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
KANK4	163782	broad.mit.edu	36	1	62512126	62512126	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	62512126	62512126	KANK4	1	A	A	T	8
MCOLN2	255231	broad.mit.edu	36	1	85169786	85169786	+	Silent	SNP	A	A	G	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Silent	SNP	85169786	85169786	MCOLN2	1	A	A	G	8
RBM15	64783	broad.mit.edu	36	1	110685238	110685238	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	110685238	110685238	RBM15	1	G	G	C	44
OR10J3	441911	broad.mit.edu	36	1	157550844	157550844	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	157550844	157550844	OR10J3	1	G	G	T	42
TOR1AIP2	163590	broad.mit.edu	36	1	178086742	178086742	+	Silent	SNP	G	G	C	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Silent	SNP	178086742	178086742	TOR1AIP2	1	G	G	C	43
KIF21B	23046	broad.mit.edu	36	1	199239430	199239430	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	199239430	199239430	KIF21B	1	C	C	G	24
CUL2	8453	broad.mit.edu	36	10	35357789	35357789	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Silent	SNP	35357789	35357789	CUL2	10	T	T	C	51
ERCC6	2074	broad.mit.edu	36	10	50408893	50408893	+	Splice_Site_SNP	SNP	C	C	A	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Splice_Site_SNP	SNP	50408893	50408893	ERCC6	10	C	C	A	24
AGAP8	728404	broad.mit.edu	36	10	50895056	50895056	+	Silent	SNP	G	G	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Silent	SNP	50895056	50895056	AGAP8	10	G	G	T	35
ATRNL1	26033	broad.mit.edu	36	10	117016300	117016300	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Silent	SNP	117016300	117016300	ATRNL1	10	C	C	T	30
OS9	10956	broad.mit.edu	36	12	56398319	56398319	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	56398319	56398319	OS9	12	G	G	C	41
ATP12A	479	broad.mit.edu	36	13	24172938	24172938	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	24172938	24172938	ATP12A	13	G	G	T	45
MYO16	23026	broad.mit.edu	36	13	108591694	108591694	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Silent	SNP	108591694	108591694	MYO16	13	C	C	T	23
GOLGA5	9950	broad.mit.edu	36	14	92352502	92352502	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	92352502	92352502	GOLGA5	14	C	C	T	28
KIAA1409	57578	broad.mit.edu	36	14	93179705	93179705	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	93179705	93179705	KIAA1409	14	G	G	C	47
IQCH	64799	broad.mit.edu	36	15	65573686	65573686	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	65573686	65573686	IQCH	15	C	C	T	24
BLM	641	broad.mit.edu	36	15	89153454	89153454	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	89153454	89153454	BLM	15	A	A	G	12
CCNF	899	broad.mit.edu	36	16	2443301	2443301	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	2443301	2443301	CCNF	16	G	G	A	34
TEKT5	146279	broad.mit.edu	36	16	10628963	10628963	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	10628963	10628963	TEKT5	16	G	G	A	39
ITGAL	3683	broad.mit.edu	36	16	30414944	30414944	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	30414944	30414944	ITGAL	16	T	T	C	55
IRX6	79190	broad.mit.edu	36	16	53919112	53919112	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	53919112	53919112	IRX6	16	A	A	T	3
GFOD2	81577	broad.mit.edu	36	16	66277099	66277099	+	Silent	SNP	C	C	A	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Silent	SNP	66277099	66277099	GFOD2	16	C	C	A	21
DHODH	1723	broad.mit.edu	36	16	70603664	70603664	+	Splice_Site_SNP	SNP	T	T	A	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Splice_Site_SNP	SNP	70603664	70603664	DHODH	16	T	T	A	57
MYBBP1A	10514	broad.mit.edu	36	17	4389768	4389768	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Silent	SNP	4389768	4389768	MYBBP1A	17	C	C	T	30
ZNF652	22834	broad.mit.edu	36	17	44749439	44749439	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	44749439	44749439	ZNF652	17	A	A	T	6
MYCBPAP	84073	broad.mit.edu	36	17	45951058	45951058	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	45951058	45951058	MYCBPAP	17	G	G	C	39
ICAM2	3384	broad.mit.edu	36	17	59436313	59436313	+	Nonsense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Nonsense_Mutation	SNP	59436313	59436313	ICAM2	17	G	G	A	48
BPTF	2186	broad.mit.edu	36	17	63338212	63338212	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	63338212	63338212	BPTF	17	G	G	T	33
CLUL1	27098	broad.mit.edu	36	18	635002	635002	+	Silent	SNP	C	C	G	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Silent	SNP	635002	635002	CLUL1	18	C	C	G	29
INSR	3643	broad.mit.edu	36	19	7094008	7094008	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Silent	SNP	7094008	7094008	INSR	19	G	G	A	38
EPOR	2057	broad.mit.edu	36	19	11349790	11349790	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	11349790	11349790	EPOR	19	G	G	A	36
DHX34	9704	broad.mit.edu	36	19	52548282	52548282	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	52548282	52548282	DHX34	19	A	A	T	7
FAM179A	165186	broad.mit.edu	36	2	29093546	29093546	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	29093546	29093546	FAM179A	2	C	C	A	32
RIF1	55183	broad.mit.edu	36	2	152002102	152002102	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	152002102	152002102	RIF1	2	G	G	C	33
MARS2	92935	broad.mit.edu	36	2	198279265	198279265	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	198279265	198279265	MARS2	2	C	C	G	29
UGT1A9	54600	broad.mit.edu	36	2	234245714	234245714	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	234245714	234245714	UGT1A9	2	A	A	T	1
SCLY	51540	broad.mit.edu	36	2	238667798	238667798	+	Splice_Site_SNP	SNP	A	A	C	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Splice_Site_SNP	SNP	238667798	238667798	SCLY	2	A	A	C	7
SYCP2	10388	broad.mit.edu	36	20	57882379	57882379	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	57882379	57882379	SYCP2	20	G	G	A	45
PIWIL3	440822	broad.mit.edu	36	22	23480089	23480089	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	23480089	23480089	PIWIL3	22	C	C	G	31
PLXNB1	5364	broad.mit.edu	36	3	48436043	48436043	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	48436043	48436043	PLXNB1	3	T	T	C	51
EPHB1	2047	broad.mit.edu	36	3	136153305	136153305	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	136153305	136153305	EPHB1	3	G	G	A	38
NLGN1	22871	broad.mit.edu	36	3	175008283	175008283	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	175008283	175008283	NLGN1	3	G	G	C	40
BDH1	622	broad.mit.edu	36	3	198757635	198757635	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	198757635	198757635	BDH1	3	C	C	A	30
GPRIN3	285513	broad.mit.edu	36	4	90389105	90389105	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	90389105	90389105	GPRIN3	4	T	T	C	51
SEC24B	10427	broad.mit.edu	36	4	110646977	110646977	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Silent	SNP	110646977	110646977	SEC24B	4	G	G	A	45
BBS7	55212	broad.mit.edu	36	4	122989531	122989531	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	122989531	122989531	BBS7	4	C	C	G	17
NNT	23530	broad.mit.edu	36	5	43691814	43691814	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	43691814	43691814	NNT	5	A	A	T	4
GTF2H4	2968	broad.mit.edu	36	6	30988154	30988154	+	Silent	SNP	G	G	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Silent	SNP	30988154	30988154	GTF2H4	6	G	G	T	47
DOPEY1	23033	broad.mit.edu	36	6	83920651	83920651	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	83920651	83920651	DOPEY1	6	T	T	A	51
SYNE1	23345	broad.mit.edu	36	6	152599766	152599766	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	152599766	152599766	SYNE1	6	T	T	C	51
WDR27	253769	broad.mit.edu	36	6	169801541	169801541	+	Splice_Site_SNP	SNP	T	T	G	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Splice_Site_SNP	SNP	169801541	169801541	WDR27	6	T	T	G	56
HGF	3082	broad.mit.edu	36	7	81196910	81196910	+	Nonsense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Nonsense_Mutation	SNP	81196910	81196910	HGF	7	C	C	T	22
CNTNAP2	26047	broad.mit.edu	36	7	146967232	146967232	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	146967232	146967232	CNTNAP2	7	G	G	A	38
LONRF1	91694	broad.mit.edu	36	8	12624987	12624987	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	12624987	12624987	LONRF1	8	G	G	T	47
TOPORS	10210	broad.mit.edu	36	9	32533969	32533969	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	32533969	32533969	TOPORS	9	G	G	T	48
COL15A1	1306	broad.mit.edu	36	9	100869130	100869130	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	100869130	100869130	COL15A1	9	G	G	T	35
BAT2L1	84726	broad.mit.edu	36	9	133297870	133297870	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	133297870	133297870	BAT2L1	9	C	C	A	26
KLHL34	257240	broad.mit.edu	36	X	21584171	21584171	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	21584171	21584171	KLHL34	23	G	G	C	37
SMS	6611	broad.mit.edu	36	X	21905271	21905271	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Silent	SNP	21905271	21905271	SMS	23	T	T	C	51
OGT	8473	broad.mit.edu	36	X	70693810	70693810	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-61-2008-01	Broad	Missense_Mutation	SNP	70693810	70693810	OGT	23	C	C	A	19
TP53	7157	broad.mit.edu	36	17	7520060	7520061	+	Frame_Shift_Ins	INS	-	C	-	novel	Unknown	TCGA-61-2008-01	TCGA-61-2008-01							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	TCGA-61-2008-01	Broad	Frame_Shift_Ins	INS	7520060	7520061	TP53	17	-	C	-	58
