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
MTOR	2475	genome.wustl.edu	37	1	11168338	11168338	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_004958.3	-1	reviewed	p.D2512Y	1.000	155	0%	73	53.4%	21	52.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ARID1A	8289	genome.wustl.edu	37	1	27105586	27105586	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_006015.4	+1	reviewed	p.E1733*	1.000	130	0%	151	41.1%	4	0%	-	-	-	NULL
PTGER3	5733	genome.wustl.edu	37	1	71478027	71478027	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_198718.1	-1	reviewed	p.Y346	1.000	175	0%	53	43.4%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
CELSR2	1952	genome.wustl.edu	37	1	109795808	109795808	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_001408.2	+1	reviewed	p.N1036S	1.000	59	0%	24	37.5%	0	-	probably_damaging(0.971)	tolerated(0.07)	deleterious(0.732)	superfamily_Cadherin
SMG5	23381	genome.wustl.edu	37	1	156220438	156220438	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	ENST00000420555	-1	known	p.R119C	0.501	151	0%	127	26.8%	8	12.5%	-	-	-	NULL
LRRC71	149499	genome.wustl.edu	37	1	156899090	156899090	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_144702.2	+1	validated	p.G339R	0.021	187	0%	260	76.9%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	superfamily_RNI-like
ATP1A2	477	genome.wustl.edu	37	1	160105033	160105033	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_000702.3	+1	reviewed	p.A688V	1.000	129	0%	102	22.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Hydrolase,superfamily_SSF56784,superfamily_SSF81665
KLHL12	59349	genome.wustl.edu	37	1	202887421	202887421	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_021633.2	-1	provisional	p.D149H	1.000	247	0%	302	22.8%	5	0%	benign(0.057)	deleterious(0)	neutral(0.448)	HMMPfam_BACK
SH3BP5L	80851	genome.wustl.edu	37	1	249110822	249110822	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_030645.1	-1	provisional	p.A96T	0.990	156	0%	174	66.1%	2	100%	benign(0.002)	tolerated(0.8)	neutral(0.001)	HMMPfam_SH3BP5
SMC6	79677	genome.wustl.edu	37	2	17860182	17860182	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_001142286.1	-1	validated	p.R952W	0.984	113	0%	48	39.6%	11	18.1%	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	HMMPfam_SMC_N,superfamily_P-loop containing nucleoside triphosphate hydrolases
WDFY1	57590	genome.wustl.edu	37	2	224760304	224760304	+	Silent	SNP	G	G	C	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_020830.3	-1	reviewed	p.L214	1.000	168	0%	31	41.9%	2	50%	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like,PatternScan_WD_REPEATS_1,HMMPfam_WD40
ASB18	401036	genome.wustl.edu	37	2	237150058	237150058	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	ENST00000330842	-1	known	p.A36S	0.952	107	0%	95	53.7%	0	-	benign(0.277)	tolerated(0.14)	neutral(0.279)	superfamily_ANK
CSRNP1	64651	genome.wustl.edu	37	3	39185717	39185717	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_033027.3	-1	reviewed	p.R231C	1.000	76	0%	18	55.6%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CTNNB1	1499	genome.wustl.edu	37	3	41266103	41266103	+	Missense_Mutation	SNP	G	G	C	rs121913399		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_001098209.1	+1	reviewed	p.G34R	1.000	99	0%	49	49%	19	36.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ZNF148	7707	genome.wustl.edu	37	3	124998005	124998005	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_021964.2	-1	validated	p.T182	1.000	202	0%	95	45.3%	0	-	benign(0.023)	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
FXR1	8087	genome.wustl.edu	37	3	180652940	180652940	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_005087.2	+1	reviewed	p.R40H	1.000	137	0%	141	44.7%	3	33.3%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
TACC3	10460	genome.wustl.edu	37	4	1729765	1729800	+	In_Frame_Del	DEL	CAAAGCGGAGACTCCGCACGGAGCCGAGGAAGAATG	CAAAGCGGAGACTCCGCACGGAGCCGAGGAAGAATG	-	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	CAAAGCGGAGACTCCGCACGGAGCCGAGGAAGAATG	CAAAGCGGAGACTCCGCACGGAGCCGAGGAAGAATG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_006342.1	+1	reviewed	p.TPHGAEEECKAE216in_frame_del	0.000:0.000:0.000:0.000:0.000:0.000:0.000:0.004:0.002:0.000:0.000:0.000:0.000:0.001:0.004:0.000:0.000:0.000:0.000:0.000:0.000:0.000:0.000:0.000:0.000:0.000:0.000:0.000:0.000:0.000:0.001:0.003:0.004:0.011:0.013:0.014	-	-	-	-	-	-	-	-	-	NULL
ZFYVE28	57732	genome.wustl.edu	37	4	2321970	2321970	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_020972.2	-1	validated	p.L244M	0.977	100	0%	49	40.8%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CCDC158	339965	genome.wustl.edu	37	4	77234349	77234349	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_001042784.1	-1	validated	p.D1106N	1.000	483	0%	513	43.1%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	NULL
HPSE	10855	genome.wustl.edu	37	4	84231997	84231997	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_001098540.1	-1	validated	p.S240	0.524	199	0%	143	40.6%	0	-	-	-	-	HMMPfam_Glyco_hydro_79n,superfamily_(Trans)glycosidases
FBXO8	26269	genome.wustl.edu	37	4	175158646	175158646	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_012180.2	-1	reviewed	p.R293C	1.000	218	0%	88	34.1%	6	66.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Sec7,HMMSmart_SM00222,superfamily_Sec7 domain
FBN2	2201	genome.wustl.edu	37	5	127685143	127685143	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_001999.3	-1	reviewed	p.F962S	1.000	140	0%	51	39.2%	0	-	probably_damaging(1)	tolerated(0.26)	deleterious(0.534)	HMMSmart_SM00179,superfamily_TB module/8-cys domain,HMMSmart_SM00181,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_EGF_CA,PatternScan_EGF_CA
SGK1	6446	genome.wustl.edu	37	6	134491990	134491992	+	In_Frame_Del	DEL	TCT	TCT	-	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	TCT	TCT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_001143676.1	-1	reviewed	p.K462in_frame_del	1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	HMMSmart_S_TK_X,superfamily_Kinase_like
GPR31	2853	genome.wustl.edu	37	6	167570740	167570740	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_005299.2	-1	validated	p.V194M	0.827	43	0%	21	38.1%	0	-	possibly_damaging(0.952)	tolerated(0.06)	deleterious(0.718)	HMMPfam_7tm_1,superfamily_SSF81321
WBSCR17	64409	genome.wustl.edu	37	7	70853279	70853279	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_022479.1	+1	reviewed	p.V161M	1.000	209	0%	79	46.8%	0	-	possibly_damaging(0.76)	tolerated(0.22)	neutral(0.323)	HMMPfam_Glycos_transf_2,superfamily_Nucleotide-diphospho-sugar transferases
TECPR1	25851	genome.wustl.edu	37	7	97847352	97847352	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_015395.1	-1	provisional	p.N1054D	0.998	49	0%	17	58.8%	2	0%	probably_damaging(1)	tolerated(0.13)	deleterious(0.752)	HMMPfam_Hyd_WA,HMMSmart_SM00706
MTUS1	57509	genome.wustl.edu	37	8	17507462	17507462	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_001001924.2	-1	reviewed	p.Q1132*	1.000	298	0%	228	43%	3	33.3%	-	-	-	NULL
INTS9	55756	genome.wustl.edu	37	8	28716966	28716966	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_018250.3	-1	reviewed	p.P42S	1.000	247	0%	73	41.1%	5	60%	benign(0.119)	tolerated(0.18)	neutral(0.066)	NULL
PXDNL	137902	genome.wustl.edu	37	8	52321076	52321076	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_144651.4	-1	validated	p.Y1036*	0.937	56	0%	49	53.1%	1	0%	-	-	-	HMMPfam_An_peroxidase,superfamily_Heme-dependent peroxidases
TRAPPC9	83696	genome.wustl.edu	37	8	141460985	141460985	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_031466.5	-1	reviewed	p.R261H	1.000	74	0%	21	19%	3	66.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CSTF3	1479	genome.wustl.edu	37	11	33123811	33123811	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_001326.2	-1	reviewed	p.A246	0.997	319	0%	191	42.4%	0	-	-	-	-	HMMSmart_SM00386,superfamily_TPR-like
DLG2	1740	genome.wustl.edu	37	11	84865696	84865696	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_001142699.1	-1	reviewed	e3-1	0.941	262	0%	161	41.6%	0	-	-	-	-	-
OR6C1	390321	genome.wustl.edu	37	12	55715014	55715014	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_001005182.1	+1	provisional	p.L211	0.078	206	0%	70	61.4%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
RBMS2	5939	genome.wustl.edu	37	12	56982115	56982115	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_002898.3	+1	reviewed	p.I367T	1.000	247	0%	181	38.1%	7	0%	benign(0.184)	deleterious(0.01)	neutral(0.423)	NULL
MED13L	23389	genome.wustl.edu	37	12	116424926	116424926	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_015335.3	-1	validated	p.R1368W	0.998	167	0%	45	46.7%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_TRAP_240kDa
KIAA0564	23078	genome.wustl.edu	37	13	42273317	42273317	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_015058.1	-1	validated	p.D1152Y	1.000	144	0%	43	44.2%	0	-	probably_damaging(0.992)	deleterious(0.01)	deleterious(0.853)	NULL
IPO5	3843	genome.wustl.edu	37	13	98669039	98669039	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	ENST00000469360	+1	known	p.S852L	1.000	250	0%	150	41.3%	17	76.4%	-	-	-	superfamily_ARM repeat
OR4K14	122740	genome.wustl.edu	37	14	20482811	20482811	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_001004712.1	-1	provisional	p.D181G	0.996	158	0%	73	47.9%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_7tm_1,superfamily_SSF81321
ATG14	22863	genome.wustl.edu	37	14	55844731	55844731	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_014924.3	-1	provisional	p.A353T	1.000	198	0%	186	91.9%	1	100%	benign(0.002)	tolerated(1)	-	HMMPfam_DUF2355
SKOR1	390598	genome.wustl.edu	37	15	68118468	68118468	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_001031807.1	+1	provisional	p.A92V	1.000	75	0%	28	60.7%	0	-	benign(0.135)	deleterious(0.01)	neutral(0.417)	HMMPfam_Ski_Sno,superfamily_Putativ_DNA_bind
TNP2	7142	genome.wustl.edu	37	16	11362819	11362819	+	Missense_Mutation	SNP	G	G	T	rs34904070	byCluster;by1000genomes	TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_005425.4	-1	validated	p.R101S	0.025	571	0%	322	47.8%	0	-	benign(0)	tolerated(1)	-	HMMPfam_TP2
SMG1	23049	genome.wustl.edu	37	16	18841330	18841346	+	Frame_Shift_Del	DEL	TAGCACCTGCCGGTGAT	TAGCACCTGCCGGTGAT	-	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	TAGCACCTGCCGGTGAT	TAGCACCTGCCGGTGAT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_015092.4	-1	reviewed	p.N3012fs	0.998:1.000:0.997:0.998:1.000:1.000:0.970:1.000:1.000:0.993:1.000:1.000:1.000:1.000:1.000:0.959:0.997	-	-	-	-	-	-	-	-	-	NULL
CTCF	10664	genome.wustl.edu	37	16	67670599	67670600	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_006565.2	+1	reviewed	p.E616fs	1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
NFATC3	4775	genome.wustl.edu	37	16	68156199	68156199	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_173165.1	+1	reviewed	p.R138Q	1.000	97	0%	99	48.5%	0	-	possibly_damaging(0.756)	tolerated(0.25)	neutral(0.316)	NULL
NETO1	81832	genome.wustl.edu	37	18	70461478	70461478	+	Silent	SNP	C	C	T	rs191705126	by1000genomes	TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_138966.2	-1	reviewed	p.A171	0.481	126	0%	63	38.1%	0	-	-	-	-	superfamily_Spermadhesin CUB domain
KLK7	5650	genome.wustl.edu	37	19	51483588	51483588	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_005046.2	-1	reviewed	p.S126F	0.000	260	0%	60	43.3%	0	-	benign(0)	deleterious(0.02)	neutral(0.383)	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases
SIGLEC14	100049587	genome.wustl.edu	37	19	52149062	52149062	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_001098612.1	-1	validated	p.E225K	0.641	284	0%	90	54.4%	0	-	benign(0.056)	tolerated(0.16)	neutral(0.063)	superfamily_SSF48726
XRN2	22803	genome.wustl.edu	37	20	21324732	21324732	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_012255.3	+1	reviewed	p.P472L	1.000	133	0%	54	55.6%	4	25%	benign(0.013)	tolerated(0.29)	neutral(0.030)	NULL
MYO18B	84700	genome.wustl.edu	37	22	26164432	26164432	+	Silent	SNP	C	C	T	rs41281573	byFrequency;by1000genomes	TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_032608.5	+1	reviewed	p.P183	0.006	42	0%	27	59.3%	0	-	-	-	-	NULL
ENSG00000210082	0	genome.wustl.edu	37	MT	2408	2408	+	RNA	SNP	T	T	C	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	ENST00000387347	+1	known	NULL	NULL	116	0%	51	98%	8009	96%	-	-	-	-
GK	2710	genome.wustl.edu	37	X	30739106	30739106	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_001128127.1	+1	reviewed	p.A493T	0.975	138	0%	47	53.2%	6	16.6%	benign(0)	tolerated(0.11)	neutral(0.272)	HMMPfam_FGGY_C,superfamily_SSF53067
BCOR	54880	genome.wustl.edu	37	X	39921444	39921444	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_001123385.1	-1	reviewed	p.N1459S	1.000	141	0%	67	53.7%	4	75%	probably_damaging(0.985)	deleterious(0)	deleterious(0.877)	superfamily_Ankyrin repeat
ATP2B3	492	genome.wustl.edu	37	X	152845458	152845458	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LL-01A-12D-A127-09	TCGA-AP-A0LL-10A-01D-A10B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	0385961e-ea99-40b2-ad79-6872bc30d8a1	ea5ee522-cab3-4f66-9e55-ae5c1a1a6e0f	NM_001001344.2	+1	reviewed	p.R1122H	1.000	74	0%	48	43.8%	0	-	benign(0.015)	tolerated(0.09)	neutral(0.297)	NULL
