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	chromosome_name_WU	start_WU	stop_WU	reference_WU	variant_WU	type_WU	gene_name_WU	transcript_name_WU	transcript_species_WU	transcript_source_WU	transcript_version_WU	strand_WU	transcript_status_WU	trv_type_WU	c_position_WU	amino_acid_change_WU	ucsc_cons_WU	domain_WU	all_domains_WU	deletion_substructures_WU	annotation_errors_WU
ALPK2	115701	genome.wustl.edu	37	18	56203486	56203486	+	Missense_Mutation	SNP	T	T	A	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	18	56203486	56203486	T	A	SNP	ALPK2	NM_052947	human	genbank	57_37b	-1	validated	missense	c.3933	p.R1311S	0.002	NULL	superfamily_Immunoglobulin,HMMPfam_I-set,HMMSmart_SM00409,HMMSmart_SM00408,HMMPfam_ig,superfamily_Protein kinase-like (PK-like),HMMSmart_SM00811,HMMPfam_Alpha_kinase	-	no_errors
C12orf64	283310	genome.wustl.edu	37	12	80750196	80750196	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	80750196	80750196	G	T	SNP	C12orf64	XM_002343203	human	genbank	57_37b	+1	model	missense	c.5498	p.G1833V	0.982	NULL	HMMSmart_SM00216,HMMPfam_VWD,HMMPfam_C8,superfamily_Serine proterase inhibitors,HMMSmart_SM00215,superfamily_AbfB domain (Pfam 05270),HMMSmart_SM00041	-	no_errors
CWF19L2	143884	genome.wustl.edu	37	11	107300004	107300005	+	Frame_Shift_Ins	INS	-	-	T	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	107300004	107300005	-	T	INS	CWF19L2	NM_152434	human	genbank	57_37b	-1	validated	frame_shift_ins	c.954_953	p.Y318fs	0.000:0.057	NULL	HMMPfam_CwfJ_C_1,HMMPfam_CwfJ_C_2	-	no_errors
ERBB3	2065	genome.wustl.edu	37	12	56479001	56479001	+	Nonsense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	56479001	56479001	C	T	SNP	ERBB3	NM_001005915	human	genbank	57_37b	+1	reviewed	nonsense	c.457	p.Q153*	0.299	HMMPfam_Recep_L_domain	superfamily_SSF52058,HMMPfam_Recep_L_domain	-	no_errors
FAM47C	442444	genome.wustl.edu	37	X	37027942	37027942	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	37027942	37027942	C	T	SNP	FAM47C	NM_001013736	human	genbank	57_37b	+1	provisional	missense	c.1459	p.R487C	0.001	NULL	NULL	-	no_errors
FCRL5	83416	genome.wustl.edu	37	1	157485504	157485504	+	Silent	SNP	G	G	A	rs115493285	byCluster;by1000genomes	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	157485504	157485504	G	A	SNP	FCRL5	NM_031281	human	genbank	57_37b	-1	validated	silent	c.2895	p.S965	0.000	NULL	superfamily_Immunoglobulin,HMMSmart_SM00409,HMMSmart_SM00408,HMMPfam_ig	-	
FLRT2	23768	genome.wustl.edu	37	14	86089046	86089046	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	86089046	86089046	G	A	SNP	FLRT2	NM_013231	human	genbank	57_37b	+1	reviewed	silent	c.1188	p.T396	0.000	NULL	superfamily_SSF52058,HMMPfam_LRRNT,HMMSmart_LRRNT,HMMPfam_LRR_1,HMMSmart_LRR_TYP,HMMSmart_LRRCT,HMMPfam_LRRCT,HMMPfam_fn3,HMMSmart_FN3,superfamily_FN_III-like	-	no_errors
GATA3	2625	genome.wustl.edu	37	10	8111433	8111434	+	Splice_Site	DEL	CA	CA	-	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	CA	CA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	10	8111433	8111434	CA	-	DEL	GATA3	NM_001002295	human	genbank	57_37b	+1	reviewed	splice_site_del	c.925-3_925-2	e4-2	1.000:1.000	-	-	(deletion:intron[8106102,8111435])	no_errors
GRIA1	2890	genome.wustl.edu	37	5	153056565	153056565	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	153056565	153056565	G	A	SNP	GRIA1	NM_000827	human	genbank	57_37b	+1	reviewed	silent	c.873	p.A291	0.889	superfamily_Periplasmic binding protein-like I,HMMPfam_ANF_receptor	superfamily_Periplasmic binding protein-like I,HMMPfam_ANF_receptor,HMMSmart_SM00079,superfamily_Periplasmic binding protein-like II,HMMPfam_Lig_chan-Glu_bd,HMMPfam_Lig_chan	-	no_errors
HR	55806	genome.wustl.edu	37	8	21984650	21984650	+	Silent	SNP	A	A	G	rs12675745	byCluster;by2Hit2Allele;byHapMap;by1000genomes	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	8	21984650	21984650	A	G	SNP	HR	NM_005144	human	genbank	57_37b	-1	reviewed	silent	c.1305	p.F435	0.995	NULL	HMMSmart_SM00558,HMMPfam_JmjC	-	
IKZF1	10320	genome.wustl.edu	37	7	50467767	50467767	+	Missense_Mutation	SNP	C	A	A	rs61731355	byCluster;by1000genomes	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	50467767	50467767	C	A	SNP	IKZF1	NM_006060	human	genbank	57_37b	+1	validated	missense	c.842	p.P281H	0.617	NULL	NULL	-	
KDM6A	7403	genome.wustl.edu	37	X	44942776	44942776	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	44942776	44942776	T	C	SNP	KDM6A	NM_021140	human	genbank	57_37b	+1	reviewed	missense	c.3356	p.L1119P	1.000	HMMSmart_JmjC	superfamily_SSF48452,HMMPfam_TPR_1,HMMSmart_TPR,HMMSmart_JmjC,HMMPfam_JmjC	-	no_errors
MAP1S	55201	genome.wustl.edu	37	19	17845130	17845130	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	17845130	17845130	G	A	SNP	MAP1S	NM_018174	human	genbank	57_37b	+1	validated	missense	c.3073	p.A1025T	1.000	NULL	NULL	-	no_errors
MST1P9	0	genome.wustl.edu	37	1	17083632	17083632	+	RNA	SNP	T	T	G	rs71212107	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	17083632	17083632	T	G	SNP	MST1P9	NR_002729	human	genbank	57_37b	-1	validated	rna	NULL	NULL	0.358	-	-	-	
NTN3	4917	genome.wustl.edu	37	16	2522416	2522416	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	2522416	2522416	C	T	SNP	NTN3	NM_006181	human	genbank	57_37b	+1	provisional	silent	c.714	p.A238	0.000	HMMSmart_LamNT,HMMPfam_Laminin_N	PatternScan_EGF_2,HMMSmart_LamNT,HMMPfam_Laminin_N,HMMPfam_Laminin_EGF,HMMSmart_EGF_Lam,superfamily_SSF57196,PatternScan_EGF_1,PatternScan_EGF_LAM_1,superfamily_TIMP_like,HMMSmart_C345C,HMMPfam_NTR	-	no_errors
PAQR9	344838	genome.wustl.edu	37	3	142681561	142681561	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	142681561	142681561	G	A	SNP	PAQR9	NM_198504	human	genbank	57_37b	-1	validated	silent	c.618	p.I206	0.942	HMMPfam_HlyIII	HMMPfam_HlyIII	-	no_errors
PCDHGB2	56103	genome.wustl.edu	37	5	140741223	140741223	+	Silent	SNP	G	G	T	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	140741223	140741223	G	T	SNP	PCDHGB2	NM_018923	human	genbank	57_37b	+1	reviewed	silent	c.1521	p.V507	0.384	superfamily_Cadherin-like,HMMPfam_Cadherin,HMMSmart_SM00112	superfamily_Cadherin-like,HMMPfam_Cadherin_2,HMMSmart_SM00112,PatternScan_CADHERIN_1,HMMPfam_Cadherin	-	no_errors
PIK3CA	5290	genome.wustl.edu	37	3	178936082	178936082	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	178936082	178936082	G	A	SNP	PIK3CA	NM_006218	human	genbank	57_37b	+1	reviewed	missense	c.1624	p.E542K	1.000	superfamily_ARM-type_fold,HMMSmart_PI3Ka,HMMPfam_PI3Ka	HMMPfam_PI3K_p85B,HMMSmart_PI3K_p85B,superfamily_SSF54236,HMMPfam_PI3K_rbd,HMMSmart_PI3K_rbd,HMMSmart_PI3K_C2,superfamily_C2_CaLB,HMMSmart_C2,HMMPfam_PI3K_C2,superfamily_ARM-type_fold,HMMSmart_PI3Ka,HMMPfam_PI3Ka,superfamily_Kinase_like,HMMPfam_PI3_PI4_kinase,HMMSmart_PI3Kc,PatternScan_PI3_4_KINASE_1,PatternScan_PI3_4_KINASE_2	-	no_errors
PIK3CA	5290	genome.wustl.edu	37	3	178936092	178936092	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	A	A						Unknown	Unknown	Phase_IV	Capture			1	Illumina GAIIx	Illumina GAIIx	3	178936092	178936092	A	C	SNP	PIK3CA	NM_006218	human	genbank	57_37b	+1	reviewed	missense	c.1634	p.E545A	1.000	superfamily_ARM-type_fold,HMMSmart_PI3Ka,HMMPfam_PI3Ka	HMMPfam_PI3K_p85B,HMMSmart_PI3K_p85B,superfamily_SSF54236,HMMPfam_PI3K_rbd,HMMSmart_PI3K_rbd,HMMSmart_PI3K_C2,superfamily_C2_CaLB,HMMSmart_C2,HMMPfam_PI3K_C2,superfamily_ARM-type_fold,HMMSmart_PI3Ka,HMMPfam_PI3Ka,superfamily_Kinase_like,HMMPfam_PI3_PI4_kinase,HMMSmart_PI3Kc,PatternScan_PI3_4_KINASE_1,PatternScan_PI3_4_KINASE_2	-
POLH	5429	genome.wustl.edu	37	6	43571740	43571740	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	43571740	43571740	G	A	SNP	POLH	NM_006502	human	genbank	57_37b	+1	reviewed	silent	c.876	p.E292	0.884	superfamily_DNA/RNA polymerases,HMMPfam_IMS	superfamily_DNA/RNA polymerases,HMMPfam_IMS	-	no_errors
PRIC285	85441	genome.wustl.edu	37	20	62196182	62196182	+	Silent	SNP	G	G	C	rs3810488	byCluster;byFrequency;by1000genomes	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	20	62196182	62196182	G	C	SNP	PRIC285	NM_001037335	human	genbank	57_37b	-1	reviewed	silent	c.3993	p.A1331	0.000	NULL	PatternScan_ZINC_FINGER_C2H2_1,superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMPfam_RNB,PatternScan_RIBONUCLEASE_II	-	
RANBP6	26953	genome.wustl.edu	37	9	6012280	6012280	+	RNA	SNP	T	T	A	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	6012280	6012280	T	A	SNP	RANBP6	NR_024094	human	genbank	57_37b	-1	validated	rna	NULL	NULL	0.270	-	-	-	no_errors
SRRM5	0	genome.wustl.edu	37	19	44117260	44117260	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	44117260	44117260	C	A	SNP	SRRM5	NM_001145641	human	genbank	57_37b	+1	validated	missense	c.987	p.H329Q	0.001	NULL	NULL	-	no_errors
TMEM146	257062	genome.wustl.edu	37	19	5778547	5778547	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	5778547	5778547	C	T	SNP	TMEM146	NM_152784	human	genbank	57_37b	+1	validated	missense	c.2257	p.R753C	0.005	NULL	NULL	-	no_errors
TTYH1	57348	genome.wustl.edu	37	19	54946784	54946784	+	Silent	SNP	A	A	G	rs3745420	byCluster;byFrequency;by1000genomes	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	54946784	54946784	A	G	SNP	TTYH1	NM_001005367	human	genbank	57_37b	+1	reviewed	silent	c.1188	p.L396	0.998	HMMPfam_Tweety	HMMPfam_Tweety	-	
ZBTB7B	51043	genome.wustl.edu	37	1	154987526	154987526	+	Silent	SNP	C	C	T	rs11264295	byCluster;byFrequency;by2Hit2Allele;by1000genomes	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	154987526	154987526	C	T	SNP	ZBTB7B	NM_015872	human	genbank	57_37b	+1	validated	silent	c.390	p.I130	1.000	superfamily_BTB/POZ_fold,HMMPfam_BTB,HMMSmart_BTB	superfamily_BTB/POZ_fold,HMMPfam_BTB,HMMSmart_BTB,HMMSmart_ZnF_C2H2,PatternScan_ZINC_FINGER_C2H2_1,superfamily_SSF57667,HMMPfam_zf-C2H2	-	
ZNF93	81931	genome.wustl.edu	37	19	20026206	20026206	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AO-A12A-01A-21D-A10Y-09	TCGA-AO-A12A-10A-01D-A110-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	20026206	20026206	G	A	SNP	ZNF93	NM_031218	human	genbank	57_37b	+1	validated	missense	c.121	p.V41I	0.898	superfamily_KRAB domain (Kruppel-associated box Pfam 01352),HMMPfam_KRAB,HMMSmart_SM00349	superfamily_KRAB domain (Kruppel-associated box Pfam 01352),HMMPfam_KRAB,HMMSmart_SM00349,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers,HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1	-	no_errors
