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	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
LCE2C	353140	genome.wustl.edu	37	1	152648758	152648758	+	Silent	SNP	C	C	T	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178429.2	+1	validated	p.P89	0.000	119	0%	71	29.6%	-	-	-	-	-	NULL
CADM3	57863	genome.wustl.edu	37	1	159169659	159169659	+	Silent	SNP	G	G	A	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021189.3	+1	validated	p.R391	1.000	106	0%	108	30.6%	-	-	-	-	-	HMMSmart_4.1m
STAMBP	10617	genome.wustl.edu	37	2	74089382	74089382	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006463.3	+1	reviewed	p.R424Q	1.000	74	0%	90	25.6%	-	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
DRD5	1816	genome.wustl.edu	37	4	9784321	9784321	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000798.4	+1	reviewed	p.R223Q	1.000	84	0%	85	18.8%	-	-	probably_damaging(0.979)	tolerated(0.14)	deleterious(0.671)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
N4BP2	55728	genome.wustl.edu	37	4	40146282	40146282	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018177.3	+1	reviewed	p.A1669T	1.000	171	0%	172	24.4%	-	-	probably_damaging(0.995)	deleterious(0.03)	deleterious(0.822)	HMMPfam_DUF1771
RBM47	54502	genome.wustl.edu	37	4	40438541	40438541	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098634.1	-1	validated	p.G416fs	1.000	-	-	-	-	-	-	-	-	-	NULL
ODZ3	55714	genome.wustl.edu	37	4	183714430	183714430	+	Missense_Mutation	SNP	C	C	T	rs146065963	by1000genomes	TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080477.1	+1	provisional	p.T2202M	0.998	144	0%	145	31.7%	-	-	possibly_damaging(0.579)	tolerated(0.07)	deleterious(0.518)	NULL
CDH10	1008	genome.wustl.edu	37	5	24487772	24487772	+	Nonstop_Mutation	SNP	T	T	A	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006727.2	-1	reviewed	p.*789Y	1.000	337	0%	415	16.1%	-	-	-	-	-	NULL
PIK3R1	5295	genome.wustl.edu	37	5	67589577	67589609	+	In_Frame_Del	DEL	AAAAATTACATGAATATAACACTCAGTTTCAAG	AAAAATTACATGAATATAACACTCAGTTTCAAG	-	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	AAAAATTACATGAATATAACACTCAGTTTCAAG	AAAAATTACATGAATATAACACTCAGTTTCAAG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181523.1	+1	reviewed	p.LHEYNTQFQEK449in_frame_del	1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
ENSG00000250004	0	genome.wustl.edu	37	5	140603036	140603036	+	RNA	SNP	G	G	A	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000515856	-1	novel	NULL	0.000	64	0%	57	63.2%	-	-	-	-	-	-
ENSG00000248255	0	genome.wustl.edu	37	5	147040101	147040102	+	RNA	INS	-	-	AAAC	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000506321	+1	known	NULL	0.002:0.003	-	-	-	-	-	-	-	-	-	-
DHX16	8449	genome.wustl.edu	37	6	30633356	30633356	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003587.4	-1	reviewed	p.R274Q	0.691	100	1%	78	30.8%	-	-	possibly_damaging(0.943)	tolerated(0.13)	deleterious(0.640)	NULL
AIM1	202	genome.wustl.edu	37	6	107008712	107008712	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001624.2	+1	validated	p.R1556fs	0.273	-	-	-	-	-	-	-	-	-	HMMPfam_Crystall,HMMSmart_XTALbg,superfamily_G_crystallin_SF
HECA	51696	genome.wustl.edu	37	6	139488422	139488422	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016217.2	+1	reviewed	p.H425N	1.000	91	0%	101	28.7%	-	-	possibly_damaging(0.797)	tolerated(0.17)	neutral(0.358)	NULL
AUTS2	26053	genome.wustl.edu	37	7	70231244	70231244	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015570.2	+1	validated	p.T538M	1.000	23	0%	37	21.6%	-	-	probably_damaging(0.999)	deleterious(0.05)	deleterious(0.836)	NULL
LRRN3	54674	genome.wustl.edu	37	7	110763280	110763280	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099658.1	+1	validated	p.L151W	1.000	198	0%	170	12.9%	-	-	probably_damaging(0.977)	deleterious(0.02)	deleterious(0.802)	HMMPfam_LRR_1,HMMSmart_SM00369,HMMSmart_SM00365,superfamily_L domain-like
ZNF462	58499	genome.wustl.edu	37	9	109690955	109690964	+	Frame_Shift_Del	DEL	ACTTTGGAGA	ACTTTGGAGA	-	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	ACTTTGGAGA	ACTTTGGAGA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021224.4	+1	validated	p.T1588fs	1.000:1.000:0.002:0.006:0.998:1.000:1.000:1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers,superfamily_beta-sandwich domain of Sec23/24
PTEN	5728	genome.wustl.edu	37	10	89692905	89692905	+	Missense_Mutation	SNP	G	G	A	rs121913292		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000371953	+1	known	p.R130Q	1.000	279	0%	458	20.5%	-	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DSPc,HMMSmart_SM00404,PatternScan_TYR_PHOSPHATASE_1,superfamily_(Phosphotyrosine protein) phosphatases II
PTEN	5728	genome.wustl.edu	37	10	89720803	89720804	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000371953	+1	known	p.T318fs	0.997:1.000	-	-	-	-	-	-	-	-	-	superfamily_C2 domain (Calcium/lipid-binding domain CaLB),HMMPfam_PTEN_C2
PTEN	5728	genome.wustl.edu	37	10	89720852	89720852	+	Missense_Mutation	SNP	C	C	G	rs121909231	byCluster	TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000371953	+1	known	p.R335G	1.000	298	0%	387	38.8%	-	-	probably_damaging(0.986)	deleterious(0)	deleterious(0.879)	superfamily_C2 domain (Calcium/lipid-binding domain CaLB),HMMPfam_PTEN_C2
CRTAC1	55118	genome.wustl.edu	37	10	99667888	99667888	+	Silent	SNP	G	G	A	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018058.4	-1	validated	p.S244	0.999	21	0%	38	44.7%	-	-	-	-	-	superfamily_Integrin alpha N-terminal domain
OR4C3	256144	genome.wustl.edu	37	11	48346568	48346568	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004702.1	+1	provisional	p.E26*	0.000	411	0%	494	13.4%	-	-	-	-	-	NULL
RNF151	146310	genome.wustl.edu	37	16	2017804	2017804	+	Missense_Mutation	SNP	T	T	G	rs146108433	by1000genomes	TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174903.4	+1	provisional	p.I76M	0.997	5	0.000	13	0.769	-	-	probably_damaging(0.995)	deleterious(0.04)	deleterious(0.806)	superfamily_SSF57850
GSG1L	146395	genome.wustl.edu	37	16	27895830	27895830	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001109763.1	-1	validated	p.A176V	1.000	30	0%	36	16.7%	-	-	possibly_damaging(0.864)	tolerated(0.07)	deleterious(0.653)	NULL
BPTF	2186	genome.wustl.edu	37	17	65889598	65889598	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182641.3	+1	reviewed	p.R723P	1.000	173	0%	186	28%	-	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
LOC100287226	100287226	genome.wustl.edu	37	19	22498499	22498499	+	Silent	SNP	A	A	G	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343636.1	+1	model	p.V627	0.014	217	0%	177	26.6%	-	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF585A	199704	genome.wustl.edu	37	19	37647249	37647249	+	Silent	SNP	C	C	A	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356958	-1	known	p.V27	0.997	247	0%	255	17.3%	-	-	-	-	-	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
MARK4	57787	genome.wustl.edu	37	19	45774910	45774910	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031417.2	+1	provisional	p.V244F	1.000	72	0%	69	18.8%	-	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
PGLYRP1	8993	genome.wustl.edu	37	19	46522650	46522650	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005091.2	-1	validated	p.R146Q	0.970	69	0%	66	30.3%	-	-	probably_damaging(1)	tolerated(0.33)	deleterious(0.524)	HMMPfam_Amidase_2,HMMSmart_Ami_2,superfamily_Amidase_2,HMMSmart_PGRP
ARHGAP35	2909	genome.wustl.edu	37	19	47424544	47424544	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004491.4	+1	reviewed	p.R871P	1.000	148	0%	180	26.1%	-	-	probably_damaging(0.964)	tolerated(0.23)	neutral(0.448)	NULL
ZBTB46	140685	genome.wustl.edu	37	20	62421796	62421796	+	Silent	SNP	C	C	T	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025224.2	-1	provisional	p.V105	1.000	16	0%	17	35.3%	-	-	-	-	-	HMMSmart_BTB,superfamily_BTB/POZ_fold,HMMPfam_BTB
SCAF4	57466	genome.wustl.edu	37	21	33074669	33074669	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020706.2	-1	reviewed	p.N115K	1.000	204	0%	201	22.4%	-	-	unknown(0)	deleterious(0.02)	-	HMMSmart_SM00582,HMMPfam_DUF618,superfamily_ENTH/VHS domain
TEX13A	56157	genome.wustl.edu	37	X	104464339	104464339	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000413579	-1	known	p.A180V	0.000	86	0%	76	23.7%	-	-	benign(0.001)	tolerated(0.37)	neutral(0.019)	NULL
NKAP	79576	genome.wustl.edu	37	X	119077524	119077524	+	Silent	SNP	C	C	T	novel		TCGA-A5-A0GE-01	TCGA-A5-A0GE-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024528.3	-1	reviewed	p.S15	0.000	39	0%	21	28.6%	-	-	-	-	-	NULL
