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	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	transcript_name	strand	transcript_status	amino_acid_change	ucsc_cons	normal_depth	normal_vaf	tumor_depth	tumor_vaf	rna_depth	rna_vaf	polyphen	sift	condel	domain
GNL2	29889	genome.wustl.edu	37	1	38059409	38059409	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_013285.2	-1	validated	p.R35W	1.000	139	0%	128	25.8%	5	40%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
BRDT	676	genome.wustl.edu	37	1	92446700	92446700	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_001726.3	+1	validated	p.S572L	0.000	166	0%	166	25.9%	0	-	benign(0.001)	tolerated(0.44)	neutral(0.013)	NULL
IL20	50604	genome.wustl.edu	37	1	207040742	207040742	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_018724.3	+1	reviewed	p.T131I	0.760	469	0%	415	27%	0	-	benign(0.004)	tolerated(0.21)	neutral(0.044)	superfamily_4_helix_cytokine,HMMPfam_IL10,HMMSmart_IL10
TPO	7173	genome.wustl.edu	37	2	1437329	1437329	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_000547.5	+1	reviewed	p.A100V	0.001	360	0%	357	15.1%	0	-	benign(0.001)	tolerated(0.54)	neutral(0.007)	NULL
KCMF1	56888	genome.wustl.edu	37	2	85276556	85276556	+	Silent	SNP	C	C	A	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_020122.4	+1	validated	p.S223	1.000	194	0%	167	29.3%	93	25.8%	-	-	-	NULL
KCMF1	56888	genome.wustl.edu	37	2	85276557	85276557	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_020122.4	+1	validated	p.A224T	1.000	195	0%	168	30.4%	89	26.9%	benign(0.01)	tolerated(1)	neutral(0.001)	NULL
ASTL	431705	genome.wustl.edu	37	2	96789753	96789753	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_001002036.3	-1	validated	p.A378T	0.000	29	0%	59	27.1%	0	-	benign(0.316)	deleterious(0)	deleterious(0.543)	NULL
LOC653781	653781	genome.wustl.edu	37	2	131414646	131414646	+	Silent	SNP	C	C	A	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	XM_929706.3	+1	model	p.A771	0.999	60	0%	64	32.8%	610	0%	-	-	-	HMMPfam_Actin,HMMSmart_SM00268,PatternScan_ACTINS_ACT_LIKE,superfamily_Actin-like ATPase domain
ANKAR	150709	genome.wustl.edu	37	2	190606138	190606138	+	Silent	SNP	C	C	A	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_144708.3	+1	validated	p.I1186	0.370	183	0%	181	29.8%	0	-	-	-	-	HMMSmart_SM00185,superfamily_ARM repeat
KIF1A	547	genome.wustl.edu	37	2	241722015	241722015	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_004321.4	-1	reviewed	p.P292S	1.000	85	0%	100	22%	0	-	benign(0)	tolerated(0.59)	neutral(0.004)	HMMPfam_Kinesin,HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases
CTNNB1	1499	genome.wustl.edu	37	3	41266103	41266103	+	Missense_Mutation	SNP	G	G	A	rs121913399		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_001098209.1	+1	reviewed	p.G34R	1.000	104	0%	129	23.3%	57	26.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
COPG1	22820	genome.wustl.edu	37	3	128991187	128991187	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_016128.3	+1	validated	p.R696Q	0.446	111	0%	100	26%	585	38.4%	benign(0)	tolerated(0.32)	neutral(0.024)	superfamily_Clathrin adaptor appendage domain,HMMPfam_Gamma-COP
P4HA2	8974	genome.wustl.edu	37	5	131546193	131546193	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_001142599.1	-1	reviewed	p.S165R	1.000	185	0%	166	23.5%	42	47.6%	possibly_damaging(0.947)	deleterious(0)	deleterious(0.835)	NULL
TCERG1	10915	genome.wustl.edu	37	5	145862252	145862252	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_006706.3	+1	reviewed	p.R662*	1.000	167	0.6%	168	30.4%	0	-	-	-	-	HMMPfam_FF,HMMSmart_SM00441,superfamily_FF domain
REV3L	5980	genome.wustl.edu	37	6	111688528	111688528	+	Silent	SNP	A	A	G	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_002912.3	-1	validated	p.L2155	0.000	159	0%	160	21.2%	0	-	-	-	-	superfamily_Ribonuclease H-like
GTF2IRD1	9569	genome.wustl.edu	37	7	73969767	73969767	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_016328.1	+1	reviewed	p.E671*	0.997	289	0%	301	25.6%	2	0%	-	-	-	NULL
ZNF425	155054	genome.wustl.edu	37	7	148801598	148801598	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_001001661.2	-1	validated	p.N455	0.000	25	0%	23	17.4%	2	50%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
TNFRSF11B	4982	genome.wustl.edu	37	8	119936815	119936815	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_002546.3	-1	reviewed	p.K335I	0.717	542	0%	529	27.8%	8	25%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Death,HMMSmart_SM00005,superfamily_DEATH domain
ABL1	25	genome.wustl.edu	37	9	133760367	133760367	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_007313.2	+1	reviewed	p.P916H	1.000	11	0.000	9	0.444	3	33.3%	possibly_damaging(0.922)	deleterious(0)	deleterious(0.816)	NULL
PTEN	5728	genome.wustl.edu	37	10	89624305	89624305	+	Splice_Site	SNP	T	T	G	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_000314.4	+1	reviewed	e1+1	1.000	312	0%	332	24.1%	6	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	-
PTEN	5728	genome.wustl.edu	37	10	89653821	89653821	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	ENST00000371953	+1	known	p.R41fs	1.000	-	-	-	-	-	-	-	-	-	HMMSmart_SM00404,superfamily_(Phosphotyrosine protein) phosphatases II
PTEN	5728	genome.wustl.edu	37	10	89692918	89692918	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	ENST00000371953	+1	known	p.M134I	1.000	311	0%	325	28.3%	4	0%	possibly_damaging(0.576)	deleterious(0)	deleterious(0.642)	HMMPfam_DSPc,HMMSmart_SM00404,superfamily_(Phosphotyrosine protein) phosphatases II
DCHS1	8642	genome.wustl.edu	37	11	6646607	6646607	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_003737.2	-1	reviewed	p.S2323N	1.000	97	0%	66	15.2%	17	0%	possibly_damaging(0.496)	deleterious(0.01)	deleterious(0.571)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
SPATA19	219938	genome.wustl.edu	37	11	133715304	133715304	+	Missense_Mutation	SNP	C	C	T	rs184572110	by1000genomes	TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_174927.1	-1	provisional	p.R13Q	0.991	183	0%	155	19.4%	0	-	possibly_damaging(0.852)	deleterious(0)	deleterious(0.772)	NULL
CCDC60	160777	genome.wustl.edu	37	12	119968853	119968853	+	Silent	SNP	C	C	T	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_178499.3	+1	validated	p.I512	0.028	198	0%	163	22.7%	6	33.3%	-	-	-	NULL
PRKCH	5583	genome.wustl.edu	37	14	61909894	61909894	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_006255.3	+1	reviewed	p.R165*	0.998	207	0%	157	27.4%	7	0%	-	-	-	superfamily_Cysteine-rich domain
AHNAK2	113146	genome.wustl.edu	37	14	105414186	105414186	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_138420.2	-1	validated	p.Q2534H	0.000	169	0%	139	26.6%	0	-	unknown(0)	deleterious(0.04)	-	NULL
SPATA22	84690	genome.wustl.edu	37	17	3370770	3370770	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_032598.4	-1	validated	p.S41L	1.000	386	0%	365	23.8%	0	-	benign(0.032)	deleterious(0.01)	neutral(0.407)	NULL
C18orf21	83608	genome.wustl.edu	37	18	33557506	33557506	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_031446.3	+1	validated	p.A145G	0.000	183	0%	159	33.3%	14	28.5%	benign(0.003)	tolerated(0.13)	neutral(0.253)	NULL
SPTBN4	57731	genome.wustl.edu	37	19	41021261	41021261	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_020971.2	+1	reviewed	p.V937I	0.853	54	0%	55	27.3%	0	-	benign(0.017)	tolerated(0.23)	neutral(0.042)	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
RTN2	6253	genome.wustl.edu	37	19	45997526	45997526	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_005619.3	-1	reviewed	p.E238*	0.026	143	0%	150	24%	1	0%	-	-	-	NULL
TMPRSS15	5651	genome.wustl.edu	37	21	19687506	19687506	+	Silent	SNP	G	G	A	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_002772.2	-1	reviewed	p.D663	0.000	234	0%	223	24.7%	0	-	-	-	-	HMMPfam_Ldl_recept_a,HMMSmart_SM00192,PatternScan_LDLRA_1,superfamily_LDL receptor-like module
TREX2	11219	genome.wustl.edu	37	X	152710630	152710630	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A17N-01A-11D-A12J-09	TCGA-D1-A17N-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3a0d98ba-0880-48c4-9014-35a8e2d38422	26af153d-84b6-4737-93d3-5da95cae3855	NM_080701.3	-1	reviewed	p.R87*	0.000	23	0%	20	20%	11	0%	-	-	-	HMMSmart_EXOIII,superfamily_RNaseH_fold,HMMPfam_Exonuc_X-T
