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
ABCB1	5243	hgsc.bcm.edu	36	7	86982618	86982618	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	86982618	86982618	ABCB1	7	G	G	A	48
AGAP3	116988	hgsc.bcm.edu	36	7	150446246	150446246	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	150446246	150446246	AGAP3	7	G	G	A	37
ALK	238	hgsc.bcm.edu	36	2	29270274	29270274	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	29270274	29270274	ALK	2	T	T	A	59
APC	324	hgsc.bcm.edu	36	5	112203345	112203345	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	112203345	112203345	APC	5	C	C	T	25
BRCA1	672	hgsc.bcm.edu	36	17	38451310	38451310	+	Nonsense_Mutation	SNP	G	G	A	rs41293465	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	Capture	Biotage_PCR_WGA	.	.	SOLID	Baylor	Nonsense_Mutation	SNP	38451310	38451310	BRCA1	17	G	G	A	39
CHRM5	1133	hgsc.bcm.edu	36	15	32142634	32142634	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	32142634	32142634	CHRM5	15	C	C	T	27
CHRND	1144	hgsc.bcm.edu	36	2	233101515	233101515	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	233101515	233101515	CHRND	2	C	C	A	31
CPNE1	8904	hgsc.bcm.edu	36	20	33678648	33678649	+	Frame_Shift_Ins	INS	-	-	A	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	-	-	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Frame_Shift_Ins	INS	33678648	33678649	CPNE1	20	-	-	A	25
DHX29	54505	hgsc.bcm.edu	36	5	54615167	54615167	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	54615167	54615167	DHX29	5	G	G	A	37
ELOVL1	64834	hgsc.bcm.edu	36	1	43602843	43602843	+	Silent	SNP	A	A	T	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	43602843	43602843	ELOVL1	1	A	A	T	7
FAM119A	151194	hgsc.bcm.edu	36	2	208197198	208197198	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	208197198	208197198	FAM119A	2	C	C	T	23
FAM5C	339479	hgsc.bcm.edu	36	1	188396505	188396505	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	188396505	188396505	FAM5C	1	A	A	G	15
GCKR	2646	hgsc.bcm.edu	36	2	27575776	27575776	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	27575776	27575776	GCKR	2	C	C	T	23
HAGH	3029	hgsc.bcm.edu	36	16	1812926	1812926	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_IV	Capture	454_PCR_WGA	.	.	SOLID	Baylor	Missense_Mutation	SNP	1812926	1812926	HAGH	16	G	G	C	35
HIBADH	11112	hgsc.bcm.edu	36	7	27655740	27655740	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	27655740	27655740	HIBADH	7	T	T	C	50
KLHL5	51088	hgsc.bcm.edu	36	4	38791160	38791160	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	38791160	38791160	KLHL5	4	C	C	T	19
MDN1	23195	hgsc.bcm.edu	36	6	90541140	90541140	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	90541140	90541140	MDN1	6	T	T	C	52
METT10D	79066	hgsc.bcm.edu	36	17	2323678	2323678	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	2323678	2323678	METT10D	17	A	A	T	3
MLL4	9757	hgsc.bcm.edu	36	19	40903582	40903582	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	40903582	40903582	MLL4	19	C	C	A	18
MYO3A	53904	hgsc.bcm.edu	36	10	26425326	26425326	+	Missense_Mutation	SNP	A	C	C	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	26425326	26425326	MYO3A	10	A	C	C	1
NALCN	259232	hgsc.bcm.edu	36	13	100595214	100595214	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	100595214	100595214	NALCN	13	T	T	C	62
NDRG1	10397	hgsc.bcm.edu	36	8	134338247	134338247	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	134338247	134338247	NDRG1	8	G	G	A	40
NIPBL	25836	hgsc.bcm.edu	36	5	37011811	37011811	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	37011811	37011811	NIPBL	5	A	A	G	15
NRXN1	9378	hgsc.bcm.edu	36	2	50704226	50704226	+	Silent	SNP	T	T	A	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	50704226	50704226	NRXN1	2	T	T	A	50
PAN3	255967	hgsc.bcm.edu	36	13	27749443	27749443	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	27749443	27749443	PAN3	13	C	C	G	27
PLXNA4	91584	hgsc.bcm.edu	36	7	131503749	131503749	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	131503749	131503749	PLXNA4	7	C	C	G	25
PRF1	5551	hgsc.bcm.edu	36	10	72028728	72028728	+	Missense_Mutation	SNP	T	T	C	rs28933375	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	72028728	72028728	PRF1	10	T	T	C	60
PRMT1	3276	hgsc.bcm.edu	36	19	54879103	54879103	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	54879103	54879103	PRMT1	19	C	C	T	28
PSD3	23362	hgsc.bcm.edu	36	8	18773895	18773895	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	18773895	18773895	PSD3	8	G	G	A	37
PUM1	9698	hgsc.bcm.edu	36	1	31240608	31240608	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	31240608	31240608	PUM1	1	T	T	C	56
RET	5979	hgsc.bcm.edu	36	10	42942106	42942106	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	42942106	42942106	RET	10	G	G	A	38
ARHGAP32	9743	hgsc.bcm.edu	36	11	128348122	128348122	+	Silent	SNP	C	C	A	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	128348122	128348122	ARHGAP32	11	C	C	A	30
SDSL	113675	hgsc.bcm.edu	36	12	112358951	112358951	+	Frame_Shift_Del	DEL	C	C	-	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Frame_Shift_Del	DEL	112358951	112358951	SDSL	12	C	C	-	26
SLC35A5	55032	hgsc.bcm.edu	36	3	113782516	113782516	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	113782516	113782516	SLC35A5	3	A	A	G	11
SLC5A10	125206	hgsc.bcm.edu	36	17	18813098	18813099	+	In_Frame_Ins	INS	-	-	TAC	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	-	-	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	In_Frame_Ins	INS	18813098	18813099	SLC5A10	17	-	-	TAC	48
SLC5A5	6528	hgsc.bcm.edu	36	19	17853859	17853859	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	17853859	17853859	SLC5A5	19	C	C	T	31
TFDP1	7027	hgsc.bcm.edu	36	13	113335471	113335471	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	Capture	Sanger_PCR_WGA	.	.	SOLID	Baylor	Missense_Mutation	SNP	113335471	113335471	TFDP1	13	G	G	A	42
TLN2	83660	hgsc.bcm.edu	36	15	60827911	60827911	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	60827911	60827911	TLN2	15	C	C	T	27
TP53	7157	hgsc.bcm.edu	36	17	7519123	7519123	+	Indel	Indel	G	G	T	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Indel	Indel	7519123	7519123	TP53	17	G	G	T	47
TRIM36	55521	hgsc.bcm.edu	36	5	114510804	114510804	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	114510804	114510804	TRIM36	5	G	G	A	47
TYW3	127253	hgsc.bcm.edu	36	1	74977011	74977011	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	74977011	74977011	TYW3	1	C	C	G	21
VEZT	55591	hgsc.bcm.edu	36	12	94205647	94205647	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	94205647	94205647	VEZT	12	C	C	G	30
WDR1	9948	hgsc.bcm.edu	36	4	9726837	9726837	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-13-0730-01	TCGA-13-0730-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_IV	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	9726837	9726837	WDR1	4	C	C	T	31
