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
NBPF1	55672	broad.mit.edu	36	1	16780516	16780516	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	16780516	16780516	NBPF1	1	T	T	C	52
UBR4	23352	broad.mit.edu	36	1	19316315	19316316	+	Nonsense_Mutation	DNP	CC	CC	AT	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Nonsense_Mutation	DNP	19316315	19316316	UBR4	1	CC	CC	AT	30
E2F2	1870	broad.mit.edu	36	1	23720971	23720971	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	23720971	23720971	E2F2	1	C	C	T	19
GPATCH4	54865	broad.mit.edu	36	1	154835451	154835451	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	154835451	154835451	GPATCH4	1	G	G	A	43
CUBN	8029	broad.mit.edu	36	10	16951724	16951724	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	16951724	16951724	CUBN	10	C	C	T	28
YME1L1	10730	broad.mit.edu	36	10	27465289	27465289	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	27465289	27465289	YME1L1	10	C	C	G	29
ANKRD30A	91074	broad.mit.edu	36	10	37491772	37491772	+	Silent	SNP	A	A	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	37491772	37491772	ANKRD30A	10	A	A	T	8
ANK3	288	broad.mit.edu	36	10	61637875	61637875	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	61637875	61637875	ANK3	10	C	C	T	21
PLCE1	51196	broad.mit.edu	36	10	95996007	95996007	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	95996007	95996007	PLCE1	10	A	A	G	4
SLIT1	6585	broad.mit.edu	36	10	98806955	98806955	+	Splice_Site_SNP	SNP	A	A	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Splice_Site_SNP	SNP	98806955	98806955	SLIT1	10	A	A	C	14
NRAP	4892	broad.mit.edu	36	10	115367224	115367224	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	115367224	115367224	NRAP	10	T	T	C	53
MRPL23	6150	broad.mit.edu	36	11	1928740	1928740	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	1928740	1928740	MRPL23	11	G	G	C	39
TRIM6-TRIM34	53840	broad.mit.edu	36	11	5610315	5610315	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	5610315	5610315	TRIM6-TRIM34	11	G	G	C	47
OR5P2	120065	broad.mit.edu	36	11	7774842	7774842	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	7774842	7774842	OR5P2	11	G	G	T	43
HPS5	11234	broad.mit.edu	36	11	18261972	18261972	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	18261972	18261972	HPS5	11	C	C	T	26
KCNA4	3739	broad.mit.edu	36	11	29990600	29990600	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	29990600	29990600	KCNA4	11	G	G	C	40
RAG1	5896	broad.mit.edu	36	11	36554336	36554336	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	36554336	36554336	RAG1	11	A	A	C	1
PRPF19	27339	broad.mit.edu	36	11	60425396	60425396	+	Nonsense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Nonsense_Mutation	SNP	60425396	60425396	PRPF19	11	C	C	A	30
NUMA1	4926	broad.mit.edu	36	11	71402374	71402374	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	71402374	71402374	NUMA1	11	C	C	T	32
NUMA1	4926	broad.mit.edu	36	11	71403242	71403242	+	Silent	SNP	C	C	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	71403242	71403242	NUMA1	11	C	C	A	22
OR6X1	390260	broad.mit.edu	36	11	123129939	123129939	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	123129939	123129939	OR6X1	11	G	G	A	33
PKNOX2	63876	broad.mit.edu	36	11	124805219	124805219	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	124805219	124805219	PKNOX2	11	G	G	A	35
CCDC77	84318	broad.mit.edu	36	12	420055	420055	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	420055	420055	CCDC77	12	T	T	C	49
WNK1	378465	broad.mit.edu	36	12	848090	848090	+	Silent	SNP	A	A	G	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	848090	848090	WNK1	12	A	A	G	11
KRT78	196374	broad.mit.edu	36	12	51524660	51524660	+	Nonsense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Nonsense_Mutation	SNP	51524660	51524660	KRT78	12	C	C	A	30
EP400	57634	broad.mit.edu	36	12	131063515	131063515	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	131063515	131063515	EP400	12	C	C	T	23
BRCA2	675	broad.mit.edu	36	13	31812137	31812137	+	Nonsense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Nonsense_Mutation	SNP	31812137	31812137	BRCA2	13	C	C	A	29
SLC39A2	29986	broad.mit.edu	36	14	20537526	20537526	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	20537526	20537526	SLC39A2	14	C	C	T	32
LRRC16B	90668	broad.mit.edu	36	14	23595742	23595742	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	23595742	23595742	LRRC16B	14	G	G	C	46
LRFN5	145581	broad.mit.edu	36	14	41443117	41443117	+	Nonsense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Nonsense_Mutation	SNP	41443117	41443117	LRFN5	14	G	G	T	41
GOLGA5	9950	broad.mit.edu	36	14	92352454	92352454	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	92352454	92352454	GOLGA5	14	G	G	C	33
TMED3	23423	broad.mit.edu	36	15	77393308	77393308	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	77393308	77393308	TMED3	15	C	C	A	18
MPG	4350	broad.mit.edu	36	16	75510	75510	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	75510	75510	MPG	16	G	G	T	41
GPR97	222487	broad.mit.edu	36	16	56275888	56275888	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	56275888	56275888	GPR97	16	T	T	C	54
CDH5	1003	broad.mit.edu	36	16	64970832	64970832	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	64970832	64970832	CDH5	16	G	G	A	46
COG8	84342	broad.mit.edu	36	16	67930898	67930898	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	67930898	67930898	COG8	16	T	T	A	54
TAF1C	9013	broad.mit.edu	36	16	82770694	82770694	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	82770694	82770694	TAF1C	16	G	G	A	46
PLD2	5338	broad.mit.edu	36	17	4658070	4658070	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	4658070	4658070	PLD2	17	C	C	T	19
ZBTB4	57659	broad.mit.edu	36	17	7307108	7307108	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	7307108	7307108	ZBTB4	17	G	G	A	40
TP53	7157	broad.mit.edu	36	17	7518236	7518236	+	Missense_Mutation	SNP	A	A	T	rs28934577	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	7518236	7518236	TP53	17	A	A	T	7
MYH2	4620	broad.mit.edu	36	17	10383329	10383329	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	10383329	10383329	MYH2	17	C	C	T	27
SGCA	6442	broad.mit.edu	36	17	45600918	45600918	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	45600918	45600918	SGCA	17	G	G	C	35
ABCA5	23461	broad.mit.edu	36	17	64763521	64763521	+	Silent	SNP	T	T	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	64763521	64763521	ABCA5	17	T	T	A	63
SLC25A23	79085	broad.mit.edu	36	19	6405349	6405349	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	6405349	6405349	SLC25A23	19	G	G	T	45
OR7D4	125958	broad.mit.edu	36	19	9186271	9186271	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	9186271	9186271	OR7D4	19	C	C	T	25
NOTCH3	4854	broad.mit.edu	36	19	15161209	15161209	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	15161209	15161209	NOTCH3	19	A	A	G	10
BST2	684	broad.mit.edu	36	19	17376202	17376202	+	Missense_Mutation	SNP	T	T	G	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	17376202	17376202	BST2	19	T	T	G	64
CD22	933	broad.mit.edu	36	19	40520738	40520738	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	40520738	40520738	CD22	19	C	C	T	31
CD22	933	broad.mit.edu	36	19	40528449	40528449	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	40528449	40528449	CD22	19	C	C	G	17
ZFP112	7771	broad.mit.edu	36	19	49523684	49523684	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	49523684	49523684	ZFP112	19	T	T	C	55
BCL3	602	broad.mit.edu	36	19	49954678	49954678	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	49954678	49954678	BCL3	19	C	C	A	23
GRIN2D	2906	broad.mit.edu	36	19	53609175	53609175	+	Splice_Site_SNP	SNP	G	G	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Splice_Site_SNP	SNP	53609175	53609175	GRIN2D	19	G	G	C	44
SNTG2	54221	broad.mit.edu	36	2	1069341	1069341	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	1069341	1069341	SNTG2	2	T	T	A	51
LHCGR	3973	broad.mit.edu	36	2	48768695	48768695	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	48768695	48768695	LHCGR	2	A	A	G	8
USP34	9736	broad.mit.edu	36	2	61346784	61346784	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	61346784	61346784	USP34	2	T	T	A	52
C2orf86	51057	broad.mit.edu	36	2	63485059	63485059	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	63485059	63485059	C2orf86	2	C	C	A	22
MAT2A	4144	broad.mit.edu	36	2	85623357	85623358	+	Silent	DNP	TC	TC	AT	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	DNP	85623357	85623358	MAT2A	2	TC	TC	AT	58
MARCO	8685	broad.mit.edu	36	2	119456295	119456295	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	119456295	119456295	MARCO	2	G	G	T	37
MGAT5	4249	broad.mit.edu	36	2	134728478	134728478	+	Nonsense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Nonsense_Mutation	SNP	134728478	134728478	MGAT5	2	C	C	T	29
SCN3A	6328	broad.mit.edu	36	2	165655606	165655606	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	165655606	165655606	SCN3A	2	G	G	C	38
TTN	7273	broad.mit.edu	36	2	179308659	179308659	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	179308659	179308659	TTN	2	G	G	A	40
PTH2R	5746	broad.mit.edu	36	2	209066555	209066555	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	209066555	209066555	PTH2R	2	G	G	C	41
MAP2	4133	broad.mit.edu	36	2	210267648	210267648	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	210267648	210267648	MAP2	2	G	G	C	33
USP37	57695	broad.mit.edu	36	2	219032778	219032778	+	Silent	SNP	C	C	T	rs71415835	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	219032778	219032778	USP37	2	C	C	T	24
ASB18	401036	broad.mit.edu	36	2	236814733	236814733	+	Missense_Mutation	SNP	T	T	G	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	236814733	236814733	ASB18	2	T	T	G	60
C20orf12	55184	broad.mit.edu	36	20	18377628	18377628	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	18377628	18377628	C20orf12	20	T	T	C	56
BPIL1	80341	broad.mit.edu	36	20	31064363	31064363	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	31064363	31064363	BPIL1	20	C	C	G	29
SLC7A4	6545	broad.mit.edu	36	22	19714504	19714504	+	Silent	SNP	C	C	G	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	19714504	19714504	SLC7A4	22	C	C	G	19
KBTBD5	131377	broad.mit.edu	36	3	42702426	42702426	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	42702426	42702426	KBTBD5	3	G	G	T	48
CCR3	1232	broad.mit.edu	36	3	46281819	46281819	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	46281819	46281819	CCR3	3	G	G	T	44
HYAL3	8372	broad.mit.edu	36	3	50307982	50307982	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	50307982	50307982	HYAL3	3	C	C	T	17
GRK7	131890	broad.mit.edu	36	3	143009181	143009181	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	143009181	143009181	GRK7	3	G	G	C	41
WDR49	151790	broad.mit.edu	36	3	168737372	168737372	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	168737372	168737372	WDR49	3	G	G	T	35
TP63	8626	broad.mit.edu	36	3	190939252	190939252	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	190939252	190939252	TP63	3	A	A	T	8
FAT4	79633	broad.mit.edu	36	4	126461302	126461302	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	126461302	126461302	FAT4	4	T	T	C	52
IQGAP2	10788	broad.mit.edu	36	5	76024953	76024953	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	76024953	76024953	IQGAP2	5	T	T	C	52
PCDHA2	56146	broad.mit.edu	36	5	140155966	140155966	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	140155966	140155966	PCDHA2	5	C	C	T	27
FBXO38	81545	broad.mit.edu	36	5	147787703	147787703	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	147787703	147787703	FBXO38	5	G	G	C	35
LARP1	23367	broad.mit.edu	36	5	154163167	154163167	+	Splice_Site_SNP	SNP	G	G	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Splice_Site_SNP	SNP	154163167	154163167	LARP1	5	G	G	T	44
HLA-DRA	3122	broad.mit.edu	36	6	32518414	32518414	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	32518414	32518414	HLA-DRA	6	G	G	A	45
ANKS1A	23294	broad.mit.edu	36	6	35159259	35159259	+	Splice_Site_SNP	SNP	G	G	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Splice_Site_SNP	SNP	35159259	35159259	ANKS1A	6	G	G	C	44
GLO1	2739	broad.mit.edu	36	6	38778750	38778750	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	38778750	38778750	GLO1	6	C	C	T	25
GLO1	2739	broad.mit.edu	36	6	38778781	38778781	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	38778781	38778781	GLO1	6	C	C	A	23
TCTE1	202500	broad.mit.edu	36	6	44358180	44358180	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	44358180	44358180	TCTE1	6	A	A	C	5
SUPT3H	8464	broad.mit.edu	36	6	45079481	45079481	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	45079481	45079481	SUPT3H	6	T	T	C	62
GCLC	2729	broad.mit.edu	36	6	53481376	53481376	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	53481376	53481376	GCLC	6	T	T	C	62
KIAA1244	57221	broad.mit.edu	36	6	138572856	138572856	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	138572856	138572856	KIAA1244	6	G	G	T	35
TULP4	56995	broad.mit.edu	36	6	158830742	158830742	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	158830742	158830742	TULP4	6	A	A	G	5
WIPF3	644150	broad.mit.edu	36	7	29882023	29882023	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	29882023	29882023	WIPF3	7	C	C	T	27
ELMO1	9844	broad.mit.edu	36	7	37265361	37265361	+	Silent	SNP	T	T	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	37265361	37265361	ELMO1	7	T	T	A	61
AMPH	273	broad.mit.edu	36	7	38472374	38472374	+	Splice_Site_SNP	SNP	C	C	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Splice_Site_SNP	SNP	38472374	38472374	AMPH	7	C	C	T	32
EGFR	1956	broad.mit.edu	36	7	55191120	55191120	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	55191120	55191120	EGFR	7	G	G	A	42
MAGI2	9863	broad.mit.edu	36	7	78474351	78474351	+	Missense_Mutation	SNP	T	T	G	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	78474351	78474351	MAGI2	7	T	T	G	59
SEMA3A	10371	broad.mit.edu	36	7	83602188	83602188	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	83602188	83602188	SEMA3A	7	T	T	A	60
PPP1R3A	5506	broad.mit.edu	36	7	113346029	113346029	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	113346029	113346029	PPP1R3A	7	T	T	C	54
UBXN2B	137886	broad.mit.edu	36	8	59521102	59521102	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	59521102	59521102	UBXN2B	8	G	G	A	45
VPS13B	157680	broad.mit.edu	36	8	100956946	100956946	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	100956946	100956946	VPS13B	8	C	C	A	28
CHRAC1	54108	broad.mit.edu	36	8	141590861	141590861	+	Silent	SNP	C	C	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	141590861	141590861	CHRAC1	8	C	C	A	29
C8orf31	286122	broad.mit.edu	36	8	144196018	144196018	+	Silent	SNP	C	C	G	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	144196018	144196018	C8orf31	8	C	C	G	24
FLJ46321	389763	broad.mit.edu	36	9	83797393	83797393	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	83797393	83797393	FLJ46321	9	G	G	C	47
GRIN3A	116443	broad.mit.edu	36	9	103472336	103472336	+	Silent	SNP	A	A	G	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	103472336	103472336	GRIN3A	9	A	A	G	3
TUBB2C	10383	broad.mit.edu	36	9	139257713	139257713	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	139257713	139257713	TUBB2C	9	T	T	A	60
WWC3	55841	broad.mit.edu	36	X	10022214	10022214	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	10022214	10022214	WWC3	23	G	G	A	40
ELK1	2002	broad.mit.edu	36	X	47383596	47383596	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	47383596	47383596	ELK1	23	C	C	A	25
HUWE1	10075	broad.mit.edu	36	X	53624524	53624524	+	Nonsense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Nonsense_Mutation	SNP	53624524	53624524	HUWE1	23	G	G	C	45
NONO	4841	broad.mit.edu	36	X	70428478	70428478	+	Silent	SNP	A	A	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	70428478	70428478	NONO	23	A	A	C	16
PHKA1	5255	broad.mit.edu	36	X	71772949	71772949	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	71772949	71772949	PHKA1	23	C	C	G	32
ARMCX1	51309	broad.mit.edu	36	X	100694665	100694665	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	100694665	100694665	ARMCX1	23	C	C	T	19
LRCH2	57631	broad.mit.edu	36	X	114311156	114311156	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Silent	SNP	114311156	114311156	LRCH2	23	T	T	C	51
GPR119	139760	broad.mit.edu	36	X	129346511	129346511	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	129346511	129346511	GPR119	23	G	G	T	46
SLC9A6	10479	broad.mit.edu	36	X	134920373	134920373	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	x	x	---			x	Broad	Missense_Mutation	SNP	134920373	134920373	SLC9A6	23	G	G	T	46
TTLL7	79739	broad.mit.edu	36	1	84180810	84180810	+	Frame_Shift_Del	DEL	A	-	A	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	Broad	Frame_Shift_Del	DEL	84180810	84180810	TTLL7	1	A	-	A	15
MADD	8567	broad.mit.edu	36	11	47254216	47254219	+	Frame_Shift_Del	DEL	CTTC	-	CTTC	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	Broad	Frame_Shift_Del	DEL	47254216	47254219	MADD	11	CTTC	-	CTTC	32
PRPF39	55015	broad.mit.edu	36	14	44653189	44653191	+	In_Frame_Del	DEL	TAA	-	TAA	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	Broad	In_Frame_Del	DEL	44653189	44653191	PRPF39	14	TAA	-	TAA	61
GPR179	440435	broad.mit.edu	36	17	33737073	33737098	+	Frame_Shift_Del	DEL	CGGAATCTGCTGGGGCAGTGGTCTCC	-	-	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	Broad	Frame_Shift_Del	DEL	33737073	33737098	GPR179	17	CGGAATCTGCTGGGGCAGTGGTCTCC	-	-	19
TGM3	7053	broad.mit.edu	36	20	2268586	2268605	+	Frame_Shift_Del	DEL	GCTGATGGTGGAGGGAAGCG	-	GCTGATGGTGGAGGGAAGCG	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	Broad	Frame_Shift_Del	DEL	2268586	2268605	TGM3	20	GCTGATGGTGGAGGGAAGCG	-	GCTGATGGTGGAGGGAAGCG	46
RFTN1	23180	broad.mit.edu	36	3	16333370	16333373	+	Frame_Shift_Del	DEL	ACTT	-	-	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	Broad	Frame_Shift_Del	DEL	16333370	16333373	RFTN1	3	ACTT	-	-	10
KIAA1109	84162	broad.mit.edu	36	4	123487367	123487385	+	Splice_Site_Del	DEL	TAAGCTTGTTATGTAATTT	-	TAAGCTTGTTATGTAATTT	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	Broad	Splice_Site_Del	DEL	123487367	123487385	KIAA1109	4	TAAGCTTGTTATGTAATTT	-	TAAGCTTGTTATGTAATTT	57
FAT4	79633	broad.mit.edu	36	4	126586986	126586991	+	In_Frame_Del	DEL	AAAGAT	-	-	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	Broad	In_Frame_Del	DEL	126586986	126586991	FAT4	4	AAAGAT	-	-	1
MSN	4478	broad.mit.edu	36	X	64875673	64875678	+	In_Frame_Del	DEL	GGCAGA	-	GGCAGA	novel	Unknown	TCGA-09-2050-01	TCGA-09-2050-10							Unknown	Unknown	Unknown	Phase_I	Capture	---			Illumina GAIIx	Broad	In_Frame_Del	DEL	64875673	64875678	MSN	23	GGCAGA	-	GGCAGA	43
