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
ARID1A	8289	genome.wustl.edu	37	1	27094331	27094332	+	Frame_Shift_Ins	INS	-	-	CT	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006015.4	+1	reviewed	p.G1014fs	0.999:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_ARID,superfamily_ARID-like
RPAP2	79871	genome.wustl.edu	37	1	92846378	92846378	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000370343	+1	known	p.E596*	1.000	268	0%	434	41.7%	1	0%	-	-	-	NULL
TMEM127	55654	genome.wustl.edu	37	2	96919740	96919740	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017849.1	-1	provisional	p.V175I	0.995	83	0%	75	10.7%	19	5.2%	benign(0)	tolerated(0.41)	neutral(0.015)	NULL
VWA3B	200403	genome.wustl.edu	37	2	98866865	98866865	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144992.4	+1	provisional	p.R920*	1.000	252	0%	306	37.6%	3	0%	-	-	-	NULL
FMNL2	114793	genome.wustl.edu	37	2	153431670	153431670	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052905.3	+1	reviewed	p.R206K	1.000	30	0%	23	43.5%	0	-	possibly_damaging(0.64)	tolerated(0.46)	neutral(0.236)	HMMPfam_Drf_GBD
PARD3B	117583	genome.wustl.edu	37	2	206364632	206364632	+	Silent	SNP	G	G	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152526.4	+1	validated	p.T957	0.000	318	0%	346	40.2%	0	-	-	-	-	NULL
SPHKAP	80309	genome.wustl.edu	37	2	228881457	228881457	+	Silent	SNP	C	C	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142644.1	-1	validated	p.P1371	0.004	118	0%	124	39.5%	0	-	-	-	-	NULL
PTMA	5757	genome.wustl.edu	37	2	232577188	232577189	+	Frame_Shift_Del	DEL	GA	GA	-	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	GA	GA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099285.1	+1	validated	p.E84fs	1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_Prothymosin
CTNNB1	1499	genome.wustl.edu	37	3	41266101	41266101	+	Missense_Mutation	SNP	C	C	T	rs121913400	byCluster	TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098209.1	+1	reviewed	p.S33F	1.000	101	0%	105	43.8%	45	53.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
COL7A1	1294	genome.wustl.edu	37	3	48629186	48629186	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000094.3	-1	reviewed	p.P476L	1.000	22	0%	45	40%	0	-	unknown(0)	deleterious(0)	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
PIK3CA	5290	genome.wustl.edu	37	3	178952085	178952085	+	Missense_Mutation	SNP	A	A	G	rs121913279	byCluster	TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006218.2	+1	reviewed	p.H1047R	1.000	261	0%	244	39.8%	1	0%	possibly_damaging(0.926)	deleterious(0.03)	deleterious(0.739)	HMMSmart_PI3Kc,superfamily_Kinase_like
TBC1D14	57533	genome.wustl.edu	37	4	7011634	7011634	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113361.1	+1	validated	p.I493V	1.000	167	0%	166	42.8%	7	57.1%	benign(0)	tolerated(0.43)	neutral(0.013)	HMMPfam_TBC,HMMSmart_TBC,superfamily_RabGAP_TBC
EPHA5	2044	genome.wustl.edu	37	4	66286238	66286238	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004439.5	-1	reviewed	p.N483S	1.000	87	0%	112	39.3%	0	-	benign(0.002)	tolerated(0.74)	neutral(0.002)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
PCDHA7	56141	genome.wustl.edu	37	5	140214265	140214265	+	Silent	SNP	C	C	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018910.2	+1	reviewed	p.S99	0.216	79	0%	139	39.6%	0	-	-	-	-	HMMSmart_SM00112,HMMPfam_Cadherin_2,superfamily_Cadherin-like
RBM27	54439	genome.wustl.edu	37	5	145649057	145649058	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	AG	AG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018989.1	+1	validated	p.E868fs	1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
TMEM14B	81853	genome.wustl.edu	37	6	10755447	10755447	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030969.3	+1	validated	p.G92V	0.989	108	0%	83	41%	79	62%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMPfam_Tmemb_14
HIST1H2BN	8341	genome.wustl.edu	37	6	27806644	27806644	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003520.3	+1	reviewed	p.D69N	1.000	216	0%	181	42.5%	2	100%	benign(0.002)	deleterious(0)	neutral(0.445)	HMMSmart_SM00427,HMMPfam_Histone,superfamily_Histone-fold
RGL2	5863	genome.wustl.edu	37	6	33261826	33261826	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004761.3	-1	validated	p.F457L	0.999	189	0.5%	156	37.8%	17	35.2%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_RasGEF,HMMSmart_SM00147,superfamily_Ras GEF,PatternScan_RASGEF
GSTA5	221357	genome.wustl.edu	37	6	52698998	52698998	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153699.1	-1	provisional	p.A119T	0.030	418	0%	461	36.9%	0	-	benign(0.003)	tolerated(0.32)	neutral(0.024)	HMMPfam_GST_C,superfamily_GST_C_like
DAGLB	221955	genome.wustl.edu	37	7	6487453	6487453	+	Silent	SNP	G	G	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139179.3	-1	validated	p.F7	0.998	25	0%	19	31.6%	0	-	-	-	-	NULL
CTTNBP2	83992	genome.wustl.edu	37	7	117364737	117364737	+	Silent	SNP	G	G	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000446636	-1	known	p.H925Y	0.921	74	0%	74	18.9%	2	0%	-	-	-	NULL
PTCH1	5727	genome.wustl.edu	37	9	98231085	98231085	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000264.3	-1	reviewed	p.S733*	0.979	212	0%	186	49.5%	0	-	-	-	-	HMMPfam_Patched
TIMM23	100287932	genome.wustl.edu	37	10	51620376	51620376	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342986.1	-1	model	p.G38V	1.000	298	0%	403	31.3%	13	38.4%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
LRIT1	26103	genome.wustl.edu	37	10	85993904	85993904	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015613.2	-1	validated	p.R274C	1.000	38	0%	73	17.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_IGc2,HMMPfam_ig,superfamily_SSF48726
PTEN	5728	genome.wustl.edu	37	10	89653796	89653798	+	In_Frame_Del	DEL	ATT	ATT	-	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	ATT	ATT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000371953	+1	known	p.I33in_frame_del	1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	HMMSmart_SM00404,superfamily_(Phosphotyrosine protein) phosphatases II
OR8J3	81168	genome.wustl.edu	37	11	55905082	55905082	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004064.1	-1	provisional	p.T38I	0.095	248	0%	249	41.8%	0	-	benign(0.021)	deleterious(0.05)	neutral(0.346)	superfamily_SSF81321
LRRC55	219527	genome.wustl.edu	37	11	56949971	56949971	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005210.2	+1	validated	p.Q202*	1.000	88	0%	68	38.2%	0	-	-	-	-	HMMPfam_LRR_1,HMMSmart_SM00369,superfamily_L domain-like
CTNND1	1500	genome.wustl.edu	37	11	57564253	57564253	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085458.1	+1	validated	p.R249W	1.000	147	0%	194	43.8%	20	45%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
STIP1	10963	genome.wustl.edu	37	11	63971590	63971590	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006819.2	+1	validated	p.I542V	1.000	122	0%	142	46.5%	100	43%	possibly_damaging(0.696)	tolerated(0.5)	neutral(0.260)	NULL
PZP	5858	genome.wustl.edu	37	12	9333602	9333602	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002864.2	-1	validated	p.E606K	0.731	100	0%	121	35.5%	0	-	possibly_damaging(0.571)	deleterious(0.01)	deleterious(0.601)	NULL
TMTC1	83857	genome.wustl.edu	37	12	29911684	29911684	+	Silent	SNP	G	G	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175861.2	-1	provisional	p.D61	0.996	63	0%	67	20.9%	1	0%	-	-	-	NULL
LRP1	4035	genome.wustl.edu	37	12	57589116	57589116	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002332.2	+1	reviewed	p.R2791C	1.000	17	0%	72	47.2%	0	-	probably_damaging(0.99)	tolerated(0.19)	deleterious(0.491)	HMMPfam_Ldl_recept_a,HMMSmart_SM00192,PatternScan_LDLRA_1,superfamily_LDL receptor-like module,superfamily_YWTD domain
MED13L	23389	genome.wustl.edu	37	12	116399194	116399194	+	Silent	SNP	C	C	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015335.3	-1	validated	p.L2170	1.000	105	0%	100	49%	5	40%	-	-	-	NULL
FAM216B	144809	genome.wustl.edu	37	13	43362778	43362778	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182508.2	+1	validated	p.S91*	0.970	213	0%	188	45.7%	35	57.1%	-	-	-	NULL
CAB39L	81617	genome.wustl.edu	37	13	49884970	49884970	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079670.1	-1	validated	p.L332V	1.000	83	0%	140	37.1%	0	-	possibly_damaging(0.949)	deleterious(0)	deleterious(0.838)	HMMPfam_Mo25,superfamily_ARM-type_fold
PCDH17	27253	genome.wustl.edu	37	13	58208384	58208384	+	Silent	SNP	G	G	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040429.2	+1	reviewed	p.T568	0.001	12	0%	32	50%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
MOAP1	64112	genome.wustl.edu	37	14	93650120	93650120	+	Silent	SNP	G	G	C	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022151.4	-1	reviewed	p.A156	0.987	34	0%	74	13.5%	18	5.5%	-	-	-	NULL
C15orf2	23742	genome.wustl.edu	37	15	24923617	24923617	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018958.2	+1	reviewed	p.S868L	0.002	71	0%	122	41%	0	-	benign(0.048)	deleterious(0.02)	neutral(0.386)	NULL
XYLT1	64131	genome.wustl.edu	37	16	17232349	17232349	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022166.3	-1	reviewed	p.D543N	0.998	59	0%	99	36.4%	2	0%	benign(0.018)	tolerated(0.23)	neutral(0.042)	NULL
CTCF	10664	genome.wustl.edu	37	16	67645502	67645506	+	Frame_Shift_Del	DEL	AAATT	AAATT	-	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	AAATT	AAATT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006565.2	+1	reviewed	p.I257fs	1.000:1.000:1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
GLG1	2734	genome.wustl.edu	37	16	74486876	74486876	+	RNA	SNP	C	C	T	rs147323996	by1000genomes	TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_027264.1	-1	validated	NULL	0.418	14	0%	12	41.7%	46	50%	-	-	-	-
RAP1GAP2	23108	genome.wustl.edu	37	17	2867264	2867266	+	In_Frame_Del	DEL	GAG	GAG	-	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	GAG	GAG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015085.4	+1	reviewed	p.E135in_frame_del	1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
TEKT1	83659	genome.wustl.edu	37	17	6718541	6718541	+	Silent	SNP	C	C	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053285.1	-1	reviewed	p.S190	0.557	180	0%	210	39.5%	23	60.8%	-	-	-	HMMPfam_Tektin
DHRS13	147015	genome.wustl.edu	37	17	27225678	27225678	+	Silent	SNP	C	C	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144683.3	-1	validated	p.E305	1.000	11	0%	33	39.4%	10	40%	-	-	-	NULL
CSF3	1440	genome.wustl.edu	37	17	38173151	38173151	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000759.3	+1	reviewed	p.S188C	0.010	34	0%	41	41.5%	1	0%	probably_damaging(0.985)	deleterious(0.01)	deleterious(0.838)	HMMPfam_IL6,HMMSmart_SM00126,superfamily_4-helical cytokines
LOC644253	644253	genome.wustl.edu	37	17	44321680	44321680	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001719157.2	+1	model	p.R180H	0.997	41	0%	108	28.7%	0	-	-	-	-	superfamily_SH3-domain
LOC100289681	100289681	genome.wustl.edu	37	17	73269589	73269589	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343582.1	+1	model	p.R266*	1.000	24	0%	36	36.1%	11	18.1%	-	-	-	NULL
EPB41L3	23136	genome.wustl.edu	37	18	5419890	5419890	+	Silent	SNP	A	A	G	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000400111	-1	known	p.S460	0.999	178	0%	192	44.3%	0	-	-	-	-	NULL
C18orf26	284254	genome.wustl.edu	37	18	52265328	52265328	+	Silent	SNP	C	C	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173629.1	+1	predicted	p.A195	0.000	282	0%	329	36.2%	0	-	-	-	-	NULL
RINL	126432	genome.wustl.edu	37	19	39360003	39360003	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198445.2	-1	provisional	p.H394Y	1.000	12	0%	21	42.9%	0	-	probably_damaging(0.997)	deleterious(0.03)	deleterious(0.831)	HMMPfam_VPS9,superfamily_SSF109993
ZNF525	170958	genome.wustl.edu	37	19	53879562	53879564	+	In_Frame_Del	DEL	ACA	ACA	-	rs72163028	byCluster;by1000genomes	TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	ACA	ACA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000491101	+1	known	p.T106in_frame_del	0.076:0.064:0.063	-	-	-	-	-	-	-	-	-	NULL
UQCC	55245	genome.wustl.edu	37	20	33935061	33935061	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018244.4	-1	reviewed	p.R160L	1.000	374	0%	245	35.5%	11	27.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ubiq_cyt_C_chap
LOC100288309	100288309	genome.wustl.edu	37	22	19163577	19163578	+	Frame_Shift_Ins	INS	-	-	AT	rs35359423	byCluster;by1000genomes	TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344193.1	+1	model	p.R50fs	0.658:0.002	-	-	-	-	-	-	-	-	-	NULL
SEZ6L	23544	genome.wustl.edu	37	22	26747088	26747088	+	Silent	SNP	G	G	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021115.4	+1	validated	p.V826	1.000	59	0%	109	47.7%	10	70%	-	-	-	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
MFNG	4242	genome.wustl.edu	37	22	37876232	37876232	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000450946	-1	known	p.R137Q	0.956	89	0%	75	12%	0	-	unknown(0)	-	-	HMMPfam_Fringe
ENSG00000211459	0	genome.wustl.edu	37	MT	1574	1574	+	RNA	SNP	G	G	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000389680	+1	known	NULL	NULL	97	0%	63	15.9%	78	20.5%	-	-	-	-
ENSG00000198888	0	genome.wustl.edu	37	MT	3982	3982	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000361390	+1	known	p.A226T	NULL	147	0%	122	86.1%	2204	82.4%	possibly_damaging(0.908)	deleterious(0)	deleterious(0.806)	HMMPfam_NADHdh
DDX53	168400	genome.wustl.edu	37	X	23018495	23018495	+	Silent	SNP	G	G	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182699.2	+1	validated	p.A107	0.000	221	0.5%	218	40.4%	0	-	-	-	-	HMMSmart_KH,HMMPfam_KH_1,superfamily_SSF54791
SHROOM4	57477	genome.wustl.edu	37	X	50376992	50376992	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020717.3	-1	reviewed	p.S694F	0.001	66	0%	72	54.2%	0	-	possibly_damaging(0.688)	deleterious(0.01)	deleterious(0.651)	NULL
ZDHHC15	158866	genome.wustl.edu	37	X	74698740	74698740	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144969.2	-1	reviewed	p.Q82K	0.999	177	0%	123	40.7%	0	-	benign(0.002)	tolerated(1)	-	NULL
KLHL4	56062	genome.wustl.edu	37	X	86877347	86877347	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_057162.2	+1	reviewed	p.G354E	0.555	170	0%	192	42.7%	0	-	benign(0.003)	tolerated(0.27)	neutral(0.034)	HMMPfam_BACK
XPNPEP2	7512	genome.wustl.edu	37	X	128876140	128876140	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AX-A05T-01A-11W-A027-09	TCGA-AX-A05T-10A-01W-A027-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003399.5	+1	reviewed	p.C36R	1.000	42	0%	33	48.5%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
