833T	p.K611N	.	.	.
NT5C1B	93034	hgsc.bcm.edu	36	2	18631914	18631914	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001199104	exon3	c.C127T	p.R43C	.	.	.
MYO1B	4430	hgsc.bcm.edu	36	2	191963287	191963287	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_012223	exon18	c.A1806T	p.K602N	.	.	.
HECW2	57520	hgsc.bcm.edu	36	2	196879529	196879529	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_020760	exon13	c.G2742A	p.T914T	.	.	.
VIL1	7429	hgsc.bcm.edu	36	2	218997298	218997298	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_007127	exon3	c.G130A	p.D44N	.	.	.
FARP2	9855	hgsc.bcm.edu	36	2	242081456	242081456	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	A	A	A	A	A	A	Unknown	Wildtype	None	Phase_I	Capture	454			SOLID	NM_014808	exon26	c.A2971G	p.K991E	.	.	.
ALK	238	hgsc.bcm.edu	36	2	29304014	29304014	+	Silent	SNP	G	G	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_004304	exon17	c.C2844A	p.P948P	.	.	.
ALK	238	hgsc.bcm.edu	36	2	29373322	29373322	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_004304	exon9	c.G1753A	p.A585T	.	.	.
CNGA3	1261	hgsc.bcm.edu	36	2	98379901	98379901	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_001298	exon8	c.C1836T	p.I612I	.	.	.
DLX2	1746	hgsc.bcm.edu	36	2	172675493	172675493	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_004405	exon1	c.G20A	p.S7N	.	.	.
FAM125B	89853	hgsc.bcm.edu	36	9	128194215	128194215	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_001011703	exon5	c.G459A	p.R153R	.	.	.
USPL1	10208	hgsc.bcm.edu	36	13	30131051	30131051	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_005800	exon9	c.T2837C	p.I946T	.	.	.
ABCC2	1244	hgsc.bcm.edu	36	10	101557913	101557913	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_000392	exon13	c.C1752T	p.T584T	.	.	.
SEC31B	25956	hgsc.bcm.edu	36	10	102259138	102259138	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_015490	exon4	c.G324A	p.S108S	.	.	.
TACC2	10579	hgsc.bcm.edu	36	10	123944577	123944577	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_006997	exon2	c.C101T	p.P34L	.	.	.
C10orf137	26098	hgsc.bcm.edu	36	10	127441868	127441868	+	Missense_Mutation	SNP	T	T	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_015608	exon24	c.T3452A	p.I1151N	.	.	.
EBF3	253738	hgsc.bcm.edu	36	10	131528581	131528581	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001005463	exon15	c.G1542C	p.Q514H	.	.	.
SUV39H2	79723	hgsc.bcm.edu	36	10	14983199	14983199	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001193427	exon5	c.G338A	p.R113Q	.	.	.
FAM171A1	221061	hgsc.bcm.edu	36	10	15296168	15296168	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	T	T	T	T	T	T	Unknown	Wildtype	None	Phase_I	Capture	454			SOLID	NM_001010924	exon8	c.A1425C	p.E475D	.	.	.
ZEB1	6935	hgsc.bcm.edu	36	10	31849586	31849586	+	Silent	SNP	A	A	G	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001174093	exon6	c.A1257G	p.K419K	.	.	.
TLL2	7093	hgsc.bcm.edu	36	10	98123390	98123390	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_012465	exon19	c.C2615T	p.S872L	.	.	.
APC	324	hgsc.bcm.edu	36	5	112203289	112203289	+	Nonsense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001127511	exon14	c.C4045T	p.Q1349X	APC,large_intestine,colon,Substitution - Nonsense,0	.	.
SLC23A1	9963	hgsc.bcm.edu	36	5	138742233	138742233	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_005847	exon10	c.G1113A	p.G371G	.	.	.
PCDHB1	29930	hgsc.bcm.edu	36	5	140411443	140411443	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_013340	exon1	c.C204T	p.S68S	.	.	.
PCDHGA2	56113	hgsc.bcm.edu	36	5	140699885	140699885	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_032009	exon1	c.A1163G	p.E388G	.	.	.
PCDH12	51294	hgsc.bcm.edu	36	5	141315541	141315541	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_016580	exon1	c.C2060T	p.T687I	.	.	.
APC	324	hgsc.bcm.edu	36	5	112202739	112202739	+	Nonsense_Mutation	SNP	T	T	A	novel	unknown	TCGA-AG-3609-01	TCGA-AG-3609-01	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001127511	exon14	c.T3495A	p.Y1165X	.	.	.
