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
MACF1	23499	genome.wustl.edu	37	1	39799147	39799147	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033044.2	+1	reviewed	p.G736A	1.000	184	0%	179	22.9%	0	-	probably_damaging(0.983)	-	-	HMMPfam_Plectin,HMMSmart_PLEC
CD5L	922	genome.wustl.edu	37	1	157805895	157805895	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005894.2	-1	validated	p.R36W	0.912	79	0%	102	27.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SRCR,PatternScan_SRCR_1,HMMSmart_SM00202,superfamily_SRCR-like
SPTA1	6708	genome.wustl.edu	37	1	158581138	158581138	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003126.2	-1	reviewed	p.M2392I	1.000	283	0%	257	25.7%	0	-	benign(0.081)	deleterious(0)	neutral(0.451)	HMMPfam_efhand_Ca_insen,superfamily_EF-hand
NFASC	23114	genome.wustl.edu	37	1	204938040	204938040	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000367173	+1	known	p.P281L	0.131	32	0%	39	20.5%	1	0%	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
SOS1	6654	genome.wustl.edu	37	2	39281778	39281778	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005633.3	-1	reviewed	p.N233Y	1.000	101	0%	75	26.7%	0	-	possibly_damaging(0.647)	tolerated(0.27)	neutral(0.261)	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
PSME4	23198	genome.wustl.edu	37	2	54152812	54152812	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014614.2	-1	validated	p.I558T	1.000	146	0%	130	30%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
SLC9A2	6549	genome.wustl.edu	37	2	103321076	103321076	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003048.3	+1	validated	p.R640Q	0.983	236	0%	211	30.3%	0	-	probably_damaging(0.995)	deleterious(0.03)	deleterious(0.822)	NULL
ARHGEF4	50649	genome.wustl.edu	37	2	131785553	131785553	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015320.2	+1	reviewed	p.A155T	0.000	27	0%	38	36.8%	0	-	benign(0.001)	tolerated(0.15)	neutral(0.241)	NULL
PLA2R1	22925	genome.wustl.edu	37	2	160804059	160804059	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007366.3	-1	validated	p.S1241P	0.000	205	0%	163	33.7%	3	33.3%	benign(0.143)	tolerated(0.28)	neutral(0.044)	NULL
CTNNB1	1499	genome.wustl.edu	37	3	41266113	41266113	+	Missense_Mutation	SNP	C	C	G	rs121913403	byCluster	TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098209.1	+1	reviewed	p.S37C	1.000	80	0%	79	32.9%	34	17.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PIK3CA	5290	genome.wustl.edu	37	3	178936095	178936095	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006218.2	+1	reviewed	p.Q546P	1.000	83	0%	60	31.7%	0	-	probably_damaging(0.999)	tolerated(0.05)	deleterious(0.836)	HMMPfam_PI3Ka,HMMSmart_PI3Ka,superfamily_ARM-type_fold
CLDN16	10686	genome.wustl.edu	37	3	190127745	190127745	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006580.3	+1	reviewed	p.A280T	0.000	94	0%	92	23.9%	0	-	benign(0)	tolerated(0.1)	neutral(0.286)	NULL
MUC4	4585	genome.wustl.edu	37	3	195512480	195512480	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018406.5	-1	reviewed	p.S1991P	0.061	9	0.000	7	0.571	4	0%	possibly_damaging(0.675)	-	-	NULL
SLC6A18	348932	genome.wustl.edu	37	5	1239640	1239640	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182632.2	+1	validated	p.G270R	1.000	63	0%	56	25%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SNF
PCDHA6	56142	genome.wustl.edu	37	5	140209500	140209500	+	Silent	SNP	G	G	C	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018909.2	+1	reviewed	p.S608	0.087	49	0%	62	19.4%	6	100%	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
ZFP57	346171	genome.wustl.edu	37	6	29640604	29640604	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001109809.2	-1	reviewed	p.V408	0.000	230	0%	247	30.4%	2	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZBTB22	9278	genome.wustl.edu	37	6	33283317	33283317	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145338.1	-1	validated	p.T459	0.000	114	0%	144	23.6%	24	37.5%	-	-	-	NULL
GIMAP1	170575	genome.wustl.edu	37	7	150417390	150417393	+	Frame_Shift_Del	DEL	GAGA	GAGA	-	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	GAGA	GAGA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130759.2	+1	reviewed	p.R101fs	0.001:0.000:0.000:0.000	-	-	-	-	-	-	-	-	-	HMMPfam_AIG1,superfamily_P-loop containing nucleoside triphosphate hydrolases
LOC100289453	100289453	genome.wustl.edu	37	8	42038127	42038127	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342832.1	+1	model	p.V75M	0.889	94	0%	109	33.9%	13	38.4%	-	-	-	NULL
PKHD1L1	93035	genome.wustl.edu	37	8	110456917	110456917	+	Missense_Mutation	SNP	G	G	C	rs73700891	byCluster;by1000genomes	TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177531.4	+1	validated	p.V1607L	0.980	336	0%	286	32.5%	0	-	benign(0.278)	tolerated(0.07)	neutral(0.349)	HMMPfam_TIG,HMMSmart_SM00429,superfamily_E set domains
TLN1	7094	genome.wustl.edu	37	9	35724067	35724067	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006289.3	-1	reviewed	p.D222N	1.000	230	0%	284	22.2%	4	0%	benign(0.044)	tolerated(0.27)	neutral(0.036)	HMMPfam_FERM_M,superfamily_FERM_3-hlx,HMMSmart_B41
PTEN	5728	genome.wustl.edu	37	10	89692903	89692903	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000371953	+1	known	p.R130fs	1.000	-	-	-	-	-	-	-	-	-	HMMPfam_DSPc,HMMSmart_SM00404,PatternScan_TYR_PHOSPHATASE_1,superfamily_(Phosphotyrosine protein) phosphatases II
PTEN	5728	genome.wustl.edu	37	10	89692905	89692905	+	Missense_Mutation	SNP	G	G	C	rs121913292		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000371953	+1	known	p.R130P	1.000	381	0%	355	59.4%	7	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DSPc,HMMSmart_SM00404,PatternScan_TYR_PHOSPHATASE_1,superfamily_(Phosphotyrosine protein) phosphatases II
LZTS2	84445	genome.wustl.edu	37	10	102763640	102763640	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032429.1	+1	provisional	p.R262Q	1.000	19	0%	23	21.7%	29	34.4%	possibly_damaging(0.644)	tolerated(0.44)	neutral(0.238)	NULL
MUC5B	727897	genome.wustl.edu	37	11	1269159	1269159	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002458.1	+1	validated	p.P3686	0.001	36	0%	43	25.6%	18	66.6%	-	-	-	NULL
OR51Q1	390061	genome.wustl.edu	37	11	5443939	5443939	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004757.2	+1	validated	p.F170S	1.000	474	0%	542	30.3%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_7tm_1,superfamily_SSF81321
OR8G5	219865	genome.wustl.edu	37	11	124135564	124135564	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005198.1	+1	provisional	p.S281L	0.000	272	0%	304	32.9%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
TMEM45B	120224	genome.wustl.edu	37	11	129722531	129722531	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138788.3	+1	provisional	p.I52V	0.000	246	0%	212	30.2%	17	64.7%	benign(0)	tolerated(1)	-	NULL
ZNF384	171017	genome.wustl.edu	37	12	6777070	6777072	+	In_Frame_Del	DEL	TGC	TGC	-	rs3835029	byCluster;by1000genomes	TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	TGC	TGC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135734.1	-1	reviewed	p.Q516in_frame_del	0.291:0.350:0.379	-	-	-	-	-	-	-	-	-	NULL
AICDA	57379	genome.wustl.edu	37	12	8757952	8757952	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020661.2	-1	reviewed	p.D96Y	0.979	82	0%	93	25.8%	0	-	benign(0.029)	deleterious(0.01)	neutral(0.407)	HMMPfam_APOBEC_N,superfamily_Cytidine deaminase-like
RECQL	5965	genome.wustl.edu	37	12	21628401	21628401	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002907.3	-1	reviewed	e9+1	1.000	157	0%	102	25.5%	0	-	-	-	-	-
IFT43	112752	genome.wustl.edu	37	14	76488697	76488697	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052873.2	+1	validated	p.R59*	0.011	369	0.3%	337	25.5%	101	5.9%	-	-	-	NULL
TJP1	7082	genome.wustl.edu	37	15	30012741	30012741	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003257.3	-1	validated	p.L862F	1.000	145	0%	147	31.3%	5	40%	probably_damaging(0.996)	deleterious(0.03)	deleterious(0.826)	NULL
LRRK1	79705	genome.wustl.edu	37	15	101566296	101566296	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024652.3	+1	validated	p.G787S	0.997	74	0%	53	32.1%	3	33.3%	probably_damaging(1)	tolerated(0.37)	deleterious(0.519)	superfamily_P-loop containing nucleoside triphosphate hydrolases
DECR2	26063	genome.wustl.edu	37	16	455003	455003	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020664.3	+1	validated	p.R43Q	1.000	37	0%	39	17.9%	18	16.6%	probably_damaging(1)	tolerated(0.23)	deleterious(0.541)	HMMPfam_adh_short,superfamily_NAD(P)-binding Rossmann-fold domains
CCDC135	84229	genome.wustl.edu	37	16	57758674	57758674	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032269.5	+1	validated	p.R562H	1.000	11	0%	16	25%	41	46.3%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
CNGB1	1258	genome.wustl.edu	37	16	57921936	57921936	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001297.4	-1	reviewed	p.S1095R	0.536	78	0%	86	19.8%	0	-	possibly_damaging(0.903)	tolerated(0.08)	deleterious(0.658)	NULL
EXOC3L1	283849	genome.wustl.edu	37	16	67218865	67218865	+	Silent	SNP	G	G	T	rs143965297	by1000genomes	TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178516.3	-1	validated	p.T615	0.839	2	0.000	7	0.571	3	66.6%	-	-	-	HMMPfam_Sec6
CTU2	348180	genome.wustl.edu	37	16	88780635	88780640	+	Frame_Shift_Del	DEL	GGTGTG	GGTGTG	-	rs141121047	byCluster;by1000genomes	TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	GGTGTG	GGTGTG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012759.1	+1	validated	p.T367fs	1.000	-	-	-	-	-	-	-	-	-	HMMPfam_DUF2392,superfamily_Adenine nucleotide alpha hydrolases-like
DNAH9	1770	genome.wustl.edu	37	17	11757668	11757668	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001372.3	+1	reviewed	p.R3286C	1.000	186	0%	198	26.3%	4	75%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
FAM59A	64762	genome.wustl.edu	37	18	29848108	29848108	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022751.1	-1	provisional	p.P785L	0.935	72	0%	70	27.1%	2	50%	probably_damaging(0.98)	tolerated(0.08)	deleterious(0.724)	NULL
B3GNT3	10331	genome.wustl.edu	37	19	17922419	17922419	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014256.3	+1	reviewed	p.A203T	0.996	38	0%	27	29.6%	4	75%	benign(0.006)	tolerated(0.2)	neutral(0.049)	HMMPfam_Galactosyl_T
ADNP	23394	genome.wustl.edu	37	20	49510055	49510056	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015339.2	-1	reviewed	p.A399fs	0.930:0.930	-	-	-	-	-	-	-	-	-	NULL
USP25	29761	genome.wustl.edu	37	21	17202857	17202857	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000453553	+1	known	p.R96K	1.000	141	0%	130	30%	5	40%	-	-	-	superfamily_Cysteine proteinases
PFKL	5211	genome.wustl.edu	37	21	45746762	45746762	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_024108.1	+1	reviewed	NULL	0.000	1	0.000	4	1.000	301	45.8%	-	-	-	-
CYBB	1536	genome.wustl.edu	37	X	37660563	37660563	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000397.3	+1	reviewed	p.R287W	0.995	543	0%	418	10.3%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Riboflavin synthase domain-like
RPS6KA6	27330	genome.wustl.edu	37	X	83362040	83362040	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014496.4	-1	reviewed	p.G374S	1.000	158	0%	107	27.1%	0	-	possibly_damaging(0.948)	tolerated(0.06)	deleterious(0.714)	HMMSmart_SM00133,HMMPfam_Pkinase_C
FRMPD3	84443	genome.wustl.edu	37	X	106844948	106844948	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_042978.6	+1	model	p.R1260C	0.989	121	0%	134	23.9%	0	-	probably_damaging(0.985)	deleterious(0)	deleterious(0.877)	NULL
MTMR1	8776	genome.wustl.edu	37	X	149901034	149901034	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LJ-01A-11W-A062-09	TCGA-AP-A0LJ-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003828.2	+1	reviewed	p.P296	0.599	143	0%	149	24.8%	0	-	-	-	-	HMMPfam_Myotub-related,superfamily_(Phosphotyrosine protein) phosphatases II
