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	patient	dataset	type	classification	start	end	gene	chr	ref_allele	tum_allele1	tum_allele2	context
CHD5	26038	broad.mit.edu	36	1	6111605	6111605	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	6111605	6111605	CHD5	1	T	T	C	50
LCK	3932	broad.mit.edu	36	1	32518373	32518373	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	32518373	32518373	LCK	1	C	C	T	29
PHC2	1912	broad.mit.edu	36	1	33567230	33567230	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	33567230	33567230	PHC2	1	C	C	G	17
MAP7D1	55700	broad.mit.edu	36	1	36418127	36418127	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	36418127	36418127	MAP7D1	1	A	A	G	11
KLF17	128209	broad.mit.edu	36	1	44368256	44368256	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	44368256	44368256	KLF17	1	G	G	T	34
ERI3	79033	broad.mit.edu	36	1	44551427	44551427	+	Splice_Site_SNP	SNP	C	C	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Splice_Site_SNP	SNP	44551427	44551427	ERI3	1	C	C	G	18
ROR1	4919	broad.mit.edu	36	1	64416902	64416902	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	64416902	64416902	ROR1	1	A	A	G	15
ASB17	127247	broad.mit.edu	36	1	76170547	76170547	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	76170547	76170547	ASB17	1	T	T	A	52
HBXIP	10542	broad.mit.edu	36	1	110745685	110745685	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	110745685	110745685	HBXIP	1	G	G	T	46
TDRD10	126668	broad.mit.edu	36	1	152783129	152783129	+	Missense_Mutation	SNP	T	T	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	152783129	152783129	TDRD10	1	T	T	G	49
PKLR	5313	broad.mit.edu	36	1	153530996	153530996	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	153530996	153530996	PKLR	1	C	C	A	23
INSRR	3645	broad.mit.edu	36	1	155082117	155082117	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	155082117	155082117	INSRR	1	C	C	T	18
OR10X1	128367	broad.mit.edu	36	1	156816160	156816161	+	Nonsense_Mutation	DNP	GG	GG	TT	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Nonsense_Mutation	DNP	156816160	156816161	OR10X1	1	GG	GG	TT	35
HMCN1	83872	broad.mit.edu	36	1	184164386	184164386	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	184164386	184164386	HMCN1	1	G	G	T	35
MDM4	4194	broad.mit.edu	36	1	202782580	202782580	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	202782580	202782580	MDM4	1	G	G	A	35
PLXNA2	5362	broad.mit.edu	36	1	206336085	206336085	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	206336085	206336085	PLXNA2	1	C	C	G	21
EPHX1	2052	broad.mit.edu	36	1	224094163	224094163	+	Missense_Mutation	SNP	G	G	C	rs66903687	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	224094163	224094163	EPHX1	1	G	G	C	35
OR2M3	127062	broad.mit.edu	36	1	246433390	246433390	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	246433390	246433390	OR2M3	1	C	C	A	18
HNRNPH3	3189	broad.mit.edu	36	10	69771816	69771816	+	Nonstop_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Nonstop_Mutation	SNP	69771816	69771816	HNRNPH3	10	G	G	C	45
VDAC2	7417	broad.mit.edu	36	10	76643806	76643806	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	76643806	76643806	VDAC2	10	A	A	G	12
ATRNL1	26033	broad.mit.edu	36	10	117030924	117030924	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	117030924	117030924	ATRNL1	10	A	A	T	3
SPI1	6688	broad.mit.edu	36	11	47333408	47333408	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	47333408	47333408	SPI1	11	G	G	A	38
OR1S2	219958	broad.mit.edu	36	11	57727663	57727663	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	57727663	57727663	OR1S2	11	G	G	A	36
CD5	921	broad.mit.edu	36	11	60645770	60645770	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	60645770	60645770	CD5	11	C	C	A	26
INTS5	80789	broad.mit.edu	36	11	62173408	62173408	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	62173408	62173408	INTS5	11	G	G	A	43
MAP4K2	5871	broad.mit.edu	36	11	64313672	64313672	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	64313672	64313672	MAP4K2	11	T	T	C	54
MTL5	9633	broad.mit.edu	36	11	68234924	68234924	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	68234924	68234924	MTL5	11	T	T	A	59
FAT3	120114	broad.mit.edu	36	11	92174160	92174160	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	92174160	92174160	FAT3	11	C	C	G	28
KDM5A	5927	broad.mit.edu	36	12	287126	287126	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	287126	287126	KDM5A	12	G	G	A	36
C12orf35	55196	broad.mit.edu	36	12	32026913	32026913	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	32026913	32026913	C12orf35	12	C	C	G	28
DNAJC22	79962	broad.mit.edu	36	12	48029456	48029456	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	48029456	48029456	DNAJC22	12	C	C	T	29
AQP2	359	broad.mit.edu	36	12	48634705	48634705	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	48634705	48634705	AQP2	12	A	A	T	4
FRY	10129	broad.mit.edu	36	13	31709670	31709670	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	31709670	31709670	FRY	13	G	G	T	47
PCDH9	5101	broad.mit.edu	36	13	66375734	66375734	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	66375734	66375734	PCDH9	13	T	T	C	60
RNASE7	84659	broad.mit.edu	36	14	20581370	20581370	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	20581370	20581370	RNASE7	14	A	A	C	9
CTSG	1511	broad.mit.edu	36	14	24113465	24113465	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	24113465	24113465	CTSG	14	C	C	T	27
ZFYVE26	23503	broad.mit.edu	36	14	67334698	67334698	+	Silent	SNP	A	A	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	67334698	67334698	ZFYVE26	14	A	A	G	9
FAM161B	145483	broad.mit.edu	36	14	73481016	73481016	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	73481016	73481016	FAM161B	14	T	T	C	51
TJP1	7082	broad.mit.edu	36	15	27781168	27781168	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	27781168	27781168	TJP1	15	G	G	C	46
CHRNA3	1136	broad.mit.edu	36	15	76680771	76680771	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	76680771	76680771	CHRNA3	15	G	G	A	33
HDDC3	374659	broad.mit.edu	36	15	89275983	89275983	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	89275983	89275983	HDDC3	15	C	C	G	32
LRRK1	79705	broad.mit.edu	36	15	99412822	99412822	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	99412822	99412822	LRRK1	15	G	G	C	34
IFT140	9742	broad.mit.edu	36	16	1514867	1514867	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	1514867	1514867	IFT140	16	G	G	A	40
CREBBP	1387	broad.mit.edu	36	16	3726811	3726811	+	Silent	SNP	C	C	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	3726811	3726811	CREBBP	16	C	C	G	29
USP7	7874	broad.mit.edu	36	16	8921759	8921759	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	8921759	8921759	USP7	16	G	G	A	44
ERN2	10595	broad.mit.edu	36	16	23619788	23619788	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	23619788	23619788	ERN2	16	A	A	G	8
CES8	283848	broad.mit.edu	36	16	65587224	65587224	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	65587224	65587224	CES8	16	A	A	C	14
AARS	16	broad.mit.edu	36	16	68861635	68861635	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	68861635	68861635	AARS	16	C	C	G	29
ANKRD11	29123	broad.mit.edu	36	16	87885088	87885088	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	87885088	87885088	ANKRD11	16	C	C	G	28
TP53	7157	broad.mit.edu	36	17	7518273	7518273	+	Missense_Mutation	SNP	C	C	T	rs28934575	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	7518273	7518273	TP53	17	C	C	T	23
WFIKKN2	124857	broad.mit.edu	36	17	46273082	46273083	+	Missense_Mutation	DNP	GG	GG	TT	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	DNP	46273082	46273083	WFIKKN2	17	GG	GG	TT	39
MC5R	4161	broad.mit.edu	36	18	13816276	13816276	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	13816276	13816276	MC5R	18	C	C	T	19
ANKRD24	170961	broad.mit.edu	36	19	4151140	4151140	+	Silent	SNP	C	C	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	4151140	4151140	ANKRD24	19	C	C	A	25
ACSBG2	81616	broad.mit.edu	36	19	6133869	6133869	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	6133869	6133869	ACSBG2	19	C	C	T	21
PSENEN	55851	broad.mit.edu	36	19	40929549	40929549	+	Silent	SNP	G	G	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	40929549	40929549	PSENEN	19	G	G	C	43
PXDN	7837	broad.mit.edu	36	2	1659804	1659804	+	Silent	SNP	G	G	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	1659804	1659804	PXDN	2	G	G	C	39
C2orf16	84226	broad.mit.edu	36	2	27656561	27656561	+	Silent	SNP	A	A	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	27656561	27656561	C2orf16	2	A	A	G	3
HEATR5B	54497	broad.mit.edu	36	2	37084228	37084228	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	37084228	37084228	HEATR5B	2	C	C	T	28
AFTPH	54812	broad.mit.edu	36	2	64672626	64672626	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	64672626	64672626	AFTPH	2	G	G	A	34
NAT8	9027	broad.mit.edu	36	2	73721902	73721902	+	Missense_Mutation	SNP	A	A	T	rs62000430	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	73721902	73721902	NAT8	2	A	A	T	8
SLC4A5	57835	broad.mit.edu	36	2	74332886	74332886	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	74332886	74332886	SLC4A5	2	C	C	A	30
DCTN1	1639	broad.mit.edu	36	2	74446964	74446964	+	Nonsense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Nonsense_Mutation	SNP	74446964	74446964	DCTN1	2	G	G	C	45
TACR1	6869	broad.mit.edu	36	2	75130159	75130159	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	75130159	75130159	TACR1	2	A	A	C	11
KCMF1	56888	broad.mit.edu	36	2	85133839	85133839	+	Silent	SNP	A	A	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	85133839	85133839	KCMF1	2	A	A	C	7
TEKT4	150483	broad.mit.edu	36	2	94903503	94903503	+	Silent	SNP	C	C	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	94903503	94903503	TEKT4	2	C	C	A	31
HNMT	3176	broad.mit.edu	36	2	138487892	138487892	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	138487892	138487892	HNMT	2	T	T	A	50
PKP4	8502	broad.mit.edu	36	2	159227811	159227811	+	Nonsense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Nonsense_Mutation	SNP	159227811	159227811	PKP4	2	A	A	T	9
FAP	2191	broad.mit.edu	36	2	162735796	162735796	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	162735796	162735796	FAP	2	G	G	T	40
EVX2	344191	broad.mit.edu	36	2	176653723	176653723	+	Nonsense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Nonsense_Mutation	SNP	176653723	176653723	EVX2	2	G	G	T	48
ZNF385B	151126	broad.mit.edu	36	2	180117812	180117812	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	180117812	180117812	ZNF385B	2	G	G	C	47
ITGA4	3676	broad.mit.edu	36	2	182058900	182058900	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	182058900	182058900	ITGA4	2	A	A	T	4
CERKL	375298	broad.mit.edu	36	2	182131603	182131603	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	182131603	182131603	CERKL	2	C	C	G	22
MDH1B	130752	broad.mit.edu	36	2	207322086	207322086	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	207322086	207322086	MDH1B	2	T	T	C	54
TRAF3IP1	26146	broad.mit.edu	36	2	238929448	238929448	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	238929448	238929448	TRAF3IP1	2	A	A	T	2
DEFB129	140881	broad.mit.edu	36	20	158247	158247	+	Silent	SNP	C	C	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	158247	158247	DEFB129	20	C	C	A	21
NDRG3	57446	broad.mit.edu	36	20	34715422	34715422	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	34715422	34715422	NDRG3	20	G	G	T	44
TMPRSS15	5651	broad.mit.edu	36	21	18637753	18637753	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	18637753	18637753	TMPRSS15	21	T	T	A	64
KRTAP12-4	386684	broad.mit.edu	36	21	44898949	44898949	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	44898949	44898949	KRTAP12-4	21	G	G	A	44
ZNF280A	129025	broad.mit.edu	36	22	21199652	21199652	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	21199652	21199652	ZNF280A	22	C	C	T	25
MYO18B	84700	broad.mit.edu	36	22	24752607	24752607	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	24752607	24752607	MYO18B	22	C	C	A	18
ANO10	55129	broad.mit.edu	36	3	43593194	43593194	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	43593194	43593194	ANO10	3	A	A	C	9
VPRBP	9730	broad.mit.edu	36	3	51492812	51492812	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	51492812	51492812	VPRBP	3	G	G	A	48
GPR15	2838	broad.mit.edu	36	3	99734580	99734580	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	99734580	99734580	GPR15	3	C	C	A	20
TMEM45A	55076	broad.mit.edu	36	3	101770431	101770431	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	101770431	101770431	TMEM45A	3	A	A	T	6
GOLGB1	2804	broad.mit.edu	36	3	122898824	122898824	+	Missense_Mutation	SNP	T	T	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	122898824	122898824	GOLGB1	3	T	T	G	55
COL6A6	131873	broad.mit.edu	36	3	131783252	131783252	+	Silent	SNP	T	T	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	131783252	131783252	COL6A6	3	T	T	A	54
PCOLCE2	26577	broad.mit.edu	36	3	144025146	144025146	+	Silent	SNP	A	A	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	144025146	144025146	PCOLCE2	3	A	A	G	2
IGSF10	285313	broad.mit.edu	36	3	152649167	152649167	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	152649167	152649167	IGSF10	3	T	T	C	63
FGF12	2257	broad.mit.edu	36	3	193608562	193608562	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	193608562	193608562	FGF12	3	A	A	G	2
ZDHHC19	131540	broad.mit.edu	36	3	197409615	197409615	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	197409615	197409615	ZDHHC19	3	G	G	A	42
GNRHR	2798	broad.mit.edu	36	4	68302523	68302523	+	Silent	SNP	A	A	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	68302523	68302523	GNRHR	4	A	A	G	3
MMAA	166785	broad.mit.edu	36	4	146794600	146794600	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	146794600	146794600	MMAA	4	T	T	C	50
PDLIM3	27295	broad.mit.edu	36	4	186666465	186666465	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	186666465	186666465	PDLIM3	4	C	C	G	22
FAM105B	90268	broad.mit.edu	36	5	14734611	14734611	+	Silent	SNP	G	G	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	14734611	14734611	FAM105B	5	G	G	T	42
RICTOR	253260	broad.mit.edu	36	5	38985589	38985589	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	38985589	38985589	RICTOR	5	G	G	A	41
TRIM36	55521	broad.mit.edu	36	5	114497705	114497705	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	114497705	114497705	TRIM36	5	C	C	T	20
CHSY3	337876	broad.mit.edu	36	5	129549287	129549287	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	129549287	129549287	CHSY3	5	A	A	T	15
GLRA1	2741	broad.mit.edu	36	5	151214884	151214884	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	151214884	151214884	GLRA1	5	C	C	A	28
OR12D3	81797	broad.mit.edu	36	6	29450706	29450706	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	29450706	29450706	OR12D3	6	A	A	T	7
GABBR1	2550	broad.mit.edu	36	6	29697547	29697547	+	Silent	SNP	T	T	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	29697547	29697547	GABBR1	6	T	T	A	58
VPS52	6293	broad.mit.edu	36	6	33344342	33344342	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	33344342	33344342	VPS52	6	G	G	C	42
TAPBP	6892	broad.mit.edu	36	6	33380127	33380127	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	33380127	33380127	TAPBP	6	G	G	A	40
GFRAL	389400	broad.mit.edu	36	6	55324010	55324010	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	55324010	55324010	GFRAL	6	G	G	T	41
DST	667	broad.mit.edu	36	6	56579920	56579920	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	56579920	56579920	DST	6	G	G	T	47
EPHA7	2045	broad.mit.edu	36	6	94177450	94177450	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	94177450	94177450	EPHA7	6	C	C	T	30
VNN1	8876	broad.mit.edu	36	6	133046083	133046083	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	133046083	133046083	VNN1	6	C	C	T	30
ZNF680	340252	broad.mit.edu	36	7	63642220	63642220	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	63642220	63642220	ZNF680	7	G	G	T	42
ELN	2006	broad.mit.edu	36	7	73109929	73109929	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	73109929	73109929	ELN	7	G	G	T	34
CLCN1	1180	broad.mit.edu	36	7	142729031	142729031	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	142729031	142729031	CLCN1	7	G	G	T	43
HMBOX1	79618	broad.mit.edu	36	8	28932300	28932300	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	28932300	28932300	HMBOX1	8	C	C	G	19
MYST3	7994	broad.mit.edu	36	8	41924575	41924575	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	41924575	41924575	MYST3	8	C	C	T	17
SLC20A2	6575	broad.mit.edu	36	8	42406894	42406894	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	42406894	42406894	SLC20A2	8	C	C	A	26
PLEKHF2	79666	broad.mit.edu	36	8	96236166	96236166	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	96236166	96236166	PLEKHF2	8	G	G	A	45
DEPDC6	64798	broad.mit.edu	36	8	121130995	121130995	+	Splice_Site_SNP	SNP	G	G	T	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Splice_Site_SNP	SNP	121130995	121130995	DEPDC6	8	G	G	T	35
KIFC2	90990	broad.mit.edu	36	8	145665712	145665712	+	Silent	SNP	A	A	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	145665712	145665712	KIFC2	8	A	A	C	7
DFNB31	25861	broad.mit.edu	36	9	116306424	116306424	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	116306424	116306424	DFNB31	9	G	G	C	37
RXRA	6256	broad.mit.edu	36	9	136465823	136465823	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	136465823	136465823	RXRA	9	A	A	G	16
SEC16A	9919	broad.mit.edu	36	9	138489835	138489835	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	138489835	138489835	SEC16A	9	G	G	A	34
CXorf23	256643	broad.mit.edu	36	X	19893693	19893693	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	19893693	19893693	CXorf23	23	T	T	C	61
KLF8	11279	broad.mit.edu	36	X	56308437	56308437	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	56308437	56308437	KLF8	23	G	G	A	34
RGAG4	340526	broad.mit.edu	36	X	71267780	71267780	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Silent	SNP	71267780	71267780	RGAG4	23	G	G	A	46
MAGEC1	9947	broad.mit.edu	36	X	140823425	140823425	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	140823425	140823425	MAGEC1	23	T	T	A	54
HCFC1	3054	broad.mit.edu	36	X	152889377	152889377	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-09-2049-01	Broad	Missense_Mutation	SNP	152889377	152889377	HCFC1	23	G	G	A	39
CUBN	8029	broad.mit.edu	36	10	16995954	16995954	+	Frame_Shift_Del	DEL	A	-	A	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	TCGA-09-2049-01	Broad	Frame_Shift_Del	DEL	16995954	16995954	CUBN	10	A	-	A	11
TLE2	7089	broad.mit.edu	36	19	2979803	2979804	+	Splice_Site_Ins	INS	-	G	-	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	TCGA-09-2049-01	Broad	Splice_Site_Ins	INS	2979803	2979804	TLE2	19	-	G	-	55
ZNF264	9422	broad.mit.edu	36	19	62416080	62416096	+	Frame_Shift_Del	DEL	AAATATTTTGCCAGAGG	-	AAATATTTTGCCAGAGG	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	TCGA-09-2049-01	Broad	Frame_Shift_Del	DEL	62416080	62416096	ZNF264	19	AAATATTTTGCCAGAGG	-	AAATATTTTGCCAGAGG	5
MYO7B	4648	broad.mit.edu	36	2	128082867	128082867	+	Frame_Shift_Del	DEL	G	-	G	novel	Unknown	TCGA-09-2049-01	TCGA-09-2049-01							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	TCGA-09-2049-01	Broad	Frame_Shift_Del	DEL	128082867	128082867	MYO7B	2	G	-	G	39
