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	dataset	type	classification	start	end	gene	chr	ref_allele	tum_allele1	tum_allele2	context
RBMXL1	494115	broad.mit.edu	36	1	89221583	89221583	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	89221583	89221583	RBMXL1	1	C	C	T	27
ARHGAP30	257106	broad.mit.edu	36	1	159289206	159289206	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	159289206	159289206	ARHGAP30	1	C	C	T	29
TNN	63923	broad.mit.edu	36	1	173329814	173329814	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	173329814	173329814	TNN	1	G	G	A	41
RYR2	6262	broad.mit.edu	36	1	235560833	235560833	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10			T	C	T	T	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Silent	SNP	235560833	235560833	RYR2	1	T	T	C	63
C10orf18	54906	broad.mit.edu	36	10	5829069	5829069	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	5829069	5829069	C10orf18	10	G	G	A	35
C10orf137	26098	broad.mit.edu	36	10	127419175	127419175	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	127419175	127419175	C10orf137	10	C	C	T	25
FAM160A2	84067	broad.mit.edu	36	11	6195856	6195856	+	Silent	SNP	A	A	C	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	6195856	6195856	FAM160A2	11	A	A	C	6
ST5	6764	broad.mit.edu	36	11	8674574	8674574	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	8674574	8674574	ST5	11	C	C	G	30
C11orf16	56673	broad.mit.edu	36	11	8907627	8907627	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	8907627	8907627	C11orf16	11	A	A	G	2
PIK3C2A	5286	broad.mit.edu	36	11	17079488	17079488	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	17079488	17079488	PIK3C2A	11	A	A	C	9
EHBP1L1	254102	broad.mit.edu	36	11	65105943	65105943	+	Silent	SNP	A	A	G	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	65105943	65105943	EHBP1L1	11	A	A	G	7
IGHMBP2	3508	broad.mit.edu	36	11	68457489	68457490	+	Missense_Mutation	DNP	TC	TC	GT	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	DNP	68457489	68457490	IGHMBP2	11	TC	TC	GT	54
DSCAML1	57453	broad.mit.edu	36	11	116857947	116857947	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10			C	T	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Missense_Mutation	SNP	116857947	116857947	DSCAML1	11	C	C	T	19
TMPRSS12	283471	broad.mit.edu	36	12	49523911	49523911	+	Silent	SNP	T	T	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	49523911	49523911	TMPRSS12	12	T	T	A	61
RNASE3	6037	broad.mit.edu	36	14	20429984	20429984	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	20429984	20429984	RNASE3	14	G	G	A	39
C14orf115	55237	broad.mit.edu	36	14	73894675	73894675	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	73894675	73894675	C14orf115	14	C	C	T	27
TLN2	83660	broad.mit.edu	36	15	60841913	60841913	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	60841913	60841913	TLN2	15	G	G	A	37
PALB2	79728	broad.mit.edu	36	16	23554581	23554581	+	Nonsense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Nonsense_Mutation	SNP	23554581	23554581	PALB2	16	C	C	A	29
PLCG2	5336	broad.mit.edu	36	16	80529930	80529930	+	Silent	SNP	C	C	G	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	80529930	80529930	PLCG2	16	C	C	G	21
EIF4A1	1973	broad.mit.edu	36	17	7420652	7420652	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	7420652	7420652	EIF4A1	17	G	G	A	46
CNTD1	124817	broad.mit.edu	36	17	38204617	38204617	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	38204617	38204617	CNTD1	17	C	C	T	19
MYL4	4635	broad.mit.edu	36	17	42654107	42654107	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	42654107	42654107	MYL4	17	G	G	A	38
ACOX1	51	broad.mit.edu	36	17	71467984	71467984	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	71467984	71467984	ACOX1	17	G	G	T	45
RPTOR	57521	broad.mit.edu	36	17	76535654	76535654	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	76535654	76535654	RPTOR	17	A	A	C	12
LASS4	79603	broad.mit.edu	36	19	8221966	8221966	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	8221966	8221966	LASS4	19	G	G	A	48
MUC16	94025	broad.mit.edu	36	19	8918662	8918662	+	Silent	SNP	G	G	C	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	8918662	8918662	MUC16	19	G	G	C	47
UNC13A	23025	broad.mit.edu	36	19	17611681	17611681	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	17611681	17611681	UNC13A	19	T	T	A	61
ZNF234	10780	broad.mit.edu	36	19	49353580	49353580	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	49353580	49353580	ZNF234	19	C	C	A	26
NLRP4	147945	broad.mit.edu	36	19	61061830	61061830	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10			G	A	G	G	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Missense_Mutation	SNP	61061830	61061830	NLRP4	19	G	G	A	39
AGBL5	60509	broad.mit.edu	36	2	27145060	27145060	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	27145060	27145060	AGBL5	2	G	G	T	39
VPS54	51542	broad.mit.edu	36	2	64052843	64052843	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	64052843	64052843	VPS54	2	G	G	T	41
LRP2	4036	broad.mit.edu	36	2	169812238	169812238	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	169812238	169812238	LRP2	2	G	G	A	42
USP37	57695	broad.mit.edu	36	2	219107665	219107665	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	219107665	219107665	USP37	2	T	T	A	56
GLB1L	79411	broad.mit.edu	36	2	219811305	219811305	+	Missense_Mutation	SNP	T	T	G	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	219811305	219811305	GLB1L	2	T	T	G	60
ITM2C	81618	broad.mit.edu	36	2	231450491	231450491	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	231450491	231450491	ITM2C	2	C	C	A	27
KCNQ2	3785	broad.mit.edu	36	20	61544327	61544327	+	Missense_Mutation	SNP	T	T	G	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	61544327	61544327	KCNQ2	20	T	T	G	54
DOPEY2	9980	broad.mit.edu	36	21	36531530	36531530	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	36531530	36531530	DOPEY2	21	C	C	T	19
CLTCL1	8218	broad.mit.edu	36	22	17621616	17621616	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	17621616	17621616	CLTCL1	22	G	G	A	47
C3orf58	205428	broad.mit.edu	36	3	145174022	145174022	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	145174022	145174022	C3orf58	3	A	A	G	4
FNDC3B	64778	broad.mit.edu	36	3	173563227	173563227	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	173563227	173563227	FNDC3B	3	C	C	A	28
LIFR	3977	broad.mit.edu	36	5	38546409	38546409	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10			C	T	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Missense_Mutation	SNP	38546409	38546409	LIFR	5	C	C	T	19
PCDHB13	56123	broad.mit.edu	36	5	140575353	140575353	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	140575353	140575353	PCDHB13	5	C	C	G	26
ODZ2	57451	broad.mit.edu	36	5	167577995	167577995	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	167577995	167577995	ODZ2	5	C	C	T	19
STK10	6793	broad.mit.edu	36	5	171412610	171412610	+	Missense_Mutation	SNP	T	T	G	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	171412610	171412610	STK10	5	T	T	G	60
C6orf136	221545	broad.mit.edu	36	6	30728588	30728588	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	30728588	30728588	C6orf136	6	G	G	A	48
PPP2R5D	5528	broad.mit.edu	36	6	43086428	43086428	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	43086428	43086428	PPP2R5D	6	G	G	T	35
ENPP4	22875	broad.mit.edu	36	6	46216070	46216070	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10			A	C	A	A	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Missense_Mutation	SNP	46216070	46216070	ENPP4	6	A	A	C	12
USP42	84132	broad.mit.edu	36	7	6156165	6156165	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	6156165	6156165	USP42	7	G	G	A	47
CHRNB3	1142	broad.mit.edu	36	8	42706472	42706472	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	42706472	42706472	CHRNB3	8	T	T	A	58
FGD3	89846	broad.mit.edu	36	9	94778675	94778675	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	94778675	94778675	FGD3	9	G	G	C	43
FCN2	2220	broad.mit.edu	36	9	136918991	136918991	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	136918991	136918991	FCN2	9	A	A	G	8
GPM6B	2824	broad.mit.edu	36	X	13702662	13702662	+	Silent	SNP	C	C	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	13702662	13702662	GPM6B	23	C	C	A	29
MAGEB1	4112	broad.mit.edu	36	X	30179302	30179302	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10			C	T	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Silent	SNP	30179302	30179302	MAGEB1	23	C	C	T	19
NLGN3	54413	broad.mit.edu	36	X	70306517	70306517	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	70306517	70306517	NLGN3	23	C	C	T	27
BCORL1	63035	broad.mit.edu	36	X	128975119	128975119	+	Silent	SNP	A	A	G	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	128975119	128975119	BCORL1	23	A	A	G	7
ZIC3	7547	broad.mit.edu	36	X	136476579	136476579	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	136476579	136476579	ZIC3	23	G	G	A	38
HJURP	55355	broad.mit.edu	36	2	234419109	234419136	+	Splice_Site_Del	DEL	TTACCTCAAAATACTCTGCACCTTGTAG	-	TTACCTCAAAATACTCTGCACCTTGTAG	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	Broad	Splice_Site_Del	DEL	234419109	234419136	HJURP	2	TTACCTCAAAATACTCTGCACCTTGTAG	-	TTACCTCAAAATACTCTGCACCTTGTAG	52
THBS4	7060	broad.mit.edu	36	5	79404846	79404858	+	Splice_Site_Del	DEL	CTTTGCAGTCTGA	-	CTTTGCAGTCTGA	novel	Unknown	TCGA-13-1477-01	TCGA-13-1477-10							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	Broad	Splice_Site_Del	DEL	79404846	79404858	THBS4	5	CTTTGCAGTCTGA	-	CTTTGCAGTCTGA	32
