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
C10orf12	26148	broad.mit.edu	36	10	98731736	98731736	+	Missense_Mutation	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr10:98731736G>A	uc001kmv.1	+	c.599G>A	c.(598-600)TGT>TAT	p.C200Y	C10orf12_uc009xvg.1_Missense_Mutation_p.C510Y	NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	200											0		Colorectal(252;0.172)												0.632812	243.38863	245.368645	81	47	GG		KEEP	---	---	---	---	capture		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)	Missense_Mutation	SNP	98731736	98731736	1624	10	G	A	A	48	48	C10orf12	A	2	2
MMP10	4319	broad.mit.edu	36	11	102152354	102152354	+	Missense_Mutation	SNP	C	T	T			TCGA-06-5415-01	TCGA-06-5415-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:102152354C>T	uc001phg.1	-	c.799G>A	c.(799-801)GCC>ACC	p.A267T		NM_002425	NP_002416	P09238	MMP10_HUMAN	matrix metalloproteinase 10 preproprotein	267					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			kidney(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_epithelial(12;0.00961)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)												0.463918	125.154945	125.26583	45	52	CC		KEEP	---	---	---	---	capture	Epithelial(9;0.0303)|Lung(13;0.0828)|all cancers(10;0.116)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0145)	Missense_Mutation	SNP	102152354	102152354	10039	11	C	T	T	25	25	MMP10	T	2	2
DDX25	29118	broad.mit.edu	36	11	125292266	125292266	+	Silent	SNP	C	T	T			TCGA-06-5415-01	TCGA-06-5415-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:125292266C>T	uc001qcz.2	+	c.948C>T	c.(946-948)TAC>TAT	p.Y316Y		NM_013264	NP_037396	Q9UHL0	DDX25_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 25	316	Helicase C-terminal.				mRNA export from nucleus|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|nucleus	ATP binding|ATP-dependent RNA helicase activity|RNA binding			ovary(1)	1	all_hematologic(175;0.177)	Breast(109;0.0021)|all_lung(97;0.0203)|Lung NSC(97;0.0203)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)												0.5	36.5988	36.5988	12	12	CC		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(274;1.14e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.046)	Silent	SNP	125292266	125292266	4523	11	C	T	T	19	19	DDX25	T	1	1
PTDSS2	81490	broad.mit.edu	36	11	479921	479921	+	Missense_Mutation	SNP	T	G	G			TCGA-06-5415-01	TCGA-06-5415-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr11:479921T>G	uc001lpj.1	+	c.1154T>G	c.(1153-1155)GTG>GGG	p.V385G		NM_030783	NP_110410	Q9BVG9	PTSS2_HUMAN	phosphatidylserine synthase 2	385	Helical; (Potential).					integral to membrane					0		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)			Phosphatidylserine(DB00144)									0.5	8.439329	8.439329	6	6	TT		KEEP	---	---	---	---	capture		all cancers(45;2.76e-26)|Epithelial(43;2.56e-25)|OV - Ovarian serous cystadenocarcinoma(40;7.54e-20)|BRCA - Breast invasive adenocarcinoma(625;8.76e-05)|Lung(200;0.0407)|LUSC - Lung squamous cell carcinoma(625;0.0735)	Missense_Mutation	SNP	479921	479921	13191	11	T	G	G	59	59	PTDSS2	G	4	4
DCHS1	8642	broad.mit.edu	36	11	6607847	6607847	+	Missense_Mutation	SNP	G	C	C			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:6607847G>C	uc001mem.1	-	c.4754C>G	c.(4753-4755)GCA>GGA	p.A1585G		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1585	Cadherin 15.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)												0.333333	11.273534	11.640788	5	10	GG		KEEP	---	---	---	---	capture		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)	Missense_Mutation	SNP	6607847	6607847	4458	11	G	C	C	46	46	DCHS1	C	3	3
NOS1	4842	broad.mit.edu	36	12	116194698	116194698	+	Missense_Mutation	SNP	C	T	T			TCGA-06-5415-01	TCGA-06-5415-01	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)				L-Citrulline(DB00155)	Esophageal Squamous(162;1748 2599 51982 52956)								0.507353	202.0048	202.01226	69	67	CC		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(302;0.0561)	Missense_Mutation	SNP	116194698	116194698	10944	12	C	T	T	19	19	NOS1	T	1	1
SLCO1A2	6579	broad.mit.edu	36	12	21336396	21336396	+	Missense_Mutation	SNP	C	G	G			TCGA-06-5415-01	TCGA-06-5415-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:21336396C>G	uc001rer.1	-	c.1579G>C	c.(1579-1581)GCT>CCT	p.A527P	SLCO1A2_uc001res.1_Missense_Mutation_p.A527P|SLCO1A2_uc001ret.1_Missense_Mutation_p.A525P	NM_021094	NP_602307	P46721	SO1A2_HUMAN	organic anion transporting polypeptide A	527	Helical; Name=10; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	integral to membrane|plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(1)|ovary(1)|pancreas(1)	3														0.347826	7.277485	7.844875	8	15	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	21336396	21336396	15219	12	C	G	G	26	26	SLCO1A2	G	3	3
PRPF40B	25766	broad.mit.edu	36	12	48315213	48315213	+	Missense_Mutation	SNP	G	C	C			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr12:48315213G>C	uc001rur.1	+	c.1000G>C	c.(1000-1002)GAG>CAG	p.E334Q	PRPF40B_uc001rup.1_Missense_Mutation_p.E356Q|PRPF40B_uc001ruq.1_Missense_Mutation_p.E328Q|PRPF40B_uc001rus.1_Missense_Mutation_p.E277Q	NM_001031698	NP_001026868	Q6NWY9	PR40B_HUMAN	Huntingtin interacting protein C isoform 1	334					mRNA processing|RNA splicing	nuclear speck				ovary(1)|kidney(1)|pancreas(1)	3														0.474227	156.742346	156.79835	46	51	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	48315213	48315213	13015	12	G	C	C	41	41	PRPF40B	C	3	3
CAPS2	84698	broad.mit.edu	36	12	73979001	73979001	+	Missense_Mutation	SNP	A	C	C			TCGA-06-5415-01	TCGA-06-5415-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr12:73979001A>C	uc001sxl.2	-	c.867T>G	c.(865-867)GAT>GAG	p.D289E	CAPS2_uc001sxm.2_Missense_Mutation_p.D76E|CAPS2_uc009zsa.1_Intron|CAPS2_uc001sxi.2_Intron|CAPS2_uc001sxj.2_Intron|CAPS2_uc001sxk.2_Missense_Mutation_p.D308E|CAPS2_uc009zrz.1_Missense_Mutation_p.D76E	NM_032606	NP_115995	Q9BXY5	CAYP2_HUMAN	calcyphosine 2	308							calcium ion binding			ovary(2)	2														0.443038	127.325174	127.546666	35	44	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	73979001	73979001	2757	12	A	C	C	8	8	CAPS2	C	4	4
CILP	8483	broad.mit.edu	36	15	63276398	63276398	+	Silent	SNP	G	T	T			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr15:63276398G>T	uc002aon.2	-	c.3279C>A	c.(3277-3279)GGC>GGA	p.G1093G		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	1093					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)	6														0.382716	85.488408	86.470884	31	50	GG		KEEP	---	---	---	---	capture			Silent	SNP	63276398	63276398	3563	15	G	T	T	42	42	CILP	T	3	3
SV2B	9899	broad.mit.edu	36	15	89636645	89636645	+	Silent	SNP	C	T	T			TCGA-06-5415-01	TCGA-06-5415-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr15:89636645C>T	uc002bqv.1	+	c.1911C>T	c.(1909-1911)GGC>GGT	p.G637G	SV2B_uc002bqu.2_Non-coding_Transcript	NM_014848	NP_055663	Q7L1I2	SV2B_HUMAN	synaptic vesicle protein 2B homolog	637	Helical; (Potential).				neurotransmitter transport|transmembrane transport	acrosomal vesicle|cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			ovary(3)|central_nervous_system(2)	5	Lung NSC(78;0.0987)|all_lung(78;0.172)													0.237288	64.348933	71.786059	28	90	CC		KEEP	---	---	---	---	capture	BRCA - Breast invasive adenocarcinoma(143;0.0895)		Silent	SNP	89636645	89636645	15938	15	C	T	T	27	27	SV2B	T	1	1
ERCC4	2072	broad.mit.edu	36	16	13932122	13932122	+	Missense_Mutation	SNP	T	A	A			TCGA-06-5415-01	TCGA-06-5415-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr16:13932122T>A	uc002dce.2	+	c.847T>A	c.(847-849)TCC>ACC	p.S283T	ERCC4_uc010bva.1_Missense_Mutation_p.S283T	NM_005236	NP_005227	Q92889	XPF_HUMAN	excision repair cross-complementing rodent	283	Leucine-zipper 2.				double-strand break repair via homologous recombination|meiotic mismatch repair|negative regulation of telomere maintenance|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|nucleotide-excision repair, DNA incision, 5'-to lesion|resolution of meiotic recombination intermediates|telomere maintenance via telomere shortening|transcription-coupled nucleotide-excision repair	nuclear chromosome, telomeric region|nucleoplasm|nucleotide-excision repair factor 1 complex	damaged DNA binding|protein C-terminus binding|protein N-terminus binding|single-stranded DNA binding|single-stranded DNA specific endodeoxyribonuclease activity			ovary(3)|pancreas(1)	4										153				0.461538	129.244068	129.36072	42	49	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	13932122	13932122	5408	16	T	A	A	50	50	ERCC4	A	4	4
ITPRIPL2	162073	broad.mit.edu	36	16	19033834	19033834	+	Missense_Mutation	SNP	C	G	G			TCGA-06-5415-01	TCGA-06-5415-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr16:19033834C>G	uc002dfu.2	+	c.550C>G	c.(550-552)CCG>GCG	p.P184A	ITPRIPL2_uc002dft.1_5'UTR	NM_001034841	NP_001030013	Q3MIP1	IPIL2_HUMAN	inositol 1,4,5-triphosphate receptor interacting	184	Cytoplasmic (Potential).					integral to membrane					0												OREG0023657	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.192308	9.658035	11.958994	5	21	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	19033834	19033834	8229	16	C	G	G	26	26	ITPRIPL2	G	3	3
RANBP10	57610	broad.mit.edu	36	16	66321394	66321394	+	Missense_Mutation	SNP	G	C	C			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr16:66321394G>C	uc002eud.1	-	c.946C>G	c.(946-948)CGC>GGC	p.R316G	RANBP10_uc010ceo.1_Missense_Mutation_p.R87G	NM_020850	NP_065901	Q6VN20	RBP10_HUMAN	RAN binding protein 10	316	CTLH.									ovary(1)	1		Acute lymphoblastic leukemia(13;4.34e-06)|all_hematologic(13;0.000643)|Ovarian(137;0.192)												0.424779	165.386894	165.940957	48	65	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(108;0.00522)|Epithelial(162;0.025)|all cancers(182;0.157)	Missense_Mutation	SNP	66321394	66321394	13486	16	G	C	C	38	38	RANBP10	C	3	3
MSLNL	401827	broad.mit.edu	36	16	762702	762702	+	Silent	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr16:762702G>A	uc002cjz.1	-	c.2406C>T	c.(2404-2406)ATC>ATT	p.I802I		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	451	Extracellular (Potential).				cell adhesion	integral to membrane				breast(3)|ovary(1)	4														0.625	14.567542	14.675314	5	3	GG		KEEP	---	---	---	---	capture			Silent	SNP	762702	762702	10275	16	G	A	A	41	41	MSLNL	A	2	2
CPNE7	27132	broad.mit.edu	36	16	88190526	88190526	+	Missense_Mutation	SNP	C	T	T	rs3751682	by-frequency	TCGA-06-5415-01	TCGA-06-5415-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr16:88190526C>T	uc002fnp.1	+	c.1898C>T	c.(1897-1899)CCG>CTG	p.P633L	CPNE7_uc002fnq.1_Missense_Mutation_p.P558L	NM_014427	NP_055242	Q9UBL6	CPNE7_HUMAN	copine 7 isoform b	633					lipid metabolic process		transporter activity				0		all_hematologic(23;0.0748)												0.348837	41.821281	42.684051	15	28	CC		KEEP	---	---	---	---	capture		all cancers(4;3.63e-08)|OV - Ovarian serous cystadenocarcinoma(4;1.7e-06)|BRCA - Breast invasive adenocarcinoma(80;0.0147)	Missense_Mutation	SNP	88190526	88190526	3955	16	C	T	T	23	23	CPNE7	T	1	1
DNAH2	146754	broad.mit.edu	36	17	7612210	7612210	+	Nonsense_Mutation	SNP	C	T	T			TCGA-06-5415-01	TCGA-06-5415-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:7612210C>T	uc002giu.1	+	c.3841C>T	c.(3841-3843)CGA>TGA	p.R1281*		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	1281	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|central_nervous_system(1)	7		all_cancers(10;4.66e-07)|Prostate(122;0.081)												0.412	318.330621	320.006402	103	147	CC		KEEP	---	---	---	---	capture			Nonsense_Mutation	SNP	7612210	7612210	4785	17	C	T	T	23	23	DNAH2	T	5	1
DSG1	1828	broad.mit.edu	36	18	27167589	27167589	+	Nonsense_Mutation	SNP	C	T	T			TCGA-06-5415-01	TCGA-06-5415-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr18:27167589C>T	uc002kwp.1	+	c.724C>T	c.(724-726)CGA>TGA	p.R242*		NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	242	Extracellular (Potential).|Cadherin 2.				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														0.355072	138.263199	140.805038	49	89	CC		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(10;0.00559)		Nonsense_Mutation	SNP	27167589	27167589	4960	18	C	T	T	23	23	DSG1	T	5	1
KDSR	2531	broad.mit.edu	36	18	59185315	59185315	+	Missense_Mutation	SNP	G	C	C			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr18:59185315G>C	uc010dpw.1	-	c.17C>G	c.(16-18)GCC>GGC	p.A6G		NM_002035	NP_002026	Q06136	KDSR_HUMAN	3-ketodihydrosphingosine reductase precursor	6					3-keto-sphinganine metabolic process|oxidation-reduction process	endoplasmic reticulum membrane|extracellular space|integral to membrane	3-dehydrosphinganine reductase activity|binding				0									p.A6G(SNU719-Tumor)	107				0.25	6.91866	7.6013	3	9	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	59185315	59185315	8446	18	G	C	C	42	42	KDSR	C	3	3
CA11	770	broad.mit.edu	36	19	53835238	53835238	+	Missense_Mutation	SNP	G	C	C			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:53835238G>C	uc002pjz.1	-	c.397C>G	c.(397-399)CTG>GTG	p.L133V	SEC1_uc002pka.1_Intron|SEC1_uc010ema.1_Intron|DBP_uc002pjx.2_5'Flank|DBP_uc002pjy.2_5'Flank|DBP_uc010elz.1_5'Flank	NM_001217	NP_001208	O75493	CAH11_HUMAN	carbonic anhydrase XI precursor	133						extracellular region					0		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)												0.277778	161.242692	170.038434	55	143	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(262;0.000103)|all cancers(93;0.000119)|GBM - Glioblastoma multiforme(486;0.00634)|Epithelial(262;0.016)	Missense_Mutation	SNP	53835238	53835238	2628	19	G	C	C	36	36	CA11	C	3	3
SIGLEC10	89790	broad.mit.edu	36	19	56611381	56611381	+	Missense_Mutation	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:56611381G>A	uc002pwo.1	-	c.749C>T	c.(748-750)ACG>ATG	p.T250M	SIGLEC10_uc002pwp.1_Missense_Mutation_p.T192M|SIGLEC10_uc002pwq.1_Missense_Mutation_p.T192M|SIGLEC10_uc002pwr.1_Missense_Mutation_p.T250M|SIGLEC10_uc010eow.1_Missense_Mutation_p.R15C|SIGLEC10_uc002pws.1_Missense_Mutation_p.T176M	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10	250	Extracellular (Potential).				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding				0		all_neural(266;0.0199)												0.393443	275.197371	277.605039	96	148	GG		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)	Missense_Mutation	SNP	56611381	56611381	14801	19	G	A	A	40	40	SIGLEC10	A	1	1
LILRB4	11006	broad.mit.edu	36	19	59867129	59867129	+	Missense_Mutation	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:59867129G>A	uc002qgr.1	+	c.299G>A	c.(298-300)CGT>CAT	p.R100H	LILRB4_uc002qgo.1_Missense_Mutation_p.R100H|LILRB4_uc002qgp.1_Missense_Mutation_p.R59H|LILRB4_uc002qgq.1_Missense_Mutation_p.R59H|LILRB4_uc010ers.1_5'UTR|LILRB4_uc010ert.1_Missense_Mutation_p.R100H|LILRB4_uc010eru.1_Missense_Mutation_p.R88H	NM_006847	NP_006838	Q8NHJ6	LIRB4_HUMAN	leukocyte immunoglobulin-like receptor,	59	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane|plasma membrane	antigen binding|receptor activity			ovary(3)	3														0.384236	205.996783	208.381883	78	125	GG		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(193;0.035)	Missense_Mutation	SNP	59867129	59867129	9119	19	G	A	A	40	40	LILRB4	A	1	1
NLRP7	199713	broad.mit.edu	36	19	60142628	60142628	+	Silent	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:60142628G>A	uc010esl.1	-	c.1455C>T	c.(1453-1455)GAC>GAT	p.D485D	NLRP7_uc002qig.2_Silent_p.D457D|NLRP7_uc002qii.2_Silent_p.D457D|NLRP7_uc002qih.2_Silent_p.D457D|NLRP7_uc010esk.1_Silent_p.D457D	NM_001127255	NP_001120727	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	457	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3														0.168421	24.632702	34.539312	16	79	GG		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(193;0.0325)	Silent	SNP	60142628	60142628	10885	19	G	A	A	48	48	NLRP7	A	2	2
PTPRH	5794	broad.mit.edu	36	19	60400320	60400320	+	Missense_Mutation	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:60400320G>A	uc002qjq.1	-	c.1967C>T	c.(1966-1968)ACG>ATG	p.T656M	PTPRH_uc010esv.1_Missense_Mutation_p.T478M|PTPRH_uc002qjs.1_Missense_Mutation_p.T663M	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	656	Extracellular (Potential).|Fibronectin type-III 7.				apoptosis	cytoplasm|integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|large_intestine(1)	3		Renal(1328;0.245)												0.247525	58.727415	64.585848	25	76	GG		KEEP	---	---	---	---	capture	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0479)	Missense_Mutation	SNP	60400320	60400320	13260	19	G	A	A	40	40	PTPRH	A	1	1
CD53	963	broad.mit.edu	36	1	111236547	111236547	+	Missense_Mutation	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:111236547G>A	uc001dzw.1	+	c.121G>A	c.(121-123)GGA>AGA	p.G41R	CD53_uc001dzx.1_Missense_Mutation_p.G41R|CD53_uc001dzy.1_Missense_Mutation_p.G41R	NM_001040033	NP_001035122	P19397	CD53_HUMAN	CD53 antigen	41	Extracellular (Potential).				signal transduction	integral to membrane|plasma membrane					0		all_cancers(81;1.06e-05)|all_epithelial(167;1.95e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)												0.368932	108.421166	109.976846	38	65	GG		KEEP	---	---	---	---	capture		Lung(183;0.0264)|Colorectal(144;0.0375)|all cancers(265;0.11)|Epithelial(280;0.114)|COAD - Colon adenocarcinoma(174;0.141)|LUSC - Lung squamous cell carcinoma(189;0.144)	Missense_Mutation	SNP	111236547	111236547	3151	1	G	A	A	39	39	CD53	A	1	1
NUP210L	91181	broad.mit.edu	36	1	152356910	152356910	+	Missense_Mutation	SNP	C	T	T			TCGA-06-5415-01	TCGA-06-5415-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:152356910C>T	uc001fdw.1	-	c.1535G>A	c.(1534-1536)GGA>GAA	p.G512E	NUP210L_uc009woq.1_5'UTR	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like	512						integral to membrane				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)													0.357542	182.740887	185.944244	64	115	CC		KEEP	---	---	---	---	capture	LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)		Missense_Mutation	SNP	152356910	152356910	11166	1	C	T	T	30	30	NUP210L	T	2	2
MIB2	142678	broad.mit.edu	36	1	1553613	1553613	+	Missense_Mutation	SNP	C	T	T			TCGA-06-5415-01	TCGA-06-5415-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:1553613C>T	uc001agg.1	+	c.2113C>T	c.(2113-2115)CGC>TGC	p.R705C	MIB2_uc001agh.1_Missense_Mutation_p.R691C|MIB2_uc001agi.1_Missense_Mutation_p.R701C|MIB2_uc001agj.1_Missense_Mutation_p.R546C|MIB2_uc001agk.1_Missense_Mutation_p.R640C|MIB2_uc001agl.1_Missense_Mutation_p.R661C|MIB2_uc001agm.1_Missense_Mutation_p.R582C|MIB2_uc009vkh.1_Missense_Mutation_p.R511C|MIB2_uc001agn.1_Missense_Mutation_p.R337C|MIB2_uc001ago.1_5'Flank	NM_080875	NP_543151	Q96AX9	MIB2_HUMAN	mindbomb homolog 2	705	ANK 6.				Notch signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade	endosome	actin binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)												0.451613	42.149935	42.212458	14	17	CC		KEEP	---	---	---	---	capture		Epithelial(90;5.26e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.54e-23)|GBM - Glioblastoma multiforme(42;9e-08)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|BRCA - Breast invasive adenocarcinoma(365;0.00786)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)	Missense_Mutation	SNP	1553613	1553613	9957	1	C	T	T	23	23	MIB2	T	1	1
USH2A	7399	broad.mit.edu	36	1	213999700	213999700	+	Missense_Mutation	SNP	C	T	T			TCGA-06-5415-01	TCGA-06-5415-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:213999700C>T	uc001hku.1	-	c.11156G>A	c.(11155-11157)CGT>CAT	p.R3719H		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3719	Fibronectin type-III 22.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|kidney(1)|central_nervous_system(1)	22														0.405229	181.720164	182.921113	62	91	CC		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)	Missense_Mutation	SNP	213999700	213999700	17598	1	C	T	T	19	19	USH2A	T	1	1
RYR2	6262	broad.mit.edu	36	1	235904698	235904698	+	Missense_Mutation	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:235904698G>A	uc001hyl.1	+	c.8759G>A	c.(8758-8760)CGA>CAA	p.R2920Q		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2920	Modulator (Potential).|Cytoplasmic (By similarity).|4 X approximate repeats.|4.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)												0.328125	59.655059	61.330517	21	43	GG		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(106;0.00606)		Missense_Mutation	SNP	235904698	235904698	14249	1	G	A	A	37	37	RYR2	A	1	1
PLEKHG5	57449	broad.mit.edu	36	1	6460188	6460188	+	Missense_Mutation	SNP	G	C	C			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:6460188G>C	uc001anp.1	-	c.262C>G	c.(262-264)CTT>GTT	p.L88V	PLEKHG5_uc009vma.1_5'UTR|PLEKHG5_uc001ank.1_Missense_Mutation_p.L11V|PLEKHG5_uc009vmb.1_Missense_Mutation_p.L11V|PLEKHG5_uc001anl.1_Missense_Mutation_p.L11V|PLEKHG5_uc001anm.1_Missense_Mutation_p.L11V|PLEKHG5_uc001ann.1_Missense_Mutation_p.L48V|PLEKHG5_uc001ano.1_Missense_Mutation_p.L67V|PLEKHG5_uc001anq.1_Missense_Mutation_p.L88V	NM_198681	NP_065682	O94827	PKHG5_HUMAN	pleckstrin homology domain containing family G	67					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			liver(1)	1	Ovarian(185;0.02)|all_lung(157;0.154)	all_cancers(23;1.7e-35)|all_epithelial(116;2.78e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Colorectal(325;4.47e-05)|all_hematologic(16;0.00014)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0448)												0.348837	125.83387	128.436084	45	84	GG		KEEP	---	---	---	---	capture		Epithelial(90;5.51e-35)|GBM - Glioblastoma multiforme(13;3.57e-27)|Colorectal(212;6.23e-08)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000894)|BRCA - Breast invasive adenocarcinoma(365;0.00107)|STAD - Stomach adenocarcinoma(132;0.00159)|READ - Rectum adenocarcinoma(331;0.0419)	Missense_Mutation	SNP	6460188	6460188	12499	1	G	C	C	35	35	PLEKHG5	C	3	3
PCSK2	5126	broad.mit.edu	36	20	17393987	17393987	+	Missense_Mutation	SNP	C	T	T			TCGA-06-5415-01	TCGA-06-5415-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr20:17393987C>T	uc002wpm.1	+	c.1219C>T	c.(1219-1221)CGG>TGG	p.R407W	PCSK2_uc002wpl.1_Missense_Mutation_p.R388W|PCSK2_uc002wpn.1_Missense_Mutation_p.R61W	NM_002594	NP_002585	P16519	NEC2_HUMAN	proprotein convertase subtilisin/kexin type 2	407	Catalytic.				enkephalin processing|insulin processing|islet amyloid polypeptide processing	extracellular space|membrane|soluble fraction|transport vesicle	serine-type endopeptidase activity			ovary(3)|central_nervous_system(2)|large_intestine(1)|pancreas(1)	7					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)									0.265625	39.44246	42.62219	17	47	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	17393987	17393987	12022	20	C	T	T	27	27	PCSK2	T	1	1
TPX2	22974	broad.mit.edu	36	20	29835377	29835377	+	Missense_Mutation	SNP	G	T	T			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr20:29835377G>T	uc010gdv.1	+	c.1513G>T	c.(1513-1515)GAT>TAT	p.D505Y	TPX2_uc002wwp.1_Missense_Mutation_p.D469Y	NM_012112	NP_036244	Q9ULW0	TPX2_HUMAN	TPX2, microtubule-associated protein homolog	469					activation of protein kinase activity|apoptosis|cell division|cell proliferation|mitosis|regulation of mitotic spindle organization	cytoplasm|microtubule|nucleus|spindle pole	ATP binding|GTP binding|protein kinase binding			large_intestine(1)|ovary(1)	2														0.283582	92.582377	98.226457	38	96	GG		KEEP	---	---	---	---	capture	Epithelial(4;0.000771)|Colorectal(19;0.00306)|all cancers(5;0.004)|COAD - Colon adenocarcinoma(19;0.0347)|OV - Ovarian serous cystadenocarcinoma(3;0.0656)		Missense_Mutation	SNP	29835377	29835377	16976	20	G	T	T	33	33	TPX2	T	3	3
KRTAP10-9	386676	broad.mit.edu	36	21	44871628	44871628	+	Missense_Mutation	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr21:44871628G>A	uc002zfp.2	+	c.112G>A	c.(112-114)GCC>ACC	p.A38T	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198690	NP_941963	P60411	KR109_HUMAN	keratin associated protein 10-9	38	3.|25 X 5 AA repeats of C-C-X(3).					keratin filament					0														0.116279	7.403908	19.863982	10	76	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	44871628	44871628	8831	21	G	A	A	38	38	KRTAP10-9	A	1	1
KRTAP10-11	386678	broad.mit.edu	36	21	44890810	44890810	+	Missense_Mutation	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr21:44890810G>A	uc002zfr.2	+	c.7G>A	c.(7-9)GCG>ACG	p.A3T	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198692	NP_941965	P60412	KR10B_HUMAN	keratin associated protein 10-11	3						keratin filament				ovary(1)	1														0.401961	112.270667	113.121877	41	61	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	44890810	44890810	8822	21	G	A	A	38	38	KRTAP10-11	A	1	1
TMPRSS6	164656	broad.mit.edu	36	22	35821943	35821943	+	Missense_Mutation	SNP	C	T	T			TCGA-06-5415-01	TCGA-06-5415-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr22:35821943C>T	uc003aqt.1	-	c.538G>A	c.(538-540)GTC>ATC	p.V180I	TMPRSS6_uc003aqs.1_Missense_Mutation_p.V189I|TMPRSS6_uc003aqu.2_Missense_Mutation_p.V180I	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6	189	Extracellular (Potential).				angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)	5														0.146667	15.419837	24.386099	11	64	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	35821943	35821943	16792	22	C	T	T	19	19	TMPRSS6	T	1	1
SNTG2	54221	broad.mit.edu	36	2	1253899	1253899	+	Missense_Mutation	SNP	C	T	T			TCGA-06-5415-01	TCGA-06-5415-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:1253899C>T	uc002qwq.1	+	c.1259C>T	c.(1258-1260)ACG>ATG	p.T420M	SNTG2_uc010ewi.1_Missense_Mutation_p.T293M	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	420	PH.				central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)												0.5	55.949151	55.949151	18	18	CC		KEEP	---	---	---	---	capture		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)	Missense_Mutation	SNP	1253899	1253899	15375	2	C	T	T	19	19	SNTG2	T	1	1
TTN	7273	broad.mit.edu	36	2	179134129	179134129	+	Missense_Mutation	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:179134129G>A	uc002umr.1	-	c.77272C>T	c.(77272-77274)CGG>TGG	p.R25758W	TTN_uc002ums.1_Missense_Mutation_p.R19453W|TTN_uc010frc.1_Missense_Mutation_p.R19386W|TTN_uc010frd.1_Missense_Mutation_p.R19261W	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26685										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									p.R25758W(HEC6-Tumor)	8722				0.406667	191.050244	192.19097	61	89	GG		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)		Missense_Mutation	SNP	179134129	179134129	17290	2	G	A	A	39	39	TTN	A	1	1
NMUR1	10316	broad.mit.edu	36	2	232101698	232101698	+	Missense_Mutation	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:232101698G>A	uc002vry.2	-	c.278C>T	c.(277-279)ACG>ATG	p.T93M		NM_006056	NP_006047	Q9HB89	NMUR1_HUMAN	neuromedin U receptor 1	93	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|calcium ion transport|calcium-mediated signaling|chloride transport|smooth muscle contraction	integral to plasma membrane|membrane fraction	neuromedin U receptor activity			central_nervous_system(1)|pancreas(1)	2		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)												0.366667	118.684887	120.553463	44	76	GG		KEEP	---	---	---	---	capture		Epithelial(121;8.37e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0142)	Missense_Mutation	SNP	232101698	232101698	10909	2	G	A	A	40	40	NMUR1	A	1	1
MTTP	4547	broad.mit.edu	36	4	100753270	100753270	+	Missense_Mutation	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr4:100753270G>A	uc003hvc.2	+	c.2167G>A	c.(2167-2169)GAC>AAC	p.D723N		NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	723					lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4					Hesperetin(DB01094)									0.418367	122.657207	123.227387	41	57	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Missense_Mutation	SNP	100753270	100753270	10357	4	G	A	A	37	37	MTTP	A	1	1
TLL1	7092	broad.mit.edu	36	4	167135051	167135051	+	Nonsense_Mutation	SNP	C	T	T			TCGA-06-5415-01	TCGA-06-5415-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr4:167135051C>T	uc003irh.1	+	c.430C>T	c.(430-432)CGA>TGA	p.R144*		NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1	144					cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(2)|breast(1)|central_nervous_system(1)	4	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)												0.346667	71.426967	72.983787	26	49	CC		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(119;0.103)	Nonsense_Mutation	SNP	167135051	167135051	16475	4	C	T	T	31	31	TLL1	T	5	1
BMP3	651	broad.mit.edu	36	4	82171480	82171480	+	Silent	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr4:82171480G>A	uc003hmg.2	+	c.18G>A	c.(16-18)AGG>AGA	p.R6R		NM_001201	NP_001192	P12645	BMP3_HUMAN	bone morphogenetic protein 3 preproprotein	6					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														0.666667	29.04613	29.419254	10	5	GG		KEEP	---	---	---	---	capture			Silent	SNP	82171480	82171480	1486	4	G	A	A	42	42	BMP3	A	2	2
TRPC7	57113	broad.mit.edu	36	5	135611249	135611249	+	Silent	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:135611249G>A	uc003lbn.1	-	c.1650C>T	c.(1648-1650)AGC>AGT	p.S550S	TRPC7_uc010jef.1_Silent_p.S487S|TRPC7_uc010jeg.1_Non-coding_Transcript|TRPC7_uc010jeh.1_Silent_p.S481S|TRPC7_uc010jei.1_Silent_p.S426S|TRPC7_uc010jej.1_Silent_p.S102S	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	551	Helical; (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0														0.455172	189.327098	189.581309	66	79	GG		KEEP	---	---	---	---	capture	KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)		Silent	SNP	135611249	135611249	17135	5	G	A	A	34	34	TRPC7	A	2	2
GABRA1	2554	broad.mit.edu	36	5	161256842	161256842	+	Missense_Mutation	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:161256842G>A	uc010jiw.1	+	c.1207G>A	c.(1207-1209)GAA>AAA	p.E403K	GABRA1_uc010jix.1_Missense_Mutation_p.E403K|GABRA1_uc010jiy.1_Missense_Mutation_p.E403K|GABRA1_uc003lyx.2_Missense_Mutation_p.E403K|GABRA1_uc010jiz.1_Missense_Mutation_p.E403K|GABRA1_uc010jja.1_Missense_Mutation_p.E403K|GABRA1_uc010jjb.1_Missense_Mutation_p.E403K	NM_000806	NP_001121120	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	403	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)			Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)									0.396552	264.125293	266.304805	92	140	GG		KEEP	---	---	---	---	capture	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Missense_Mutation	SNP	161256842	161256842	6411	5	G	A	A	37	37	GABRA1	A	1	1
RASA1	5921	broad.mit.edu	36	5	86694976	86694976	+	Silent	SNP	A	G	G			TCGA-06-5415-01	TCGA-06-5415-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr5:86694976A>G	uc003kiw.1	+	c.1509A>G	c.(1507-1509)CAA>CAG	p.Q503Q	RASA1_uc010jav.1_Non-coding_Transcript|RASA1_uc003kix.1_Silent_p.Q326Q|RASA1_uc010jaw.1_Silent_p.Q325Q	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	503	PH.				cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)								386				0.378151	157.351313	158.899945	45	74	AA		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)	Silent	SNP	86694976	86694976	13520	5	A	G	G	2	2	RASA1	G	4	4
STX7	8417	broad.mit.edu	36	6	132834408	132834408	+	Missense_Mutation	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:132834408G>A	uc003qdg.2	-	c.274C>T	c.(274-276)CGC>TGC	p.R92C		NM_003569	NP_003560	O15400	STX7_HUMAN	syntaxin 7	92	Cytoplasmic (Potential).				intracellular protein transport|post-Golgi vesicle-mediated transport	early endosome membrane|integral to membrane	SNAP receptor activity				0	Breast(56;0.0615)													0.589147	241.717064	242.611628	76	53	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(155;0.00532)|GBM - Glioblastoma multiforme(226;0.0114)	Missense_Mutation	SNP	132834408	132834408	15870	6	G	A	A	37	37	STX7	A	1	1
CLIC5	53405	broad.mit.edu	36	6	45990048	45990048	+	Silent	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:45990048G>A	uc003oxv.2	-	c.960C>T	c.(958-960)GAC>GAT	p.D320D	CLIC5_uc003oxu.2_Silent_p.D161D|CLIC5_uc003oxw.2_Non-coding_Transcript|CLIC5_uc003oxx.2_Silent_p.D161D	NM_001114086	NP_001107558	Q9NZA1	CLIC5_HUMAN	chloride intracellular channel 5 isoform a	320	GST C-terminal.				female pregnancy	actin cytoskeleton|cell cortex|chloride channel complex|Golgi apparatus|Golgi apparatus|insoluble fraction|microtubule organizing center	protein binding|voltage-gated chloride channel activity			ovary(1)	1														0.344156	146.426302	149.730742	53	101	GG		KEEP	---	---	---	---	capture			Silent	SNP	45990048	45990048	3667	6	G	A	A	40	40	CLIC5	A	1	1
ZAN	7455	broad.mit.edu	36	7	100220269	100220269	+	Silent	SNP	C	T	T			TCGA-06-5415-01	TCGA-06-5415-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr7:100220269C>T	uc003uwj.1	+	c.6711C>T	c.(6709-6711)GGC>GGT	p.G2237G	ZAN_uc003uwk.1_Silent_p.G2237G|ZAN_uc003uwl.1_Non-coding_Transcript|ZAN_uc010lhh.1_Non-coding_Transcript|ZAN_uc010lhi.1_Non-coding_Transcript	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2237	Extracellular (Potential).|TIL 4.				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)													0.2375	41.079863	46.122958	19	61	CC		KEEP	---	---	---	---	capture	STAD - Stomach adenocarcinoma(171;0.19)		Silent	SNP	100220269	100220269	18096	7	C	T	T	27	27	ZAN	T	1	1
FLNC	2318	broad.mit.edu	36	7	128281093	128281093	+	Silent	SNP	C	T	T			TCGA-06-5415-01	TCGA-06-5415-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr7:128281093C>T	uc003vnz.2	+	c.6450C>T	c.(6448-6450)ATC>ATT	p.I2150I	FLNC_uc003voa.2_Silent_p.I2117I	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2150					cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)	10									p.I2150I(LMSU-Tumor)|p.I2150I(JHOS2-Tumor)	892				0.340426	87.268658	89.38558	32	62	CC		KEEP	---	---	---	---	capture			Silent	SNP	128281093	128281093	6177	7	C	T	T	31	31	FLNC	T	1	1
KEL	3792	broad.mit.edu	36	7	142368568	142368568	+	Splice_Site_SNP	SNP	C	T	T			TCGA-06-5415-01	TCGA-06-5415-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr7:142368568C>T	uc003wcb.1	-	c.223_splice	c.e3+1	p.R75_splice		NM_000420	NP_000411			Kell blood group, metallo-endopeptidase						proteolysis|vasoconstriction	integral to membrane|plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(3)|central_nervous_system(1)	4	Melanoma(164;0.059)													0.285714	83.681659	88.280415	32	80	CC		KEEP	---	---	---	---	capture			Splice_Site_SNP	SNP	142368568	142368568	8448	7	C	T	T	19	19	KEL	T	5	1
PDE1C	5137	broad.mit.edu	36	7	31856870	31856870	+	Missense_Mutation	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:31856870G>A	uc003tco.1	-	c.941C>T	c.(940-942)ACG>ATG	p.T314M	PDE1C_uc003tcm.1_Missense_Mutation_p.T254M|PDE1C_uc003tcn.1_Missense_Mutation_p.T254M|PDE1C_uc003tcr.1_Missense_Mutation_p.T254M|PDE1C_uc003tcs.1_Missense_Mutation_p.T254M	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C, calmodulin-dependent	254	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			central_nervous_system(1)	1														0.342657	122.466306	125.577402	49	94	GG		KEEP	---	---	---	---	capture	GBM - Glioblastoma multiforme(11;0.216)		Missense_Mutation	SNP	31856870	31856870	12056	7	G	A	A	40	40	PDE1C	A	1	1
FAM83H	286077	broad.mit.edu	36	8	144882754	144882754	+	Missense_Mutation	SNP	C	T	T			TCGA-06-5415-01	TCGA-06-5415-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr8:144882754C>T	uc003yzk.1	-	c.865G>A	c.(865-867)GCG>ACG	p.A289T	FAM83H_uc010mfk.1_Non-coding_Transcript	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	hypothetical protein LOC286077	289					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)													0.5	22.905892	22.905892	8	8	CC		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)		Missense_Mutation	SNP	144882754	144882754	5866	8	C	T	T	27	27	FAM83H	T	1	1
EPPK1	83481	broad.mit.edu	36	8	145012585	145012585	+	Silent	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr8:145012585G>A	uc003zaa.1	-	c.14760C>T	c.(14758-14760)CCC>CCT	p.P4920P		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	4945	Plectin 62.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)	1	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)													0.127273	9.594584	17.039382	7	48	GG		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		Silent	SNP	145012585	145012585	5383	8	G	A	A	39	39	EPPK1	A	1	1
KIF4A	24137	broad.mit.edu	36	X	69489226	69489226	+	Missense_Mutation	SNP	G	A	A			TCGA-06-5415-01	TCGA-06-5415-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chrX:69489226G>A	uc004dyg.1	+	c.1483G>A	c.(1483-1485)GAA>AAA	p.E495K	KIF4A_uc004dyf.1_Missense_Mutation_p.E495K|KIF4A_uc010nkw.1_Missense_Mutation_p.E495K	NM_012310	NP_036442	O95239	KIF4A_HUMAN	kinesin family member 4	495	Potential.				anterograde axon cargo transport|axon guidance|blood coagulation|organelle organization	chromosome|cytosol|midbody|nuclear matrix|spindle microtubule	ATP binding|DNA binding|microtubule motor activity|protein binding			ovary(4)	4														0.275862	7.767075	9.179003	8	21	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	69489226	69489226	8614	23	G	A	A	33	33	KIF4A	A	2	2
STAG1	10274	broad.mit.edu	36	3	137559315	137559315	+	Frame_Shift_Del	DEL	A	-	-			TCGA-06-5415-01	TCGA-06-5415-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:137559315_137559315delA	uc003era.1	-	c.3002_3002delT	c.(3001-3003)CTGfs	p.L1001fs	STAG1_uc003erb.1_Frame_Shift_Del_p.L1001fs	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	1001					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2														0.75			67	22				---	---	---	---	capture_indel			Frame_Shift_Del	DEL	137559315	137559315	15760	3	A	-	-	7	7	STAG1	-	5	5
DNAH1	25981	broad.mit.edu	36	3	52398641	52398642	+	Frame_Shift_Ins	INS	-	G	G			TCGA-06-5415-01	TCGA-06-5415-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:52398641_52398642insG	uc003dds.1	+	c.9815_9816insG	c.(9814-9816)CAGfs	p.Q3272fs	DNAH1_uc003ddu.1_Non-coding_Transcript|DNAH1_uc003ddv.1_Frame_Shift_Ins_p.Q65fs	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	3272	AAA 5 (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)										0.33			3	6				---	---	---	---	capture_indel			Frame_Shift_Ins	INS	52398641	52398642	4779	3	-	G	G	7	7	DNAH1	G	5	5
AMMECR1	9949	broad.mit.edu	36	X	109447714	109447716	+	In_Frame_Del	DEL	CCG	-	-			TCGA-06-5415-01	TCGA-06-5415-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:109447714_109447716delCCG	uc004eoo.1	-	c.240_242delCGG	c.(238-243)GGCGGG>GGG	p.80_81GG>G	AMMECR1_uc004eop.1_In_Frame_Del_p.80_81GG>G|AMMECR1_uc004eoq.1_5'UTR	NM_015365	NP_056180	Q9Y4X0	AMER1_HUMAN	AMMECR1 protein isoform 1	80_81	Gly/Ser-rich.										0														0.33			2	4				---	---	---	---	capture_indel			In_Frame_Del	DEL	109447714	109447716	581	23	CCG	-	-	22	22	AMMECR1	-	5	5
