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
ARMC3	219681	broad.mit.edu	36	10	23290820	23290820	+	Missense_Mutation	SNP	A	G	G			TCGA-12-0827-01	TCGA-12-0827-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr10:23290820A>G	uc001irm.2	+	c.539A>G	c.(538-540)GAT>GGT	p.D180G		NM_173081	NP_775104	Q5W041	ARMC3_HUMAN	armadillo repeat containing 3	180							binding				0														0.4	13.551091	13.680422	6	9	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	23290820	23290820	970	10	A	G	G	12	12	ARMC3	G	4	4
OR52I1	390037	broad.mit.edu	36	11	4572707	4572707	+	Missense_Mutation	SNP	T	C	C			TCGA-12-0827-01	TCGA-12-0827-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr11:4572707T>C	uc001lze.1	+	c.863T>C	c.(862-864)ATC>ACC	p.I288T		NM_001005169	NP_001005169	Q8NGK6	O52I1_HUMAN	olfactory receptor, family 52, subfamily I,	288	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;7.98e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)										0.142857	7.650171	12.791705	6	36	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	4572707	4572707	11530	11	T	C	C	50	50	OR52I1	C	4	4
GIF	2694	broad.mit.edu	36	11	59367084	59367084	+	Silent	SNP	T	G	G			TCGA-12-0827-01	TCGA-12-0827-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr11:59367084T>G	uc001noi.1	-	c.363A>C	c.(361-363)GCA>GCC	p.A121A		NM_005142	NP_005133	P27352	IF_HUMAN	gastric intrinsic factor (vitamin B synthesis)	121					cobalamin metabolic process|cobalamin transport|cobalt ion transport	apical plasma membrane|endosome|extracellular space|microvillus	cobalamin binding			ovary(1)|liver(1)	2						NSCLC(53;1139 1245 16872 38474 42853)								0.289474	9.453975	11.078784	11	27	TT		KEEP	---	---	---	---	capture			Silent	SNP	59367084	59367084	6644	11	T	G	G	59	59	GIF	G	4	4
TMEM132A	54972	broad.mit.edu	36	11	60460235	60460235	+	Silent	SNP	A	C	C			TCGA-12-0827-01	TCGA-12-0827-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr11:60460235A>C	uc001nqi.1	+	c.2355A>C	c.(2353-2355)CCA>CCC	p.P785P	TMEM132A_uc001nqj.1_Silent_p.P784P|TMEM132A_uc001nqm.1_5'UTR	NM_017870	NP_060340	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform a	784	Binds to HSPA5/GRP78 (By similarity).|Confers cellular localization similar to full-length form (By similarity).|Extracellular (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane					0														0.8	8.087963	8.495107	4	1	AA		KEEP	---	---	---	---	capture			Silent	SNP	60460235	60460235	16576	11	A	C	C	6	6	TMEM132A	C	4	4
ENDOD1	23052	broad.mit.edu	36	11	94501345	94501345	+	Missense_Mutation	SNP	G	A	A			TCGA-12-0827-01	TCGA-12-0827-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:94501345G>A	uc001pfh.2	+	c.457G>A	c.(457-459)GTC>ATC	p.V153I		NM_015036	NP_055851	O94919	ENDD1_HUMAN	endonuclease domain containing 1	153						extracellular region	endonuclease activity|metal ion binding|nucleic acid binding				0		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.00824)												0.15678	67.823138	94.358764	37	199	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	94501345	94501345	5307	11	G	A	A	48	48	ENDOD1	A	2	2
CUX2	23316	broad.mit.edu	36	12	110270380	110270380	+	Silent	SNP	A	G	G			TCGA-12-0827-01	TCGA-12-0827-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr12:110270380A>G	uc001tsa.1	+	c.4329A>G	c.(4327-4329)GGA>GGG	p.G1443G		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	1443						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|breast(1)	4														0.571429	7.580827	7.609706	4	3	AA		KEEP	---	---	---	---	capture			Silent	SNP	110270380	110270380	4225	12	A	G	G	11	11	CUX2	G	4	4
KCNH3	23416	broad.mit.edu	36	12	48236473	48236473	+	Missense_Mutation	SNP	T	C	C			TCGA-12-0827-01	TCGA-12-0827-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr12:48236473T>C	uc001ruh.1	+	c.2522T>C	c.(2521-2523)TTC>TCC	p.F841S		NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	841	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0														0.242424	18.78439	20.780793	8	25	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	48236473	48236473	8338	12	T	C	C	62	62	KCNH3	C	4	4
LMO7	4008	broad.mit.edu	36	13	75313764	75313764	+	Splice_Site_SNP	SNP	G	A	A			TCGA-12-0827-01	TCGA-12-0827-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr13:75313764G>A	uc001vjs.1	+	c.e23_splice_site			LMO7_uc001vjt.1_Splice_Site_SNP|LMO7_uc001vjv.1_Splice_Site_SNP|LMO7_uc001vjw.1_Splice_Site_SNP	NM_005358	NP_005349			LIM domain only 7 isoform 1							cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)	2		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)										0.501866	820.558292	820.560001	269	267	GG		KEEP	---	---	---	---	capture			Splice_Site_SNP	SNP	75313764	75313764	9184	13	G	A	A	35	35	LMO7	A	5	2
SYNRG	11276	broad.mit.edu	36	17	33006026	33006026	+	Silent	SNP	G	A	A			TCGA-12-0827-01	TCGA-12-0827-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr17:33006026G>A	uc002hoa.1	-	c.1075C>T	c.(1075-1077)CTA>TTA	p.L359L	SYNRG_uc002hob.1_Silent_p.L359L|SYNRG_uc002hoc.1_Silent_p.L280L|SYNRG_uc002hod.1_Silent_p.L281L|SYNRG_uc002hoe.1_Silent_p.L281L|SYNRG_uc002hog.1_Silent_p.L493L|SYNRG_uc002hof.1_Silent_p.L71L|SYNRG_uc010cvd.1_Silent_p.L159L	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	AP1 gamma subunit binding protein 1 isoform 1	359	EH.				endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2														0.230769	7.225692	8.96978	6	20	GG		KEEP	---	---	---	---	capture			Silent	SNP	33006026	33006026	15981	17	G	A	A	33	33	SYNRG	A	2	2
LAMA1	284217	broad.mit.edu	36	18	6989913	6989913	+	Missense_Mutation	SNP	T	C	C			TCGA-12-0827-01	TCGA-12-0827-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr18:6989913T>C	uc002knm.1	-	c.4466A>G	c.(4465-4467)GAA>GGA	p.E1489G		NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	1489	Laminin EGF-like 16.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|breast(2)|pancreas(2)|central_nervous_system(1)	17		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)					1597				0.385185	153.467121	155.026612	52	83	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	6989913	6989913	8928	18	T	C	C	62	62	LAMA1	C	4	4
ADAMTSL5	339366	broad.mit.edu	36	19	1458585	1458585	+	Missense_Mutation	SNP	C	A	A			TCGA-12-0827-01	TCGA-12-0827-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:1458585C>A	uc002ltd.1	-	c.659G>T	c.(658-660)CGC>CTC	p.R220L	ADAMTSL5_uc010dsl.1_5'UTR	NM_213604	NP_998769	Q6ZMM2	ATL5_HUMAN	ADAMTS-like 5	220						proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Acute lymphoblastic leukemia(61;5.61e-13)|all_hematologic(61;2.65e-08)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)										0.444444	23.098467	23.146646	8	10	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	1458585	1458585	279	19	C	A	A	27	27	ADAMTSL5	A	3	3
IL12RB1	3594	broad.mit.edu	36	19	18041381	18041381	+	Silent	SNP	C	T	T			TCGA-12-0827-01	TCGA-12-0827-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:18041381C>T	uc002nhx.1	-	c.1284G>A	c.(1282-1284)CCG>CCA	p.P428P	IL12RB1_uc002nhw.1_Silent_p.P388P	NM_005535	NP_005526	P42701	I12R1_HUMAN	interleukin 12 receptor, beta 1 isoform 1	388	Extracellular (Potential).|Fibronectin type-III 4.				cellular response to interferon-gamma|interleukin-12-mediated signaling pathway|positive regulation of activated T cell proliferation|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response	interleukin-12 receptor complex|interleukin-23 receptor complex	cytokine receptor activity			pancreas(1)	1														0.456693	307.659455	308.073142	116	138	CC		KEEP	---	---	---	---	capture			Silent	SNP	18041381	18041381	7927	19	C	T	T	27	27	IL12RB1	T	1	1
KIAA1683	80726	broad.mit.edu	36	19	18237325	18237325	+	Silent	SNP	T	G	G			TCGA-12-0827-01	TCGA-12-0827-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr19:18237325T>G	uc010ebn.1	-	c.2025A>C	c.(2023-2025)CCA>CCC	p.P675P	KIAA1683_uc002nin.1_Silent_p.P675P	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	675						mitochondrion				ovary(2)	2														0.3	6.407944	7.654492	9	21	TT		KEEP	---	---	---	---	capture			Silent	SNP	18237325	18237325	8561	19	T	G	G	59	59	KIAA1683	G	4	4
COL5A3	50509	broad.mit.edu	36	19	9938022	9938022	+	Missense_Mutation	SNP	T	G	G			TCGA-12-0827-01	TCGA-12-0827-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr19:9938022T>G	uc002mmq.1	-	c.4750A>C	c.(4750-4752)ACC>CCC	p.T1584P		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1584	Fibrillar collagen NC1.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)	9			Epithelial(33;7.11e-05)											0.2	6.343528	8.477977	5	20	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	9938022	9938022	3836	19	T	G	G	58	58	COL5A3	G	4	4
CNTN2	6900	broad.mit.edu	36	1	203305619	203305619	+	Nonsense_Mutation	SNP	C	A	A			TCGA-12-0827-01	TCGA-12-0827-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:203305619C>A	uc001hbr.1	+	c.2238C>A	c.(2236-2238)TAC>TAA	p.Y746*	CNTN2_uc001hbq.1_Nonsense_Mutation_p.Y637*|CNTN2_uc001hbs.1_Nonsense_Mutation_p.Y534*	NM_005076	NP_005067	Q02246	CNTN2_HUMAN	contactin 2 precursor	746	Fibronectin type-III 2.				axon guidance|clustering of voltage-gated potassium channels	anchored to membrane|juxtaparanode region of axon|myelin sheath|node of Ranvier|synapse part	identical protein binding			ovary(1)	1	all_cancers(21;0.144)|Breast(84;0.0437)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			Melanoma(183;2548 2817 37099 41192)								0.235294	9.591967	10.681567	4	13	CC		KEEP	---	---	---	---	capture			Nonsense_Mutation	SNP	203305619	203305619	3779	1	C	A	A	18	18	CNTN2	A	5	3
CENPF	1063	broad.mit.edu	36	1	212885885	212885885	+	Silent	SNP	C	T	T			TCGA-12-0827-01	TCGA-12-0827-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:212885885C>T	uc001hkm.1	+	c.6349C>T	c.(6349-6351)CTG>TTG	p.L2117L		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	2213	Potential.|2-1.|2 X 177 AA tandem repeats.|Interaction with NDE1 and NDEL1.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)	12				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		Colon(80;575 1284 11000 14801 43496)								0.08866	7.805547	90.711978	43	442	CC		KEEP	---	---	---	---	capture			Silent	SNP	212885885	212885885	3364	1	C	T	T	28	28	CENPF	T	2	2
CCDC28B	79140	broad.mit.edu	36	1	32440214	32440214	+	Missense_Mutation	SNP	A	C	C			TCGA-12-0827-01	TCGA-12-0827-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr1:32440214A>C	uc001buk.2	+	c.91A>C	c.(91-93)ACC>CCC	p.T31P	CCDC28B_uc001bul.1_Missense_Mutation_p.T31P	NM_024296	NP_077272	Q9BUN5	CC28B_HUMAN	coiled-coil domain containing 28B	31											0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)												0.3	7.325357	7.680346	3	7	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	32440214	32440214	2925	1	A	C	C	14	14	CCDC28B	C	4	4
CEP250	11190	broad.mit.edu	36	20	33556135	33556135	+	Missense_Mutation	SNP	A	G	G			TCGA-12-0827-01	TCGA-12-0827-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr20:33556135A>G	uc002xcm.1	+	c.6524A>G	c.(6523-6525)GAC>GGC	p.D2175G	CEP250_uc002xcn.1_Missense_Mutation_p.D2119G	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2 isoform 1	2175	Potential.				centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)											0.142857	13.971949	20.847461	8	48	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	33556135	33556135	3385	20	A	G	G	10	10	CEP250	G	4	4
MAVS	57506	broad.mit.edu	36	20	3792904	3792904	+	Silent	SNP	T	G	G			TCGA-12-0827-01	TCGA-12-0827-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr20:3792904T>G	uc002wjw.2	+	c.627T>G	c.(625-627)GGT>GGG	p.G209G	MAVS_uc002wjx.2_Silent_p.G68G|MAVS_uc002wjy.2_5'UTR	NM_020746	NP_065797	Q7Z434	MAVS_HUMAN	virus-induced signaling adapter	209	Cytoplasmic (Probable).				activation of innate immune response|cellular response to exogenous dsRNA|defense response to bacterium|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of chemokine (C-C motif) ligand 5 production|positive regulation of defense response to virus by host|positive regulation of gene-specific transcription from RNA polymerase II promoter|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interleukin-8 production|positive regulation of IP-10 production|positive regulation of protein import into nucleus, translocation|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription factor import into nucleus|positive regulation of tumor necrosis factor production|positive regulation of type I interferon-mediated signaling pathway|response to virus	integral to membrane|mitochondrial outer membrane	CARD domain binding|protein kinase binding|signal transducer activity				0														0.387097	12.649077	13.132807	12	19	TT		KEEP	---	---	---	---	capture			Silent	SNP	3792904	3792904	9722	20	T	G	G	59	59	MAVS	G	4	4
PRPF6	24148	broad.mit.edu	36	20	62129452	62129452	+	Missense_Mutation	SNP	A	G	G			TCGA-12-0827-01	TCGA-12-0827-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr20:62129452A>G	uc002yho.1	+	c.2258A>G	c.(2257-2259)GAG>GGG	p.E753G	PRPF6_uc002yhp.1_Missense_Mutation_p.E713G	NM_012469	NP_036601	O94906	PRP6_HUMAN	PRP6 pre-mRNA processing factor 6 homolog	753	HAT 8.				assembly of spliceosomal tri-snRNP|positive regulation of transcription from RNA polymerase II promoter|spliceosome assembly	catalytic step 2 spliceosome|nucleoplasm|U4/U6 snRNP|U4/U6 x U5 tri-snRNP complex|U5 snRNP	androgen receptor binding|ribonucleoprotein binding|transcription coactivator activity			ovary(2)	2	all_cancers(38;6.47e-12)|all_epithelial(29;1.26e-13)|Lung NSC(23;9.37e-10)|all_lung(23;3.23e-09)													0.363636	6.557375	6.752502	4	7	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	62129452	62129452	13017	20	A	G	G	11	11	PRPF6	G	4	4
SLC37A1	54020	broad.mit.edu	36	21	42847312	42847312	+	Missense_Mutation	SNP	C	A	A			TCGA-12-0827-01	TCGA-12-0827-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr21:42847312C>A	uc002zbi.1	+	c.840C>A	c.(838-840)AAC>AAA	p.N280K	SLC37A1_uc002zbj.1_Missense_Mutation_p.N280K	NM_018964	NP_061837	P57057	GLPT_HUMAN	solute carrier family 37 member 1	280					carbohydrate transport|transmembrane transport	integral to membrane					0														0.25	7.745212	8.901953	5	15	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	42847312	42847312	15094	21	C	A	A	17	17	SLC37A1	A	3	3
SCUBE1	80274	broad.mit.edu	36	22	41934112	41934112	+	Missense_Mutation	SNP	T	C	C			TCGA-12-0827-01	TCGA-12-0827-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr22:41934112T>C	uc003bdt.1	-	c.2644A>G	c.(2644-2646)ACC>GCC	p.T882A		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	882	CUB.				adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)	4		all_neural(38;0.0414)|Ovarian(80;0.07)												0.157407	29.04254	41.112907	17	91	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	41934112	41934112	14427	22	T	C	C	59	59	SCUBE1	C	4	4
UPK3A	7380	broad.mit.edu	36	22	44061929	44061929	+	Missense_Mutation	SNP	A	C	C			TCGA-12-0827-01	TCGA-12-0827-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr22:44061929A>C	uc003bfy.1	+	c.421A>C	c.(421-423)ACC>CCC	p.T141P	UPK3A_uc010gzy.1_Intron	NM_006953	NP_008884	O75631	UPK3A_HUMAN	uroplakin 3A precursor	141	Lumenal (Potential).				epithelial cell differentiation	endoplasmic reticulum membrane|integral to membrane					0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)										0.217391	6.33692	8.067357	5	18	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	44061929	44061929	17570	22	A	C	C	10	10	UPK3A	C	4	4
COL5A2	1290	broad.mit.edu	36	2	189612247	189612247	+	Silent	SNP	C	T	T			TCGA-12-0827-01	TCGA-12-0827-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:189612247C>T	uc002uqk.1	-	c.3921G>A	c.(3919-3921)CAG>CAA	p.Q1307Q	COL5A2_uc010frx.1_Silent_p.Q883Q	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	1307	Fibrillar collagen NC1.				axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)											0.228571	18.779832	21.147254	8	27	CC		KEEP	---	---	---	---	capture			Silent	SNP	189612247	189612247	3835	2	C	T	T	32	32	COL5A2	T	2	2
IDH1	3417	broad.mit.edu	36	2	208821357	208821357	+	Missense_Mutation	SNP	C	T	T			TCGA-12-0827-01	TCGA-12-0827-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:208821357C>T	uc002vcs.1	-	c.395G>A	c.(394-396)CGT>CAT	p.R132H	IDH1_uc002vct.1_Missense_Mutation_p.R132H|IDH1_uc002vcu.1_Missense_Mutation_p.R132H	NM_005896	NP_005887	O75874	IDHC_HUMAN	isocitrate dehydrogenase 1 (NADP+), soluble	132		Substrate.	R -> G (in a glioma sample; glioblastoma multiforme; somatic mutation).|R -> L (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> S (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> H (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> C (in colorectal cancer and glioma samples; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha- ketoglutarate but instead alpha- ketoglutarate is converted to R(-)-2- hydroxyglutarate).		2-oxoglutarate metabolic process|cellular lipid metabolic process|glyoxylate cycle|isocitrate metabolic process|NADPH regeneration|tricarboxylic acid cycle	cytosol|peroxisomal matrix	isocitrate dehydrogenase (NADP+) activity|magnesium ion binding|NAD binding|protein homodimerization activity	p.R132H(1725)|p.R132?(210)|p.R132C(92)|p.R132L(48)|p.R132G(26)|p.R132S(11)|p.R132V(1)|p.G131_R132>VL(1)		central_nervous_system(1848)|haematopoietic_and_lymphoid_tissue(593)|large_intestine(4)|skin(2)|prostate(2)|autonomic_ganglia(1)|soft_tissue(1)	2451				Epithelial(149;0.0322)|LUSC - Lung squamous cell carcinoma(261;0.0711)|Lung(261;0.136)		Pancreas(158;264 1958 3300 35450 36047)				134				0.306202	619.989	645.913882	237	537	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	208821357	208821357	7794	2	C	T	T	19	19	IDH1	T	1	1
BSN	8927	broad.mit.edu	36	3	49665710	49665710	+	Silent	SNP	G	A	A			TCGA-12-0827-01	TCGA-12-0827-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr3:49665710G>A	uc003cxe.2	+	c.3717G>A	c.(3715-3717)CAG>CAA	p.Q1239Q		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	1239					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	zinc ion binding			ovary(5)|central_nervous_system(1)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)										0.2	6.99171	8.667117	4	16	GG		KEEP	---	---	---	---	capture			Silent	SNP	49665710	49665710	1561	3	G	A	A	35	35	BSN	A	2	2
CTBP1	1487	broad.mit.edu	36	4	1209205	1209205	+	Missense_Mutation	SNP	C	T	T			TCGA-12-0827-01	TCGA-12-0827-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr4:1209205C>T	uc003gcv.1	-	c.490G>A	c.(490-492)GAG>AAG	p.E164K	CTBP1_uc003gct.1_Missense_Mutation_p.E145K|CTBP1_uc003gcu.1_Missense_Mutation_p.E153K	NM_001328	NP_001319	Q13363	CTBP1_HUMAN	C-terminal binding protein 1 isoform 1	164					interspecies interaction between organisms|negative regulation of cell proliferation|negative regulation of gene-specific transcription from RNA polymerase II promoter|negative regulation of histone H4 acetylation|oxidation-reduction process|positive regulation of histone deacetylation|protein phosphorylation|regulation of cell cycle|regulation of transcription by chromatin organization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|viral genome replication|white fat cell differentiation	cytoplasm|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein C-terminus binding|protein domain specific binding|transcription factor binding|transcription repressor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.00818)	Colorectal(103;0.2)					p.E164K(SNU1076-Tumor)	261				0.36	21.551853	21.98956	9	16	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	1209205	1209205	4156	4	C	T	T	31	31	CTBP1	T	1	1
SLC6A7	6534	broad.mit.edu	36	5	149564308	149564308	+	Silent	SNP	C	G	G			TCGA-12-0827-01	TCGA-12-0827-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr5:149564308C>G	uc003lrr.1	+	c.1353C>G	c.(1351-1353)GTC>GTG	p.V451V		NM_014228	NP_055043	Q99884	SC6A7_HUMAN	solute carrier family 6, member 7	451						integral to plasma membrane|membrane fraction	neurotransmitter:sodium symporter activity|proline:sodium symporter activity				0		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		L-Proline(DB00172)									0.130435	10.378648	19.506509	9	60	CC		KEEP	---	---	---	---	capture			Silent	SNP	149564308	149564308	15186	5	C	G	G	30	30	SLC6A7	G	3	3
GABBR1	2550	broad.mit.edu	36	6	29696984	29696984	+	Missense_Mutation	SNP	T	C	C			TCGA-12-0827-01	TCGA-12-0827-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr6:29696984T>C	uc003nmt.2	-	c.1196A>G	c.(1195-1197)AAT>AGT	p.N399S	GABBR1_uc003nmp.2_Missense_Mutation_p.N282S|GABBR1_uc003nms.2_Missense_Mutation_p.N282S|GABBR1_uc003nmu.2_Missense_Mutation_p.N337S|GABBR1_uc003nmv.2_Missense_Mutation_p.N399S|GABBR1_uc003nmw.2_Missense_Mutation_p.N206S	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	399	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)	6					Baclofen(DB00181)|Progabide(DB00837)									0.12285	119.537094	232.837982	100	714	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	29696984	29696984	6406	6	T	C	C	52	52	GABBR1	C	4	4
BRPF3	27154	broad.mit.edu	36	6	36277504	36277504	+	Missense_Mutation	SNP	T	C	C			TCGA-12-0827-01	TCGA-12-0827-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr6:36277504T>C	uc003olv.2	+	c.1427T>C	c.(1426-1428)GTC>GCC	p.V476A	BRPF3_uc010jwb.1_Missense_Mutation_p.V476A|BRPF3_uc010jwc.1_Non-coding_Transcript	NM_015695	NP_056510	Q9ULD4	BRPF3_HUMAN	bromodomain and PHD finger containing, 3	476					histone H3 acetylation|platelet activation|platelet degranulation	cytosol|extracellular region|MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding			ovary(1)	1														0.186916	51.141144	60.960508	20	87	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	36277504	36277504	1552	6	T	C	C	58	58	BRPF3	C	4	4
FAM167A	83648	broad.mit.edu	36	8	11339063	11339063	+	Missense_Mutation	SNP	G	C	C			TCGA-12-0827-01	TCGA-12-0827-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr8:11339063G>C	uc010lry.1	-	c.268C>G	c.(268-270)CAG>GAG	p.Q90E	FAM167A_uc003wtw.2_Missense_Mutation_p.Q90E	NM_053279	NP_444509	Q96KS9	F167A_HUMAN	hypothetical protein LOC83648	90											0														0.25	7.821999	8.502075	3	9	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	11339063	11339063	5687	8	G	C	C	46	46	FAM167A	C	3	3
TNKS	8658	broad.mit.edu	36	8	9628205	9628205	+	Missense_Mutation	SNP	G	T	T			TCGA-12-0827-01	TCGA-12-0827-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr8:9628205G>T	uc003wss.1	+	c.2154G>T	c.(2152-2154)TTG>TTT	p.L718F	TNKS_uc010lrt.1_5'Flank	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	718	ANK 11.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein transport|spindle assembly|transmembrane transport	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			ovary(1)|kidney(1)	2				COAD - Colon adenocarcinoma(149;0.0467)										0.173913	8.841424	13.527982	8	38	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	9628205	9628205	16860	8	G	T	T	47	47	TNKS	T	3	3
PGCP	10404	broad.mit.edu	36	8	98110837	98110837	+	Missense_Mutation	SNP	T	G	G			TCGA-12-0827-01	TCGA-12-0827-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr8:98110837T>G	uc003yhw.1	+	c.992T>G	c.(991-993)GTG>GGG	p.V331G		NM_016134	NP_057218	Q9Y646	PGCP_HUMAN	plasma glutamate carboxypeptidase	331					peptide metabolic process|proteolysis	cytoplasm|extracellular space	metal ion binding|metallocarboxypeptidase activity				0	Breast(36;1.86e-05)													0.272727	13.037695	14.064673	6	16	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	98110837	98110837	12209	8	T	G	G	59	59	PGCP	G	4	4
WDR38	401551	broad.mit.edu	36	9	126658964	126658964	+	Missense_Mutation	SNP	G	A	A			TCGA-12-0827-01	TCGA-12-0827-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr9:126658964G>A	uc004box.1	+	c.751G>A	c.(751-753)GCC>ACC	p.A251T		NM_001045476	NP_001038941	Q5JTN6	WDR38_HUMAN	WD repeat domain 38	251	WD 6.										0														0.195652	18.151185	22.122488	9	37	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	126658964	126658964	17865	9	G	A	A	38	38	WDR38	A	1	1
ODF2	4957	broad.mit.edu	36	9	130261718	130261718	+	Silent	SNP	C	T	T			TCGA-12-0827-01	TCGA-12-0827-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr9:130261718C>T	uc004bvd.2	+	c.84C>T	c.(82-84)GTC>GTT	p.V28V	ODF2_uc010myb.1_5'UTR|ODF2_uc004bva.1_5'UTR|ODF2_uc004bvb.1_5'UTR|ODF2_uc004bvc.1_5'UTR|ODF2_uc010myc.1_Silent_p.V28V|ODF2_uc004bve.1_Silent_p.V28V|ODF2_uc004bvf.1_5'Flank	NM_002540	NP_002531	Q5BJF6	ODFP2_HUMAN	outer dense fiber of sperm tails 2 isoform 1	28					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centriole|cilium|cytosol|microtubule|spindle pole	protein binding|structural molecule activity			ovary(1)	1														0.189873	61.249437	75.477478	30	128	CC		KEEP	---	---	---	---	capture			Silent	SNP	130261718	130261718	11232	9	C	T	T	32	32	ODF2	T	2	2
MPDZ	8777	broad.mit.edu	36	9	13112135	13112135	+	Missense_Mutation	SNP	C	T	T			TCGA-12-0827-01	TCGA-12-0827-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr9:13112135C>T	uc010mhy.1	-	c.4988G>A	c.(4987-4989)GGA>GAA	p.G1663E	MPDZ_uc003zkx.2_5'Flank|MPDZ_uc003zky.2_Intron|MPDZ_uc010mhx.1_Missense_Mutation_p.G485E|MPDZ_uc003zkz.2_Missense_Mutation_p.G356E|MPDZ_uc010mhz.1_Missense_Mutation_p.G1630E|MPDZ_uc003zlb.2_Missense_Mutation_p.G1663E|MPDZ_uc010mia.1_Missense_Mutation_p.G1663E|MPDZ_uc010mib.1_Missense_Mutation_p.G368E	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1663	PDZ 10.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)										0.923077	30.927532	32.585192	12	1	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	13112135	13112135	10114	9	C	T	T	30	30	MPDZ	T	2	2
GABRQ	55879	broad.mit.edu	36	X	151557373	151557373	+	Missense_Mutation	SNP	G	C	C			TCGA-12-0827-01	TCGA-12-0827-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chrX:151557373G>C	uc004ffp.1	+	c.61G>C	c.(61-63)GCG>CCG	p.A21P		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	21						cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)													0.4	8.903961	9.0447	6	9	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	151557373	151557373	6426	23	G	C	C	38	38	GABRQ	C	3	3
FLNA	2316	broad.mit.edu	36	X	153234998	153234998	+	Missense_Mutation	SNP	G	A	A			TCGA-12-0827-01	TCGA-12-0827-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chrX:153234998G>A	uc004fkk.2	-	c.5882C>T	c.(5881-5883)TCC>TTC	p.S1961F	FLNA_uc004fki.2_Missense_Mutation_p.S4F|FLNA_uc010nuu.1_Missense_Mutation_p.S1953F	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1961	Filamin 18.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	actin cytoskeleton|cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)									518				0.344086	159.739822	163.734613	64	122	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	153234998	153234998	6175	23	G	A	A	41	41	FLNA	A	2	2
AKAP4	8852	broad.mit.edu	36	X	49845327	49845327	+	Silent	SNP	C	T	T			TCGA-12-0827-01	TCGA-12-0827-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chrX:49845327C>T	uc004dow.1	-	c.777G>A	c.(775-777)GAG>GAA	p.E259E	AKAP4_uc004dov.1_Intron|AKAP4_uc010njp.1_Silent_p.E81E|AKAP4_uc004dou.1_Silent_p.E250E	NM_003886	NP_647450	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	259					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)	7	Ovarian(276;0.236)									119				0.206497	367.887341	436.738588	178	684	CC		KEEP	---	---	---	---	capture			Silent	SNP	49845327	49845327	456	23	C	T	T	32	32	AKAP4	T	2	2
OGT	8473	broad.mit.edu	36	X	70684535	70684535	+	Missense_Mutation	SNP	T	G	G			TCGA-12-0827-01	TCGA-12-0827-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chrX:70684535T>G	uc004eaa.1	+	c.585T>G	c.(583-585)AGT>AGG	p.S195R	OGT_uc004eab.1_Missense_Mutation_p.S185R|OGT_uc004eac.2_Missense_Mutation_p.S56R|OGT_uc004ead.2_5'UTR	NM_181672	NP_858058	O15294	OGT1_HUMAN	O-linked GlcNAc transferase isoform 1	195	TPR 5.				cellular response to retinoic acid|positive regulation of granulocyte differentiation|positive regulation of histone H3-K4 methylation|positive regulation of proteolysis|protein O-linked glycosylation|signal transduction	cytosol|MLL5-L complex	enzyme activator activity|protein binding|protein N-acetylglucosaminyltransferase activity			ovary(3)|kidney(1)|pancreas(1)	5	Renal(35;0.156)													0.311961	713.85453	739.346836	253	558	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	70684535	70684535	11252	23	T	G	G	57	57	OGT	G	4	4
SNX33	257364	broad.mit.edu	36	15	73728810	73728811	+	Frame_Shift_Ins	INS	-	T	T			TCGA-12-0827-01	TCGA-12-0827-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:73728810_73728811insT	uc002bau.1	+	c.312_313insT	c.(310-315)TCAAACfs	p.S104fs	IMP3_uc002bat.2_5'Flank|SNX33_uc002bav.1_5'Flank	NM_153271	NP_695003	Q8WV41	SNX33_HUMAN	sorting nexin 33	104_105					cell communication		phosphatidylinositol binding|protein binding			ovary(1)	1														0.34			33	63				---	---	---	---	capture_indel			Frame_Shift_Ins	INS	73728810	73728811	15403	15	-	T	T	5	5	SNX33	T	5	5
RPS2	6187	broad.mit.edu	36	16	1954597	1954598	+	Frame_Shift_Ins	INS	-	C	C			TCGA-12-0827-01	TCGA-12-0827-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:1954597_1954598insC	uc002cnn.2	-	c.30_31insG	c.(28-33)GGGCCCfs	p.G10fs	RPS2_uc010bsa.1_Non-coding_Transcript|RPS2_uc002cnl.2_Frame_Shift_Ins_p.G10fs|RPS2_uc002cnm.2_Non-coding_Transcript|RPS2_uc002cno.2_Frame_Shift_Ins_p.G10fs|SNORA10_uc002cnp.1_5'Flank|SNORA64_uc002cnq.2_5'Flank|SNHG9_uc002cnr.1_5'Flank|SNORA78_uc002cns.1_5'Flank|RNF151_uc002cnt.1_5'Flank	NM_002952	NP_002943	P15880	RS2_HUMAN	ribosomal protein S2	10_11					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleoplasm	fibroblast growth factor 1 binding|fibroblast growth factor 3 binding|RNA binding|structural constituent of ribosome				0														0.31			4	9				---	---	---	---	capture_indel			Frame_Shift_Ins	INS	1954597	1954598	14111	16	-	C	C	42	42	RPS2	C	5	5
DEDD2	162989	broad.mit.edu	36	19	47405822	47405823	+	Frame_Shift_Ins	INS	-	G	G			TCGA-12-0827-01	TCGA-12-0827-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:47405822_47405823insG	uc002osu.1	-	c.458_459insC	c.(457-459)CCAfs	p.P153fs	DEDD2_uc002osv.1_Non-coding_Transcript|DEDD2_uc002osw.1_Frame_Shift_Ins_p.P148fs|DEDD2_uc002osx.1_Frame_Shift_Ins_p.Q37fs|DEDD2_uc002osy.1_Frame_Shift_Ins_p.P153fs|DEDD2_uc010eid.1_Non-coding_Transcript	NM_133328	NP_579874	Q8WXF8	DEDD2_HUMAN	death effector domain-containing  DNA binding	153					activation of pro-apoptotic gene products|apoptotic nuclear change|cellular homeostasis|induction of apoptosis via death domain receptors|intracellular signal transduction|negative regulation of transcription, DNA-dependent|RNA processing|rRNA catabolic process|transcription, DNA-dependent	nucleolus	DNA binding|receptor signaling complex scaffold activity				0		Prostate(69;0.0704)												0.33			3	6				---	---	---	---	capture_indel			Frame_Shift_Ins	INS	47405822	47405823	4556	19	-	G	G	63	63	DEDD2	G	5	5
LMF2	91289	broad.mit.edu	36	22	49289864	49289864	+	Frame_Shift_Del	DEL	G	-	-			TCGA-12-0827-01	TCGA-12-0827-01										Phase_I	Unspecified				Illumina GAIIx	g.chr22:49289864_49289864delG	uc003blp.1	-	c.1596_1596delC	c.(1594-1596)GGCfs	p.G532fs	LMF2_uc003blo.1_Frame_Shift_Del_p.G507fs|LMF2_uc010hba.1_Frame_Shift_Del_p.G354fs	NM_033200	NP_149977	Q9BU23	LMF2_HUMAN	lipase maturation factor 2	532						endoplasmic reticulum membrane|integral to membrane				breast(1)	1		all_cancers(38;1.31e-09)|all_epithelial(38;1.81e-08)|all_lung(38;0.000817)|Breast(42;0.00387)|Lung NSC(38;0.0124)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)										0.32			18	38				---	---	---	---	capture_indel			Frame_Shift_Del	DEL	49289864	49289864	9175	22	G	-	-	46	46	LMF2	-	5	5
