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
UBE2J2	118424	broad.mit.edu	36	1	1182541	1182541	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	1182541	1182541	UBE2J2	1	T	T	A	51
CROCC	9696	broad.mit.edu	36	1	17154522	17154522	+	Silent	SNP	A	A	G	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Silent	SNP	17154522	17154522	CROCC	1	A	A	G	7
TM2D1	83941	broad.mit.edu	36	1	61947587	61947587	+	Splice_Site_SNP	SNP	A	A	C	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Splice_Site_SNP	SNP	61947587	61947587	TM2D1	1	A	A	C	14
VAV3	10451	broad.mit.edu	36	1	108112631	108112631	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Silent	SNP	108112631	108112631	VAV3	1	T	T	C	50
GNAI3	2773	broad.mit.edu	36	1	109917913	109917913	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Silent	SNP	109917913	109917913	GNAI3	1	G	G	A	45
SNX27	81609	broad.mit.edu	36	1	149907704	149907704	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	149907704	149907704	SNX27	1	A	A	G	4
RHBG	57127	broad.mit.edu	36	1	154614686	154614686	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	154614686	154614686	RHBG	1	C	C	A	30
IRF6	3664	broad.mit.edu	36	1	208035326	208035326	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	208035326	208035326	IRF6	1	T	T	C	62
MUC2	4583	broad.mit.edu	36	11	1072622	1072622	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	1072622	1072622	MUC2	11	A	A	G	4
ACRBP	84519	broad.mit.edu	36	12	6626372	6626372	+	Silent	SNP	A	A	C	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Silent	SNP	6626372	6626372	ACRBP	12	A	A	C	11
A2ML1	144568	broad.mit.edu	36	12	8912192	8912192	+	Nonsense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Nonsense_Mutation	SNP	8912192	8912192	A2ML1	12	C	C	T	31
LRRK2	120892	broad.mit.edu	36	12	38954744	38954744	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	38954744	38954744	LRRK2	12	A	A	C	3
ADAMTS20	80070	broad.mit.edu	36	12	42110486	42110486	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01			T	A	T	T	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	42110486	42110486	ADAMTS20	12	T	T	A	54
TRPC4	7223	broad.mit.edu	36	13	37109441	37109441	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	37109441	37109441	TRPC4	13	A	A	T	3
TRPC4	7223	broad.mit.edu	36	13	37123457	37123457	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	37123457	37123457	TRPC4	13	G	G	A	48
CCDC88C	440193	broad.mit.edu	36	14	90827168	90827169	+	Missense_Mutation	DNP	CA	CA	AC	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	DNP	90827168	90827169	CCDC88C	14	CA	CA	AC	25
C15orf2	23742	broad.mit.edu	36	15	22472629	22472629	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Silent	SNP	22472629	22472629	C15orf2	15	C	C	T	19
KIAA1199	57214	broad.mit.edu	36	15	78960497	78960497	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Silent	SNP	78960497	78960497	KIAA1199	15	C	C	T	31
BNC1	646	broad.mit.edu	36	15	81723796	81723796	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	81723796	81723796	BNC1	15	C	C	T	27
NMB	4828	broad.mit.edu	36	15	82999553	82999553	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Silent	SNP	82999553	82999553	NMB	15	C	C	T	24
TSC2	7249	broad.mit.edu	36	16	2069154	2069154	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	2069154	2069154	TSC2	16	G	G	T	45
EEF2K	29904	broad.mit.edu	36	16	22185593	22185593	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Silent	SNP	22185593	22185593	EEF2K	16	C	C	T	30
EEF2K	29904	broad.mit.edu	36	16	22185672	22185672	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	22185672	22185672	EEF2K	16	C	C	T	29
SMPD3	55512	broad.mit.edu	36	16	66962930	66962930	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	66962930	66962930	SMPD3	16	T	T	C	59
FAM83G	644815	broad.mit.edu	36	17	18822350	18822350	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	18822350	18822350	FAM83G	17	T	T	A	59
SCN4A	6329	broad.mit.edu	36	17	59378218	59378218	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Silent	SNP	59378218	59378218	SCN4A	17	C	C	T	23
CNDP2	55748	broad.mit.edu	36	18	70334551	70334551	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	70334551	70334551	CNDP2	18	G	G	A	47
DOT1L	84444	broad.mit.edu	36	19	2161819	2161821	+	Missense_Mutation	TNP	AGA	AGA	CCG	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	TNP	2161819	2161821	DOT1L	19	AGA	AGA	CCG	7
RDH8	50700	broad.mit.edu	36	19	9993084	9993084	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01			C	T	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-25-1320-01	Broad	Silent	SNP	9993084	9993084	RDH8	19	C	C	T	23
NCAN	1463	broad.mit.edu	36	19	19200041	19200041	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	19200041	19200041	NCAN	19	C	C	T	19
ZNF536	9745	broad.mit.edu	36	19	35628320	35628320	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	35628320	35628320	ZNF536	19	C	C	T	27
SP100	6672	broad.mit.edu	36	2	231040173	231040173	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Silent	SNP	231040173	231040173	SP100	2	G	G	A	35
GIGYF2	26058	broad.mit.edu	36	2	233367824	233367824	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	233367824	233367824	GIGYF2	2	G	G	T	36
TTI1	9675	broad.mit.edu	36	20	36075196	36075196	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	36075196	36075196	TTI1	20	G	G	C	41
MRPS25	64432	broad.mit.edu	36	3	15075893	15075893	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Silent	SNP	15075893	15075893	MRPS25	3	C	C	T	25
NBEAL2	23218	broad.mit.edu	36	3	47014167	47014167	+	Silent	SNP	C	C	A	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Silent	SNP	47014167	47014167	NBEAL2	3	C	C	A	29
PCYT1A	5130	broad.mit.edu	36	3	197481734	197481734	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Silent	SNP	197481734	197481734	PCYT1A	3	G	G	A	40
PIGZ	80235	broad.mit.edu	36	3	198158883	198158883	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	198158883	198158883	PIGZ	3	C	C	T	23
POLN	353497	broad.mit.edu	36	4	2044518	2044518	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	2044518	2044518	POLN	4	A	A	C	6
ADAMTS16	170690	broad.mit.edu	36	5	5288235	5288235	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Silent	SNP	5288235	5288235	ADAMTS16	5	C	C	T	23
STC2	8614	broad.mit.edu	36	5	172677475	172677475	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	172677475	172677475	STC2	5	T	T	A	49
RUFY1	80230	broad.mit.edu	36	5	178928940	178928940	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	178928940	178928940	RUFY1	5	G	G	A	41
PPP1R10	5514	broad.mit.edu	36	6	30680387	30680387	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01			G	A	G	G	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-25-1320-01	Broad	Silent	SNP	30680387	30680387	PPP1R10	6	G	G	A	46
RARS2	57038	broad.mit.edu	36	6	88315054	88315054	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	88315054	88315054	RARS2	6	A	A	C	2
MICALL2	79778	broad.mit.edu	36	7	1442910	1442910	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	1442910	1442910	MICALL2	7	C	C	G	23
FBXL18	80028	broad.mit.edu	36	7	5506814	5506814	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	5506814	5506814	FBXL18	7	G	G	A	34
BAZ1B	9031	broad.mit.edu	36	7	72529330	72529330	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Silent	SNP	72529330	72529330	BAZ1B	7	T	T	C	56
YWHAG	7532	broad.mit.edu	36	7	75797405	75797405	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	75797405	75797405	YWHAG	7	G	G	A	39
PPP1R3A	5506	broad.mit.edu	36	7	113305096	113305096	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	113305096	113305096	PPP1R3A	7	A	A	G	4
MET	4233	broad.mit.edu	36	7	116127172	116127172	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	116127172	116127172	MET	7	G	G	C	43
DOK2	9046	broad.mit.edu	36	8	21822857	21822857	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	21822857	21822857	DOK2	8	C	C	A	17
CYP7B1	9420	broad.mit.edu	36	8	65690224	65690224	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	65690224	65690224	CYP7B1	8	G	G	T	39
RECQL4	9401	broad.mit.edu	36	8	145708862	145708862	+	Silent	SNP	G	G	C	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Silent	SNP	145708862	145708862	RECQL4	8	G	G	C	42
FOXB2	442425	broad.mit.edu	36	9	78824772	78824772	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	78824772	78824772	FOXB2	9	C	C	T	26
FAM102A	399665	broad.mit.edu	36	9	129747626	129747626	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Missense_Mutation	SNP	129747626	129747626	FAM102A	9	G	G	A	45
SURF1	6834	broad.mit.edu	36	9	135208769	135208769	+	Silent	SNP	C	C	G	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-25-1320-01	Broad	Silent	SNP	135208769	135208769	SURF1	9	C	C	G	29
UBC	7316	broad.mit.edu	36	12	123963914	123963939	+	Frame_Shift_Del	DEL	CAACCTCTGCTGGTCAGGAGGAATGC	-	CAACCTCTGCTGGTCAGGAGGAATGC	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	TCGA-25-1320-01	Broad	Frame_Shift_Del	DEL	123963914	123963939	UBC	12	CAACCTCTGCTGGTCAGGAGGAATGC	-	CAACCTCTGCTGGTCAGGAGGAATGC	29
TP53	7157	broad.mit.edu	36	17	7520040	7520040	+	Frame_Shift_Del	DEL	G	-	G	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	TCGA-25-1320-01	Broad	Frame_Shift_Del	DEL	7520040	7520040	TP53	17	G	-	G	46
AATK	9625	broad.mit.edu	36	17	76707865	76707866	+	In_Frame_Ins	INS	-	GGGCGT	-	novel	Unknown	TCGA-25-1320-01	TCGA-25-1320-01							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	TCGA-25-1320-01	Broad	In_Frame_Ins	INS	76707865	76707866	AATK	17	-	GGGCGT	-	27
