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
ZC3H12A	80149	broad.mit.edu	36	1	37718539	37718539	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	37718539	37718539	ZC3H12A	1	G	G	A	41
SNX7	51375	broad.mit.edu	36	1	98929307	98929307	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	98929307	98929307	SNX7	1	C	C	G	25
CELSR2	1952	broad.mit.edu	36	1	109595278	109595278	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	109595278	109595278	CELSR2	1	C	C	T	23
CD1D	912	broad.mit.edu	36	1	156419305	156419305	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	156419305	156419305	CD1D	1	C	C	T	24
CACNA1E	777	broad.mit.edu	36	1	179992811	179992811	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	179992811	179992811	CACNA1E	1	G	G	C	48
PFKFB3	5209	broad.mit.edu	36	10	6301558	6301558	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	6301558	6301558	PFKFB3	10	G	G	A	39
ATAD1	84896	broad.mit.edu	36	10	89504434	89504434	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	89504434	89504434	ATAD1	10	C	C	A	17
TRAF6	7189	broad.mit.edu	36	11	36468137	36468137	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	36468137	36468137	TRAF6	11	G	G	A	40
CNTN5	53942	broad.mit.edu	36	11	99220797	99220797	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	99220797	99220797	CNTN5	11	G	G	A	36
C11orf87	399947	broad.mit.edu	36	11	108800039	108800039	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	108800039	108800039	C11orf87	11	C	C	G	23
STYK1	55359	broad.mit.edu	36	12	10666533	10666533	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	10666533	10666533	STYK1	12	C	C	A	22
CASC1	55259	broad.mit.edu	36	12	25188760	25188760	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	25188760	25188760	CASC1	12	G	G	A	46
TMEM132D	121256	broad.mit.edu	36	12	128132269	128132269	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	128132269	128132269	TMEM132D	12	C	C	T	29
RPGRIP1	57096	broad.mit.edu	36	14	20855751	20855751	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	20855751	20855751	RPGRIP1	14	C	C	A	27
DACT1	51339	broad.mit.edu	36	14	58182236	58182236	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	58182236	58182236	DACT1	14	C	C	T	23
AHNAK2	113146	broad.mit.edu	36	14	104483452	104483452	+	Silent	SNP	C	C	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	104483452	104483452	AHNAK2	14	C	C	A	22
THBS1	7057	broad.mit.edu	36	15	37668063	37668063	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	37668063	37668063	THBS1	15	G	G	C	48
RPLP1	6176	broad.mit.edu	36	15	67532363	67532363	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	67532363	67532363	RPLP1	15	G	G	A	38
MYH8	4626	broad.mit.edu	36	17	10243635	10243635	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	10243635	10243635	MYH8	17	C	C	T	23
TRIM16	10626	broad.mit.edu	36	17	15475745	15475745	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	15475745	15475745	TRIM16	17	C	C	A	29
NSF	4905	broad.mit.edu	36	17	42184080	42184080	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	42184080	42184080	NSF	17	G	G	A	34
THOC1	9984	broad.mit.edu	36	18	213447	213447	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	213447	213447	THOC1	18	C	C	G	32
DSG4	147409	broad.mit.edu	36	18	27222370	27222370	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	27222370	27222370	DSG4	18	A	A	T	12
TSHZ3	57616	broad.mit.edu	36	19	36460292	36460292	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	36460292	36460292	TSHZ3	19	C	C	T	25
ZNF274	10782	broad.mit.edu	36	19	63416303	63416303	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	63416303	63416303	ZNF274	19	G	G	A	33
GMCL1	64395	broad.mit.edu	36	2	69930290	69930290	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	69930290	69930290	GMCL1	2	G	G	T	41
C2orf65	130951	broad.mit.edu	36	2	74640855	74640855	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	74640855	74640855	C2orf65	2	G	G	T	44
SEMA4F	10505	broad.mit.edu	36	2	74743412	74743412	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	74743412	74743412	SEMA4F	2	G	G	A	43
STAM2	10254	broad.mit.edu	36	2	152696898	152696898	+	Missense_Mutation	SNP	T	T	G	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	152696898	152696898	STAM2	2	T	T	G	50
ZNF804A	91752	broad.mit.edu	36	2	185508769	185508769	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	185508769	185508769	ZNF804A	2	G	G	A	42
PNKD	25953	broad.mit.edu	36	2	218916522	218916522	+	Silent	SNP	G	G	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	218916522	218916522	PNKD	2	G	G	T	47
PASK	23178	broad.mit.edu	36	2	241726813	241726813	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	241726813	241726813	PASK	2	G	G	A	38
C20orf26	26074	broad.mit.edu	36	20	20180314	20180314	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10			C	T	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Silent	SNP	20180314	20180314	C20orf26	20	C	C	T	23
GTSE1	51512	broad.mit.edu	36	22	45088481	45088481	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	45088481	45088481	GTSE1	22	C	C	T	18
CSRNP1	64651	broad.mit.edu	36	3	39160039	39160039	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	39160039	39160039	CSRNP1	3	G	G	A	48
RAD54L2	23132	broad.mit.edu	36	3	51638464	51638464	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	51638464	51638464	RAD54L2	3	G	G	A	38
PHLDB2	90102	broad.mit.edu	36	3	113086296	113086296	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	113086296	113086296	PHLDB2	3	G	G	A	41
PHLDB2	90102	broad.mit.edu	36	3	113176058	113176058	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	113176058	113176058	PHLDB2	3	T	T	C	61
ACAD11	84129	broad.mit.edu	36	3	133861225	133861225	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	133861225	133861225	ACAD11	3	C	C	T	31
SLITRK3	22865	broad.mit.edu	36	3	166389115	166389115	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10			G	T	G	G	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Missense_Mutation	SNP	166389115	166389115	SLITRK3	3	G	G	T	42
PEX5L	51555	broad.mit.edu	36	3	181010040	181010040	+	Missense_Mutation	SNP	T	T	G	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	181010040	181010040	PEX5L	3	T	T	G	56
UBXN7	26043	broad.mit.edu	36	3	197603086	197603086	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	197603086	197603086	UBXN7	3	C	C	G	29
ADAMTS19	171019	broad.mit.edu	36	5	128825299	128825299	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	128825299	128825299	ADAMTS19	5	C	C	A	28
HAVCR1	26762	broad.mit.edu	36	5	156415058	156415058	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	156415058	156415058	HAVCR1	5	G	G	C	36
ASCC3	10973	broad.mit.edu	36	6	101064638	101064638	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	101064638	101064638	ASCC3	6	T	T	C	50
UST	10090	broad.mit.edu	36	6	149327285	149327285	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	149327285	149327285	UST	6	G	G	A	40
PDE10A	10846	broad.mit.edu	36	6	165726274	165726274	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	165726274	165726274	PDE10A	6	A	A	C	3
PSMB1	5689	broad.mit.edu	36	6	170688290	170688290	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	170688290	170688290	PSMB1	6	C	C	G	30
DNAH11	8701	broad.mit.edu	36	7	21693297	21693297	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	21693297	21693297	DNAH11	7	G	G	T	47
FZD1	8321	broad.mit.edu	36	7	90732932	90732932	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	90732932	90732932	FZD1	7	C	C	T	27
FOXP2	93986	broad.mit.edu	36	7	114089391	114089391	+	Nonsense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Nonsense_Mutation	SNP	114089391	114089391	FOXP2	7	T	T	A	60
OR6B1	135946	broad.mit.edu	36	7	143332853	143332853	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	143332853	143332853	OR6B1	7	C	C	T	21
CNTNAP2	26047	broad.mit.edu	36	7	147545369	147545369	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	147545369	147545369	CNTNAP2	7	G	G	A	34
PRKDC	5591	broad.mit.edu	36	8	49004231	49004231	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	49004231	49004231	PRKDC	8	C	C	T	25
ZNF706	51123	broad.mit.edu	36	8	102283138	102283138	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	102283138	102283138	ZNF706	8	C	C	G	19
RIMS2	9699	broad.mit.edu	36	8	105042518	105042518	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	105042518	105042518	RIMS2	8	T	T	C	51
PKHD1L1	93035	broad.mit.edu	36	8	110526851	110526851	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	110526851	110526851	PKHD1L1	8	C	C	T	25
KIAA0196	9897	broad.mit.edu	36	8	126160301	126160301	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	126160301	126160301	KIAA0196	8	C	C	A	31
KIAA2026	158358	broad.mit.edu	36	9	5913129	5913129	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	5913129	5913129	KIAA2026	9	C	C	T	28
ZNF462	58499	broad.mit.edu	36	9	108727368	108727368	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	108727368	108727368	ZNF462	9	C	C	T	19
MAGEB16	139604	broad.mit.edu	36	X	35730701	35730701	+	Missense_Mutation	SNP	T	T	G	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	35730701	35730701	MAGEB16	23	T	T	G	55
IL1RAPL2	26280	broad.mit.edu	36	X	104327040	104327040	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10			C	A	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Missense_Mutation	SNP	104327040	104327040	IL1RAPL2	23	C	C	A	29
ZBTB33	10009	broad.mit.edu	36	X	119272073	119272073	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	119272073	119272073	ZBTB33	23	A	A	G	11
TP53	7157	broad.mit.edu	36	17	7519266	7519267	+	Frame_Shift_Ins	INS	-	-	GG	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	Broad	Frame_Shift_Ins	INS	7519266	7519267	TP53	17	-	-	GG	11
LPAR3	23566	broad.mit.edu	36	1	85103869	85103869	+	Frame_Shift_Del	DEL	C	-	C	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	Broad	Frame_Shift_Del	DEL	85103869	85103869	LPAR3	1	C	-	C	25
CT47B1	643311	broad.mit.edu	36	X	119892825	119892851	+	In_Frame_Del	DEL	TCCTCTGTGGCCTCCTCTGTGAGCTTC	-	TCCTCTGTGGCCTCCTCTGTGAGCTTC	novel	Unknown	TCGA-13-1410-01	TCGA-13-1410-10							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	Broad	In_Frame_Del	DEL	119892825	119892851	CT47B1	23	TCCTCTGTGGCCTCCTCTGTGAGCTTC	-	TCCTCTGTGGCCTCCTCTGTGAGCTTC	62
