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
CAMTA1	23261	broad.mit.edu	36	1	7715179	7715179	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-0911-01	Broad	Missense_Mutation	SNP	7715179	7715179	CAMTA1	1	A	A	C	1
FMN2	56776	broad.mit.edu	36	1	238322206	238322206	+	Silent	SNP	C	C	G	rs71168893	Unknown	TCGA-13-0911-01	TCGA-13-0911-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-0911-01	Broad	Silent	SNP	238322206	238322206	FMN2	1	C	C	G	27
ARL5B	221079	broad.mit.edu	36	10	18995521	18995521	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01			A	G	A	A	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-0911-01	Broad	Missense_Mutation	SNP	18995521	18995521	ARL5B	10	A	A	G	4
MS4A3	932	broad.mit.edu	36	11	59591034	59591034	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-0911-01	Broad	Missense_Mutation	SNP	59591034	59591034	MS4A3	11	C	C	A	28
RPS6KB2	6199	broad.mit.edu	36	11	66957080	66957080	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01			T	C	T	T	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-0911-01	Broad	Missense_Mutation	SNP	66957080	66957080	RPS6KB2	11	T	T	C	52
FSCB	84075	broad.mit.edu	36	14	44044601	44044601	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01			T	A	T	T	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-0911-01	Broad	Missense_Mutation	SNP	44044601	44044601	FSCB	14	T	T	A	54
LCTL	197021	broad.mit.edu	36	15	64637179	64637179	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-0911-01	Broad	Missense_Mutation	SNP	64637179	64637179	LCTL	15	C	C	G	17
PITPNM3	83394	broad.mit.edu	36	17	6314378	6314378	+	Missense_Mutation	SNP	T	T	G	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-0911-01	Broad	Missense_Mutation	SNP	6314378	6314378	PITPNM3	17	T	T	G	59
NETO1	81832	broad.mit.edu	36	18	68677194	68677194	+	Nonsense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01			C	A	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-0911-01	Broad	Nonsense_Mutation	SNP	68677194	68677194	NETO1	18	C	C	A	21
OR1I1	126370	broad.mit.edu	36	19	15058970	15058970	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-0911-01	Broad	Missense_Mutation	SNP	15058970	15058970	OR1I1	19	C	C	G	24
PEG3	5178	broad.mit.edu	36	19	62020629	62020629	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01			T	C	T	T	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-0911-01	Broad	Silent	SNP	62020629	62020629	PEG3	19	T	T	C	63
LRP2	4036	broad.mit.edu	36	2	169771293	169771293	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01			A	G	A	A	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-0911-01	Broad	Missense_Mutation	SNP	169771293	169771293	LRP2	2	A	A	G	10
CALCRL	10203	broad.mit.edu	36	2	187925271	187925271	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-0911-01	Broad	Missense_Mutation	SNP	187925271	187925271	CALCRL	2	C	C	T	19
AGAP1	116987	broad.mit.edu	36	2	236372871	236372871	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-0911-01	Broad	Missense_Mutation	SNP	236372871	236372871	AGAP1	2	G	G	A	38
GPR35	2859	broad.mit.edu	36	2	241218213	241218213	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-0911-01	Broad	Missense_Mutation	SNP	241218213	241218213	GPR35	2	C	C	G	32
TOP3B	8940	broad.mit.edu	36	22	20654768	20654768	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-0911-01	Broad	Missense_Mutation	SNP	20654768	20654768	TOP3B	22	G	G	T	34
APOL1	8542	broad.mit.edu	36	22	34991401	34991401	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-0911-01	Broad	Silent	SNP	34991401	34991401	APOL1	22	C	C	T	31
CAMKV	79012	broad.mit.edu	36	3	49873963	49873963	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01			C	T	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-0911-01	Broad	Silent	SNP	49873963	49873963	CAMKV	3	C	C	T	23
CD47	961	broad.mit.edu	36	3	109281704	109281704	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01			G	C	G	G	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-0911-01	Broad	Missense_Mutation	SNP	109281704	109281704	CD47	3	G	G	C	41
RAP1GDS1	5910	broad.mit.edu	36	4	99544754	99544754	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01			T	C	T	T	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-0911-01	Broad	Silent	SNP	99544754	99544754	RAP1GDS1	4	T	T	C	62
FAM134B	54463	broad.mit.edu	36	5	16532054	16532054	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-0911-01	Broad	Missense_Mutation	SNP	16532054	16532054	FAM134B	5	A	A	G	4
PCDHGA2	56113	broad.mit.edu	36	5	140698942	140698942	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-0911-01	Broad	Missense_Mutation	SNP	140698942	140698942	PCDHGA2	5	C	C	T	28
SOSTDC1	25928	broad.mit.edu	36	7	16471749	16471749	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-0911-01	Broad	Missense_Mutation	SNP	16471749	16471749	SOSTDC1	7	A	A	G	1
ATP6AP1	537	broad.mit.edu	36	X	153315772	153315772	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01			G	T	G	G	Unknown	Valid	Somatic	x	x	454_PCR_WGA			x	TCGA-13-0911-01	Broad	Missense_Mutation	SNP	153315772	153315772	ATP6AP1	23	G	G	T	42
NBPF16	728936	broad.mit.edu	36	1	147019954	147019960	+	Frame_Shift_Del	DEL	TTATCTT	-	TTATCTT	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	TCGA-13-0911-01	Broad	Frame_Shift_Del	DEL	147019954	147019960	NBPF16	1	TTATCTT	-	TTATCTT	52
RTL1	388015	broad.mit.edu	36	14	100420423	100420424	+	In_Frame_Ins	INS	-	TCT	-	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	TCGA-13-0911-01	Broad	In_Frame_Ins	INS	100420423	100420424	RTL1	14	-	TCT	-	28
TP53	7157	broad.mit.edu	36	17	7520281	7520285	+	Frame_Shift_Del	DEL	ATCAA	-	ATCAA	novel	Unknown	TCGA-13-0911-01	TCGA-13-0911-01			-	ATCAA	ATCAA	ATCAA	Unknown	Valid	Somatic	Phase_I	Capture				Illumina GAIIx	TCGA-13-0911-01	Broad	Frame_Shift_Del	DEL	7520281	7520285	TP53	17	ATCAA	-	ATCAA	8
