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
CRB1	23418	hgsc.bcm.edu	36	1	195657633	195657634	+	Frame_Shift_Ins	INS	-	-	G	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	-	-	-	-	-	-	Unknown	Wildtype	None	Phase_I	Capture	454			SOLID	NM_201253	exon6	c.2052_2053insG	p.R684fs	.	.	.
CDCP2	200008	hgsc.bcm.edu	36	1	54377907	54377908	+	Frame_Shift_Ins	INS	-	-	C	rs60590195	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	-	-	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_201546	exon4	c.1224_1225insG	p.P408fs	.	.	.
RELN	5649	hgsc.bcm.edu	36	7	103031123	103031123	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_005045	exon24	c.C3197T	p.P1066L	.	.	.
PDE1C	5137	hgsc.bcm.edu	36	7	31831009	31831009	+	Nonsense_Mutation	SNP	G	G	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001191056	exon13	c.C1403A	p.S468X	.	.	.
AKAP9	10142	hgsc.bcm.edu	36	7	91441148	91441148	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_147185	exon2	c.C236G	p.P79R	.	.	.
RAGE	5891	hgsc.bcm.edu	36	14	101787064	101787064	+	Nonsense_Mutation	SNP	A	A	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_014226	exon7	c.T428A	p.L143X	.	.	.
FLRT2	23768	hgsc.bcm.edu	36	14	85159119	85159119	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_013231	exon2	c.C1508T	p.A503V	.	.	.
CCDC116	164592	hgsc.bcm.edu	36	22	20320806	20320806	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_152612	exon5	c.G1289A	p.R430H	.	.	.
TBCB	1155	hgsc.bcm.edu	36	19	41308437	41308437	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001281	exon6	c.C648T	p.C216C	.	.	.
NLRP8	126205	hgsc.bcm.edu	36	19	61157791	61157791	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_176811	exon3	c.C555T	p.H185H	.	.	.
RGS20	8601	hgsc.bcm.edu	36	8	55014712	55014712	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_170587	exon3	c.G534A	p.E178E	.	.	.
AMPD2	271	hgsc.bcm.edu	36	1	109971613	109971613	+	Silent	SNP	A	A	G	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_004037	exon8	c.A1062G	p.E354E	.	.	.
RP5-1000E10.4	80143	hgsc.bcm.edu	36	1	115124608	115124608	+	Silent	SNP	T	T	C	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_025073	exon1	c.A144G	p.T48T	.	.	.
FLG2	388698	hgsc.bcm.edu	36	1	150590272	150590272	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001014342	exon3	c.G6614T	p.G2205V	.	.	.
PKLR	5313	hgsc.bcm.edu	36	1	153529883	153529883	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_000298	exon8	c.C1239T	p.F413F	.	.	.
SERPINC1	462	hgsc.bcm.edu	36	1	172145346	172145346	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_000488	exon5	c.G1120A	p.D374N	.	.	.
EXTL1	2134	hgsc.bcm.edu	36	1	26222475	26222475	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_004455	exon1	c.C751T	p.R251C	.	.	.
NFIA	4774	hgsc.bcm.edu	36	1	61644883	61644883	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001145512	exon10	c.C1451T	p.P484L	.	.	.
GBP6	163351	hgsc.bcm.edu	36	1	89616720	89616722	+	In_Frame_Del	DEL	AGA	AGA	-	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	AGA	AGA	AGA	-	AGA	AGA	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_198460	exon5	c.585_587del	p.195_196del	.	.	.
CD44	960	hgsc.bcm.edu	36	11	35154736	35154736	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001001389	exon2	c.G106A	p.V36M	.	.	.
C11orf9	745	hgsc.bcm.edu	36	11	61304307	61304307	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_013279	exon18	c.C2347T	p.R783C	.	.	.
KRTAP5-5	439915	hgsc.bcm.edu	36	11	1607696	1607696	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_001001480	exon1	c.G50T	p.R17L	KRTAP5-5,lung,NS,Substitution - Missense,+1	.	.
JARID2	3720	hgsc.bcm.edu	36	6	15595564	15595564	+	Missense_Mutation	SNP	A	A	C	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_004973	exon6	c.A718C	p.K240Q	.	.	.
BTN2A1	11120	hgsc.bcm.edu	36	6	26573467	26573467	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001197234	exon5	c.C788T	p.A263V	.	.	.
P2RX1	5023	hgsc.bcm.edu	36	17	3766184	3766184	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_002558	exon1	c.G85A	p.V29M	.	.	.
CETP	1071	hgsc.bcm.edu	36	16	55573615	55573615	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_000078	exon14	c.T1286C	p.M429T	.	.	.
ANKRD12	23253	hgsc.bcm.edu	36	18	9248903	9248903	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_015208	exon9	c.C5638T	p.P1880S	.	.	.
CLSTN2	64084	hgsc.bcm.edu	36	3	141763839	141763839	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_022131	exon13	c.C2211T	p.Y737Y	.	.	.
TMPPE	643853	hgsc.bcm.edu	36	3	33109875	33109875	+	Missense_Mutation	SNP	A	A	C	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001136238	exon2	c.T406G	p.F136V	.	.	.
KRAS	3845	hgsc.bcm.edu	36	12	25289551	25289551	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_004985	exon2	c.G35A	p.G12D	KRAS,haematopoietic_and_lymphoid_tissue,NS,Substitution - Missense,0	.	.
LASS5	91012	hgsc.bcm.edu	36	12	48816034	48816034	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_147190	exon7	c.C722T	p.T241I	.	.	.
DCHS2	54798	hgsc.bcm.edu	36	4	155461387	155461387	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_017639	exon14	c.C3249A	p.D1083E	.	.	.
DCUN1D4	23142	hgsc.bcm.edu	36	4	52474471	52474471	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_001040402	exon11	c.G843A	p.E281E	.	.	.
KIT	3815	hgsc.bcm.edu	36	4	55294025	55294025	+	Silent	SNP	C	C	T	rs55789615	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_000222	exon17	c.C2394T	p.I798I	KIT,haematopoietic_and_lymphoid_tissue,NS,Substitution - coding silent,0	.	.
PRSS12	8492	hgsc.bcm.edu	36	4	119423484	119423485	+	Frame_Shift_Del	DEL	CT	CT	-	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	CT	CT	CT	-	CT	CT	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_003619	exon12	c.2269_2270del	p.757_757del	.	.	.
HNRNPH2	3188	hgsc.bcm.edu	36	X	100553680	100553680	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_019597	exon2	c.G48A	p.R16R	.	.	.
ESX1	80712	hgsc.bcm.edu	36	X	103386176	103386176	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_153448	exon1	c.T11A	p.L4H	.	.	.
DMD	1756	hgsc.bcm.edu	36	X	32392659	32392659	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_004006	exon24	c.T3241A	p.S1081T	.	.	.
PFKFB1	5207	hgsc.bcm.edu	36	X	55004020	55004020	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_002625	exon3	c.C279A	p.F93L	.	.	.
TFE3	7030	hgsc.bcm.edu	36	X	48783746	48783746	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_006521	exon3	c.C364T	p.R122W	.	.	.
RIF1	55183	hgsc.bcm.edu	36	2	152000303	152000303	+	Silent	SNP	A	A	G	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_001177664	exon11	c.A1158G	p.T386T	.	.	.
C2orf63	130162	hgsc.bcm.edu	36	2	55290044	55290044	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_152385	exon7	c.G814A	p.G272S	.	.	.
ZCCHC6	79670	hgsc.bcm.edu	36	9	88127671	88127673	+	In_Frame_Del	DEL	ATT	ATT	-	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	ATT	ATT	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_024617	exon13	c.2812_2814del	p.938_938del	.	.	.
FRMPD2	143162	hgsc.bcm.edu	36	10	49120387	49120387	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001018071	exon5	c.C390T	p.C130C	.	.	.
DPYSL4	10570	hgsc.bcm.edu	36	10	133863896	133863896	+	Silent	SNP	C	T	T	rs56326856	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.			SOLID	NM_006426	exon9	c.C858T	p.D286D	DPYSL4,central_nervous_system,brain,Substitution - Missense,0	.	.
APC	324	hgsc.bcm.edu	36	5	112201150	112201150	+	Nonsense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_001127511	exon14	c.C1906T	p.Q636X	.	.	.
GRM6	2916	hgsc.bcm.edu	36	5	178341401	178341401	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AA-3532-01A-01W-0831-10	TCGA-AA-3532-10A-01W-0831-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454			SOLID	NM_000843	exon10	c.G2497A	p.G833S	.	.	.