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
PEAR1	375033	broad.mit.edu	36	1	155141269	155141269	+	Splice_Site_SNP	SNP	G	G	A	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Splice_Site_SNP	SNP	155141269	155141269	PEAR1	1	G	G	A	40
CHML	1122	broad.mit.edu	36	1	239864885	239864885	+	Silent	SNP	C	C	A	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Silent	SNP	239864885	239864885	CHML	1	C	C	A	22
KIAA1462	57608	broad.mit.edu	36	10	30376650	30376650	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Missense_Mutation	SNP	30376650	30376650	KIAA1462	10	G	G	A	38
CTR9	9646	broad.mit.edu	36	11	10756974	10756974	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Missense_Mutation	SNP	10756974	10756974	CTR9	11	C	C	T	26
GRIA4	2893	broad.mit.edu	36	11	105274336	105274336	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01			G	A	G	G	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-24-1565-01	Broad	Silent	SNP	105274336	105274336	GRIA4	11	G	G	A	36
ROBO3	64221	broad.mit.edu	36	11	124251398	124251399	+	Missense_Mutation	DNP	GA	GA	AG	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Missense_Mutation	DNP	124251398	124251399	ROBO3	11	GA	GA	AG	41
ANPEP	290	broad.mit.edu	36	15	88150536	88150536	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01			G	A	G	G	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-24-1565-01	Broad	Missense_Mutation	SNP	88150536	88150536	ANPEP	15	G	G	A	43
OR3A2	4995	broad.mit.edu	36	17	3128274	3128274	+	Nonsense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Nonsense_Mutation	SNP	3128274	3128274	OR3A2	17	G	G	A	40
MYH4	4622	broad.mit.edu	36	17	10292436	10292436	+	Splice_Site_SNP	SNP	A	A	T	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Splice_Site_SNP	SNP	10292436	10292436	MYH4	17	A	A	T	14
KRT12	3859	broad.mit.edu	36	17	36276897	36276897	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Missense_Mutation	SNP	36276897	36276897	KRT12	17	G	G	C	37
TICAM1	148022	broad.mit.edu	36	19	4768712	4768712	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Silent	SNP	4768712	4768712	TICAM1	19	C	C	T	26
CYP4F3	4051	broad.mit.edu	36	19	15617582	15617582	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Silent	SNP	15617582	15617582	CYP4F3	19	C	C	T	31
CD207	50489	broad.mit.edu	36	2	70916385	70916385	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Silent	SNP	70916385	70916385	CD207	2	C	C	T	27
NRP2	8828	broad.mit.edu	36	2	206300889	206300889	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01			G	A	G	G	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-24-1565-01	Broad	Silent	SNP	206300889	206300889	NRP2	2	G	G	A	39
SIGLEC1	6614	broad.mit.edu	36	20	3622892	3622892	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01			C	T	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-24-1565-01	Broad	Missense_Mutation	SNP	3622892	3622892	SIGLEC1	20	C	C	T	26
PLCB1	23236	broad.mit.edu	36	20	8717132	8717132	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01			C	A	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-24-1565-01	Broad	Missense_Mutation	SNP	8717132	8717132	PLCB1	20	C	C	A	29
STK4	6789	broad.mit.edu	36	20	43137155	43137155	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01			G	A	G	G	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-24-1565-01	Broad	Missense_Mutation	SNP	43137155	43137155	STK4	20	G	G	A	39
PTPRG	5793	broad.mit.edu	36	3	62164618	62164618	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01			C	T	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-24-1565-01	Broad	Silent	SNP	62164618	62164618	PTPRG	3	C	C	T	27
CCRN4L	25819	broad.mit.edu	36	4	140183830	140183830	+	Silent	SNP	A	A	C	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Silent	SNP	140183830	140183830	CCRN4L	4	A	A	C	7
FBXW7	55294	broad.mit.edu	36	4	153463655	153463655	+	Nonsense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01			A	T	A	A	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-24-1565-01	Broad	Nonsense_Mutation	SNP	153463655	153463655	FBXW7	4	A	A	T	5
ODZ3	55714	broad.mit.edu	36	4	183951076	183951076	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Missense_Mutation	SNP	183951076	183951076	ODZ3	4	G	G	A	40
ISL1	3670	broad.mit.edu	36	5	50721518	50721518	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Missense_Mutation	SNP	50721518	50721518	ISL1	5	A	A	G	5
PITX1	5307	broad.mit.edu	36	5	134392496	134392496	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Missense_Mutation	SNP	134392496	134392496	PITX1	5	C	C	T	19
PCDHA9	9752	broad.mit.edu	36	5	140209219	140209219	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Missense_Mutation	SNP	140209219	140209219	PCDHA9	5	C	C	T	22
GRIA1	2890	broad.mit.edu	36	5	153170810	153170810	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Silent	SNP	153170810	153170810	GRIA1	5	C	C	T	19
LANCL2	55915	broad.mit.edu	36	7	55435292	55435292	+	Splice_Site_SNP	SNP	G	G	A	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01			G	A	G	G	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-24-1565-01	Broad	Splice_Site_SNP	SNP	55435292	55435292	LANCL2	7	G	G	A	44
BRAF	673	broad.mit.edu	36	7	140099662	140099662	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01			T	C	T	T	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-24-1565-01	Broad	Missense_Mutation	SNP	140099662	140099662	BRAF	7	T	T	C	50
SLC24A2	25769	broad.mit.edu	36	9	19506389	19506389	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Missense_Mutation	SNP	19506389	19506389	SLC24A2	9	G	G	A	43
COL15A1	1306	broad.mit.edu	36	9	100803013	100803013	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Missense_Mutation	SNP	100803013	100803013	COL15A1	9	G	G	A	39
EPB41L4B	54566	broad.mit.edu	36	9	111019214	111019214	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01			G	A	G	G	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-24-1565-01	Broad	Missense_Mutation	SNP	111019214	111019214	EPB41L4B	9	G	G	A	37
KCND1	3750	broad.mit.edu	36	X	48704872	48704872	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Missense_Mutation	SNP	48704872	48704872	KCND1	23	C	C	T	23
BEX1	55859	broad.mit.edu	36	X	102204510	102204510	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-24-1565-01	Broad	Missense_Mutation	SNP	102204510	102204510	BEX1	23	G	G	C	47
NBPF14	25832	broad.mit.edu	36	1	146482253	146482257	+	Frame_Shift_Del	DEL	CATGT	-	CATGT	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	TCGA-24-1565-01	Broad	Frame_Shift_Del	DEL	146482253	146482257	NBPF14	1	CATGT	-	CATGT	21
GRIA2	2891	broad.mit.edu	36	4	158477126	158477132	+	Frame_Shift_Del	DEL	CCTTTAG	-	CCTTTAG	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01			-	CCTTTAG	CCTTTAG	CCTTTAG	Unknown	Valid	Somatic	Phase_I	Capture				Illumina GAIIx	TCGA-24-1565-01	Broad	Frame_Shift_Del	DEL	158477126	158477132	GRIA2	4	CCTTTAG	-	CCTTTAG	30
PRKDC	5591	broad.mit.edu	36	8	48930434	48930434	+	Frame_Shift_Del	DEL	T	-	T	novel	Unknown	TCGA-24-1565-01	TCGA-24-1565-01			-	T	T	T	Unknown	Valid	Somatic	Phase_I	Capture				Illumina GAIIx	TCGA-24-1565-01	Broad	Frame_Shift_Del	DEL	48930434	48930434	PRKDC	8	T	-	T	60
