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	Genome_Change	Annotation_Transcript	Transcript_Strand	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	i_TCGAscape_Amplification_Peaks	i_TCGAscape_Deletion_Peaks	DrugBank	i_ACHILLES_Top_Genes	i_CCLE_ONCOMAP_overlapping_mutations	i_CCLE_ONCOMAP_total_mutations_in_gene	i_CCLE_SEQ_overlapping_mutations	i_CCLE_SEQ_total_mutations_in_gene	MUTSIG_Significant_Genes	OREGANNO_ID	OREGANNO_Values	i_tumor_f	i_init_t_lod	i_t_lod_fstar	i_t_alt_count	i_t_ref_count	i_normal_best_gt	i_failure_reasons	i_judgement	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	dataset	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	type	classification	start	end	gene	chr	ref_allele	tum_allele1	tum_allele2	context_orig	context65	gene_name	newbase	categ	categ_ignoring_null_categ
INA	9118	broad.mit.edu	36	10	105038369	105038369	+	Missense_Mutation	SNP	G	A	A			TCGA-19-1786-01	TCGA-19-1786-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr10:105038369G>A	uc001kws.1	+	c.1453G>A	c.(1453-1455)GAG>AAG	p.E485K		NM_032727	NP_116116	Q16352	AINX_HUMAN	internexin neuronal intermediate filament	485	Tail.				cell differentiation|nervous system development	neurofilament	structural constituent of cytoskeleton			ovary(1)|breast(1)	2				Epithelial(162;3.45e-09)|all cancers(201;9.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)										0.8	73.516401	75.613295	20	5	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	105038369	105038369	8031	10	G	A	A	37	37	INA	A	1	1
KIAA1598	57698	broad.mit.edu	36	10	118636032	118636032	+	Missense_Mutation	SNP	A	C	C			TCGA-19-1786-01	TCGA-19-1786-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr10:118636032A>C	uc001lcx.2	-	c.1709T>G	c.(1708-1710)ATT>AGT	p.I570S	KIAA1598_uc009xyw.1_Missense_Mutation_p.I570S|KIAA1598_uc001lcz.2_3'UTR|KIAA1598_uc001lcy.2_Missense_Mutation_p.I540S|KIAA1598_uc001lda.1_Non-coding_Transcript	NM_018330	NP_060800	A0MZ66	SHOT1_HUMAN	shootin1 isoform b	570					axon guidance	axon					0				all cancers(201;0.00494)										0.733333	75.361973	76.837021	22	8	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	118636032	118636032	8555	10	A	C	C	4	4	KIAA1598	C	4	4
BATF2	116071	broad.mit.edu	36	11	64513824	64513824	+	Missense_Mutation	SNP	G	A	A			TCGA-19-1786-01	TCGA-19-1786-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:64513824G>A	uc001ocf.1	-	c.178C>T	c.(178-180)CGG>TGG	p.R60W	BATF2_uc001oce.1_5'UTR	NM_138456	NP_612465	Q8N1L9	BATF2_HUMAN	basic leucine zipper transcription factor,	60	Leucine-zipper.				regulation of transcription, DNA-dependent	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1														0.407407	28.817233	29.019987	11	16	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	64513824	64513824	1347	11	G	A	A	38	38	BATF2	A	1	1
OR2AT4	341152	broad.mit.edu	36	11	74477520	74477520	+	Missense_Mutation	SNP	G	A	A			TCGA-19-1786-01	TCGA-19-1786-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:74477520G>A	uc001owa.1	-	c.887C>T	c.(886-888)ACG>ATG	p.T296M		NM_001005285	NP_001005285	A6NND4	O2AT4_HUMAN	olfactory receptor, family 2, subfamily AT,	296	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1														0.380117	192.239012	194.392262	65	106	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	74477520	74477520	11393	11	G	A	A	40	40	OR2AT4	A	1	1
NOS1	4842	broad.mit.edu	36	12	116194698	116194698	+	Missense_Mutation	SNP	C	T	T			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:116194698C>T	uc001twm.1	-	c.1714G>A	c.(1714-1716)GTG>ATG	p.V572M		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1 (neuronal)	572					arginine catabolic process|multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|oxidation-reduction process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(2)|pancreas(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	Esophageal Squamous(162;1748 2599 51982 52956)								0.289474	86.853527	91.367833	33	81	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	116194698	116194698	10944	12	C	T	T	19	19	NOS1	T	1	1
CD163L1	283316	broad.mit.edu	36	12	7477429	7477429	+	Missense_Mutation	SNP	C	T	T			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:7477429C>T	uc001qsy.1	-	c.253G>A	c.(253-255)GTG>ATG	p.V85M		NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	85	SRCR 1.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|central_nervous_system(1)	9														0.375	51.340655	52.034022	18	30	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	7477429	7477429	3095	12	C	T	T	19	19	CD163L1	T	1	1
OR4N5	390437	broad.mit.edu	36	14	19682597	19682597	+	Missense_Mutation	SNP	C	T	T			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr14:19682597C>T	uc001vwp.1	+	c.863C>T	c.(862-864)ACG>ATG	p.T288M		NM_001004724	NP_001004724	Q8IXE1	OR4N5_HUMAN	olfactory receptor, family 4, subfamily N,	288	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.84e-06)	GBM - Glioblastoma multiforme(265;0.0143)										0.173684	132.769275	170.932935	66	314	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	19682597	19682597	11489	14	C	T	T	19	19	OR4N5	T	1	1
MIA2	117153	broad.mit.edu	36	14	38791730	38791730	+	Missense_Mutation	SNP	C	T	T			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr14:38791730C>T	uc001wux.1	+	c.1595C>T	c.(1594-1596)ACG>ATG	p.T532M		NM_054024	NP_473365	Q96PC5	MIA2_HUMAN	melanoma inhibitory activity 2	Error:Variant_position_missing_in_Q96PC5_after_alignment						extracellular region				ovary(1)|breast(1)	2	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0216)										0.373737	117.46465	118.844903	37	62	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	38791730	38791730	9954	14	C	T	T	19	19	MIA2	T	1	1
PRKCB	5579	broad.mit.edu	36	16	24073639	24073639	+	Missense_Mutation	SNP	C	T	T			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr16:24073639C>T	uc002dmc.1	+	c.1199C>T	c.(1198-1200)CCG>CTG	p.P400L	PRKCB_uc002dmd.1_Missense_Mutation_p.P400L	NM_002738	NP_002729	P05771	KPCB_HUMAN	protein kinase C, beta isoform 2	400	Protein kinase.				apoptosis|B cell activation|B cell receptor signaling pathway|intracellular signal transduction|lipoprotein transport|platelet activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|synaptic transmission|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|histone binding|histone kinase activity (H3-T6 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|zinc ion binding			ovary(3)|central_nervous_system(3)|lung(2)|large_intestine(1)	9					Vitamin E(DB00163)					395				0.534884	70.797763	70.841503	23	20	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	24073639	24073639	12951	16	C	T	T	23	23	PRKCB	T	1	1
SLC12A3	6559	broad.mit.edu	36	16	55471551	55471551	+	Silent	SNP	C	T	T			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr16:55471551C>T	uc002ekd.2	+	c.1452C>T	c.(1450-1452)TGC>TGT	p.C484C	SLC12A3_uc010ccm.1_Silent_p.C484C|SLC12A3_uc010ccn.1_Silent_p.C483C	NM_000339	NP_000330	P55017	S12A3_HUMAN	solute carrier family 12, member 3 isoform 1	484	Cytoplasmic (Potential).				sodium ion transport	apical plasma membrane|integral to plasma membrane|membrane fraction	sodium:chloride symporter activity			ovary(2)|breast(1)	3					Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Metolazone(DB00524)|Polythiazide(DB01324)|Quinethazone(DB01325)									0.428571	8.024188	8.055209	3	4	CC		KEEP	---	---	---	---	capture			Silent	SNP	55471551	55471551	14879	16	C	T	T	27	27	SLC12A3	T	1	1
ZZEF1	23140	broad.mit.edu	36	17	3954805	3954805	+	Missense_Mutation	SNP	C	T	T			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:3954805C>T	uc002fxe.1	-	c.1444G>A	c.(1444-1446)GCA>ACA	p.A482T	ZZEF1_uc002fxk.1_Missense_Mutation_p.A482T	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	482					regulation of mitotic metaphase/anaphase transition	anaphase-promoting complex	calcium ion binding|zinc ion binding			ovary(1)|pancreas(1)	2														0.394558	175.525315	176.953271	58	89	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	3954805	3954805	18861	17	C	T	T	27	27	ZZEF1	T	1	1
ITGA2B	3674	broad.mit.edu	36	17	39812941	39812941	+	Silent	SNP	G	A	A			TCGA-19-1786-01	TCGA-19-1786-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr17:39812941G>A	uc002igt.1	-	c.1707C>T	c.(1705-1707)GGC>GGT	p.G569G	ITGA2B_uc002igu.1_Silent_p.G50G	NM_000419	NP_000410	P08514	ITA2B_HUMAN	integrin alpha 2b preproprotein	569	Extracellular (Potential).				axon guidance|integrin-mediated signaling pathway|platelet activation|platelet degranulation	integrin complex|platelet alpha granule membrane	identical protein binding|receptor activity			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.191)	Tirofiban(DB00775)									0.441176	38.818513	38.920655	15	19	GG		KEEP	---	---	---	---	capture			Silent	SNP	39812941	39812941	8180	17	G	A	A	38	38	ITGA2B	A	1	1
WDR45L	56270	broad.mit.edu	36	17	78178429	78178429	+	Missense_Mutation	SNP	T	C	C			TCGA-19-1786-01	TCGA-19-1786-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr17:78178429T>C	uc002kfq.1	-	c.272A>G	c.(271-273)AAG>AGG	p.K91R	WDR45L_uc002kfr.1_Non-coding_Transcript	NM_019613	NP_062559	Q5MNZ6	WIPI3_HUMAN	WDR45-like	91					autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1	Breast(20;0.00106)|all_neural(118;0.0952)	all_cancers(8;0.101)|all_epithelial(8;0.198)	BRCA - Breast invasive adenocarcinoma(99;0.0262)|OV - Ovarian serous cystadenocarcinoma(97;0.0835)											0.489796	80.799591	80.803985	24	25	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	78178429	78178429	17871	17	T	C	C	56	56	WDR45L	C	4	4
OSBPL1A	114876	broad.mit.edu	36	18	20006387	20006387	+	Missense_Mutation	SNP	C	A	A			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr18:20006387C>A	uc002kve.1	-	c.2152G>T	c.(2152-2154)GGT>TGT	p.G718C	OSBPL1A_uc002kvd.1_Missense_Mutation_p.G205C	NM_080597	NP_542164	Q9BXW6	OSBL1_HUMAN	oxysterol-binding protein-like 1A isoform B	718					cholesterol metabolic process|lipid transport|vesicle-mediated transport	intracellular	phospholipid binding			ovary(4)	4	all_cancers(21;0.000396)|all_epithelial(16;4.36e-06)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0505)|Ovarian(20;0.17)													0.488372	136.948897	136.958906	42	44	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	20006387	20006387	11688	18	C	A	A	22	22	OSBPL1A	A	3	3
DSG1	1828	broad.mit.edu	36	18	27177456	27177456	+	Missense_Mutation	SNP	G	A	A			TCGA-19-1786-01	TCGA-19-1786-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr18:27177456G>A	uc002kwp.1	+	c.1733G>A	c.(1732-1734)CGT>CAT	p.R578H		NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	578	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|cell-cell junction assembly|cellular component disassembly involved in apoptosis|homophilic cell adhesion|protein stabilization	cytosol|desmosome|integral to membrane|internal side of plasma membrane	calcium ion binding|gamma-catenin binding|toxin binding			ovary(2)|central_nervous_system(2)	4			OV - Ovarian serous cystadenocarcinoma(10;0.00559)											0.379747	87.242855	88.240174	30	49	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	27177456	27177456	4960	18	G	A	A	40	40	DSG1	A	1	1
C19orf50	79036	broad.mit.edu	36	19	18540215	18540215	+	Missense_Mutation	SNP	T	G	G			TCGA-19-1786-01	TCGA-19-1786-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr19:18540215T>G	uc002njo.1	+	c.305T>G	c.(304-306)ATC>AGC	p.I102S	C19orf50_uc002njp.1_Non-coding_Transcript|C19orf50_uc002njq.1_Missense_Mutation_p.I102S	NM_024069	NP_076974	Q9BQD3	CS050_HUMAN	hypothetical protein LOC79036	102							protein binding				0														0.304348	17.711416	18.500235	7	16	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	18540215	18540215	1996	19	T	G	G	50	50	C19orf50	G	4	4
ERCC2	2068	broad.mit.edu	36	19	50565258	50565258	+	Silent	SNP	C	G	G			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:50565258C>G	uc002pbj.1	-	c.78G>C	c.(76-78)CGG>CGC	p.R26R	ERCC2_uc010ejz.1_Silent_p.R26R|ERCC2_uc002pbk.1_Silent_p.R2R|ERCC2_uc002pbl.2_Silent_p.R2R	NM_000400	NP_000391	P18074	ERCC2_HUMAN	excision repair cross-complementing rodent	26	Helicase ATP-binding.				cell cycle checkpoint|chromosome segregation|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|UV protection|viral reproduction	cytoplasm|holo TFIIH complex|MMXD complex	5'-3' DNA helicase activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding|protein C-terminus binding|protein N-terminus binding			lung(1)|pancreas(1)	2		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0226)						447				0.28	35.659159	37.817116	14	36	CC		KEEP	---	---	---	---	capture			Silent	SNP	50565258	50565258	5406	19	C	G	G	22	22	ERCC2	G	3	3
ZNF347	84671	broad.mit.edu	36	19	58335980	58335980	+	Missense_Mutation	SNP	G	A	A			TCGA-19-1786-01	TCGA-19-1786-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:58335980G>A	uc010eql.1	-	c.1916C>T	c.(1915-1917)TCA>TTA	p.S639L	ZNF347_uc002qbb.1_Missense_Mutation_p.S638L|ZNF347_uc002qbc.1_Missense_Mutation_p.S639L	NM_032584	NP_115973	Q96SE7	ZN347_HUMAN	zinc finger protein 347	638	C2H2-type 14; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0179)		Melanoma(64;205 1597 17324 45721)								0.223502	234.938283	265.454124	97	337	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	58335980	58335980	18453	19	G	A	A	45	45	ZNF347	A	2	2
FAM5B	57795	broad.mit.edu	36	1	175493097	175493097	+	Missense_Mutation	SNP	C	T	T			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:175493097C>T	uc001glf.1	+	c.623C>T	c.(622-624)ACG>ATG	p.T208M	FAM5B_uc001glg.1_Missense_Mutation_p.T103M	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	208						extracellular region				ovary(2)	2														0.195122	16.991914	20.534614	8	33	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	175493097	175493097	5816	1	C	T	T	19	19	FAM5B	T	1	1
CTSE	1510	broad.mit.edu	36	1	204484980	204484980	+	Missense_Mutation	SNP	C	T	T			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:204484980C>T	uc001hdu.1	+	c.115C>T	c.(115-117)CGG>TGG	p.R39W	CTSE_uc001hdv.1_Missense_Mutation_p.R39W	NM_001910	NP_001901	P14091	CATE_HUMAN	cathepsin E isoform a preproprotein	39					antigen processing and presentation of exogenous peptide antigen via MHC class II|digestion|proteolysis	endosome	aspartic-type endopeptidase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(75;0.0754)											0.552239	114.077687	114.237196	37	30	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	204484980	204484980	4192	1	C	T	T	19	19	CTSE	T	1	1
ESRRG	2104	broad.mit.edu	36	1	214759340	214759340	+	Missense_Mutation	SNP	A	C	C			TCGA-19-1786-01	TCGA-19-1786-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr1:214759340A>C	uc001hkx.1	-	c.945T>G	c.(943-945)AGT>AGG	p.S315R	ESRRG_uc001hkw.1_Missense_Mutation_p.S303R|ESRRG_uc009xdo.1_Missense_Mutation_p.S280R|ESRRG_uc009xdp.1_Missense_Mutation_p.S280R|ESRRG_uc001hky.1_Missense_Mutation_p.S280R|ESRRG_uc001hkz.1_Missense_Mutation_p.S241R|ESRRG_uc001hla.1_Missense_Mutation_p.S280R|ESRRG_uc001hlb.1_Missense_Mutation_p.S280R|ESRRG_uc001hlc.1_Missense_Mutation_p.S280R|ESRRG_uc001hld.1_Missense_Mutation_p.S280R|ESRRG_uc001hle.1_Missense_Mutation_p.S280R	NM_206595	NP_996318	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 2	303					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription activator activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)									0.358974	78.565387	79.93624	28	50	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	214759340	214759340	5455	1	A	C	C	6	6	ESRRG	C	4	4
ZNF133	7692	broad.mit.edu	36	20	18244290	18244290	+	Silent	SNP	G	A	A			TCGA-19-1786-01	TCGA-19-1786-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr20:18244290G>A	uc010gcq.1	+	c.795G>A	c.(793-795)TCG>TCA	p.S265S	ZNF133_uc010gcr.1_Silent_p.S265S|ZNF133_uc002wql.2_Silent_p.S264S|ZNF133_uc010gcs.1_Silent_p.S264S|ZNF133_uc002wqm.1_Silent_p.S265S	NM_003434	NP_003425	P52736	ZN133_HUMAN	zinc finger protein 133	265					regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)	2														0.244094	76.379982	83.947816	31	96	GG		KEEP	---	---	---	---	capture			Silent	SNP	18244290	18244290	18314	20	G	A	A	39	39	ZNF133	A	1	1
PPP1R16B	26051	broad.mit.edu	36	20	36962692	36962692	+	Silent	SNP	C	T	T			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr20:36962692C>T	uc002xje.1	+	c.522C>T	c.(520-522)TGC>TGT	p.C174C	PPP1R16B_uc010ggc.1_Silent_p.C174C	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	174					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			kidney(1)	1		Myeloproliferative disorder(115;0.00878)												0.259542	91.001954	97.853556	34	97	CC		KEEP	---	---	---	---	capture			Silent	SNP	36962692	36962692	12801	20	C	T	T	27	27	PPP1R16B	T	1	1
CELSR1	9620	broad.mit.edu	36	22	45310103	45310103	+	Silent	SNP	C	T	T			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr22:45310103C>T	uc003bhw.1	-	c.1629G>A	c.(1627-1629)CCG>CCA	p.P543P		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	543	Extracellular (Potential).|Cadherin 3.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			pancreas(2)|skin(1)	3		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)										1	20.604641	20.596593	7	0	CC		KEEP	---	---	---	---	capture			Silent	SNP	45310103	45310103	3354	22	C	T	T	27	27	CELSR1	T	1	1
XIRP2	129446	broad.mit.edu	36	2	167818840	167818840	+	Missense_Mutation	SNP	A	T	T			TCGA-19-1786-01	TCGA-19-1786-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr2:167818840A>T	uc002udx.1	+	c.10608A>T	c.(10606-10608)TTA>TTT	p.L3536F	XIRP2_uc010fpn.1_Missense_Mutation_p.Y443F|XIRP2_uc010fpo.1_Missense_Mutation_p.Y410F|XIRP2_uc010fpp.1_Missense_Mutation_p.Y410F|XIRP2_uc010fpq.1_Missense_Mutation_p.L3314F|XIRP2_uc010fpr.1_Missense_Mutation_p.Y188F	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	3361					actin cytoskeleton organization	cell junction	actin binding			ovary(6)|pancreas(1)|skin(1)	8														0.308824	122.910455	127.333987	42	94	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	167818840	167818840	18011	2	A	T	T	16	16	XIRP2	T	4	4
SESTD1	91404	broad.mit.edu	36	2	179682920	179682920	+	Missense_Mutation	SNP	A	T	T			TCGA-19-1786-01	TCGA-19-1786-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr2:179682920A>T	uc002uni.2	-	c.2042T>A	c.(2041-2043)CTC>CAC	p.L681H	SESTD1_uc002unh.2_Missense_Mutation_p.L184H	NM_178123	NP_835224	Q86VW0	SESD1_HUMAN	SEC14 and spectrin domains 1	681					regulation of calcium ion transport via voltage-gated calcium channel activity		phosphatidic acid binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0344)|Epithelial(96;0.0531)|all cancers(119;0.147)											0.224422	155.846295	176.995152	68	235	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	179682920	179682920	14615	2	A	T	T	11	11	SESTD1	T	4	4
AOX1	316	broad.mit.edu	36	2	201241665	201241665	+	Missense_Mutation	SNP	G	A	A			TCGA-19-1786-01	TCGA-19-1786-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:201241665G>A	uc002uvx.1	+	c.3692G>A	c.(3691-3693)CGT>CAT	p.R1231H	AOX1_uc010fsu.1_Missense_Mutation_p.R597H	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	1231					inflammatory response|oxidation-reduction process|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)	5					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)									0.564356	369.568151	370.297893	114	88	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	201241665	201241665	739	2	G	A	A	40	40	AOX1	A	1	1
SOCS5	9655	broad.mit.edu	36	2	46840685	46840685	+	Silent	SNP	C	T	T			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:46840685C>T	uc002rvf.1	+	c.1512C>T	c.(1510-1512)CTC>CTT	p.L504L	SOCS5_uc002rvg.1_Silent_p.L504L|SOCS5_uc010faz.1_Silent_p.L504L	NM_014011	NP_659198	O75159	SOCS5_HUMAN	suppressor of cytokine signaling 5	504	SOCS box.				cell growth|cytokine-mediated signaling pathway|intracellular signal transduction|negative regulation of signal transduction|negative regulation of T-helper 2 cell differentiation|positive regulation of T-helper 1 cell differentiation|regulation of growth					ovary(1)|central_nervous_system(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)											0.562914	277.804942	278.329688	85	66	CC		KEEP	---	---	---	---	capture			Silent	SNP	46840685	46840685	15417	2	C	T	T	30	30	SOCS5	T	2	2
OTX1	5013	broad.mit.edu	36	2	63136574	63136574	+	Silent	SNP	C	T	T			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:63136574C>T	uc002scd.1	+	c.684C>T	c.(682-684)GGC>GGT	p.G228G		NM_014562	NP_055377	P32242	OTX1_HUMAN	orthodenticle homeobox 1	228						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(2)	2	Lung NSC(7;0.121)|all_lung(7;0.211)													0.307692	10.799056	11.22546	4	9	CC		KEEP	---	---	---	---	capture			Silent	SNP	63136574	63136574	11733	2	C	T	T	27	27	OTX1	T	1	1
ZNF638	27332	broad.mit.edu	36	2	71504281	71504281	+	Missense_Mutation	SNP	A	C	C			TCGA-19-1786-01	TCGA-19-1786-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr2:71504281A>C	uc002shx.1	+	c.4129A>C	c.(4129-4131)AGT>CGT	p.S1377R	ZNF638_uc002shy.1_Missense_Mutation_p.S1377R|ZNF638_uc002shz.1_Missense_Mutation_p.S1377R|ZNF638_uc002sia.1_Missense_Mutation_p.S1377R|ZNF638_uc002sib.1_Intron|ZNF638_uc010fed.1_Intron|ZNF638_uc002sic.1_Missense_Mutation_p.S474R|ZNF638_uc002sid.1_Intron	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	1377					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)	3														0.15	13.346786	22.754473	12	68	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	71504281	71504281	18650	2	A	C	C	15	15	ZNF638	C	4	4
MGAT4A	11320	broad.mit.edu	36	2	98622769	98622769	+	Nonsense_Mutation	SNP	C	T	T			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:98622769C>T	uc002sze.1	-	c.1256G>A	c.(1255-1257)TGG>TAG	p.W419*	MGAT4A_uc010fil.1_Nonsense_Mutation_p.W173*|C2orf64_uc002sza.1_Intron	NM_012214	NP_036346	Q9UM21	MGT4A_HUMAN	mannosyl (alpha-1,3-)-glycoprotein	419	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding				0														0.131313	20.911744	33.988526	13	86	CC		KEEP	---	---	---	---	capture			Nonsense_Mutation	SNP	98622769	98622769	9935	2	C	T	T	21	21	MGAT4A	T	5	2
PVRL3	25945	broad.mit.edu	36	3	112313604	112313604	+	Silent	SNP	C	T	T			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:112313604C>T	uc003dxt.1	+	c.198C>T	c.(196-198)GTC>GTT	p.V66V	PVRL3_uc003dxu.1_Silent_p.V43V	NM_015480	NP_056295	Q9NQS3	PVRL3_HUMAN	poliovirus receptor-related 3	66	Extracellular (Potential).|Ig-like V-type.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane	cell adhesion molecule binding|protein homodimerization activity				0														0.369748	136.168375	137.942891	44	75	CC		KEEP	---	---	---	---	capture			Silent	SNP	112313604	112313604	13299	3	C	T	T	29	29	PVRL3	T	2	2
TKTL2	84076	broad.mit.edu	36	4	164614297	164614297	+	Nonsense_Mutation	SNP	G	A	A			TCGA-19-1786-01	TCGA-19-1786-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr4:164614297G>A	uc003iqp.2	-	c.40C>T	c.(40-42)CAG>TAG	p.Q14*		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	14						cytoplasm	metal ion binding|transketolase activity			ovary(1)|pancreas(1)	2	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)												0.205882	13.505177	16.23584	7	27	GG		KEEP	---	---	---	---	capture			Nonsense_Mutation	SNP	164614297	164614297	16465	4	G	A	A	46	46	TKTL2	A	5	2
BMP3	651	broad.mit.edu	36	4	82193703	82193703	+	Missense_Mutation	SNP	G	A	A			TCGA-19-1786-01	TCGA-19-1786-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr4:82193703G>A	uc003hmg.2	+	c.1408G>A	c.(1408-1410)GCT>ACT	p.A470T		NM_001201	NP_001192	P12645	BMP3_HUMAN	bone morphogenetic protein 3 preproprotein	470					cartilage development|cell differentiation|cell-cell signaling|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(4)|central_nervous_system(1)	5														0.246154	39.765399	43.581407	16	49	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	82193703	82193703	1486	4	G	A	A	38	38	BMP3	A	1	1
GPR6	2830	broad.mit.edu	36	6	110407774	110407774	+	Missense_Mutation	SNP	G	A	A			TCGA-19-1786-01	TCGA-19-1786-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:110407774G>A	uc003ptu.1	+	c.766G>A	c.(766-768)GCG>ACG	p.A256T		NM_005284	NP_005275	P46095	GPR6_HUMAN	G protein-coupled receptor 6	256	Cytoplasmic (Potential).					integral to plasma membrane					0		all_cancers(87;1.64e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;2.83e-05)|all_lung(197;0.00016)|Lung NSC(302;0.000318)|Colorectal(196;0.0488)		BRCA - Breast invasive adenocarcinoma(108;8.01e-05)|Epithelial(106;8.76e-05)|all cancers(137;0.000197)|OV - Ovarian serous cystadenocarcinoma(136;0.0307)										0.6	10.526333	10.570195	3	2	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	110407774	110407774	6976	6	G	A	A	38	38	GPR6	A	1	1
GPR116	221395	broad.mit.edu	36	6	46934466	46934466	+	Missense_Mutation	SNP	G	A	A			TCGA-19-1786-01	TCGA-19-1786-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:46934466G>A	uc003oyo.2	-	c.3133C>T	c.(3133-3135)CGG>TGG	p.R1045W	GPR116_uc003oyp.2_Missense_Mutation_p.R903W|GPR116_uc003oyq.2_Missense_Mutation_p.R1045W|GPR116_uc010jzi.1_Missense_Mutation_p.R717W	NM_001098518	NP_056049	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116	1045	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)	1			Lung(136;0.192)			NSCLC(59;410 1274 8751 36715 50546)								0.384615	92.340707	93.247724	30	48	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	46934466	46934466	6907	6	G	A	A	39	39	GPR116	A	1	1
C6orf165	154313	broad.mit.edu	36	6	88184822	88184822	+	Missense_Mutation	SNP	G	A	A			TCGA-19-1786-01	TCGA-19-1786-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:88184822G>A	uc003plv.1	+	c.809G>A	c.(808-810)CGA>CAA	p.R270Q	C6orf165_uc003plw.1_Missense_Mutation_p.R82Q|C6orf165_uc010kbv.1_Non-coding_Transcript|C6orf165_uc003plu.1_Missense_Mutation_p.R270Q	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	270										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)										0.383929	136.203906	137.524981	43	69	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	88184822	88184822	2446	6	G	A	A	37	37	C6orf165	A	1	1
VPS13B	157680	broad.mit.edu	36	8	100563049	100563049	+	Missense_Mutation	SNP	A	G	G			TCGA-19-1786-01	TCGA-19-1786-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr8:100563049A>G	uc003yiv.1	+	c.3713A>G	c.(3712-3714)AAC>AGC	p.N1238S	VPS13B_uc003yiw.1_Missense_Mutation_p.N1238S|VPS13B_uc003yiu.1_Missense_Mutation_p.N1238S|VPS13B_uc003yix.1_Missense_Mutation_p.N708S	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1238					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			Colon(161;2205 2542 7338 31318)				1116				0.333333	64.555343	66.104511	21	42	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	100563049	100563049	17757	8	A	G	G	2	2	VPS13B	G	4	4
KCNV1	27012	broad.mit.edu	36	8	111054014	111054014	+	Missense_Mutation	SNP	C	T	T			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr8:111054014C>T	uc003ynr.2	-	c.640G>A	c.(640-642)GTC>ATC	p.V214I	KCNV1_uc010mcw.1_Missense_Mutation_p.V214I	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	214	Helical; Name=Segment S1; (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)											0.411765	100.217993	100.816326	35	50	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	111054014	111054014	8399	8	C	T	T	19	19	KCNV1	T	1	1
ORM2	5005	broad.mit.edu	36	9	116133971	116133971	+	Missense_Mutation	SNP	G	A	A			TCGA-19-1786-01	TCGA-19-1786-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr9:116133971G>A	uc004bil.1	+	c.481G>A	c.(481-483)GAA>AAA	p.E161K		NM_000608	NP_000599	P19652	A1AG2_HUMAN	orosomucoid 2	161					acute-phase response|regulation of immune system process	extracellular space	binding				0		Myeloproliferative disorder(63;0.163)				NSCLC(65;867 1308 1814 2391 12508)								0.491228	92.002043	92.005727	28	29	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	116133971	116133971	11679	9	G	A	A	37	37	ORM2	A	1	1
DDX31	64794	broad.mit.edu	36	9	134460281	134460281	+	Silent	SNP	G	A	A			TCGA-19-1786-01	TCGA-19-1786-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr9:134460281G>A	uc004cbq.1	-	c.2349C>T	c.(2347-2349)CTC>CTT	p.L783L	DDX31_uc010mzu.1_Silent_p.L710L	NM_022779	NP_073616	Q9H8H2	DDX31_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 31	783						nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(145;2.67e-06)|Epithelial(140;7.61e-05)										0.309524	35.86284	37.218685	13	29	GG		KEEP	---	---	---	---	capture			Silent	SNP	134460281	134460281	4527	9	G	A	A	37	37	DDX31	A	1	1
TAF1L	138474	broad.mit.edu	36	9	32620834	32620834	+	Missense_Mutation	SNP	G	C	C			TCGA-19-1786-01	TCGA-19-1786-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr9:32620834G>C	uc003zrg.1	-	c.4744C>G	c.(4744-4746)CAG>GAG	p.Q1582E		NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1582	Bromo 2.				male meiosis|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding|transcription activator activity			lung(8)|large_intestine(3)|central_nervous_system(3)|skin(2)|ovary(2)|breast(1)|pancreas(1)	20			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)						234				0.120915	50.555456	93.701033	37	269	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	32620834	32620834	16044	9	G	C	C	45	45	TAF1L	C	3	3
TAF1L	138474	broad.mit.edu	36	9	32620947	32620947	+	Missense_Mutation	SNP	G	T	T			TCGA-19-1786-01	TCGA-19-1786-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr9:32620947G>T	uc003zrg.1	-	c.4631C>A	c.(4630-4632)TCT>TAT	p.S1544Y		NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1544	Bromo 2.				male meiosis|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding|transcription activator activity			lung(8)|large_intestine(3)|central_nervous_system(3)|skin(2)|ovary(2)|breast(1)|pancreas(1)	20			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)						234				0.150235	58.071221	83.041869	32	181	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	32620947	32620947	16044	9	G	T	T	33	33	TAF1L	T	3	3
TAF1L	138474	broad.mit.edu	36	9	32622270	32622270	+	Nonsense_Mutation	SNP	G	T	T			TCGA-19-1786-01	TCGA-19-1786-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr9:32622270G>T	uc003zrg.1	-	c.3308C>A	c.(3307-3309)TCA>TAA	p.S1103*		NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1103					male meiosis|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding|transcription activator activity			lung(8)|large_intestine(3)|central_nervous_system(3)|skin(2)|ovary(2)|breast(1)|pancreas(1)	20			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)						234				0.18239	56.272278	71.351598	29	130	GG		KEEP	---	---	---	---	capture			Nonsense_Mutation	SNP	32622270	32622270	16044	9	G	T	T	45	45	TAF1L	T	5	3
TAF1L	138474	broad.mit.edu	36	9	32623161	32623161	+	Missense_Mutation	SNP	G	C	C			TCGA-19-1786-01	TCGA-19-1786-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr9:32623161G>C	uc003zrg.1	-	c.2417C>G	c.(2416-2418)CCC>CGC	p.P806R		NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	806					male meiosis|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding|transcription activator activity			lung(8)|large_intestine(3)|central_nervous_system(3)|skin(2)|ovary(2)|breast(1)|pancreas(1)	20			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)						234				0.130719	26.015259	46.30739	20	133	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	32623161	32623161	16044	9	G	C	C	43	43	TAF1L	C	3	3
NOL6	65083	broad.mit.edu	36	9	33456125	33456125	+	Missense_Mutation	SNP	T	A	A			TCGA-19-1786-01	TCGA-19-1786-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr9:33456125T>A	uc003zsz.1	-	c.2308A>T	c.(2308-2310)ACA>TCA	p.T770S	SUGT1P1_uc010mjq.1_Intron|NOL6_uc003zsy.1_5'Flank|NOL6_uc003zta.1_Intron|NOL6_uc010mjv.1_Missense_Mutation_p.T767S|NOL6_uc003ztb.1_Missense_Mutation_p.T770S	NM_022917	NP_075068	Q9H6R4	NOL6_HUMAN	nucleolar protein family 6 alpha isoform	770					rRNA processing	condensed nuclear chromosome|nucleolus	RNA binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.152)										0.37037	27.443081	27.841599	10	17	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	33456125	33456125	10928	9	T	A	A	58	58	NOL6	A	4	4
DNAJB5	25822	broad.mit.edu	36	9	34986695	34986695	+	Missense_Mutation	SNP	C	G	G			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr9:34986695C>G	uc003zvs.1	+	c.645C>G	c.(643-645)ATC>ATG	p.I215M	DNAJB5_uc003zvt.1_Missense_Mutation_p.I215M	NM_012266	NP_036398	O75953	DNJB5_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 5	215					protein folding|response to unfolded protein		heat shock protein binding|unfolded protein binding				0			LUSC - Lung squamous cell carcinoma(32;0.00575)											0.454545	47.009328	47.069761	15	18	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	34986695	34986695	4806	9	C	G	G	29	29	DNAJB5	G	3	3
CCIN	881	broad.mit.edu	36	9	36160395	36160395	+	Missense_Mutation	SNP	C	G	G			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr9:36160395C>G	uc003zzb.2	+	c.896C>G	c.(895-897)GCT>GGT	p.A299G		NM_005893	NP_005884	Q13939	CALI_HUMAN	calicin	299	Kelch 1.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			ovary(1)	1			STAD - Stomach adenocarcinoma(86;0.228)											0.14881	39.90307	59.765998	25	143	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	36160395	36160395	3003	9	C	G	G	28	28	CCIN	G	3	3
CCIN	881	broad.mit.edu	36	9	36161192	36161192	+	Missense_Mutation	SNP	C	G	G			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr9:36161192C>G	uc003zzb.2	+	c.1693C>G	c.(1693-1695)CCT>GCT	p.P565A		NM_005893	NP_005884	Q13939	CALI_HUMAN	calicin	565	Kelch 6.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			ovary(1)	1			STAD - Stomach adenocarcinoma(86;0.228)											0.358621	160.261593	162.812768	52	93	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	36161192	36161192	3003	9	C	G	G	30	30	CCIN	G	3	3
WWC3	55841	broad.mit.edu	36	X	10022227	10022227	+	Missense_Mutation	SNP	T	C	C			TCGA-19-1786-01	TCGA-19-1786-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chrX:10022227T>C	uc004csx.2	+	c.563T>C	c.(562-564)CTA>CCA	p.L188P	WWC3_uc010nds.1_5'UTR|WWC3_uc010ndt.1_Non-coding_Transcript	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	188										ovary(4)	4														0.349754	218.601167	222.62746	71	132	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	10022227	10022227	17987	23	T	C	C	53	53	WWC3	C	4	4
GPC4	2239	broad.mit.edu	36	X	132300942	132300942	+	Missense_Mutation	SNP	C	T	T			TCGA-19-1786-01	TCGA-19-1786-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chrX:132300942C>T	uc004exc.1	-	c.254G>A	c.(253-255)AGT>AAT	p.S85N		NM_001448	NP_001439	O75487	GPC4_HUMAN	glypican 4	85					anatomical structure morphogenesis|cell proliferation	anchored to membrane|external side of plasma membrane|extracellular space|insoluble fraction|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	Acute lymphoblastic leukemia(192;0.000127)													0.351145	134.786994	137.357601	46	85	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	132300942	132300942	6874	23	C	T	T	20	20	GPC4	T	2	2
DMD	1756	broad.mit.edu	36	X	31276626	31276626	+	Missense_Mutation	SNP	T	C	C			TCGA-19-1786-01	TCGA-19-1786-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chrX:31276626T>C	uc004dda.1	-	c.9131A>G	c.(9130-9132)GAC>GGC	p.D3044G	DMD_uc004dcr.1_Missense_Mutation_p.D584G|DMD_uc004dcs.1_Missense_Mutation_p.D584G|DMD_uc004dct.1_Missense_Mutation_p.D584G|DMD_uc004dcu.1_Missense_Mutation_p.D584G|DMD_uc004dcv.1_Missense_Mutation_p.D584G|DMD_uc004dcw.2_Missense_Mutation_p.D1700G|DMD_uc004dcx.2_Missense_Mutation_p.D1703G|DMD_uc004dcz.2_Missense_Mutation_p.D2921G|DMD_uc004dcy.1_Missense_Mutation_p.D3040G|DMD_uc004ddb.1_Missense_Mutation_p.D3036G|DMD_uc004dcq.1_Missense_Mutation_p.D315G	NM_004006	NP_004001	P11532	DMD_HUMAN	dystrophin Dp427m isoform	3044					muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)												0.127273	9.896978	17.341483	7	48	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	31276626	31276626	4760	23	T	C	C	58	58	DMD	C	4	4
CD226	10666	broad.mit.edu	36	18	65714005	65714006	+	Frame_Shift_Del	DEL	TG	-	-			TCGA-19-1786-01	TCGA-19-1786-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:65714005_65714006delTG	uc010dqo.1	-	c.638_639delCA	c.(637-639)ACAfs	p.T213fs	CD226_uc002lkm.2_Frame_Shift_Del_p.T213fs	NM_006566	NP_006557	Q15762	CD226_HUMAN	CD226 molecule precursor	213	Ig-like C2-type 2.|Extracellular (Potential).				cell adhesion|cell recognition|positive regulation of Fc receptor mediated stimulatory signaling pathway|positive regulation of immunoglobulin mediated immune response|positive regulation of mast cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	cell surface|integral to plasma membrane|membrane raft	cell adhesion molecule binding|integrin binding|protein kinase binding|receptor activity				0		Esophageal squamous(42;0.129)				NSCLC(184;838 2130 8673 21498 50749)								0.35			8	15				---	---	---	---	capture_indel			Frame_Shift_Del	DEL	65714005	65714006	3113	18	TG	-	-	55	55	CD226	-	5	5
ARAP3	64411	broad.mit.edu	36	5	141013938	141013939	+	Frame_Shift_Ins	INS	-	G	G			TCGA-19-1786-01	TCGA-19-1786-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:141013938_141013939insG	uc003llm.1	-	c.4397_4398insC	c.(4396-4398)CCTfs	p.P1466fs	ARAP3_uc003lln.1_Frame_Shift_Ins_p.P1297fs|FCHSD1_uc003llk.1_5'Flank|ARAP3_uc003lll.1_Frame_Shift_Ins_p.P417fs	NM_022481	NP_071926	Q8WWN8	ARAP3_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1466	Pro-rich.				cytoskeleton organization|negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of ARF GTPase activity|regulation of cell shape|small GTPase mediated signal transduction|vesicle-mediated transport	cytoskeleton|cytosol|lamellipodium|plasma membrane|ruffle	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|Rho GTPase activator activity|zinc ion binding			breast(5)|ovary(1)|large_intestine(1)	7														0.33			2	4				---	---	---	---	capture_indel			Frame_Shift_Ins	INS	141013938	141013939	851	5	-	G	G	11	11	ARAP3	G	5	5
THBS2	7058	broad.mit.edu	36	6	169370222	169370228	+	Frame_Shift_Del	DEL	GGGCAGT	-	-			TCGA-19-1786-01	TCGA-19-1786-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:169370222_169370228delGGGCAGT	uc003qwt.1	-	c.2333_2339delACTGCCC	c.(2332-2340)AACTGCCCTfs	p.N778fs		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	778_780	TSP type-3 3.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(4)	4		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		Esophageal Squamous(91;219 1934 18562 44706)								0.34			22	42				---	---	---	---	capture_indel			Frame_Shift_Del	DEL	169370222	169370228	16382	6	GGGCAGT	-	-	35	35	THBS2	-	5	5
