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
PDIK1L	149420	broad.mit.edu	36	1	26321116	26321116	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	26321116	26321116	PDIK1L	1	C	C	G	23
LRRIQ3	127255	broad.mit.edu	36	1	74279941	74279941	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	74279941	74279941	LRRIQ3	1	C	C	G	20
PDE4DIP	9659	broad.mit.edu	36	1	143663557	143663557	+	Splice_Site_SNP	SNP	C	C	T	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Splice_Site_SNP	SNP	143663557	143663557	PDE4DIP	1	C	C	T	20
SPTA1	6708	broad.mit.edu	36	1	156879836	156879836	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	156879836	156879836	SPTA1	1	C	C	A	24
B3GALT2	8707	broad.mit.edu	36	1	191416457	191416457	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	191416457	191416457	B3GALT2	1	C	C	T	25
PRELP	5549	broad.mit.edu	36	1	201719889	201719889	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Silent	SNP	201719889	201719889	PRELP	1	C	C	T	29
PNLIP	5406	broad.mit.edu	36	10	118305559	118305559	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	118305559	118305559	PNLIP	10	G	G	C	34
PPAPDC1A	196051	broad.mit.edu	36	10	122324720	122324720	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	122324720	122324720	PPAPDC1A	10	G	G	A	39
CYP2E1	1571	broad.mit.edu	36	10	135192003	135192003	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	135192003	135192003	CYP2E1	10	C	C	G	19
NUP160	23279	broad.mit.edu	36	11	47770961	47770961	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	47770961	47770961	NUP160	11	T	T	C	49
OR4C13	283092	broad.mit.edu	36	11	49930659	49930659	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	49930659	49930659	OR4C13	11	A	A	G	8
GIF	2694	broad.mit.edu	36	11	59369478	59369478	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Silent	SNP	59369478	59369478	GIF	11	G	G	A	35
E2F7	144455	broad.mit.edu	36	12	75947794	75947794	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	75947794	75947794	E2F7	12	T	T	A	64
MYL2	4633	broad.mit.edu	36	12	109837929	109837929	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	109837929	109837929	MYL2	12	C	C	A	31
DGKH	160851	broad.mit.edu	36	13	41681575	41681575	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	41681575	41681575	DGKH	13	A	A	G	7
ADAMTSL3	57188	broad.mit.edu	36	15	82485191	82485191	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	82485191	82485191	ADAMTSL3	15	G	G	A	39
CDK12	51755	broad.mit.edu	36	17	34902577	34902577	+	Nonsense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Nonsense_Mutation	SNP	34902577	34902577	CDK12	17	G	G	A	47
RAD23A	5886	broad.mit.edu	36	19	12924845	12924845	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	12924845	12924845	RAD23A	19	G	G	C	33
ZNF583	147949	broad.mit.edu	36	19	61626618	61626618	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	61626618	61626618	ZNF583	19	G	G	A	33
TRIB3	57761	broad.mit.edu	36	20	319976	319976	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	319976	319976	TRIB3	20	C	C	G	27
CRLS1	54675	broad.mit.edu	36	20	5960658	5960658	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	5960658	5960658	CRLS1	20	C	C	G	27
ZNF445	353274	broad.mit.edu	36	3	44471659	44471659	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	44471659	44471659	ZNF445	3	C	C	G	25
COL6A6	131873	broad.mit.edu	36	3	131764946	131764946	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	131764946	131764946	COL6A6	3	G	G	C	44
MME	4311	broad.mit.edu	36	3	156347676	156347676	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	156347676	156347676	MME	3	A	A	G	4
C3orf59	151963	broad.mit.edu	36	3	193999851	193999851	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	193999851	193999851	C3orf59	3	C	C	G	25
PPA2	27068	broad.mit.edu	36	4	106594233	106594233	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	106594233	106594233	PPA2	4	T	T	C	49
ADCY2	108	broad.mit.edu	36	5	7467689	7467689	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	7467689	7467689	ADCY2	5	G	G	T	36
PCDHB16	57717	broad.mit.edu	36	5	140544180	140544180	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	140544180	140544180	PCDHB16	5	A	A	G	4
ZFP57	346171	broad.mit.edu	36	6	29749153	29749153	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	29749153	29749153	ZFP57	6	C	C	G	32
LPA	4018	broad.mit.edu	36	6	160935006	160935006	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Silent	SNP	160935006	160935006	LPA	6	C	C	T	32
WIPI2	26100	broad.mit.edu	36	7	5224105	5224105	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Silent	SNP	5224105	5224105	WIPI2	7	C	C	T	19
ABCB8	11194	broad.mit.edu	36	7	150372194	150372194	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	150372194	150372194	ABCB8	7	C	C	A	23
MLL3	58508	broad.mit.edu	36	7	151510449	151510449	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	151510449	151510449	MLL3	7	A	A	C	5
IL11RA	3590	broad.mit.edu	36	9	34647128	34647128	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	34647128	34647128	IL11RA	9	G	G	A	38
VGLL1	51442	broad.mit.edu	36	X	135458788	135458788	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	135458788	135458788	VGLL1	23	G	G	A	47
MTMR1	8776	broad.mit.edu	36	X	149656477	149656477	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-31-1953-01	Broad	Missense_Mutation	SNP	149656477	149656477	MTMR1	23	T	T	A	50
TP53	7157	broad.mit.edu	36	17	7520087	7520121	+	Frame_Shift_Del	DEL	AACCGTAGCTGCCCTGGTAGGTTTTCTGGGAAGGG	-	AACCGTAGCTGCCCTGGTAGGTTTTCTGGGAAGGG	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	TCGA-31-1953-01	Broad	Frame_Shift_Del	DEL	7520087	7520121	TP53	17	AACCGTAGCTGCCCTGGTAGGTTTTCTGGGAAGGG	-	AACCGTAGCTGCCCTGGTAGGTTTTCTGGGAAGGG	1
ALMS1	7840	broad.mit.edu	36	2	73466540	73466545	+	In_Frame_Del	DEL	GGAGGA	-	GGAGGA	novel	Unknown	TCGA-31-1953-01	TCGA-31-1953-01							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	TCGA-31-1953-01	Broad	In_Frame_Del	DEL	73466540	73466545	ALMS1	2	GGAGGA	-	GGAGGA	47
