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
TRIM24	8805	hgsc.bcm.edu	36	7	137850607	137850607	+	Silent	SNP	A	A	G	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_003852	exon3	c.A594G	p.K198K	.	.	.
NPY	4852	hgsc.bcm.edu	36	7	24297825	24297825	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_000905	exon4	c.G288A	p.M96I	.	.	.
C7orf42	55069	hgsc.bcm.edu	36	7	66044371	66044371	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_017994	exon2	c.C84T	p.S28S	.	.	.
CALN1	83698	hgsc.bcm.edu	36	7	71381703	71381703	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_031468	exon3	c.G148A	p.A50T	.	.	.
C20orf151	140893	hgsc.bcm.edu	36	20	60425691	60425691	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_080833	exon4	c.C184T	p.R62W	.	.	.
SLC39A2	29986	hgsc.bcm.edu	36	14	20538946	20538946	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_014579	exon4	c.A298G	p.M100V	.	.	.
CECR1	51816	hgsc.bcm.edu	36	22	16043506	16043506	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_177405	exon5	c.C504T	p.P168P	.	.	.
PISD	23761	hgsc.bcm.edu	36	22	30346634	30346634	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_014338	exon8	c.C808T	p.R270W	.	.	.
TBCB	1155	hgsc.bcm.edu	36	19	41308494	41308494	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_001281	exon6	c.G705A	p.P235P	.	.	.
ZNF420	147923	hgsc.bcm.edu	36	19	42311181	42311181	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_144689	exon5	c.C1448A	p.S483Y	.	.	.
IRF3	3661	hgsc.bcm.edu	36	19	54858478	54858478	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001197123	exon3	c.C166T	p.R56C	.	.	.
ZNF211	10520	hgsc.bcm.edu	36	19	62845261	62845261	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_198855	exon3	c.C1595T	p.T532M	.	.	.
NTNG1	22854	hgsc.bcm.edu	36	1	107668869	107668869	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001113228	exon3	c.C689T	p.A230V	.	.	.
IL6R	3570	hgsc.bcm.edu	36	1	152668354	152668354	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_181359	exon2	c.G144A	p.P48P	.	.	.
CD1A	909	hgsc.bcm.edu	36	1	156493905	156493905	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_001763	exon5	c.G954A	p.A318A	.	.	.
OR6N2	81442	hgsc.bcm.edu	36	1	157013311	157013311	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001005278	exon1	c.G739T	p.V247L	.	.	.
HIST3H2BB	128312	hgsc.bcm.edu	36	1	226712493	226712493	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_175055	exon1	c.G40A	p.G14S	.	.	.
HIVEP3	59269	hgsc.bcm.edu	36	1	41756704	41756704	+	Missense_Mutation	SNP	T	T	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_024503	exon7	c.A5426T	p.K1809M	.	.	.
LRP8	7804	hgsc.bcm.edu	36	1	53502456	53502456	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_017522	exon9	c.G1241C	p.R414P	.	.	.
CLCA2	9635	hgsc.bcm.edu	36	1	86691736	86691736	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_006536	exon13	c.C2252T	p.S751L	.	.	.
CBL	867	hgsc.bcm.edu	36	11	118654178	118654178	+	Silent	SNP	T	T	C	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_005188	exon8	c.T1188C	p.C396C	CBL,haematopoietic_and_lymphoid_tissue,NS,Substitution - Missense,+1	.	.
OR56A1	120796	hgsc.bcm.edu	36	11	6005217	6005217	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_001001917	exon1	c.G294A	p.S98S	.	.	.
SLC22A6	9356	hgsc.bcm.edu	36	11	62505945	62505945	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_004790	exon4	c.C742T	p.R248C	.	.	.
PKHD1	5314	hgsc.bcm.edu	36	6	52031337	52031337	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_170724	exon16	c.G1255A	p.V419I	.	.	.
TTLL6	284076	hgsc.bcm.edu	36	17	44202279	44202279	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001130918	exon14	c.G2220A	p.M740I	.	.	.
UBE2O	63893	hgsc.bcm.edu	36	17	71908728	71908728	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_022066	exon6	c.G853A	p.V285M	.	.	.
TP53	7157	hgsc.bcm.edu	36	17	7519131	7519131	+	Missense_Mutation	SNP	C	C	T	rs28934578	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_001126114	exon5	c.G524A	p.R175H	TP53,lung,NS,Substitution - Missense,0	.	.
DNAH2	146754	hgsc.bcm.edu	36	17	7642346	7642346	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_020877	exon53	c.C8377T	p.R2793W	.	.	.
AGPAT3	56894	hgsc.bcm.edu	36	21	44215755	44215755	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_020132	exon7	c.G723A	p.L241L	.	.	.
PHKB	5257	hgsc.bcm.edu	36	16	46284876	46284876	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001031835	exon29	c.G2831A	p.R944H	.	.	.
CDH8	1006	hgsc.bcm.edu	36	16	60492815	60492815	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001796	exon3	c.G316T	p.G106W	.	.	.
LRRC36	55282	hgsc.bcm.edu	36	16	65933379	65933379	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_018296	exon2	c.C89T	p.S30L	.	.	.
CHST4	10164	hgsc.bcm.edu	36	16	70128946	70128946	+	Nonsense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001166395	exon2	c.C865T	p.R289X	.	.	.
USP7	7874	hgsc.bcm.edu	36	16	8899922	8899922	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_003470	exon24	c.G2607A	p.K869K	.	.	.
ROCK1	6093	hgsc.bcm.edu	36	18	16804410	16804410	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_005406	exon23	c.G2717A	p.R906Q	.	.	.
SMAD4	4089	hgsc.bcm.edu	36	18	46827583	46827583	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_005359	exon2	c.T169G	p.L57V	.	.	.
LAMA1	284217	hgsc.bcm.edu	36	18	7023010	7023010	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_005559	exon15	c.G2136A	p.P712P	.	.	.
KIAA0802	23255	hgsc.bcm.edu	36	18	8809107	8809107	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_015210	exon13	c.G3006A	p.P1002P	.	.	.
HRH1	3269	hgsc.bcm.edu	36	3	11276062	11276062	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_001098211	exon2	c.G339A	p.A113A	.	.	.
CPB1	1360	hgsc.bcm.edu	36	3	150045176	150045176	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001871	exon8	c.G710A	p.R237H	.	.	.
PRMT8	56341	hgsc.bcm.edu	36	12	3572526	3572526	+	Nonsense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_019854	exon10	c.C1102T	p.R368X	.	.	.
SECISBP2L	9728	hgsc.bcm.edu	36	15	47112508	47112508	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_014701	exon4	c.G610A	p.G204S	.	.	.
RAB28	9364	hgsc.bcm.edu	36	4	12980655	12980655	+	Silent	SNP	C	C	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_004249	exon7	c.G606T	p.P202P	.	.	.
NR3C2	4306	hgsc.bcm.edu	36	4	149577411	149577411	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001166104	exon2	c.C52T	p.R18W	.	.	.
HMGB2	3148	hgsc.bcm.edu	36	4	174491343	174491343	+	Silent	SNP	G	G	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_002129	exon2	c.C33A	p.G11G	.	.	.
ADAMTS3	9508	hgsc.bcm.edu	36	4	73424270	73424270	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_014243	exon5	c.G666A	p.S222S	.	.	.
SPARCL1	8404	hgsc.bcm.edu	36	4	88630546	88630546	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_001128310	exon8	c.C1434T	p.T478T	.	.	.
PLS3	5358	hgsc.bcm.edu	36	X	114781033	114781033	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_005032	exon9	c.G949A	p.G317S	.	.	.
DTYMK	1841	hgsc.bcm.edu	36	2	242268388	242268388	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001165031	exon3	c.T259A	p.L87M	.	.	.
CHAC2	494143	hgsc.bcm.edu	36	2	53855137	53855137	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001008708	exon3	c.G526C	p.E176Q	.	.	.
CDKN2A	1029	hgsc.bcm.edu	36	9	21960974	21960974	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_000077	exon2	c.G384A	p.R128R	CDKN2A,pancreas,NS,Substitution - Missense,+2	.	.
DNAI1	27019	hgsc.bcm.edu	36	9	34502387	34502387	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	T	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_012144	exon15	c.C1454T	p.T485M	.	.	.
LIG4	3981	hgsc.bcm.edu	36	13	107661419	107661419	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_002312	exon2	c.G199A	p.A67T	.	.	.
GPC5	2262	hgsc.bcm.edu	36	13	91178835	91178835	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_004466	exon4	c.C1069T	p.R357C	.	.	.
IDI2	91734	hgsc.bcm.edu	36	10	1055499	1055499	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_033261	exon5	c.C642T	p.D214D	.	.	.
SORCS3	22986	hgsc.bcm.edu	36	10	107012153	107012153	+	Missense_Mutation	SNP	A	A	C	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_014978	exon26	c.A3518C	p.Q1173P	.	.	.
HEXB	3074	hgsc.bcm.edu	36	5	74049904	74049904	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_000521	exon10	c.G1202A	p.G401E	.	.	.
C1orf212	113444	hgsc.bcm.edu	36	1	35093759	35093759	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AG-A016-01	TCGA-AG-A016-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	.	.	.	.	.	.	.
