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	TCGAscape_Amplification_Peaks	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_judgement	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	dataset	Oncotatorv0393GAF20hg19Feb2011dbSNPbuild132UniProtRelease2011_6	type	classification	start	end	gene	chr	ref_allele	tum_allele1	tum_allele2	newbase	context_orig	context65	gene_name	categ	categ_ignoring_null_categ
C10orf79	80217	broad.mit.edu	37	10	105942139	105942139	+	Silent	SNP	G	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:105942139G>A	uc001kxw.2	-	c.2274C>T	c.(2272-2274)TCC>TCT	p.S758S	C10orf79_uc009xxq.2_Silent_p.S66S|C10orf79_uc001kxx.3_Silent_p.S759S	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	758											0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)										0.035857	-39.142644	19.461184	9	242	KEEP	---	---	---	---	capture		Silent	SNP	105942139	105942139	1655	10	G	A	A	A	496	39	C10orf79	1	1
HTRA1	5654	broad.mit.edu	37	10	124271531	124271531	+	Silent	SNP	G	C	C			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:124271531G>C	uc001lgj.2	+	c.1224G>C	c.(1222-1224)GTG>GTC	p.V408V		NM_002775	NP_002766	Q92743	HTRA1_HUMAN	HtrA serine peptidase 1 precursor	408	PDZ.				proteolysis|regulation of cell growth	extracellular space	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_neural(114;0.0765)|Lung NSC(174;0.133)|all_lung(145;0.163)|Breast(234;0.238)												0.07619	0.613351	19.940367	8	97	KEEP	---	---	---	---	capture		Silent	SNP	124271531	124271531	7753	10	G	C	C	C	574	45	HTRA1	3	3
DOCK1	1793	broad.mit.edu	37	10	128850972	128850972	+	Silent	SNP	C	T	T			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:128850972C>T	uc010qun.1	+	c.2229C>T	c.(2227-2229)TAC>TAT	p.Y743Y	DOCK1_uc001ljt.2_Silent_p.Y722Y	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	722					apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)										0.042471	-38.152986	19.9321	11	248	KEEP	---	---	---	---	capture		Silent	SNP	128850972	128850972	4868	10	C	T	T	T	246	19	DOCK1	1	1
PIP4K2A	5305	broad.mit.edu	37	10	22898632	22898632	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:22898632G>C	uc001irl.3	-	c.159C>G	c.(157-159)AGC>AGG	p.S53R		NM_005028	NP_005019	P48426	PI42A_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	53	PIPK.						1-phosphatidylinositol-4-phosphate 5-kinase activity|1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding			ovary(1)|skin(1)	2										213				0.313559	107.704142	111.373106	37	81	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	22898632	22898632	12360	10	G	C	C	C	542	42	PIP4K2A	3	3
RET	5979	broad.mit.edu	37	10	43601824	43601824	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:43601824G>A	uc001jal.2	+	c.868G>A	c.(868-870)GAC>AAC	p.D290N	RET_uc001jak.1_Missense_Mutation_p.D290N|RET_uc010qez.1_Missense_Mutation_p.D36N	NM_020975	NP_066124	P07949	RET_HUMAN	ret proto-oncogene isoform a	290	Extracellular (Potential).				homophilic cell adhesion|positive regulation of metanephric glomerulus development|positive regulation of transcription, DNA-dependent|posterior midgut development|protein phosphorylation	integral to membrane	ATP binding|calcium ion binding|transcription activator activity|transmembrane receptor protein tyrosine kinase activity			thyroid(381)|adrenal_gland(20)|lung(6)|large_intestine(5)|ovary(4)|central_nervous_system(3)|urinary_tract(1)	420		Ovarian(717;0.0423)			Sunitinib(DB01268)	Melanoma(102;360 522 3376 9752 9881 14372 17251 18341 20876 24662 34807 43144 48149)		1		536				0.294118	26.366478	27.639015	10	24	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	43601824	43601824	13705	10	G	A	A	A	533	41	RET	2	2
RBP3	5949	broad.mit.edu	37	10	48389204	48389204	+	Silent	SNP	C	G	G			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:48389204C>G	uc001jez.2	-	c.1674G>C	c.(1672-1674)TCG>TCC	p.S558S		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	558	4 X approximate tandem repeats.|2.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)									0.35	21.520456	21.916797	7	13	KEEP	---	---	---	---	capture		Silent	SNP	48389204	48389204	13626	10	C	G	G	G	340	27	RBP3	3	3
FOLH1	2346	broad.mit.edu	37	11	49175441	49175441	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:49175441C>A	uc001ngy.2	-	c.1927G>T	c.(1927-1929)GCT>TCT	p.A643S	FOLH1_uc001ngx.2_Missense_Mutation_p.A75S|FOLH1_uc001ngz.2_Missense_Mutation_p.A643S|FOLH1_uc009yly.2_Missense_Mutation_p.A628S|FOLH1_uc009ylz.2_Missense_Mutation_p.A628S|FOLH1_uc009yma.2_Missense_Mutation_p.A335S	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	643	Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)	1					Capromab(DB00089)|L-Glutamic Acid(DB00142)									0.378049	90.499082	91.571276	31	51	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	49175441	49175441	6221	11	C	A	A	A	325	25	FOLH1	2	2
ARRB1	408	broad.mit.edu	37	11	74994399	74994399	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:74994399G>A	uc001owe.1	-	c.286C>T	c.(286-288)CCC>TCC	p.P96S	ARRB1_uc001owf.1_Missense_Mutation_p.P96S	NM_004041	NP_004032	P49407	ARRB1_HUMAN	arrestin beta 1 isoform A	96	Interaction with SRC (By similarity).				G-protein coupled receptor internalization|histone H4 acetylation|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|platelet activation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gene-specific transcription from RNA polymerase II promoter|positive regulation of histone acetylation|positive regulation of Rho protein signal transduction|post-Golgi vesicle-mediated transport|proteasomal ubiquitin-dependent protein catabolic process|protein transport|protein ubiquitination|signal transduction|stress fiber assembly|transcription from RNA polymerase II promoter	chromatin|coated pit|cytoplasmic vesicle membrane|cytosol|Golgi membrane|lysosomal membrane|membrane fraction|nucleus|plasma membrane|pseudopodium|soluble fraction	angiotensin receptor binding|enzyme inhibitor activity|GTPase activator activity|insulin-like growth factor receptor binding|promoter binding|transcription factor binding|ubiquitin protein ligase binding			breast(1)	1														0.209302	17.770599	21.126289	9	34	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	74994399	74994399	998	11	G	A	A	A	546	42	ARRB1	2	2
ITPR2	3709	broad.mit.edu	37	12	26877673	26877673	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:26877673G>C	uc001rhg.2	-	c.282C>G	c.(280-282)CAC>CAG	p.H94Q	ITPR2_uc001rhh.1_Missense_Mutation_p.H32Q|ITPR2_uc001rhi.1_Missense_Mutation_p.H94Q	NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	94	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	13	Colorectal(261;0.0847)									1600				0.153846	8.583266	11.561539	4	22	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	26877673	26877673	8225	12	G	C	C	C	516	40	ITPR2	3	3
BICD1	636	broad.mit.edu	37	12	32459005	32459005	+	Silent	SNP	C	T	T			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:32459005C>T	uc001rku.2	+	c.954C>T	c.(952-954)TTC>TTT	p.F318F	BICD1_uc001rkv.2_Silent_p.F318F|BICD1_uc010skd.1_Non-coding_Transcript	NM_001714	NP_001705	Q96G01	BICD1_HUMAN	bicaudal D homolog 1 isoform 1	318					anatomical structure morphogenesis|intracellular mRNA localization|microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule|positive regulation of receptor-mediated endocytosis|protein localization to organelle|RNA processing|stress granule assembly|viral reproduction	cytoplasmic vesicle|cytoskeleton|cytosol|host cell viral assembly compartment|membrane|perinuclear region of cytoplasm|trans-Golgi network	cytoskeletal adaptor activity|dynactin binding|dynein binding|proteinase activated receptor binding|Rab GTPase binding|structural constituent of cytoskeleton			large_intestine(1)	1	all_cancers(9;5.13e-11)|all_epithelial(9;2.71e-11)|all_lung(12;6.66e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0213)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0201)											0.144578	16.110233	26.276698	12	71	KEEP	---	---	---	---	capture		Silent	SNP	32459005	32459005	1453	12	C	T	T	T	376	29	BICD1	2	2
SRP54	6729	broad.mit.edu	37	14	35470215	35470215	+	Nonsense_Mutation	SNP	G	T	T			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr14:35470215G>T	uc001wso.2	+	c.244G>T	c.(244-246)GAA>TAA	p.E82*	SRP54_uc010tpp.1_Nonsense_Mutation_p.E33*|SRP54_uc010tpq.1_Nonsense_Mutation_p.E18*	NM_003136	NP_003127	P61011	SRP54_HUMAN	signal recognition particle 54kDa isoform 1	82	G-domain.				GTP catabolic process|response to drug|SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition|SRP-dependent cotranslational protein targeting to membrane, translocation	cytosol|nuclear speck|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|drug binding|endoplasmic reticulum signal peptide binding|GDP binding|GTP binding|nucleoside-triphosphatase activity|ribonucleoprotein binding			ovary(1)	1	Breast(36;0.0545)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;2.48e-05)|Lung(238;3.13e-05)|Epithelial(34;0.0314)|all cancers(34;0.0797)|BRCA - Breast invasive adenocarcinoma(188;0.243)	GBM - Glioblastoma multiforme(112;0.0396)										0.09375	1.399031	6.709526	3	29	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	35470215	35470215	15669	14	G	T	T	T	429	33	SRP54	5	2
AQR	9716	broad.mit.edu	37	15	35234266	35234266	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:35234266G>C	uc001ziv.2	-	c.487C>G	c.(487-489)CGA>GGA	p.R163G		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	163					nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)										0.076923	0.427821	12.333155	5	60	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	35234266	35234266	846	15	G	C	C	C	519	40	AQR	3	3
LTK	4058	broad.mit.edu	37	15	41796728	41796728	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:41796728G>T	uc001zoa.3	-	c.2231C>A	c.(2230-2232)CCT>CAT	p.P744H	LTK_uc001zob.3_Missense_Mutation_p.P683H|LTK_uc010ucx.1_Missense_Mutation_p.P614H|LTK_uc010bcg.2_Missense_Mutation_p.P442H	NM_002344	NP_002335	P29376	LTK_HUMAN	leukocyte receptor tyrosine kinase isoform 1	744	Protein kinase.|Cytoplasmic (Potential).				protein phosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|soluble fraction	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(6)|central_nervous_system(1)	7		all_cancers(109;1.89e-19)|all_epithelial(112;2.28e-16)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.172)		OV - Ovarian serous cystadenocarcinoma(18;2.1e-17)|GBM - Glioblastoma multiforme(113;1.34e-06)|Colorectal(105;0.0148)|BRCA - Breast invasive adenocarcinoma(123;0.113)						314	TSP Lung(18;0.14)			0.216216	17.679801	20.429188	8	29	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	41796728	41796728	9456	15	G	T	T	T	455	35	LTK	2	2
FSD2	123722	broad.mit.edu	37	15	83434003	83434003	+	Missense_Mutation	SNP	T	C	C			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:83434003T>C	uc002bjd.2	-	c.1735A>G	c.(1735-1737)ATT>GTT	p.I579V	FSD2_uc010uol.1_Missense_Mutation_p.I534V|FSD2_uc010uom.1_Missense_Mutation_p.I534V	NM_001007122	NP_001007123	A1L4K1	FSD2_HUMAN	fibronectin type III and SPRY domain containing	579	B30.2/SPRY.									central_nervous_system(1)	1														0.207547	49.307564	57.695613	22	84	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	83434003	83434003	6322	15	T	C	C	C	663	51	FSD2	4	4
KLHL25	64410	broad.mit.edu	37	15	86312638	86312638	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:86312638G>A	uc002bly.2	-	c.404C>T	c.(403-405)GCT>GTT	p.A135V		NM_022480	NP_071925	Q9H0H3	ENC2_HUMAN	BTB/POZ KELCH domain protein	135						cytoplasm				ovary(2)	2														0.238095	25.130619	27.761055	10	32	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	86312638	86312638	8692	15	G	A	A	A	442	34	KLHL25	2	2
ZP2	7783	broad.mit.edu	37	16	21217055	21217055	+	Silent	SNP	A	G	G			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:21217055A>G	uc010bwn.1	-	c.642T>C	c.(640-642)AGT>AGC	p.S214S	ZP2_uc002dii.2_Silent_p.S175S|ZP2_uc010bwo.2_Silent_p.S214S	NM_003460	NP_003451	Q05996	ZP2_HUMAN	zona pellucida glycoprotein 2 preproprotein	175	Extracellular (Potential).				binding of sperm to zona pellucida|intracellular protein transport	endoplasmic reticulum|Golgi apparatus|integral to membrane|multivesicular body|plasma membrane|proteinaceous extracellular matrix|stored secretory granule	acrosin binding|coreceptor activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(48;0.0573)										0.415094	72.731678	73.066531	22	31	KEEP	---	---	---	---	capture		Silent	SNP	21217055	21217055	18820	16	A	G	G	G	180	14	ZP2	4	4
CACNG3	10368	broad.mit.edu	37	16	24372930	24372930	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:24372930C>T	uc002dmf.2	+	c.694C>T	c.(694-696)CGG>TGG	p.R232W		NM_006539	NP_006530	O60359	CCG3_HUMAN	voltage-dependent calcium channel gamma-3	232					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane|voltage-gated calcium channel complex	voltage-gated calcium channel activity				0				GBM - Glioblastoma multiforme(48;0.0809)										0.035714	-30.493349	15.333767	7	189	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	24372930	24372930	2674	16	C	T	T	T	295	23	CACNG3	1	1
ZFHX3	463	broad.mit.edu	37	16	72991911	72991911	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:72991911G>A	uc002fck.2	-	c.2134C>T	c.(2134-2136)CGG>TGG	p.R712W	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	712					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription repressor activity|transcription repressor activity|zinc ion binding			ovary(2)	2		Ovarian(137;0.13)												0.070175	-2.039056	8.823396	4	53	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	72991911	72991911	18222	16	G	A	A	A	506	39	ZFHX3	1	1
ANKRD11	29123	broad.mit.edu	37	16	89346349	89346349	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:89346349C>A	uc002fmx.1	-	c.6601G>T	c.(6601-6603)GCA>TCA	p.A2201S	ANKRD11_uc002fmy.1_Missense_Mutation_p.A2201S|ANKRD11_uc002fnc.1_Missense_Mutation_p.A2201S|ANKRD11_uc002fna.1_5'Flank|ANKRD11_uc002fnb.1_Missense_Mutation_p.A2158S	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	2201	Pro-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)										0.130435	4.008712	7.065345	3	20	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	89346349	89346349	642	16	C	A	A	A	325	25	ANKRD11	2	2
FKBP10	60681	broad.mit.edu	37	17	39975858	39975858	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:39975858G>C	uc002hxv.2	+	c.994G>C	c.(994-996)GGT>CGT	p.G332R	FKBP10_uc002hxw.1_Missense_Mutation_p.G35R	NM_021939	NP_068758	Q96AY3	FKB10_HUMAN	FK506 binding protein 10 precursor	332	PPIase FKBP-type 3.				protein folding	endoplasmic reticulum lumen|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1		Breast(137;0.00122)		BRCA - Breast invasive adenocarcinoma(366;0.148)										0.3	19.450242	20.531225	9	21	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	39975858	39975858	6140	17	G	C	C	C	559	43	FKBP10	3	3
MC2R	4158	broad.mit.edu	37	18	13884822	13884822	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:13884822C>A	uc002ksp.1	-	c.696G>T	c.(694-696)TGG>TGT	p.W232C		NM_000529	NP_000520	Q01718	ACTHR_HUMAN	melanocortin 2 receptor	232	Helical; Name=6; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	adrenocorticotropin receptor activity|protein binding			ovary(4)	4					Corticotropin(DB01285)|Cosyntropin(DB01284)	Colon(141;1584 1782 35999 48227 48692)								0.084337	-1.991142	12.54774	7	76	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	13884822	13884822	9753	18	C	A	A	A	286	22	MC2R	2	2
ESCO1	114799	broad.mit.edu	37	18	19153748	19153748	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:19153748G>C	uc002kth.1	-	c.1057C>G	c.(1057-1059)CAG>GAG	p.Q353E	ESCO1_uc002kti.1_Non-coding_Transcript	NM_052911	NP_443143	Q5FWF5	ESCO1_HUMAN	establishment of cohesion 1 homolog 1	353					cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding				0														0.245902	85.704679	92.86671	30	92	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	19153748	19153748	5441	18	G	C	C	C	585	45	ESCO1	3	3
CCDC130	81576	broad.mit.edu	37	19	13873418	13873418	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:13873418C>G	uc002mxb.1	+	c.727C>G	c.(727-729)CAG>GAG	p.Q243E	CCDC130_uc002mxc.1_Missense_Mutation_p.Q243E|CCDC130_uc002mxd.1_Missense_Mutation_p.Q98E|CCDC130_uc010dzf.1_Missense_Mutation_p.Q137E|MRI1_uc002mxe.2_5'Flank|MRI1_uc002mxf.2_5'Flank	NM_030818	NP_110445	P13994	CC130_HUMAN	coiled-coil domain containing 130	243					response to virus		protein binding				0			OV - Ovarian serous cystadenocarcinoma(19;6.02e-23)|Epithelial(5;2.58e-18)											0.5	45.319095	45.319095	15	15	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	13873418	13873418	2886	19	C	G	G	G	325	25	CCDC130	3	3
EPHX3	79852	broad.mit.edu	37	19	15338904	15338904	+	Silent	SNP	G	T	T			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:15338904G>T	uc002nap.2	-	c.624C>A	c.(622-624)TCC>TCA	p.S208S	EPHX3_uc002naq.2_Silent_p.S208S	NM_024794	NP_079070	Q9H6B9	EPHX3_HUMAN	abhydrolase domain containing 9 precursor	208						extracellular region	hydrolase activity				0														0.210526	7.178329	8.666727	4	15	KEEP	---	---	---	---	capture		Silent	SNP	15338904	15338904	5374	19	G	T	T	T	548	43	EPHX3	2	2
MYO9B	4650	broad.mit.edu	37	19	17314016	17314016	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:17314016G>A	uc010eak.2	+	c.4939G>A	c.(4939-4941)GAG>AAG	p.E1647K	MYO9B_uc002nfi.2_Missense_Mutation_p.E1647K|MYO9B_uc002nfj.1_Missense_Mutation_p.E1647K|MYO9B_uc002nfl.1_Intron	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	1647	Tail.|Phorbol-ester/DAG-type.				actin filament-based movement|Rho protein signal transduction	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1														0.157895	5.53408	7.637457	3	16	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	17314016	17314016	10480	19	G	A	A	A	481	37	MYO9B	1	1
USHBP1	83878	broad.mit.edu	37	19	17374917	17374917	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:17374917C>G	uc002nfs.1	-	c.97G>C	c.(97-99)GCA>CCA	p.A33P	USHBP1_uc002nft.1_Non-coding_Transcript|USHBP1_uc010xpk.1_Intron|USHBP1_uc010eam.1_5'UTR	NM_031941	NP_114147	Q8N6Y0	USBP1_HUMAN	Usher syndrome 1C binding protein 1	33							PDZ domain binding			ovary(1)	1														0.25	5.433963	6.403211	4	12	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	17374917	17374917	17599	19	C	G	G	G	338	26	USHBP1	3	3
ZNF430	80264	broad.mit.edu	37	19	21240398	21240398	+	Silent	SNP	C	G	G			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:21240398C>G	uc002npj.2	+	c.1284C>G	c.(1282-1284)CCC>CCG	p.P428P	ZNF430_uc002npk.2_Silent_p.P427P	NM_025189	NP_079465	Q9H8G1	ZN430_HUMAN	zinc finger protein 430	428					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0														0.194805	30.477051	37.170714	15	62	KEEP	---	---	---	---	capture		Silent	SNP	21240398	21240398	18497	19	C	G	G	G	301	24	ZNF430	3	3
ZNF296	162979	broad.mit.edu	37	19	45575762	45575762	+	Silent	SNP	G	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:45575762G>A	uc002pao.2	-	c.525C>T	c.(523-525)CAC>CAT	p.H175H		NM_145288	NP_660331	Q8WUU4	ZN296_HUMAN	zinc finger protein 296	175	C2H2-type 1.				regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0														0.229167	26.604276	29.830144	11	37	KEEP	---	---	---	---	capture		Silent	SNP	45575762	45575762	18420	19	G	A	A	A	516	40	ZNF296	1	1
HIST2H2BF	440689	broad.mit.edu	37	1	149783693	149783693	+	Silent	SNP	G	T	T			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:149783693G>T	uc010pbk.1	-	c.186C>A	c.(184-186)ATC>ATA	p.I62I	HIST2H2BF_uc010pbj.1_Silent_p.I62I|HIST2H2BF_uc001esr.2_Silent_p.I62I	NM_001024599	NP_001019770	Q5QNW6	H2B2F_HUMAN	histone cluster 2, H2bf isoform a	62					nucleosome assembly	nucleosome|nucleus	DNA binding				0	Breast(34;0.0124)|all_hematologic(923;0.127)													0.080645	-3.028391	74.799582	35	399	KEEP	---	---	---	---	capture		Silent	SNP	149783693	149783693	7467	1	G	T	T	T	577	45	HIST2H2BF	2	2
CADM3	57863	broad.mit.edu	37	1	159159589	159159589	+	Silent	SNP	G	T	T			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:159159589G>T	uc001ftk.2	+	c.117G>T	c.(115-117)CTG>CTT	p.L39L	CADM3_uc009wsx.1_Silent_p.L39L|CADM3_uc009wsy.1_Intron|CADM3_uc001ftl.2_Intron	NM_021189	NP_067012	Q8N126	CADM3_HUMAN	cell adhesion molecule 3 isoform 1	29	Ig-like V-type.|Extracellular (Potential).				adherens junction organization|cell junction assembly|heterophilic cell-cell adhesion|homophilic cell adhesion	cell-cell junction|integral to membrane	protein homodimerization activity			ovary(2)	2	all_hematologic(112;0.0429)													0.322581	27.44448	28.308192	10	21	KEEP	---	---	---	---	capture		Silent	SNP	159159589	159159589	2684	1	G	T	T	T	600	47	CADM3	2	2
COL16A1	1307	broad.mit.edu	37	1	32162567	32162567	+	Silent	SNP	G	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:32162567G>A	uc001btk.1	-	c.861C>T	c.(859-861)AGC>AGT	p.S287S	COL16A1_uc001btj.1_Silent_p.S116S|COL16A1_uc001btl.3_Silent_p.S287S	NM_001856	NP_001847	Q07092	COGA1_HUMAN	alpha 1 type XVI collagen precursor	287	Nonhelical region 10 (NC10).				cell adhesion|female pregnancy|integrin-mediated signaling pathway	collagen type XVI	integrin binding|structural molecule activity			ovary(8)	8		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		Colon(143;498 1786 21362 25193 36625)								0.222222	31.519935	35.990277	14	49	KEEP	---	---	---	---	capture		Silent	SNP	32162567	32162567	3811	1	G	A	A	A	490	38	COL16A1	1	1
KIAA0467	23334	broad.mit.edu	37	1	43881758	43881758	+	Nonsense_Mutation	SNP	C	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:43881758C>A	uc009vws.1	+	c.758C>A	c.(757-759)TCG>TAG	p.S253*		KIAA0467		Q5T011	SZT2_HUMAN	Homo sapiens mRNA for KIAA0467 protein, partial cds.	253						peroxisome				breast(6)|ovary(4)|pancreas(1)	11	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)												0.191489	39.604551	47.958775	18	76	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	43881758	43881758	8485	1	C	A	A	A	391	31	KIAA0467	5	1
ARHGAP29	9411	broad.mit.edu	37	1	94669513	94669513	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:94669513C>A	uc001dqj.3	-	c.735G>T	c.(733-735)GAG>GAT	p.E245D	ARHGAP29_uc009wdq.1_Non-coding_Transcript|ARHGAP29_uc001dql.2_Missense_Mutation_p.E245D	NM_004815	NP_004806	Q52LW3	RHG29_HUMAN	PTPL1-associated RhoGAP 1	245					Rho protein signal transduction	cytosol	metal ion binding|Rho GTPase activator activity			breast(4)|skin(3)|lung(2)|ovary(1)	10		all_lung(203;0.000732)|Lung NSC(277;0.00328)		all cancers(265;0.0187)|Epithelial(280;0.159)						391				0.054795	-6.464984	8.778295	4	69	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	94669513	94669513	890	1	C	A	A	A	311	24	ARHGAP29	2	2
GNAS	2778	broad.mit.edu	37	20	57430212	57430212	+	Nonsense_Mutation	SNP	C	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr20:57430212C>A	uc002xzw.2	+	c.1892C>A	c.(1891-1893)TCG>TAG	p.S631*	GNAS_uc002xzt.2_Intron|GNAS_uc002xzu.3_Intron|GNAS_uc010gjq.2_Intron|GNAS_uc002xzv.2_Non-coding_Transcript	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	Error:Variant_position_missing_in_P63092_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|large_intestine(5)|parathyroid(5)|kidney(5)|lung(2)|testis(1)|autonomic_ganglia(1)	279	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			Colon(117;935 1597 6045 8307 46442)				461	TSP Lung(22;0.16)			0.130435	4.611406	7.665005	3	20	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	57430212	57430212	6779	20	C	A	A	A	403	31	GNAS	5	1
DOPEY2	9980	broad.mit.edu	37	21	37586819	37586819	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr21:37586819G>C	uc002yvg.2	+	c.1094G>C	c.(1093-1095)CGC>CCC	p.R365P	DOPEY2_uc011aeb.1_Missense_Mutation_p.R365P	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	365					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2														0.76	68.939411	70.485658	19	6	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	37586819	37586819	4892	21	G	C	C	C	494	38	DOPEY2	3	3
PCNT	5116	broad.mit.edu	37	21	47851553	47851553	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr21:47851553G>T	uc002zji.3	+	c.8175G>T	c.(8173-8175)GAG>GAT	p.E2725D	PCNT_uc002zjj.2_Missense_Mutation_p.E2607D	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	2725	Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)													0.861111	102.045218	106.581509	31	5	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	47851553	47851553	12010	21	G	T	T	T	438	34	PCNT	2	2
TUBGCP6	85378	broad.mit.edu	37	22	50660053	50660053	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr22:50660053G>C	uc003bkb.1	-	c.2735C>G	c.(2734-2736)ACT>AGT	p.T912S	TUBGCP6_uc003bka.1_5'UTR|TUBGCP6_uc010har.1_Missense_Mutation_p.T904S|TUBGCP6_uc010has.1_Non-coding_Transcript|TUBGCP6_uc010hat.1_Missense_Mutation_p.T108S	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	912					G2/M transition of mitotic cell cycle|microtubule nucleation	cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)										0.714286	69.308709	70.461904	20	8	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	50660053	50660053	17325	22	G	C	C	C	468	36	TUBGCP6	3	3
LRP1B	53353	broad.mit.edu	37	2	141819712	141819712	+	Missense_Mutation	SNP	T	G	G			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:141819712T>G	uc002tvj.1	-	c.1144A>C	c.(1144-1146)AAA>CAA	p.K382Q	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	382	Extracellular (Potential).|LDL-receptor class B 4.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|ovary(10)|pancreas(3)|central_nervous_system(2)|liver(1)|kidney(1)	34		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		Colon(99;50 2074 2507 20106)				2546	TSP Lung(27;0.18)			0.080292	4.64665	29.228261	11	126	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	141819712	141819712	9328	2	T	G	G	G	819	63	LRP1B	4	4
TTN	7273	broad.mit.edu	37	2	179447952	179447952	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:179447952G>A	uc010zfg.1	-	c.57874C>T	c.(57874-57876)CCT>TCT	p.P19292S	TTN_uc010zfh.1_Missense_Mutation_p.P12987S|TTN_uc010zfi.1_Missense_Mutation_p.P12920S|TTN_uc010zfj.1_Missense_Mutation_p.P12795S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4157										ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)							8722				0.375	50.765612	51.412145	18	30	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	179447952	179447952	17290	2	G	A	A	A	559	43	TTN	2	2
OBFC2A	64859	broad.mit.edu	37	2	192546676	192546676	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:192546676G>T	uc002usx.2	+	c.235G>T	c.(235-237)GCA>TCA	p.A79S	OBFC2A_uc002usw.2_5'UTR|OBFC2A_uc002usy.2_Non-coding_Transcript|OBFC2A_uc002usz.2_Non-coding_Transcript|OBFC2A_uc002uta.2_5'UTR	NM_001031716	NP_001026886	Q96AH0	SOSB2_HUMAN	oligonucleotide/oligosaccharide-binding fold	79	OB.				double-strand break repair via homologous recombination|G2/M transition checkpoint|response to ionizing radiation	SOSS complex	single-stranded DNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.061)|Epithelial(96;0.244)											0.368421	20.320078	20.609205	7	12	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	192546676	192546676	11213	2	G	T	T	T	598	46	OBFC2A	2	2
AOX1	316	broad.mit.edu	37	2	201515911	201515911	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:201515911G>A	uc002uvx.2	+	c.3062G>A	c.(3061-3063)CGT>CAT	p.R1021H	AOX1_uc010zhf.1_Missense_Mutation_p.R577H|AOX1_uc010fsu.2_Missense_Mutation_p.R387H	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	1021					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)									0.100671	9.930058	33.639635	15	134	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	201515911	201515911	739	2	G	A	A	A	520	40	AOX1	1	1
SPEG	10290	broad.mit.edu	37	2	220336998	220336998	+	Silent	SNP	G	T	T			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:220336998G>T	uc010fwg.2	+	c.3885G>T	c.(3883-3885)ACG>ACT	p.T1295T		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	1295	Fibronectin type-III 1.				muscle organ development|negative regulation of cell proliferation|protein phosphorylation	nucleus	ATP binding|protein serine/threonine kinase activity			ovary(4)|stomach(2)|central_nervous_system(1)	7		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)						482				0.347826	45.153584	46.06332	16	30	KEEP	---	---	---	---	capture		Silent	SNP	220336998	220336998	15548	2	G	T	T	T	496	39	SPEG	1	1
OTOF	9381	broad.mit.edu	37	2	26695491	26695491	+	Silent	SNP	G	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:26695491G>A	uc002rhk.2	-	c.3760C>T	c.(3760-3762)CTG>TTG	p.L1254L	OTOF_uc010yla.1_5'UTR|OTOF_uc002rhh.2_Intron|OTOF_uc002rhi.2_Silent_p.L564L|OTOF_uc002rhj.2_Intron	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1254	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GBM(102;732 1451 20652 24062 31372)								0.230769	7.417955	8.281716	3	10	KEEP	---	---	---	---	capture		Silent	SNP	26695491	26695491	11715	2	G	A	A	A	438	34	OTOF	2	2
DVL3	1857	broad.mit.edu	37	3	183885740	183885740	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:183885740G>C	uc003fms.2	+	c.1385G>C	c.(1384-1386)AGG>ACG	p.R462T	DVL3_uc011bqw.1_Missense_Mutation_p.R445T|DVL3_uc003fmt.2_Missense_Mutation_p.R133T|DVL3_uc003fmu.2_Missense_Mutation_p.R294T	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	462	DEP.				canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|breast(1)	2	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)											0.210227	78.984887	92.659101	37	139	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	183885740	183885740	5023	3	G	C	C	C	455	35	DVL3	3	3
KCNH8	131096	broad.mit.edu	37	3	19554673	19554673	+	Missense_Mutation	SNP	A	T	T			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:19554673A>T	uc003cbk.1	+	c.2291A>T	c.(2290-2292)CAC>CTC	p.H764L	KCNH8_uc010hex.1_Missense_Mutation_p.H225L	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	764	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity			ovary(1)	1						NSCLC(124;1625 1765 8018 24930 42026)								0.042683	-23.086481	13.690406	7	157	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	19554673	19554673	8343	3	A	T	T	T	78	6	KCNH8	3	3
PPM1M	132160	broad.mit.edu	37	3	52281236	52281236	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:52281236C>A	uc011bed.1	+	c.589C>A	c.(589-591)CAG>AAG	p.Q197K	PPM1M_uc003ddf.3_Missense_Mutation_p.Q36K|PPM1M_uc010hmd.2_Missense_Mutation_p.Q36K|PPM1M_uc003ddg.3_Intron|PPM1M_uc003ddh.3_5'Flank	NM_001122870	NP_001116342	Q96MI6	PPM1M_HUMAN	protein phosphatase 1M isoform b	36	PP2C-like.				protein dephosphorylation	nucleus	CTD phosphatase activity|manganese ion binding				0				BRCA - Breast invasive adenocarcinoma(193;2.4e-05)|Kidney(197;0.00171)|KIRC - Kidney renal clear cell carcinoma(197;0.00194)		NSCLC(151;810 2688 34365 49863)								0.1	2.302313	7.097495	3	27	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	52281236	52281236	12780	3	C	A	A	A	377	29	PPM1M	2	2
LARP7	51574	broad.mit.edu	37	4	113578472	113578472	+	Nonsense_Mutation	SNP	G	T	T			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:113578472G>T	uc003iaz.2	+	c.1759G>T	c.(1759-1761)GAA>TAA	p.E587*	LARP7_uc003iay.2_Nonsense_Mutation_p.E580*|LARP7_uc003iba.2_Nonsense_Mutation_p.E501*|LARP7_uc003ibb.2_Nonsense_Mutation_p.E580*	NM_016648	NP_057732	Q4G0J3	LARP7_HUMAN	La ribonucleoprotein domain family, member 7	580					RNA processing	nucleoplasm|ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(3)	3		Ovarian(17;0.0443)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)										0.315789	31.386198	32.533259	12	26	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	113578472	113578472	8956	4	G	T	T	T	585	45	LARP7	5	2
FAT4	79633	broad.mit.edu	37	4	126241042	126241042	+	Missense_Mutation	SNP	A	G	G			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:126241042A>G	uc003ifj.3	+	c.3476A>G	c.(3475-3477)CAT>CGT	p.H1159R		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1159	Cadherin 11.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(8)|pancreas(2)	10														0.310734	151.462013	157.108386	55	122	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	126241042	126241042	5928	4	A	G	G	G	104	8	FAT4	4	4
C4orf29	80167	broad.mit.edu	37	4	128910977	128910977	+	Splice_Site_SNP	SNP	G	T	T			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:128910977G>T	uc003ifr.2	+	c.278_splice	c.e4+1	p.R93_splice	C4orf29_uc003ifq.1_Intron|C4orf29_uc003ifs.2_Intron	NM_001039717	NP_001034806			hypothetical protein LOC80167 precursor							extracellular region				ovary(1)	1														0.09375	2.001078	7.309003	3	29	KEEP	---	---	---	---	capture		Splice_Site_SNP	SNP	128910977	128910977	2354	4	G	T	T	T	572	44	C4orf29	5	2
FAT1	2195	broad.mit.edu	37	4	187584467	187584467	+	Missense_Mutation	SNP	A	T	T			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:187584467A>T	uc003izf.2	-	c.3566T>A	c.(3565-3567)ATA>AAA	p.I1189K		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1189	Extracellular (Potential).|Cadherin 10.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						Colon(197;1040 2055 4143 4984 49344)								0.764706	43.282913	44.372538	13	4	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	187584467	187584467	5925	4	A	T	T	T	208	16	FAT1	3	3
GBA3	57733	broad.mit.edu	37	4	22749503	22749503	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:22749503G>C	uc003gqp.3	+	c.871G>C	c.(871-873)GAA>CAA	p.E291Q	GBA3_uc010iep.2_Intron|GBA3_uc011bxo.1_Missense_Mutation_p.E292Q	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a	291					glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0														0.338462	71.564538	73.047884	22	43	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	22749503	22749503	6534	4	G	C	C	C	585	45	GBA3	3	3
SLC27A6	28965	broad.mit.edu	37	5	128368846	128368846	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:128368846G>T	uc003kuy.2	+	c.1731G>T	c.(1729-1731)TTG>TTT	p.L577F	SLC27A6_uc003kuz.2_Missense_Mutation_p.L577F	NM_014031	NP_054750	Q9Y2P4	S27A6_HUMAN	solute carrier family 27 (fatty acid	577					long-chain fatty acid transport|transmembrane transport|very long-chain fatty acid metabolic process	integral to membrane|sarcolemma	fatty acid transporter activity|long-chain fatty acid-CoA ligase activity|nucleotide binding				0		all_cancers(142;0.0483)|Prostate(80;0.055)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.171)|OV - Ovarian serous cystadenocarcinoma(64;0.186)										0.657143	76.539776	77.308018	23	12	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	128368846	128368846	15027	5	G	T	T	T	607	47	SLC27A6	2	2
N4BP3	23138	broad.mit.edu	37	5	177548655	177548655	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:177548655C>A	uc003mik.1	+	c.1288C>A	c.(1288-1290)CAG>AAG	p.Q430K	N4BP3_uc003mil.1_Missense_Mutation_p.Q99K	NM_015111	NP_055926	O15049	N4BP3_HUMAN	Nedd4 binding protein 3	430	Potential.					cytoplasmic vesicle membrane					0	all_cancers(89;0.00294)|Renal(175;0.000269)|Lung NSC(126;0.00858)|all_lung(126;0.0139)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)											1	40.14458	40.14409	11	0	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	177548655	177548655	10508	5	C	A	A	A	325	25	N4BP3	2	2
IRX1	79192	broad.mit.edu	37	5	3599657	3599657	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:3599657G>C	uc003jde.2	+	c.595G>C	c.(595-597)GAC>CAC	p.D199H		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	199					regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulator activity			ovary(1)|pancreas(1)	2														0.212766	25.632677	29.210125	10	37	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	3599657	3599657	8147	5	G	C	C	C	533	41	IRX1	3	3
HEY2	23493	broad.mit.edu	37	6	126073183	126073183	+	Missense_Mutation	SNP	A	C	C			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:126073183A>C	uc003qad.2	+	c.193A>C	c.(193-195)AAT>CAT	p.N65H	HEY2_uc011ebr.1_Missense_Mutation_p.N19H	NM_012259	NP_036391	Q9UBP5	HEY2_HUMAN	hairy/enhancer-of-split related with YRPW motif	65	Helix-loop-helix motif.|Transcriptional repression and interaction with NCOR1 and SIN3A (By similarity).				negative regulation of gene-specific transcription from RNA polymerase II promoter|nervous system development|Notch signaling pathway|organ morphogenesis	nucleus	DNA binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|transcription repressor activity				0				UCEC - Uterine corpus endometrioid carcinoma (4;0.0608)|GBM - Glioblastoma multiforme(226;0.0361)|all cancers(137;0.193)										0.232394	96.007706	105.314654	33	109	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	126073183	126073183	7362	6	A	C	C	C	13	1	HEY2	4	4
HTR1B	3351	broad.mit.edu	37	6	78172846	78172846	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:78172846G>A	uc003pil.1	-	c.275C>T	c.(274-276)GCG>GTG	p.A92V		NM_000863	NP_000854	P28222	5HT1B_HUMAN	5-hydroxytryptamine (serotonin) receptor 1B	92	Helical; Name=2; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cAMP biosynthetic process|synaptic transmission	integral to plasma membrane	protein binding|serotonin receptor activity				0		all_cancers(76;0.0867)|Acute lymphoblastic leukemia(125;0.00119)|all_hematologic(105;0.0332)		BRCA - Breast invasive adenocarcinoma(397;0.205)	Almotriptan(DB00918)|Dexfenfluramine(DB01191)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Pindolol(DB00960)|Propranolol(DB00571)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Venlafaxine(DB00285)|Zolmitriptan(DB00315)									0.39	106.159611	107.197139	39	61	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	78172846	78172846	7737	6	G	A	A	A	494	38	HTR1B	1	1
RWDD2A	112611	broad.mit.edu	37	6	83905766	83905766	+	Silent	SNP	C	T	T			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:83905766C>T	uc003pjx.3	+	c.654C>T	c.(652-654)CAC>CAT	p.H218H	PGM3_uc003pjv.2_5'Flank|PGM3_uc003pjw.2_5'Flank|PGM3_uc011dyz.1_5'Flank|RWDD2A_uc011dza.1_Silent_p.H143H	NM_033411	NP_219479	Q9UIY3	RWD2A_HUMAN	RWD domain containing 2A	218											0		all_cancers(76;2.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00217)		BRCA - Breast invasive adenocarcinoma(397;0.045)										0.157205	59.385937	85.07388	36	193	KEEP	---	---	---	---	capture		Silent	SNP	83905766	83905766	14235	6	C	T	T	T	220	17	RWDD2A	2	2
PHF14	9678	broad.mit.edu	37	7	11022138	11022138	+	Silent	SNP	T	G	G			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:11022138T>G	uc003srz.2	+	c.252T>G	c.(250-252)TCT>TCG	p.S84S	PHF14_uc003sry.1_Silent_p.S84S|PHF14_uc011jxi.1_Intron|PHF14_uc011jxj.1_Intron	NM_001007157	NP_001007158	O94880	PHF14_HUMAN	PHD finger protein 14 isoform 1	84	Glu/Lys-rich.						zinc ion binding			kidney(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.205)										0.222222	22.081649	24.636031	8	28	KEEP	---	---	---	---	capture		Silent	SNP	11022138	11022138	12248	7	T	G	G	G	704	55	PHF14	4	4
PLXNA4	91584	broad.mit.edu	37	7	131895890	131895890	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:131895890G>T	uc003vra.3	-	c.2110C>A	c.(2110-2112)CTG>ATG	p.L704M		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	704	Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1														0.2	6.115573	7.37201	3	12	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	131895890	131895890	12548	7	G	T	T	T	438	34	PLXNA4	2	2
ABHD11	83451	broad.mit.edu	37	7	73152067	73152067	+	Splice_Site_SNP	SNP	T	G	G			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:73152067T>G	uc003tzb.2	-	c.289_splice	c.e3-1	p.V97_splice	RFC2_uc011kfa.1_Intron|ABHD11_uc011kfb.1_Splice_Site_SNP_p.V97_splice|ABHD11_uc003tzc.2_Splice_Site_SNP_p.V90_splice|ABHD11_uc003tza.2_Splice_Site_SNP|ABHD11_uc003tzf.2_3'UTR|ABHD11_uc011kfc.1_3'UTR	NM_148912	NP_683710			abhydrolase domain containing 11 isoform 1								hydrolase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)												0.468085	70.352076	70.392847	22	25	KEEP	---	---	---	---	capture		Splice_Site_SNP	SNP	73152067	73152067	76	7	T	G	G	G	715	55	ABHD11	5	4
ADAM22	53616	broad.mit.edu	37	7	87792441	87792441	+	Silent	SNP	C	T	T			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:87792441C>T	uc003ujp.1	+	c.2178C>T	c.(2176-2178)TTC>TTT	p.F726F	ADAM22_uc003ujk.1_Silent_p.F674F|ADAM22_uc003ujl.1_Silent_p.F674F|ADAM22_uc003ujn.2_Silent_p.F674F|ADAM22_uc003ujm.2_Silent_p.F674F|ADAM22_uc003ujo.2_Silent_p.F674F	NM_004194	NP_004185	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 4	674	Cys-rich.|Extracellular (Potential).				cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)							704				0.252525	58.875052	64.350984	25	74	KEEP	---	---	---	---	capture		Silent	SNP	87792441	87792441	245	7	C	T	T	T	376	29	ADAM22	2	2
PLEC	5339	broad.mit.edu	37	8	144991968	144991968	+	Silent	SNP	G	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:144991968G>A	uc003zaf.1	-	c.12432C>T	c.(12430-12432)GCC>GCT	p.A4144A	PLEC_uc003zab.1_Silent_p.A4007A|PLEC_uc003zac.1_Silent_p.A4011A|PLEC_uc003zad.2_Silent_p.A4007A|PLEC_uc003zae.1_Silent_p.A3975A|PLEC_uc003zag.1_Silent_p.A3985A|PLEC_uc003zah.2_Silent_p.A3993A|PLEC_uc003zaj.2_Silent_p.A4034A	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4144	Globular 2.|Plectin 24.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|central_nervous_system(1)	7														0.21875	15.431407	17.757088	7	25	KEEP	---	---	---	---	capture		Silent	SNP	144991968	144991968	12478	8	G	A	A	A	496	39	PLEC	1	1
TUSC3	7991	broad.mit.edu	37	8	15605968	15605968	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:15605968C>A	uc003wwt.2	+	c.1022C>A	c.(1021-1023)CCT>CAT	p.P341H	TUSC3_uc003wwu.2_Missense_Mutation_p.P341H|TUSC3_uc003wwv.2_Missense_Mutation_p.P341H|TUSC3_uc003www.2_Intron|TUSC3_uc003wwx.2_Non-coding_Transcript|TUSC3_uc003wwy.2_Intron	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	341					cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)										0.595506	168.88533	169.59383	53	36	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	15605968	15605968	17334	8	C	A	A	A	312	24	TUSC3	2	2
ZFHX4	79776	broad.mit.edu	37	8	77767846	77767846	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:77767846G>A	uc003yav.2	+	c.8554G>A	c.(8554-8556)GAC>AAC	p.D2852N	ZFHX4_uc003yau.1_Missense_Mutation_p.D2897N|ZFHX4_uc003yaw.1_Missense_Mutation_p.D2852N	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2852					regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulator activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)											0.444444	161.594109	161.906488	52	65	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	77767846	77767846	18223	8	G	A	A	A	481	37	ZFHX4	1	1
NAIF1	203245	broad.mit.edu	37	9	130829113	130829113	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:130829113C>A	uc004bta.2	-	c.268G>T	c.(268-270)GTG>TTG	p.V90L	NAIF1_uc004bsz.2_Intron|SLC25A25_uc004btb.2_5'Flank	NM_197956	NP_931045	Q69YI7	NAIF1_HUMAN	nuclear apoptosis inducing factor 1	90					apoptosis|induction of apoptosis	nucleus					0														0.866667	91.27155	95.193521	26	4	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	130829113	130829113	10542	9	C	A	A	A	247	19	NAIF1	1	1
C9orf82	79886	broad.mit.edu	37	9	26886165	26886165	+	Nonsense_Mutation	SNP	T	A	A			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:26886165T>A	uc003zqc.2	-	c.526A>T	c.(526-528)AAA>TAA	p.K176*	C9orf82_uc003zqb.2_Nonsense_Mutation_p.K31*	NM_024828	NP_079104	Q9H8G2	CI082_HUMAN	hypothetical protein LOC79886	176											0		all_neural(3;3.53e-10)|Glioma(3;2.71e-09)		Lung(42;1.39e-05)|LUSC - Lung squamous cell carcinoma(38;0.000114)										0.357143	13.670677	13.922502	5	9	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	26886165	26886165	2615	9	T	A	A	A	793	61	C9orf82	5	3
TLN1	7094	broad.mit.edu	37	9	35711745	35711745	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:35711745C>G	uc003zxt.2	-	c.3726G>C	c.(3724-3726)TTG>TTC	p.L1242F		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	1242					axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|cell-cell junction|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)							587				0.119718	25.369136	45.526296	17	125	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	35711745	35711745	16477	9	C	G	G	G	376	29	TLN1	3	3
STAG3L2	442582	broad.mit.edu	37	7	74300557	74300564	+	Frame_Shift_Del	DEL	AGAGCTCC	-	-			TCGA-17-Z041-01	TCGA-17-Z041-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:74300557_74300564delAGAGCTCC	uc003ubj.3	-	c.243_250delGGAGCTCT	c.(241-252)CTGGAGCTCTTCfs	p.L81fs	STAG3L2_uc011kfj.1_Non-coding_Transcript	NM_001025202	NP_001020373	P0CL84	ST3L2_HUMAN	STAG3-like	81_84	SCD.					nucleus					0														0.31			4	9		---	---	---	---	capture_indel		Frame_Shift_Del	DEL	74300557	74300564	15764	7	AGAGCTCC	-	-	-	39	3	STAG3L2	5	5
