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	27101635	27101635	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006015.4	+1	reviewed	p.T1640fs	1.000	-	-	-	-	-	-	-	-	-	NULL
SYNC	81493	genome.wustl.edu	37	1	33161089	33161089	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030786.2	-1	reviewed	p.R204W	1.000	125	0%	119	19.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MACF1	23499	genome.wustl.edu	37	1	39888202	39888202	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033044.2	+1	reviewed	p.K3765E	1.000	174	0%	179	20.1%	12	16.6%	probably_damaging(0.999)	tolerated(0.12)	deleterious(0.751)	HMMPfam_Spectrin,HMMSmart_SPEC,superfamily_Spectrin
DCST2	127579	genome.wustl.edu	37	1	155003000	155003000	+	Silent	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144622.2	-1	validated	p.H309	0.000	45	0%	52	23.1%	1	0%	-	-	-	NULL
KCNF1	3754	genome.wustl.edu	37	2	11053710	11053710	+	Silent	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002236.4	+1	reviewed	p.N386	0.989	154	0%	157	22.3%	1	0%	-	-	-	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
BIRC6	57448	genome.wustl.edu	37	2	32668621	32668623	+	In_Frame_Del	DEL	ATA	ATA	-	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	ATA	ATA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016252.3	+1	reviewed	p.N1435in_frame_del	1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
EIF2AK2	5610	genome.wustl.edu	37	2	37334649	37334649	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135651.1	-1	validated	p.G501C	0.011	292	0%	338	18%	15	20%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
CCDC85A	114800	genome.wustl.edu	37	2	56419749	56419749	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080433.1	+1	provisional	p.H138Q	1.000	119	0%	145	13.1%	0	-	benign(0.081)	tolerated(0.34)	neutral(0.029)	HMMPfam_DUF2216
WDPCP	51057	genome.wustl.edu	37	2	63380059	63380059	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015910.4	-1	validated	p.G727V	0.000	161	0%	170	18.8%	6	0%	benign(0)	tolerated(0.54)	neutral(0.007)	NULL
GLI2	2736	genome.wustl.edu	37	2	121747809	121747809	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005270.4	+1	reviewed	p.P1440L	0.190	33	0%	35	22.9%	6	0%	benign(0)	tolerated(0.2)	neutral(0.049)	NULL
TTN	7273	genome.wustl.edu	37	2	179535833	179535833	+	Silent	SNP	T	T	C	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000448510	-1	known	p.R122G	1.000	576	0%	650	19.7%	0	-	-	-	-	NULL
KIF1A	547	genome.wustl.edu	37	2	241664738	241664738	+	Silent	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000431776	-1	known	p.R234H	0.056	119	0%	100	18%	0	-	-	-	-	NULL
MON1A	84315	genome.wustl.edu	37	3	49947684	49947684	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032355.3	-1	validated	p.R513H	1.000	70	0%	64	20.3%	23	43.4%	probably_damaging(0.999)	tolerated(0.23)	deleterious(0.532)	HMMPfam_Mon1
ISY1	57461	genome.wustl.edu	37	3	128849474	128849474	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000393292	-1	known	p.R225*	0.621	225	0%	236	14.4%	50	30%	-	-	-	NULL
GPR87	53836	genome.wustl.edu	37	3	151011961	151011961	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023915.3	-1	validated	p.V358A	0.999	218	0%	270	16.7%	10	40%	possibly_damaging(0.941)	deleterious(0)	deleterious(0.831)	NULL
PIK3CA	5290	genome.wustl.edu	37	3	178936094	178936094	+	Missense_Mutation	SNP	C	C	A	rs121913286	byCluster	TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006218.2	+1	reviewed	p.Q546K	1.000	293	0.3%	245	17.6%	3	33.3%	probably_damaging(0.978)	tolerated(0.11)	deleterious(0.692)	HMMPfam_PI3Ka,HMMSmart_PI3Ka,superfamily_ARM-type_fold
HTN1	3346	genome.wustl.edu	37	4	70920042	70920042	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002159.2	+1	validated	p.A19T	0.452	150	0%	145	17.9%	0	-	possibly_damaging(0.507)	deleterious(0)	deleterious(0.614)	NULL
AFP	174	genome.wustl.edu	37	4	74310742	74310742	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134.1	+1	reviewed	p.K249R	0.001	216	0%	227	16.7%	0	-	benign(0.229)	tolerated(0.08)	neutral(0.323)	superfamily_Serum_albumin,HMMPfam_Serum_albumin,HMMSmart_ALBUMIN
IRX1	79192	genome.wustl.edu	37	5	3599605	3599605	+	Silent	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024337.3	+1	validated	p.A181	0.999	201	0%	212	16%	0	-	-	-	-	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like,PatternScan_HOMEOBOX_1
CDH12	1010	genome.wustl.edu	37	5	21783502	21783502	+	Missense_Mutation	SNP	G	G	A	rs143124599	by1000genomes	TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004061.3	-1	reviewed	p.A453V	0.738	434	0%	561	20.3%	2	100%	benign(0.33)	tolerated(0.24)	neutral(0.141)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
FEM1C	56929	genome.wustl.edu	37	5	114860661	114860661	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020177.2	-1	validated	p.G400S	1.000	175	0%	194	17%	4	25%	benign(0.059)	tolerated(0.07)	neutral(0.323)	superfamily_ANK
FAM13B	51306	genome.wustl.edu	37	5	137295364	137295364	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016603.2	-1	validated	p.A461V	0.954	353	0%	415	20%	3	33.3%	benign(0.003)	tolerated(0.5)	neutral(0.010)	NULL
PCDHA5	56143	genome.wustl.edu	37	5	140202747	140202747	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018908.2	+1	reviewed	p.V463M	0.959	84	0%	73	15.1%	2	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,superfamily_Cadherin-like
PCDHGA12	26025	genome.wustl.edu	37	5	140812236	140812236	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003735.2	+1	reviewed	p.A637V	0.527	43	0%	33	24.2%	3	0%	benign(0.044)	deleterious(0.05)	neutral(0.348)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
TJAP1	93643	genome.wustl.edu	37	6	43472676	43472676	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080604.2	+1	reviewed	p.G243R	0.980	75	1.3%	92	28.3%	30	6.6%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
ZNF292	23036	genome.wustl.edu	37	6	87966803	87966806	+	Frame_Shift_Del	DEL	GTTT	GTTT	-	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	GTTT	GTTT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015021.1	+1	validated	p.V1154fs	0.971:0.972:0.967:0.970	-	-	-	-	-	-	-	-	-	NULL
LAMA2	3908	genome.wustl.edu	37	6	129637000	129637000	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000426.3	+1	reviewed	p.R1277*	1.000	204	0%	234	15.4%	3	0%	-	-	-	HMMPfam_Laminin_B,superfamily_ConA_like_lec_gl,HMMSmart_LamB
CDCA7L	55536	genome.wustl.edu	37	7	21947981	21947981	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018719.4	-1	validated	p.T150A	0.993	206	0%	252	19.4%	9	44.4%	possibly_damaging(0.653)	deleterious(0)	deleterious(0.674)	NULL
VPS41	27072	genome.wustl.edu	37	7	38805193	38805193	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014396.3	-1	reviewed	p.I439S	1.000	249	0%	304	24.7%	6	16.6%	possibly_damaging(0.448)	tolerated(0.12)	neutral(0.407)	superfamily_WD40 repeat-like
MUC17	140453	genome.wustl.edu	37	7	100682851	100682851	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040105.1	+1	provisional	p.D2718E	0.000	348	0%	402	18.7%	0	-	probably_damaging(0.973)	-	-	NULL
PRKAG2	51422	genome.wustl.edu	37	7	151262838	151262838	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016203.3	-1	reviewed	p.R456Q	1.000	458	0.2%	522	17.8%	14	35.7%	probably_damaging(0.99)	deleterious(0.04)	deleterious(0.790)	HMMPfam_CBS,HMMSmart_SM00116,superfamily_CBS-domain
ARHGEF10	9639	genome.wustl.edu	37	8	1851639	1851639	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000398560	+1	known	p.L601F	0.000	60	0%	90	18.9%	0	-	benign(0.076)	deleterious(0.03)	neutral(0.370)	NULL
CSMD1	64478	genome.wustl.edu	37	8	2976039	2976039	+	Silent	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033225.5	-1	validated	p.S2105	0.472	312	0%	334	15.6%	0	-	-	-	-	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
PLEKHA2	59339	genome.wustl.edu	37	8	38814898	38814898	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000420274	+1	known	p.Y277*	0.144	236	0%	308	16.9%	7	0%	-	-	-	HMMPfam_PH,HMMSmart_PH,superfamily_SSF50729
RB1CC1	9821	genome.wustl.edu	37	8	53548618	53548618	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014781.4	-1	reviewed	p.H1450R	0.919	229	0%	230	19.1%	16	25%	benign(0.31)	tolerated(0.73)	neutral(0.098)	NULL
ATAD2	29028	genome.wustl.edu	37	8	124361665	124361665	+	Silent	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014109.3	-1	reviewed	p.L556	0.989	266	0%	312	17.9%	3	0%	-	-	-	HMMSmart_SM00382,HMMPfam_AAA,superfamily_P-loop containing nucleoside triphosphate hydrolases
TLE1	7088	genome.wustl.edu	37	9	84202721	84202721	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005077.3	-1	provisional	p.G618R	1.000	153	0%	214	11.7%	70	24.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
FAM75D1	389763	genome.wustl.edu	37	9	84607295	84607295	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001670.2	+1	validated	p.W637S	0.940	569	0%	676	20.4%	0	-	probably_damaging(0.999)	tolerated(0.12)	deleterious(0.751)	NULL
TNFSF8	944	genome.wustl.edu	37	9	117666367	117666367	+	Silent	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001244.2	-1	reviewed	p.T183	0.000	502	0%	585	18.1%	1	0%	-	-	-	HMMPfam_TNF,HMMSmart_SM00207,superfamily_TNF-like
PTEN	5728	genome.wustl.edu	37	10	89692905	89692905	+	Missense_Mutation	SNP	G	G	A	rs121913292		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000371953	+1	known	p.R130Q	1.000	349	0%	423	16.3%	39	25.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DSPc,HMMSmart_SM00404,PatternScan_TYR_PHOSPHATASE_1,superfamily_(Phosphotyrosine protein) phosphatases II
HOGA1	112817	genome.wustl.edu	37	10	99358899	99358899	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138413.3	+1	validated	p.A132T	0.678	56	0%	52	21.2%	0	-	possibly_damaging(0.524)	tolerated(0.23)	neutral(0.218)	HMMPfam_DHDPS,superfamily_Aldolase
BAG3	9531	genome.wustl.edu	37	10	121432134	121432134	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004281.3	+1	reviewed	p.P292L	0.834	63	0%	64	17.2%	26	23%	probably_damaging(0.98)	deleterious(0.01)	deleterious(0.830)	NULL
MKI67	4288	genome.wustl.edu	37	10	129901328	129901329	+	Frame_Shift_Del	DEL	GA	GA	-	rs61729202	byCluster;byFrequency;by1000genomes	TCGA-B5-A11O-01	TCGA-B5-A11O-01	GA	GA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002417.4	-1	reviewed	p.Q2926fs	0.000:0.000	-	-	-	-	-	-	-	-	-	HMMPfam_K167R
NLRP10	338322	genome.wustl.edu	37	11	7982612	7982612	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176821.3	-1	reviewed	p.A183T	0.609	97	0%	125	20%	0	-	benign(0.061)	tolerated(0.2)	neutral(0.053)	HMMPfam_NACHT,superfamily_SSF52540
OR5T2	219464	genome.wustl.edu	37	11	55999828	55999828	+	Silent	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004746.1	-1	provisional	p.S278	0.972	261	0%	295	17.6%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
SSRP1	6749	genome.wustl.edu	37	11	57099206	57099206	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003146.2	-1	reviewed	p.R387G	1.000	209	0%	239	20.1%	136	37.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SSrecog
SYT12	91683	genome.wustl.edu	37	11	66816193	66816193	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177963.3	+1	reviewed	p.P411S	1.000	49	0%	53	20.8%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMSmart_C2,superfamily_C2_CaLB
NUMA1	4926	genome.wustl.edu	37	11	71717131	71717131	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006185.2	-1	validated	p.R1881H	0.999	59	0%	54	14.8%	164	32.3%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
ROBO4	54538	genome.wustl.edu	37	11	124763788	124763788	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019055.5	-1	validated	p.R491H	0.972	54	0%	54	14.8%	5	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
KRAS	3845	genome.wustl.edu	37	12	25398285	25398285	+	Missense_Mutation	SNP	C	C	T	rs121913530	byCluster	TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033360.2	-1	reviewed	p.G12S	1.000	366	0%	417	18%	5	40%	benign(0.022)	deleterious(0.01)	neutral(0.407)	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
GNS	2799	genome.wustl.edu	37	12	65146499	65146499	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002076.3	-1	reviewed	p.M77I	1.000	268	0%	302	15.6%	13	0%	benign(0.075)	deleterious(0)	neutral(0.450)	HMMPfam_Sulfatase,superfamily_Alkaline_phosphatase_core
ATXN2	6311	genome.wustl.edu	37	12	111956118	111956118	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002973.3	-1	reviewed	p.R527I	1.000	170	0%	216	18.1%	12	33.3%	benign(0.378)	deleterious(0)	deleterious(0.565)	NULL
CABP1	9478	genome.wustl.edu	37	12	121093630	121093635	+	In_Frame_Del	DEL	GTGCGT	GTGCGT	-	rs112935060	byCluster;by1000genomes	TCGA-B5-A11O-01	TCGA-B5-A11O-01	GTGCGT	GTGCGT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000453000	+1	known	p.AC7in_frame_del	0.940:0.982:0.991:0.991:0.991:0.982	-	-	-	-	-	-	-	-	-	NULL
DHX37	57647	genome.wustl.edu	37	12	125438646	125438646	+	Silent	SNP	G	G	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032656.2	-1	reviewed	p.L855	0.999	49	0%	40	10%	16	6.2%	-	-	-	HMMPfam_HA2
CDH24	64403	genome.wustl.edu	37	14	23523873	23523873	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022478.3	-1	validated	p.R209H	1.000	143	0%	137	13.9%	5	20%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
MYH6	4624	genome.wustl.edu	37	14	23866243	23866243	+	Silent	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002471.3	-1	validated	p.G699	0.877	129	0.8%	149	15.4%	0	-	-	-	-	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
MAX	4149	genome.wustl.edu	37	14	65560514	65560514	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002382.3	-1	reviewed	p.H28R	1.000	387	0%	429	18.9%	55	32.7%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_HLH,superfamily_HLH helix-loop-helix DNA-binding domain
TTC7B	145567	genome.wustl.edu	37	14	91155977	91155977	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010854.1	-1	provisional	p.P286L	0.999	322	0%	314	15.6%	5	40%	benign(0.004)	deleterious(0.01)	neutral(0.406)	superfamily_TPR-like
ADPGK	83440	genome.wustl.edu	37	15	73067393	73067393	+	Silent	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031284.4	-1	validated	p.L93	1.000	103	0%	119	11.8%	4	50%	-	-	-	HMMPfam_ADP_PFK_GK,superfamily_SSF53613
POLG	5428	genome.wustl.edu	37	15	89876722	89876722	+	Silent	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001126131.1	-1	reviewed	p.F88	1.000	35	0%	26	19.2%	3	66.6%	-	-	-	NULL
GNPTG	84572	genome.wustl.edu	37	16	1411762	1411762	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032520.4	+1	reviewed	p.R66Q	0.220	95	0%	118	21.2%	63	33.3%	probably_damaging(0.993)	deleterious(0.03)	deleterious(0.815)	superfamily_Mannose 6-phosphate receptor domain
IL27	246778	genome.wustl.edu	37	16	28511049	28511049	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145659.3	-1	reviewed	p.R219W	0.818	85	0%	78	15.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SH2B1	25970	genome.wustl.edu	37	16	28880671	28880671	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015503.2	+1	reviewed	p.G426*	1.000	57	0%	36	11.1%	51	0%	-	-	-	NULL
GPS2	2874	genome.wustl.edu	37	17	7218281	7218281	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004489.4	-1	reviewed	p.Q31*	1.000	19	0%	26	19.2%	43	18.6%	-	-	-	NULL
GLP2R	9340	genome.wustl.edu	37	17	9760756	9760756	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004246.1	+1	reviewed	p.R210C	0.991	283	0%	334	15.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_2
C17orf101	79701	genome.wustl.edu	37	17	80369395	80369395	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175902.4	-1	validated	p.R106*	0.998	46	0%	39	15.4%	14	0%	-	-	-	NULL
TSHZ3	57616	genome.wustl.edu	37	19	31770068	31770068	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020856.2	-1	validated	p.A211T	1.000	66	0%	93	12.9%	7	0%	possibly_damaging(0.604)	deleterious(0)	deleterious(0.654)	NULL
ZNF229	7772	genome.wustl.edu	37	19	44933147	44933147	+	Silent	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014518.2	-1	validated	p.D603	0.000	113	0%	125	20.8%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
PFKL	5211	genome.wustl.edu	37	21	45746069	45746069	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002626.4	+1	reviewed	p.S706L	0.999	61	0%	53	18.9%	292	39%	possibly_damaging(0.891)	deleterious(0.03)	deleterious(0.715)	superfamily_Phosphofructokinase
C22orf42	150297	genome.wustl.edu	37	22	32545582	32545582	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010859.1	-1	provisional	p.R234Q	0.113	91	0%	105	19%	0	-	unknown(0)	-	-	NULL
ENSG00000211459	0	genome.wustl.edu	37	MT	786	786	+	RNA	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000389680	+1	known	NULL	NULL	414	0.2%	296	66.6%	2192	77.8%	-	-	-	-
CXorf67	340602	genome.wustl.edu	37	X	51149941	51149941	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B5-A11O-01	TCGA-B5-A11O-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000342995	+1	known	p.E25K	0.000	100	0%	106	20.8%	0	-	benign(0)	tolerated(0.38)	neutral(0.018)	NULL
