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	transcript_error_WU
MT-CO2	0	genome.wustl.edu	36	MT	8156	8156	+	Silent	SNP	G	G	A			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	MT	8156	8156	G	A	SNP	MT-CO2	ENST00000361739	human	ensembl	54_36p	+1	known	silent	c.570	p.G190	NULL	PatternScan_COX2,HMMPfam_COX2,superfamily_Cupredoxins	PatternScan_COX2,HMMPfam_COX2,superfamily_Cupredoxins,HMMPfam_COX2_TM,superfamily_Cytochrome c oxidase subunit II-like transmembrane region	-	no_errors
HERC1	8925	genome.wustl.edu	36	15	61688434	61688434	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	15	61688434	61688434	G	T	SNP	HERC1	NM_003922	human	genbank	54_36p	-1	reviewed	missense	c.14485	p.R4829S	1.000	superfamily_Hect E3 ligase catalytic domain,HMMSmart_SM00119,HMMPfam_HECT	superfamily_RCC1/BLIP-II,HMMPfam_RCC1,PatternScan_RCC1_2,HMMSmart_SM00449,HMMPfam_SPRY,PatternScan_PHOSPHOPANTETHEINE,HMMSmart_SM00320,HMMPfam_WD40,superfamily_WD40 repeat-like,PatternScan_WD_REPEATS_1,PatternScan_ARGINASE_2,superfamily_Hect E3 ligase catalytic domain,HMMSmart_SM00119,HMMPfam_HECT	-	no_errors
ZC3H12B	340554	genome.wustl.edu	36	X	64625529	64625529	+	Silent	SNP	C	C	T			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	X	64625529	64625529	C	T	SNP	ZC3H12B	NM_001010888	human	genbank	54_36p	+1	validated	silent	c.90	p.S30	1.000	NULL	NULL	-	no_errors
USP24	23358	genome.wustl.edu	36	1	55404192	55404192	+	Missense_Mutation	SNP	A	A	T			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	55404192	55404192	A	T	SNP	USP24	NM_015306	human	genbank	54_36p	-1	validated	missense	c.545	p.F182Y	1.000	NULL	superfamily_Ubiquitin-like,PatternScan_SUGAR_TRANSPORT_1,superfamily_Cysteine proteinases,HMMPfam_UCH,PatternScan_UCH_2_1,PatternScan_UCH_2_2	-	no_errors
WDR18	57418	genome.wustl.edu	36	19	940867	940867	+	Missense_Mutation	SNP	T	T	A			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	19	940867	940867	T	A	SNP	WDR18	NM_024100	human	genbank	54_36p	+1	reviewed	missense	c.427	p.C143S	1.000	superfamily_WD40_like,HMMSmart_WD40,HMMPfam_WD40	superfamily_WD40_like,HMMSmart_WD40,HMMPfam_WD40,PatternScan_WD_REPEATS_1	-	no_errors
ANKS1B	56899	genome.wustl.edu	36	12	98699973	98699973	+	Missense_Mutation	SNP	A	A	T			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	12	98699973	98699973	A	T	SNP	ANKS1B	NM_152788	human	genbank	54_36p	-1	validated	missense	c.703	p.L235M	0.996	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat	HMMPfam_SAM_1,HMMSmart_SM00454,HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat,HMMPfam_PID,HMMSmart_SM00462,superfamily_SAM/Pointed domain,superfamily_PH domain-like	-	no_errors
BCL9L	283149	genome.wustl.edu	36	11	118284568	118284568	+	Silent	SNP	G	G	A			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	11	118284568	118284568	G	A	SNP	BCL9L	NM_182557	human	genbank	54_36p	-1	validated	silent	c.33	p.P11	1.000	NULL	PatternScan_RIBOSOMAL_S6E	-	no_errors
PTPRT	11122	genome.wustl.edu	36	20	40180498	40180498	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	20	40180498	40180498	C	T	SNP	PTPRT	NM_133170	human	genbank	54_36p	-1	reviewed	missense	c.2998	p.A1000T	0.987	HMMPfam_Y_phosphatase,HMMSmart_SM00194,superfamily_(Phosphotyrosine protein) phosphatases II	HMMPfam_Y_phosphatase,HMMSmart_SM00194,HMMPfam_MAM,HMMSmart_SM00137,PatternScan_MAM_1,HMMSmart_SM00404,HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III,PatternScan_TYR_PHOSPHATASE_1,superfamily_Immunoglobulin,superfamily_(Phosphotyrosine protein) phosphatases II	-	no_errors
TP53I11	9537	genome.wustl.edu	36	11	44916391	44916391	+	Silent	SNP	G	G	T			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	11	44916391	44916391	G	T	SNP	TP53I11	NM_001076787	human	genbank	54_36p	-1	validated	silent	c.72	p.T24	1.000	NULL	NULL	-	no_errors
KDM6B	23135	genome.wustl.edu	36	17	7691031	7691031	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	17	7691031	7691031	G	A	SNP	JMJD3	NM_001080424	human	genbank	54_36p	+1	provisional	missense	c.881	p.R294H	1.000	NULL	HMMSmart_SM00558,HMMPfam_JmjC	-	no_errors
RFX3	5991	genome.wustl.edu	36	9	3261010	3261010	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	9	3261010	3261010	C	T	SNP	RFX3	NM_134428	human	genbank	54_36p	-1	reviewed	missense	c.1195	p.E399K	1.000	NULL	"HMMPfam_RFX1_trans_act,HMMPfam_RFX_DNA_binding,superfamily_""Winged helix"" DNA-binding domain"	-	no_errors
CASKIN2	57513	genome.wustl.edu	36	17	71009232	71009232	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	17	71009232	71009232	C	T	SNP	CASKIN2	NM_020753	human	genbank	54_36p	-1	validated	missense	c.3430	p.A1144T	0.995	NULL	superfamily_Ankyrin repeat,HMMSmart_SM00248,HMMPfam_Ank,superfamily_SH3-domain,HMMSmart_SM00326,HMMPfam_SH3_2,HMMSmart_SM00454,superfamily_SAM/Pointed domain,HMMPfam_SAM_1	-	no_errors
LRP1B	53353	genome.wustl.edu	36	2	141243252	141243252	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	141243252	141243252	C	T	SNP	LRP1B	NM_018557	human	genbank	54_36p	-1	validated	missense	c.5758	p.E1920K	1.000	HMMSmart_LY,superfamily_SSF63825	HMMPfam_Ldl_recept_b,HMMSmart_LY,PatternScan_ASX_HYDROXYL,HMMPfam_NHL,HMMSmart_EGF_CA,HMMPfam_Ldl_recept_a,HMMSmart_LDLa,PatternScan_LDLRA_1,superfamily_LDL_rcpt_classA_cys-rich,HMMPfam_EGF,HMMSmart_EGF,PatternScan_EGF_1,PatternScan_EGF_2,HMMPfam_EGF_CA,HMMPfam_EGF_2,PatternScan_EGF_CA,superfamily_SSF57196,superfamily_SSF63825	-	no_errors
LOC286444	286444	genome.wustl.edu	36	X	40679654	40679654	+	RNA	SNP	T	T	G			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	X	40679654	40679654	T	G	SNP	LOC286444	XR_037417	human	genbank	54_36p	-1	model	rna	NULL	NULL	1.000	-	-	-	pseudogene
VASP	7408	genome.wustl.edu	36	19	50717900	50717900	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	19	50717900	50717900	G	A	SNP	VASP	NM_003370	human	genbank	54_36p	+1	reviewed	missense	c.805	p.A269T	1.000	NULL	HMMPfam_WH1,superfamily_SSF50729,HMMPfam_VASP_tetra	-	no_errors
FOXP4	116113	genome.wustl.edu	36	6	41663552	41663553	+	Frame_Shift_Ins	INS	-	-	A			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	-	-			-	-	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	6	41663552	41663553	-	A	INS	FOXP4	NM_001012426	human	genbank	54_36p	+1	reviewed	frame_shift_ins	c.916_917	p.H306fs	1.000:1.000	NULL	"PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00339,superfamily_""Winged helix"" DNA-binding domain,HMMPfam_Fork_head,PatternScan_FORK_HEAD_2"	-	no_errors
C7orf65	401335	genome.wustl.edu	36	7	47661429	47661429	+	Nonsense_Mutation	SNP	G	G	T			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	7	47661429	47661429	G	T	SNP	C7orf65	ENST00000408988	human	ensembl	54_36p	+1	known	nonsense	c.28	p.E10*	0.001	NULL	NULL	-	no_errors
ARHGEF18	23370	genome.wustl.edu	36	19	7411360	7411360	+	Silent	SNP	G	G	A			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	19	7411360	7411360	G	A	SNP	ARHGEF18	NM_015318	human	genbank	54_36p	+1	reviewed	silent	c.60	p.T20	0.000	NULL	superfamily_DH-domain,HMMPfam_RhoGEF,HMMSmart_RhoGEF,HMMPfam_PH,superfamily_SSF50729,HMMSmart_PH	-	no_errors
SMG5	23381	genome.wustl.edu	36	1	154513643	154513643	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	154513643	154513643	C	A	SNP	SMG5	NM_015327	human	genbank	54_36p	-1	validated	missense	c.311	p.R104L	1.000	HMMPfam_EST1	HMMSmart_PINc,HMMPfam_EST1	-	no_errors
ASXL3	80816	genome.wustl.edu	36	18	29568298	29568298	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	18	29568298	29568298	C	T	SNP	ASXL3	NM_030632	human	genbank	54_36p	+1	validated	missense	c.1003	p.R335W	1.000	NULL	NULL	-	no_errors
MRPS22	56945	genome.wustl.edu	36	3	140554304	140554304	+	Silent	SNP	T	T	A			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	3	140554304	140554304	T	A	SNP	MRPS22	NM_020191	human	genbank	54_36p	+1	reviewed	silent	c.858	p.I286	1.000	HMMPfam_MRP-S22	HMMPfam_MRP-S22	-	no_errors
SPON1	10418	genome.wustl.edu	36	11	14235860	14235860	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	11	14235860	14235860	C	A	SNP	SPON1	NM_006108	human	genbank	54_36p	+1	validated	missense	c.1331	p.S444Y	1.000	NULL	HMMPfam_Reeler	-	pseudogene:no_stop_codon:bad_bp_length_for_coding_region
ITGA10	8515	genome.wustl.edu	36	1	144253183	144253183	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	144253183	144253183	C	T	SNP	ITGA10	NM_003637	human	genbank	54_36p	+1	reviewed	missense	c.3349	p.R1117W	0.811	superfamily_Integrin domains	HMMPfam_VWA,HMMSmart_SM00327,HMMPfam_FG-GAP,HMMSmart_SM00191,HMMPfam_Integrin_alpha2,superfamily_vWA-like,superfamily_Integrin domains,superfamily_Integrin alpha N-terminal domain	-	no_errors
PTPN11	5781	genome.wustl.edu	36	12	111372546	111372546	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	12	111372546	111372546	G	T	SNP	PTPN11	NM_002834	human	genbank	54_36p	+1	reviewed	missense	c.179	p.G60V	1.000	superfamily_SH2 domain,HMMSmart_SM00252,HMMPfam_SH2	superfamily_SH2 domain,HMMSmart_SM00252,HMMPfam_SH2,superfamily_(Phosphotyrosine protein) phosphatases II,HMMSmart_SM00194,HMMPfam_Y_phosphatase,HMMSmart_SM00404,PatternScan_TYR_PHOSPHATASE_1	-	no_errors
MRE11A	4361	genome.wustl.edu	36	11	93832293	93832293	+	Missense_Mutation	SNP	G	G	C			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	11	93832293	93832293	G	C	SNP	MRE11A	NM_005591	human	genbank	54_36p	-1	reviewed	missense	c.1429	p.Q477E	1.000	NULL	HMMPfam_Metallophos,superfamily_Metallo-dependent phosphatases,HMMPfam_Mre11_DNA_bind	-	no_errors
BSN	8927	genome.wustl.edu	36	3	49664602	49664602	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	3	49664602	49664602	C	T	SNP	BSN	NM_003458	human	genbank	54_36p	+1	validated	missense	c.2609	p.A870V	1.000	NULL	HMMPfam_zf-piccolo,superfamily_FYVE_PHD_ZnF	-	no_errors
ATCAY	85300	genome.wustl.edu	36	19	3858782	3858782	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	19	3858782	3858782	C	A	SNP	ATCAY	NM_033064	human	genbank	54_36p	+1	reviewed	missense	c.409	p.L137I	0.975	NULL	superfamily_CRAL/TRIO domain,HMMSmart_SM00516	-	no_errors
MTMR8	55613	genome.wustl.edu	36	X	63491437	63491437	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	X	63491437	63491437	C	T	SNP	MTMR8	NM_017677	human	genbank	54_36p	-1	provisional	missense	c.413	p.R138H	0.799	superfamily_(Phosphotyrosine protein) phosphatases II	HMMSmart_SM00404,HMMPfam_Myotub-related,PatternScan_TYR_PHOSPHATASE_1,superfamily_PH domain-like,superfamily_(Phosphotyrosine protein) phosphatases II	-	no_errors
DSCAML1	57453	genome.wustl.edu	36	11	116892649	116892649	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	11	116892649	116892649	C	T	SNP	DSCAML1	NM_020693	human	genbank	54_36p	-1	provisional	missense	c.1706	p.R569Q	1.000	superfamily_Immunoglobulin	HMMSmart_SM00406,HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III,HMMPfam_I-set,HMMPfam_ig,superfamily_Immunoglobulin	-	no_errors
FAM40B	57464	genome.wustl.edu	36	7	128881232	128881232	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	7	128881232	128881232	T	C	SNP	FAM40B	NM_020704	human	genbank	54_36p	+1	validated	missense	c.544	p.C182R	1.000	HMMPfam_N1221	HMMPfam_N1221	-	no_errors
TP53	7157	genome.wustl.edu	36	17	7518997	7518997	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	17	7518997	7518997	G	A	SNP	TP53	NM_000546	human	genbank	54_36p	-1	reviewed	missense	c.577	p.H193Y	1.000	superfamily_p53-like transcription factors,HMMPfam_P53	PatternScan_P53,superfamily_p53-like transcription factors,HMMPfam_P53_tetramer,superfamily_p53 tetramerization domain,HMMPfam_P53,HMMPfam_P53_TAD	-	no_errors
DOK7	285489	genome.wustl.edu	36	4	3447950	3447950	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	4	3447950	3447950	G	A	SNP	DOK7	NM_173660	human	genbank	54_36p	+1	validated	missense	c.415	p.V139I	0.998	superfamily_PH domain-like	superfamily_PH domain-like,HMMSmart_SM00233	-	no_errors
XIRP2	129446	genome.wustl.edu	36	2	167815650	167815650	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2885-03A-01W-0732-08	TCGA-AB-2885-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	167815650	167815650	G	A	SNP	XIRP2	NM_152381	human	genbank	54_36p	+1	validated	missense	c.9502	p.A3168T	0.001	NULL	HMMPfam_Xin	-	no_errors
