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
CROCC	9696	broad.mit.edu	36	1	17123477	17123477	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	17123477	17123477	CROCC	1	G	G	C	34
TNNI3K	51086	broad.mit.edu	36	1	74592275	74592275	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10			G	A	G	G	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Missense_Mutation	SNP	74592275	74592275	TNNI3K	1	G	G	A	39
CR1	1378	broad.mit.edu	36	1	205856626	205856626	+	Missense_Mutation	SNP	A	A	G	rs55770942	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	205856626	205856626	CR1	1	A	A	G	4
TSPAN32	10077	broad.mit.edu	36	11	2295678	2295679	+	Missense_Mutation	DNP	GC	GC	TG	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	DNP	2295678	2295679	TSPAN32	11	GC	GC	TG	42
EIF4G2	1982	broad.mit.edu	36	11	10777791	10777791	+	Missense_Mutation	SNP	T	T	G	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	10777791	10777791	EIF4G2	11	T	T	G	60
CD82	3732	broad.mit.edu	36	11	44583231	44583231	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	44583231	44583231	CD82	11	G	G	A	40
OR5D13	390142	broad.mit.edu	36	11	55297497	55297497	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	55297497	55297497	OR5D13	11	C	C	A	25
OR5M11	219487	broad.mit.edu	36	11	56067065	56067065	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	56067065	56067065	OR5M11	11	G	G	A	37
SRSF8	10929	broad.mit.edu	36	11	94440692	94440692	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	94440692	94440692	SRSF8	11	C	C	T	31
CEP164	22897	broad.mit.edu	36	11	116788066	116788066	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	116788066	116788066	CEP164	11	A	A	C	6
EI24	9538	broad.mit.edu	36	11	124952674	124952674	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	124952674	124952674	EI24	11	T	T	C	50
FAM90A1	55138	broad.mit.edu	36	12	8268675	8268675	+	Silent	SNP	G	G	C	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	8268675	8268675	FAM90A1	12	G	G	C	47
TPH2	121278	broad.mit.edu	36	12	70674491	70674491	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10			C	G	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Missense_Mutation	SNP	70674491	70674491	TPH2	12	C	C	G	17
SLC17A8	246213	broad.mit.edu	36	12	99320298	99320298	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	99320298	99320298	SLC17A8	12	G	G	T	36
RSRC2	65117	broad.mit.edu	36	12	121572739	121572739	+	Nonsense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Nonsense_Mutation	SNP	121572739	121572739	RSRC2	12	T	T	A	62
FREM2	341640	broad.mit.edu	36	13	38160686	38160686	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	38160686	38160686	FREM2	13	C	C	T	32
C14orf73	91828	broad.mit.edu	36	14	102644578	102644578	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	102644578	102644578	C14orf73	14	G	G	C	33
KLHL25	64410	broad.mit.edu	36	15	84113931	84113931	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	84113931	84113931	KLHL25	15	G	G	A	34
ATP2A1	487	broad.mit.edu	36	16	28817150	28817150	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	28817150	28817150	ATP2A1	16	G	G	A	39
FHOD1	29109	broad.mit.edu	36	16	65838667	65838667	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	65838667	65838667	FHOD1	16	G	G	C	42
PARD6A	50855	broad.mit.edu	36	16	66253794	66253794	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10			C	T	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Missense_Mutation	SNP	66253794	66253794	PARD6A	16	C	C	T	27
RILP	83547	broad.mit.edu	36	17	1496501	1496501	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	1496501	1496501	RILP	17	G	G	A	39
C1QBP	708	broad.mit.edu	36	17	5282175	5282175	+	Silent	SNP	G	G	C	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	5282175	5282175	C1QBP	17	G	G	C	39
RNF112	7732	broad.mit.edu	36	17	19258701	19258701	+	Silent	SNP	G	G	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	19258701	19258701	RNF112	17	G	G	T	46
GAS2L2	246176	broad.mit.edu	36	17	31100273	31100273	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	31100273	31100273	GAS2L2	17	A	A	T	6
PLEKHH3	79990	broad.mit.edu	36	17	38079926	38079926	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	38079926	38079926	PLEKHH3	17	G	G	C	42
PYY	5697	broad.mit.edu	36	17	39386006	39386007	+	Missense_Mutation	DNP	GA	GA	TG	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	DNP	39386006	39386007	PYY	17	GA	GA	TG	37
MYCBPAP	84073	broad.mit.edu	36	17	45951042	45951042	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	45951042	45951042	MYCBPAP	17	C	C	T	27
MC2R	4158	broad.mit.edu	36	18	13875322	13875322	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	13875322	13875322	MC2R	18	A	A	T	3
CEACAM5	1048	broad.mit.edu	36	19	46915842	46915842	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	46915842	46915842	CEACAM5	19	T	T	A	55
GRLF1	2909	broad.mit.edu	36	19	52117205	52117205	+	Nonsense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Nonsense_Mutation	SNP	52117205	52117205	GRLF1	19	C	C	T	27
MYADM	91663	broad.mit.edu	36	19	59069085	59069085	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	59069085	59069085	MYADM	19	G	G	A	37
PTPRH	5794	broad.mit.edu	36	19	60403629	60403629	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10			C	A	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Missense_Mutation	SNP	60403629	60403629	PTPRH	19	C	C	A	27
GPR113	165082	broad.mit.edu	36	2	26387670	26387670	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	26387670	26387670	GPR113	2	G	G	A	39
TTN	7273	broad.mit.edu	36	2	179105808	179105808	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	179105808	179105808	TTN	2	G	G	A	38
TTN	7273	broad.mit.edu	36	2	179164298	179164298	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10			A	T	A	A	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Missense_Mutation	SNP	179164298	179164298	TTN	2	A	A	T	12
RQCD1	9125	broad.mit.edu	36	2	219155997	219155997	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	219155997	219155997	RQCD1	2	C	C	A	17
HUNK	30811	broad.mit.edu	36	21	32290007	32290007	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10			C	T	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Missense_Mutation	SNP	32290007	32290007	HUNK	21	C	C	T	30
GSTT1	2952	broad.mit.edu	36	22	22706834	22706834	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	22706834	22706834	GSTT1	22	C	C	T	23
C3orf20	84077	broad.mit.edu	36	3	14778011	14778011	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	14778011	14778011	C3orf20	3	G	G	T	47
CADPS	8618	broad.mit.edu	36	3	62714458	62714459	+	Missense_Mutation	DNP	TG	TG	CA	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	DNP	62714458	62714459	CADPS	3	TG	TG	CA	51
GBE1	2632	broad.mit.edu	36	3	81668842	81668842	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	81668842	81668842	GBE1	3	G	G	A	40
HTT	3064	broad.mit.edu	36	4	3178152	3178152	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	3178152	3178152	HTT	4	C	C	T	27
FAT4	79633	broad.mit.edu	36	4	126460427	126460427	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10			T	C	T	T	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Silent	SNP	126460427	126460427	FAT4	4	T	T	C	52
FAT4	79633	broad.mit.edu	36	4	126591860	126591860	+	Silent	SNP	C	C	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10			C	A	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Silent	SNP	126591860	126591860	FAT4	4	C	C	A	29
ARL15	54622	broad.mit.edu	36	5	53642036	53642036	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	53642036	53642036	ARL15	5	G	G	C	33
GRIA1	2890	broad.mit.edu	36	5	153058649	153058649	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	153058649	153058649	GRIA1	5	C	C	T	19
ITK	3702	broad.mit.edu	36	5	156597709	156597709	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10			G	C	G	G	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Missense_Mutation	SNP	156597709	156597709	ITK	5	G	G	C	34
TXNDC3	51314	broad.mit.edu	36	7	37883045	37883045	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	37883045	37883045	TXNDC3	7	C	C	T	28
COL22A1	169044	broad.mit.edu	36	8	139757998	139757998	+	Silent	SNP	C	C	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	139757998	139757998	COL22A1	8	C	C	A	22
KANK1	23189	broad.mit.edu	36	9	702652	702652	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	702652	702652	KANK1	9	G	G	A	44
COL27A1	85301	broad.mit.edu	36	9	116103804	116103804	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	116103804	116103804	COL27A1	9	C	C	T	27
ZNF41	7592	broad.mit.edu	36	X	47192031	47192031	+	Silent	SNP	A	A	G	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	47192031	47192031	ZNF41	23	A	A	G	6
UBQLN2	29978	broad.mit.edu	36	X	56607115	56607115	+	Silent	SNP	T	T	G	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	56607115	56607115	UBQLN2	23	T	T	G	55
ARMCX2	9823	broad.mit.edu	36	X	100798243	100798243	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10			C	T	C	C	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Missense_Mutation	SNP	100798243	100798243	ARMCX2	23	C	C	T	26
UPF3B	65109	broad.mit.edu	36	X	118855948	118855948	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	118855948	118855948	UPF3B	23	G	G	A	38
ELF4	2000	broad.mit.edu	36	X	129031065	129031065	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10			G	A	G	G	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Missense_Mutation	SNP	129031065	129031065	ELF4	23	G	G	A	42
FMR1	2332	broad.mit.edu	36	X	146832392	146832392	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	146832392	146832392	FMR1	23	G	G	A	37
L1CAM	3897	broad.mit.edu	36	X	152784006	152784006	+	Silent	SNP	G	G	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10			G	T	G	G	Unknown	Valid	Somatic	x	x	Sequenom_PCR_WGA			x	Broad	Silent	SNP	152784006	152784006	L1CAM	23	G	G	T	35
GAB3	139716	broad.mit.edu	36	X	153597791	153597791	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	153597791	153597791	GAB3	23	C	C	T	27
KRT6C	286887	broad.mit.edu	36	12	51153609	51153609	+	Frame_Shift_Del	DEL	A	-	A	rs61740354	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	Broad	Frame_Shift_Del	DEL	51153609	51153609	KRT6C	12	A	-	A	10
MAP3K9	4293	broad.mit.edu	36	14	70345527	70345529	+	In_Frame_Del	DEL	CCT	-	CCT	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	Broad	In_Frame_Del	DEL	70345527	70345529	MAP3K9	14	CCT	-	CCT	26
PLD2	5338	broad.mit.edu	36	17	4667228	4667229	+	Frame_Shift_Del	DEL	TG	-	TG	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10			-	TG	TG	TG	Unknown	Valid	Somatic	Phase_I	Capture				Illumina GAIIx	Broad	Frame_Shift_Del	DEL	4667228	4667229	PLD2	17	TG	-	TG	51
TP53	7157	broad.mit.edu	36	17	7520187	7520187	+	Frame_Shift_Del	DEL	A	-	-	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10			-	-	A	A	Unknown	Valid	Somatic	Phase_I	Capture				Illumina GAIIx	Broad	Frame_Shift_Del	DEL	7520187	7520187	TP53	17	A	-	-	7
C17orf70	80233	broad.mit.edu	36	17	77123352	77123352	+	Frame_Shift_Del	DEL	A	-	A	novel	Unknown	TCGA-13-1505-01	TCGA-13-1505-10							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	Broad	Frame_Shift_Del	DEL	77123352	77123352	C17orf70	17	A	-	A	7
