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
DNTTIP2	30836	broad.mit.edu	36	1	94115352	94115352	+	Nonsense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Nonsense_Mutation	SNP	94115352	94115352	DNTTIP2	1	G	G	A	48
PEAR1	375033	broad.mit.edu	36	1	155143274	155143274	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	155143274	155143274	PEAR1	1	C	C	T	22
FCRL1	115350	broad.mit.edu	36	1	156038814	156038814	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	156038814	156038814	FCRL1	1	C	C	A	22
ABL2		broad.mit.edu	36	1	177362146	177362146	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01			C	T	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	177362146	177362146	ABL2	1	C	C	T	25
TOR1AIP1	26092	broad.mit.edu	36	1	178153662	178153662	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	178153662	178153662	TOR1AIP1	1	C	C	A	21
PGBD5	79605	broad.mit.edu	36	1	228564695	228564695	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01			T	C	T	T	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	228564695	228564695	PGBD5	1	T	T	C	52
VIM	7431	broad.mit.edu	36	10	17311905	17311905	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	17311905	17311905	VIM	10	C	C	A	25
CSGALNACT2	55454	broad.mit.edu	36	10	42982544	42982544	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01			C	A	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	42982544	42982544	CSGALNACT2	10	C	C	A	25
PLA2G12B	84647	broad.mit.edu	36	10	74372423	74372423	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	74372423	74372423	PLA2G12B	10	G	G	A	47
C10orf12	26148	broad.mit.edu	36	10	98733844	98733844	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	98733844	98733844	C10orf12	10	G	G	A	48
COL17A1	1308	broad.mit.edu	36	10	105789739	105789739	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01			C	A	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	105789739	105789739	COL17A1	10	C	C	A	24
TMEM132A	54972	broad.mit.edu	36	11	60457758	60457758	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	60457758	60457758	TMEM132A	11	G	G	T	44
CD248	57124	broad.mit.edu	36	11	65839126	65839126	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	65839126	65839126	CD248	11	C	C	A	26
CACNA2D4	93589	broad.mit.edu	36	12	1781036	1781036	+	Silent	SNP	G	G	C	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Silent	SNP	1781036	1781036	CACNA2D4	12	G	G	C	41
ANO6	196527	broad.mit.edu	36	12	44083507	44083507	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	44083507	44083507	ANO6	12	C	C	T	32
NUP37	79023	broad.mit.edu	36	12	101036303	101036303	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01			T	C	T	T	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	101036303	101036303	NUP37	12	T	T	C	61
PAH	5053	broad.mit.edu	36	12	101762268	101762268	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Silent	SNP	101762268	101762268	PAH	12	G	G	A	41
ACAD10	80724	broad.mit.edu	36	12	110668393	110668393	+	Silent	SNP	A	A	G	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Silent	SNP	110668393	110668393	ACAD10	12	A	A	G	1
RASAL1	8437	broad.mit.edu	36	12	112036991	112036991	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	112036991	112036991	RASAL1	12	G	G	A	44
FAM123A	219287	broad.mit.edu	36	13	24642713	24642713	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	24642713	24642713	FAM123A	13	C	C	A	25
EVL	51466	broad.mit.edu	36	14	99664688	99664688	+	Silent	SNP	A	A	C	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Silent	SNP	99664688	99664688	EVL	14	A	A	C	6
TP53	7157	broad.mit.edu	36	17	7520099	7520099	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	7520099	7520099	TP53	17	C	C	A	22
RNF43	54894	broad.mit.edu	36	17	53795899	53795899	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	53795899	53795899	RNF43	17	G	G	C	34
CYP2A7	1549	broad.mit.edu	36	19	46076681	46076681	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01			G	T	G	G	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	46076681	46076681	CYP2A7	19	G	G	T	34
PTOV1	53635	broad.mit.edu	36	19	55049528	55049528	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Silent	SNP	55049528	55049528	PTOV1	19	G	G	A	42
EPS8L1	54869	broad.mit.edu	36	19	60289342	60289342	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Silent	SNP	60289342	60289342	EPS8L1	19	G	G	A	46
WDR35	57539	broad.mit.edu	36	2	19977517	19977517	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	19977517	19977517	WDR35	2	G	G	C	33
MPHOSPH10	10199	broad.mit.edu	36	2	71211344	71211344	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	71211344	71211344	MPHOSPH10	2	G	G	C	48
TRAK2	66008	broad.mit.edu	36	2	201953923	201953923	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	201953923	201953923	TRAK2	2	G	G	A	47
BMPR2	659	broad.mit.edu	36	2	203129284	203129284	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01			T	C	T	T	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	203129284	203129284	BMPR2	2	T	T	C	55
COL6A3	1293	broad.mit.edu	36	2	237940387	237940387	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	237940387	237940387	COL6A3	2	C	C	A	18
BCL2L13	23786	broad.mit.edu	36	22	16589790	16589790	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01			C	T	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-1494-01	Broad	Silent	SNP	16589790	16589790	BCL2L13	22	C	C	T	23
SULT4A1	25830	broad.mit.edu	36	22	42589571	42589572	+	Missense_Mutation	DNP	GG	GG	CT	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	DNP	42589571	42589572	SULT4A1	22	GG	GG	CT	43
TTLL8	164714	broad.mit.edu	36	22	48825840	48825840	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	48825840	48825840	TTLL8	22	G	G	T	42
ATP2B2	491	broad.mit.edu	36	3	10392222	10392222	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Silent	SNP	10392222	10392222	ATP2B2	3	G	G	A	40
GOLGB1	2804	broad.mit.edu	36	3	122899551	122899551	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	122899551	122899551	GOLGB1	3	G	G	C	35
IGSF10	285313	broad.mit.edu	36	3	152644252	152644252	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	152644252	152644252	IGSF10	3	C	C	T	27
MSX1	4487	broad.mit.edu	36	4	4915395	4915395	+	Missense_Mutation	SNP	T	T	G	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	4915395	4915395	MSX1	4	T	T	G	62
KLKB1	3818	broad.mit.edu	36	4	187390383	187390383	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	187390383	187390383	KLKB1	4	G	G	A	35
SLC6A3	6531	broad.mit.edu	36	5	1485744	1485744	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	1485744	1485744	SLC6A3	5	G	G	A	38
IL13	3596	broad.mit.edu	36	5	132021782	132021782	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	132021782	132021782	IL13	5	A	A	G	8
ITK	3702	broad.mit.edu	36	5	156605577	156605577	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01			G	A	G	G	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-1494-01	Broad	Silent	SNP	156605577	156605577	ITK	5	G	G	A	48
CDHR2	54825	broad.mit.edu	36	5	175945614	175945614	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	175945614	175945614	CDHR2	5	C	C	T	26
EXOC2	55770	broad.mit.edu	36	6	498866	498866	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Silent	SNP	498866	498866	EXOC2	6	G	G	A	45
WRNIP1	56897	broad.mit.edu	36	6	2730292	2730292	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	2730292	2730292	WRNIP1	6	A	A	T	11
MICAL1	64780	broad.mit.edu	36	6	109875077	109875077	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Silent	SNP	109875077	109875077	MICAL1	6	G	G	A	35
CHMP7	91782	broad.mit.edu	36	8	23174003	23174003	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Silent	SNP	23174003	23174003	CHMP7	8	C	C	T	30
LRP12	29967	broad.mit.edu	36	8	105590452	105590452	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	105590452	105590452	LRP12	8	G	G	C	40
EXT1	2131	broad.mit.edu	36	8	118899870	118899870	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01			A	C	A	A	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	118899870	118899870	EXT1	8	A	A	C	5
IKBKAP	8518	broad.mit.edu	36	9	110691487	110691487	+	Silent	SNP	C	C	G	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01			C	G	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-1494-01	Broad	Silent	SNP	110691487	110691487	IKBKAP	9	C	C	G	21
CCDC120	90060	broad.mit.edu	36	X	48812186	48812186	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	48812186	48812186	CCDC120	23	G	G	A	34
STARD8	9754	broad.mit.edu	36	X	67854095	67854095	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01			G	A	G	G	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	67854095	67854095	STARD8	23	G	G	A	40
LPAR4	2846	broad.mit.edu	36	X	77897514	77897514	+	Silent	SNP	C	C	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Silent	SNP	77897514	77897514	LPAR4	23	C	C	A	30
DCAF12L1	139170	broad.mit.edu	36	X	125512955	125512955	+	Nonsense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01			C	A	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	TCGA-13-1494-01	Broad	Nonsense_Mutation	SNP	125512955	125512955	DCAF12L1	23	C	C	A	29
BCORL1	63035	broad.mit.edu	36	X	128990344	128990344	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	x	x	---			x	TCGA-13-1494-01	Broad	Missense_Mutation	SNP	128990344	128990344	BCORL1	23	C	C	A	24
NBPF10	100132406	broad.mit.edu	36	1	144038903	144038907	+	Frame_Shift_Del	DEL	TGAAT	-	TGAAT	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	TCGA-13-1494-01	Broad	Frame_Shift_Del	DEL	144038903	144038907	NBPF10	1	TGAAT	-	TGAAT	55
SUSD4	55061	broad.mit.edu	36	1	221603325	221603326	+	In_Frame_Ins	INS	-	TGC	-	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	TCGA-13-1494-01	Broad	In_Frame_Ins	INS	221603325	221603326	SUSD4	1	-	TGC	-	60
RCOR2	283248	broad.mit.edu	36	11	63438490	63438510	+	In_Frame_Del	DEL	CCAGCCGCCGGGCCTGTCTGT	-	CCAGCCGCCGGGCCTGTCTGT	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	TCGA-13-1494-01	Broad	In_Frame_Del	DEL	63438490	63438510	RCOR2	11	CCAGCCGCCGGGCCTGTCTGT	-	CCAGCCGCCGGGCCTGTCTGT	22
TGIF1	7050	broad.mit.edu	36	18	3442223	3442223	+	Frame_Shift_Del	DEL	T	-	T	rs11571510	byCluster	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	TCGA-13-1494-01	Broad	Frame_Shift_Del	DEL	3442223	3442223	TGIF1	18	T	-	T	54
FAM86B2	653333	broad.mit.edu	36	8	12335964	12335966	+	In_Frame_Del	DEL	CTG	-	CTG	novel	Unknown	TCGA-13-1494-01	TCGA-13-1494-01							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	TCGA-13-1494-01	Broad	In_Frame_Del	DEL	12335964	12335966	FAM86B2	8	CTG	-	CTG	32
