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
ABCG4	64137	hgsc.bcm.edu	36	11	118534634	118534634	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	118534634	118534634	ABCG4	11	C	C	A	20
ACSS3	79611	hgsc.bcm.edu	36	12	80137972	80137972	+	Silent	SNP	A	A	G	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	80137972	80137972	ACSS3	12	A	A	G	9
ADAMTS17	170691	hgsc.bcm.edu	36	15	98639066	98639066	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	98639066	98639066	ADAMTS17	15	C	C	A	23
AFAP1	60312	hgsc.bcm.edu	36	4	7891299	7891299	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	7891299	7891299	AFAP1	4	T	T	A	55
ALPK2	115701	hgsc.bcm.edu	36	18	54342170	54342170	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	54342170	54342170	ALPK2	18	G	G	A	34
AMPH	273	hgsc.bcm.edu	36	7	38471596	38471596	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	38471596	38471596	AMPH	7	G	G	A	42
APAF1	317	hgsc.bcm.edu	36	12	97585494	97585494	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	97585494	97585494	APAF1	12	G	G	A	33
ARFGEF1	10565	hgsc.bcm.edu	36	8	68366670	68366670	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	68366670	68366670	ARFGEF1	8	T	T	A	60
ARR3	407	hgsc.bcm.edu	36	X	69406460	69406460	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	69406460	69406460	ARR3	23	G	G	C	41
ASAP3	55616	hgsc.bcm.edu	36	1	23632595	23632595	+	Silent	SNP	C	C	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	23632595	23632595	ASAP3	1	C	C	A	23
ATAD2	29028	hgsc.bcm.edu	36	8	124409656	124409656	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	124409656	124409656	ATAD2	8	A	A	T	9
BNC1	646	hgsc.bcm.edu	36	15	81723836	81723836	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	81723836	81723836	BNC1	15	C	C	T	24
C20orf54	113278	hgsc.bcm.edu	36	20	692283	692283	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	692283	692283	C20orf54	20	T	T	C	60
C9orf3	84909	hgsc.bcm.edu	36	9	96562314	96562314	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	96562314	96562314	C9orf3	9	T	T	C	63
CADM3	57863	hgsc.bcm.edu	36	1	157430347	157430347	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	157430347	157430347	CADM3	1	C	C	T	17
CASR	846	hgsc.bcm.edu	36	3	123486612	123486612	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	123486612	123486612	CASR	3	C	C	T	27
CDKL1	8814	hgsc.bcm.edu	36	14	49875490	49875490	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	49875490	49875490	CDKL1	14	G	G	A	45
COL4A6	1288	hgsc.bcm.edu	36	X	107292893	107292893	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	107292893	107292893	COL4A6	23	T	T	C	64
CTSE	1510	hgsc.bcm.edu	36	1	204495402	204495402	+	Silent	SNP	A	A	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	204495402	204495402	CTSE	1	A	A	T	7
DKK2	27123	hgsc.bcm.edu	36	4	108065300	108065300	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	108065300	108065300	DKK2	4	C	C	G	17
DOK6	220164	hgsc.bcm.edu	36	18	65659499	65659499	+	Frame_Shift_Del	DEL	C	C	-	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Frame_Shift_Del	DEL	65659499	65659499	DOK6	18	C	C	-	17
DRD1	1812	hgsc.bcm.edu	36	5	174801396	174801396	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	174801396	174801396	DRD1	5	A	A	G	12
ERBB2	2064	hgsc.bcm.edu	36	17	35135143	35135143	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	35135143	35135143	ERBB2	17	G	G	A	38
ERBB2IP	55914	hgsc.bcm.edu	36	5	65378114	65378114	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	65378114	65378114	ERBB2IP	5	G	G	A	48
FAM71B	153745	hgsc.bcm.edu	36	5	156523083	156523083	+	Silent	SNP	A	A	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	156523083	156523083	FAM71B	5	A	A	T	7
FCF1	51077	hgsc.bcm.edu	36	14	74270578	74270578	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	74270578	74270578	FCF1	14	G	G	T	33
FOXG1	2290	hgsc.bcm.edu	36	14	28307616	28307616	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	28307616	28307616	FOXG1	14	G	G	C	46
FOXN4	121643	hgsc.bcm.edu	36	12	108202085	108202085	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	108202085	108202085	FOXN4	12	A	A	T	9
FOXP2	93986	hgsc.bcm.edu	36	7	114091628	114091628	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	114091628	114091628	FOXP2	7	G	G	A	36
FTSJ3	117246	hgsc.bcm.edu	36	17	59257684	59257684	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	59257684	59257684	FTSJ3	17	C	C	A	30
GLI1	2735	hgsc.bcm.edu	36	12	56144865	56144865	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	56144865	56144865	GLI1	12	G	G	A	38
GRIK4	2900	hgsc.bcm.edu	36	11	120207880	120207880	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	120207880	120207880	GRIK4	11	C	C	T	30
GUCY2C	2984	hgsc.bcm.edu	36	12	14685306	14685306	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	14685306	14685306	GUCY2C	12	G	G	A	36
HACE1	57531	hgsc.bcm.edu	36	6	105351285	105351285	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	105351285	105351285	HACE1	6	G	G	T	45
HCFC2	29915	hgsc.bcm.edu	36	12	102997488	102997488	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	102997488	102997488	HCFC2	12	T	T	C	55
IGF2R	3482	hgsc.bcm.edu	36	6	160437543	160437543	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	160437543	160437543	IGF2R	6	C	C	T	30
IL17RC	84818	hgsc.bcm.edu	36	3	9937623	9937623	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	9937623	9937623	IL17RC	3	G	G	A	37
IL6R	3570	hgsc.bcm.edu	36	1	152704402	152704402	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	152704402	152704402	IL6R	1	G	G	A	37
ITSN1	6453	hgsc.bcm.edu	36	21	34176536	34176536	+	Silent	SNP	C	C	G	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	34176536	34176536	ITSN1	21	C	C	G	30
KAL1	3730	hgsc.bcm.edu	36	X	8551675	8551675	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	8551675	8551675	KAL1	23	T	T	C	62
KDM3B	51780	hgsc.bcm.edu	36	5	137736317	137736317	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	137736317	137736317	KDM3B	5	A	A	G	8
TTI1	9675	hgsc.bcm.edu	36	20	36075018	36075018	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	36075018	36075018	TTI1	20	C	C	G	17
KIAA1324L	222223	hgsc.bcm.edu	36	7	86394128	86394128	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	86394128	86394128	KIAA1324L	7	C	C	T	23
KIT	3815	hgsc.bcm.edu	36	4	55256459	55256459	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	55256459	55256459	KIT	4	C	C	T	21
KTN1	3895	hgsc.bcm.edu	36	14	55173781	55173781	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	55173781	55173781	KTN1	14	G	G	A	47
LAMB4	22798	hgsc.bcm.edu	36	7	107483411	107483411	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	107483411	107483411	LAMB4	7	G	G	T	44
LHFPL4	375323	hgsc.bcm.edu	36	3	9522725	9522725	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	9522725	9522725	LHFPL4	3	A	A	T	11
LRP1	4035	hgsc.bcm.edu	36	12	55889230	55889230	+	Silent	SNP	G	G	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	55889230	55889230	LRP1	12	G	G	T	47
LRP1B	53353	hgsc.bcm.edu	36	2	140975891	140975891	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	140975891	140975891	LRP1B	2	A	A	T	1
MAGEB6	158809	hgsc.bcm.edu	36	X	26122569	26122569	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	26122569	26122569	MAGEB6	23	T	T	A	57
MAP3K5	4217	hgsc.bcm.edu	36	6	136974134	136974134	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	136974134	136974134	MAP3K5	6	G	G	A	43
MARK4	57787	hgsc.bcm.edu	36	19	50475785	50475785	+	Missense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	50475785	50475785	MARK4	19	G	G	A	39
MDC1	9656	hgsc.bcm.edu	36	6	30779295	30779295	+	Splice_Site_SNP	SNP	T	T	C	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Splice_Site_SNP	SNP	30779295	30779295	MDC1	6	T	T	C	55
MLEC	9761	hgsc.bcm.edu	36	12	119618610	119618610	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	119618610	119618610	MLEC	12	G	G	C	39
MST1R	4486	hgsc.bcm.edu	36	3	49909996	49909996	+	Silent	SNP	C	C	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	49909996	49909996	MST1R	3	C	C	A	22
MTMR8	55613	hgsc.bcm.edu	36	X	63491409	63491409	+	Silent	SNP	G	G	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	63491409	63491409	MTMR8	23	G	G	T	47
MYBL2	4605	hgsc.bcm.edu	36	20	41777255	41777255	+	Missense_Mutation	SNP	T	T	C	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	41777255	41777255	MYBL2	20	T	T	C	54
NPR1	4881	hgsc.bcm.edu	36	1	151924921	151924921	+	Missense_Mutation	SNP	G	G	A	rs61757359	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	151924921	151924921	NPR1	1	G	G	A	39
NTM	50863	hgsc.bcm.edu	36	11	131521553	131521553	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	131521553	131521553	NTM	11	C	C	A	24
OAS1	4938	hgsc.bcm.edu	36	12	111838826	111838826	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	111838826	111838826	OAS1	12	G	G	C	36
OXCT1	5019	hgsc.bcm.edu	36	5	41898503	41898503	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	41898503	41898503	OXCT1	5	C	C	A	18
PAQR5	54852	hgsc.bcm.edu	36	15	67464184	67464184	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	67464184	67464184	PAQR5	15	C	C	T	21
PATZ1	23598	hgsc.bcm.edu	36	22	30070525	30070525	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	30070525	30070525	PATZ1	22	A	A	C	6
PDE4DIP	9659	hgsc.bcm.edu	36	1	143617840	143617840	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	143617840	143617840	PDE4DIP	1	C	C	A	18
PDE8B	8622	hgsc.bcm.edu	36	5	76657161	76657161	+	Silent	SNP	C	C	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	76657161	76657161	PDE8B	5	C	C	A	28
PEX5	5830	hgsc.bcm.edu	36	12	7253018	7253018	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	7253018	7253018	PEX5	12	C	C	T	29
PLCB1	23236	hgsc.bcm.edu	36	20	8646361	8646361	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	8646361	8646361	PLCB1	20	A	A	G	16
POLM	27434	hgsc.bcm.edu	36	7	44084929	44084929	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	44084929	44084929	POLM	7	G	G	C	34
PPP2R3A	5523	hgsc.bcm.edu	36	3	137228537	137228537	+	Missense_Mutation	SNP	T	T	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	137228537	137228537	PPP2R3A	3	T	T	A	57
RB1	5925	hgsc.bcm.edu	36	13	47835024	47835024	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	47835024	47835024	RB1	13	C	C	T	25
RCBTB2	1102	hgsc.bcm.edu	36	13	47984006	47984006	+	Silent	SNP	G	G	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	47984006	47984006	RCBTB2	13	G	G	A	33
REL	5966	hgsc.bcm.edu	36	2	60997526	60997526	+	Silent	SNP	A	A	G	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	60997526	60997526	REL	2	A	A	G	2
ROS1	6098	hgsc.bcm.edu	36	6	117831043	117831043	+	Nonsense_Mutation	SNP	G	G	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Nonsense_Mutation	SNP	117831043	117831043	ROS1	6	G	G	A	46
RP5-1022P6.2	56261	hgsc.bcm.edu	36	20	5504594	5504594	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	5504594	5504594	RP5-1022P6.2	20	C	C	T	29
SLC17A6	57084	hgsc.bcm.edu	36	11	22337562	22337562	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	22337562	22337562	SLC17A6	11	C	C	T	24
SLC6A3	6531	hgsc.bcm.edu	36	5	1454057	1454057	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	1454057	1454057	SLC6A3	5	C	C	T	21
SMOC2	64094	hgsc.bcm.edu	36	6	168669894	168669894	+	Silent	SNP	C	C	G	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	168669894	168669894	SMOC2	6	C	C	G	23
SNTG1	54212	hgsc.bcm.edu	36	8	51611868	51611868	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	51611868	51611868	SNTG1	8	C	C	T	30
SNX27	81609	hgsc.bcm.edu	36	1	149897409	149897409	+	Missense_Mutation	SNP	C	C	G	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	149897409	149897409	SNX27	1	C	C	G	18
SPAG8	26206	hgsc.bcm.edu	36	9	35801022	35801022	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	35801022	35801022	SPAG8	9	G	G	T	46
ST6GALNAC3	256435	hgsc.bcm.edu	36	1	76650418	76650418	+	Silent	SNP	A	A	G	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	76650418	76650418	ST6GALNAC3	1	A	A	G	3
STRN3	29966	hgsc.bcm.edu	36	14	30494614	30494614	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	30494614	30494614	STRN3	14	C	C	T	29
SYT1	6857	hgsc.bcm.edu	36	12	78203762	78203762	+	Silent	SNP	T	T	C	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	78203762	78203762	SYT1	12	T	T	C	64
SYT7	9066	hgsc.bcm.edu	36	11	61042737	61042737	+	Missense_Mutation	SNP	A	A	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	61042737	61042737	SYT7	11	A	A	T	7
TCP11	6954	hgsc.bcm.edu	36	6	35195076	35195076	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	35195076	35195076	TCP11	6	C	C	A	22
TEKT1	83659	hgsc.bcm.edu	36	17	6663236	6663236	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	6663236	6663236	TEKT1	17	C	C	A	24
TEX11	56159	hgsc.bcm.edu	36	X	69743567	69743567	+	Silent	SNP	C	C	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Silent	SNP	69743567	69743567	TEX11	23	C	C	T	29
TG	7038	hgsc.bcm.edu	36	8	134004864	134004864	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	134004864	134004864	TG	8	G	G	C	48
TOMM70A	9868	hgsc.bcm.edu	36	3	101587814	101587814	+	Missense_Mutation	SNP	T	T	G	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	101587814	101587814	TOMM70A	3	T	T	G	64
TP53	7157	hgsc.bcm.edu	36	17	7518231	7518231	+	Missense_Mutation	SNP	C	C	A	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	7518231	7518231	TP53	17	C	C	A	32
TTN	7273	hgsc.bcm.edu	36	2	179320766	179320766	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	179320766	179320766	TTN	2	G	G	T	34
ZCCHC9	84240	hgsc.bcm.edu	36	5	80644194	80644194	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	80644194	80644194	ZCCHC9	5	C	C	T	23
ZEB2	9839	hgsc.bcm.edu	36	2	144872480	144872480	+	Missense_Mutation	SNP	G	G	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	144872480	144872480	ZEB2	2	G	G	T	44
ZFYVE26	23503	hgsc.bcm.edu	36	14	67302709	67302709	+	Frame_Shift_Del	DEL	G	G	-	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Frame_Shift_Del	DEL	67302709	67302709	ZFYVE26	14	G	G	-	34
ZFYVE26	23503	hgsc.bcm.edu	36	14	67314115	67314115	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	67314115	67314115	ZFYVE26	14	A	A	C	3
ZNF211	10520	hgsc.bcm.edu	36	19	62844567	62844567	+	Missense_Mutation	SNP	A	A	C	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	62844567	62844567	ZNF211	19	A	A	C	8
ZNF238	10472	hgsc.bcm.edu	36	1	242283789	242283793	+	Frame_Shift_Del	DEL	TTTTC	TTTTC	-	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	TTTTC	TTTTC	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Frame_Shift_Del	DEL	242283789	242283793	ZNF238	1	TTTTC	TTTTC	-	60
ZNF333	84449	hgsc.bcm.edu	36	19	14690061	14690061	+	Missense_Mutation	SNP	A	A	G	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	14690061	14690061	ZNF333	19	A	A	G	1
ZNF500	26048	hgsc.bcm.edu	36	16	4742731	4742731	+	Missense_Mutation	SNP	C	C	T	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	4742731	4742731	ZNF500	16	C	C	T	31
ZNF563	147837	hgsc.bcm.edu	36	19	12290870	12290870	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	12290870	12290870	ZNF563	19	G	G	C	34
ZNF828	283489	hgsc.bcm.edu	36	13	114108839	114108839	+	Missense_Mutation	SNP	G	G	C	novel	Unknown	TCGA-09-1665-01	TCGA-09-1665-11	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_III	Capture	Unknown	.	.	SOLID	Baylor	Missense_Mutation	SNP	114108839	114108839	ZNF828	13	G	G	C	47