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	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	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	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
NBPF1	55672	broad.mit.edu	37	1	16892949	16892949	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr1:16892949C>T	uc009vos.1	-	27	3958	c.3070G>A	c.(3070-3072)GAA>AAA	p.E1024K	NBPF1_uc009vot.1_Missense_Mutation_p.E407K|NBPF1_uc001ayz.1_Missense_Mutation_p.E407K|uc001ayw.2_5'Flank	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	1024	NBPF 6.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		TGGTACTTTTCAATTTCTGCA	0.438000													22	393					0	0	0.003755	0	0
JAK1	3716	broad.mit.edu	37	1	65344759	65344759	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr1:65344759C>T	uc001dbu.1	-	4	527	c.278G>A	c.(277-279)CGC>CAC	p.R93H	JAK1_uc009wam.1_Missense_Mutation_p.R81H|JAK1_uc001dbv.2_5'Flank	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1	93	FERM.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)		GGTGATGGTGCGATTTGGAGC	0.507000			Mis		ALL								20	16					0	0	0.010504	0	0
SNX7	51375	broad.mit.edu	37	1	99150445	99150445	+	Missense_Mutation	SNP	C	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr1:99150445C>A	uc010ouc.1	+	2	237	c.185C>A	c.(184-186)GCC>GAC	p.A62D	SNX7_uc001dsa.2_5'UTR|SNX7_uc010oud.1_Missense_Mutation_p.A62D	NM_015976	NP_057060	Q9UNH6	SNX7_HUMAN	sorting nexin 7 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		all_epithelial(167;7.64e-07)|all_lung(203;0.0006)|Lung NSC(277;0.00137)		Epithelial(280;0.0521)|all cancers(265;0.0687)|COAD - Colon adenocarcinoma(174;0.15)|Lung(183;0.207)|Colorectal(170;0.234)		TCTTAGGATGCCTCATTGATG	0.303000													31	60					2.42023e-17	3.06563e-17	0.003271	1	0
NTRK1	4914	broad.mit.edu	37	1	156837966	156837966	+	Missense_Mutation	SNP	C	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr1:156837966C>A	uc001fqh.1	+	5	555	c.499C>A	c.(499-501)CTG>ATG	p.L167M	NTRK1_uc001fqf.1_Missense_Mutation_p.L137M|NTRK1_uc009wsi.1_Translation_Start_Site|NTRK1_uc001fqi.1_Missense_Mutation_p.L167M|NTRK1_uc009wsk.1_Missense_Mutation_p.L167M	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	167	LRRCT.|Extracellular (Potential).				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	GGAGGAGGGACTGGGCGGAGT	0.657000			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			4	128					2.56e-06	2.90388e-06	0.009096	1	0
SLC9A11	284525	broad.mit.edu	37	1	173505010	173505010	+	Missense_Mutation	SNP	G	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr1:173505010G>T	uc001giz.2	-	15	2157	c.1734C>A	c.(1732-1734)TTC>TTA	p.F578L	SLC9A11_uc009wwe.2_Missense_Mutation_p.F136L|SLC9A11_uc010pmq.1_Intron	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	578					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						AATATTCCAAGAAAGTTAAAA	0.259000													25	74					5.45024e-15	6.79046e-15	0.003330	1	0
PRG4	10216	broad.mit.edu	37	1	186276981	186276981	+	Silent	SNP	A	G	G			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr1:186276981A>G	uc001gru.3	+	7	2181	c.2130A>G	c.(2128-2130)AAA>AAG	p.K710K	PRG4_uc001grt.3_Silent_p.K669K|PRG4_uc009wyl.2_Silent_p.K617K|PRG4_uc009wym.2_Silent_p.K576K|PRG4_uc010poo.1_Intron	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	710	59 X 8 AA repeats of K-X-P-X-P-T-T-X.|43; approximate.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CTACCCCTAAAGGGACTGCTC	0.582000													4	210					0	0	0.000602	0	0
OR13G1	441933	broad.mit.edu	37	1	247835611	247835611	+	Missense_Mutation	SNP	C	G	G			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr1:247835611C>G	uc001idi.1	-	1	733	c.733G>C	c.(733-735)GTG>CTG	p.V245L		NM_001005487	NP_001005487	Q8NGZ3	O13G1_HUMAN	olfactory receptor, family 13, subfamily G,	245	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			TAAAGGGTCACCACTGTGAGA	0.448000													26	80					0	0	0.005443	0	0
OR13A1	79290	broad.mit.edu	37	10	45799786	45799786	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr10:45799786C>T	uc001jcc.1	-	4	394	c.85G>A	c.(85-87)GAG>AAG	p.E29K	OR13A1_uc001jcd.1_Missense_Mutation_p.E25K	NM_001004297	NP_001004297	Q8NGR1	O13A1_HUMAN	olfactory receptor, family 13, subfamily A,	29	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGGATGAACTCGGTTACCAAC	0.517000													37	39					0	0	0.003271	0	0
LOC642826	642826	broad.mit.edu	37	10	47207813	47207813	+	RNA	SNP	T	C	C			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr10:47207813T>C	uc001jei.2	-	12		c.1586A>G			uc009xnf.2_Missense_Mutation_p.H132R					Homo sapiens cDNA, FLJ99065.												0						TTTACTTACATGGTTTGTACA	0.294000													3	41					0	0	0.004672	0	0
ADAMTS14	140766	broad.mit.edu	37	10	72517740	72517740	+	Missense_Mutation	SNP	G	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr10:72517740G>T	uc001jrh.2	+	20	2960	c.2960G>T	c.(2959-2961)GGC>GTC	p.G987V	ADAMTS14_uc001jrg.2_Missense_Mutation_p.G990V	NM_080722	NP_542453	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1	987	TSP type-1 4.				collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|upper_aerodigestive_tract(1)	6						TGTGGAGAGGGCATCCAGCAG	0.652000													40	77					2.95478e-19	3.9397e-19	0.008740	1	0
PPFIBP2	8495	broad.mit.edu	37	11	7618800	7618800	+	Missense_Mutation	SNP	C	G	G	rs17851928		TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr11:7618800C>G	uc001mfj.3	+	5	770	c.382C>G	c.(382-384)CTC>GTC	p.L128V	PPFIBP2_uc010rbb.1_Missense_Mutation_p.L51V|PPFIBP2_uc001mfk.1_Intron|PPFIBP2_uc010rbc.1_Missense_Mutation_p.L51V|PPFIBP2_uc010rbd.1_5'UTR|PPFIBP2_uc010rbe.1_Missense_Mutation_p.L16V	NM_003621	NP_003612	Q8ND30	LIPB2_HUMAN	PTPRF interacting protein, binding protein 2	128	Potential.			L -> I (in Ref. 2; AAH21714).	cell communication|DNA integration	intracellular	DNA binding|integrase activity|protein binding			ovary(2)|breast(2)	4				Epithelial(150;2.01e-07)|BRCA - Breast invasive adenocarcinoma(625;0.236)		GGTGAGTGTCCTCACAGACCA	0.512000													7	6					0	0	0.004482	0	0
TTC17	55761	broad.mit.edu	37	11	43380551	43380551	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr11:43380551G>A	uc001mxi.2	+	1	61	c.47G>A	c.(46-48)TGC>TAC	p.C16Y	TTC17_uc001mxh.2_Missense_Mutation_p.C16Y	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	16							binding			ovary(5)	5						CTGCCGCCTTGCTCCGGCCCA	0.711000													10	10					0	0	0.006214	0	0
PICALM	8301	broad.mit.edu	37	11	85714416	85714416	+	Missense_Mutation	SNP	C	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr11:85714416C>A	uc001pbm.2	-	9	1172	c.886G>T	c.(886-888)GCA>TCA	p.A296S	PICALM_uc001pbl.2_Missense_Mutation_p.A296S|PICALM_uc001pbn.2_Missense_Mutation_p.A296S|PICALM_uc010rtl.1_Missense_Mutation_p.A245S|PICALM_uc010rtk.1_5'UTR|PICALM_uc001pbo.1_5'UTR	NM_007166	NP_009097	Q13492	PICAL_HUMAN	phosphatidylinositol-binding clathrin assembly	296					clathrin coat assembly|endosome transport|negative regulation of receptor-mediated endocytosis|positive regulation of transcription, DNA-dependent|receptor internalization|regulation of protein localization	clathrin coat|clathrin-coated vesicle|coated pit|Golgi apparatus|nucleus|postsynaptic membrane|presynaptic membrane	1-phosphatidylinositol binding|clathrin heavy chain binding			urinary_tract(1)|ovary(1)	2		Acute lymphoblastic leukemia(157;7.42e-07)|all_hematologic(158;0.00092)				TACCTGCTTGCAGCTGTAGAA	0.358000			T	MLLT10|MLL	TALL|AML|								21	53					1.96895e-08	2.26727e-08	0.002780	1	0
USP28	57646	broad.mit.edu	37	11	113679909	113679909	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr11:113679909G>T	uc001poh.2	-	17	2073	c.2040C>A	c.(2038-2040)TAC>TAA	p.Y680*	USP28_uc001pog.2_Nonsense_Mutation_p.Y388*|USP28_uc010rwy.1_Nonsense_Mutation_p.Y555*|USP28_uc001poi.2_Nonsense_Mutation_p.Y35*	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	680					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		CCTCCTGAATGTAATGCTTGA	0.463000													5	476					0.00198382	0.00212352	0.001984	1	0
LRP1	4035	broad.mit.edu	37	12	57566959	57566959	+	Missense_Mutation	SNP	C	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr12:57566959C>A	uc001snd.2	+	21	3638	c.3172C>A	c.(3172-3174)CCC>ACC	p.P1058T		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1058	Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	AGCCACGAGGCCCCCTGGTGG	0.672000											OREG0021936	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	25					1.23904e-05	1.36474e-05	0.000602	1	0
SPATA13	221178	broad.mit.edu	37	13	24825881	24825881	+	Missense_Mutation	SNP	C	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr13:24825881C>A	uc001upg.1	+	3	577	c.170C>A	c.(169-171)GCT>GAT	p.A57D	SPATA13_uc001upd.1_Missense_Mutation_p.A682D|C1QTNF9_uc001upe.2_RNA|SPATA13_uc010tcy.1_Missense_Mutation_p.A3D|SPATA13_uc010tcz.1_Missense_Mutation_p.A3D	NM_153023	NP_694568	Q96N96	SPT13_HUMAN	spermatogenesis associated 13	57					cell migration|filopodium assembly|lamellipodium assembly|regulation of cell migration|regulation of Rho protein signal transduction	cytoplasm|filopodium|lamellipodium|ruffle membrane	protein binding|Rac guanyl-nucleotide exchange factor activity			skin(2)|ovary(1)	3		all_cancers(29;4.05e-15)|all_lung(29;2.77e-14)|all_epithelial(30;7.77e-13)|Lung SC(185;0.0279)		all cancers(112;0.00616)|Epithelial(112;0.0195)|OV - Ovarian serous cystadenocarcinoma(117;0.0705)|Lung(94;0.231)		CCCATGCCTGCTCACCAGGTG	0.622000													37	56					1.07121e-22	1.48021e-22	0.006999	1	0
SHISA2	387914	broad.mit.edu	37	13	26620708	26620708	+	Missense_Mutation	SNP	C	G	G			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr13:26620708C>G	uc001uqm.1	-	2	916	c.831G>C	c.(829-831)CAG>CAC	p.Q277H		NM_001007538	NP_001007539	Q6UWI4	SHSA2_HUMAN	shisa homolog 2 precursor	277	Cytoplasmic (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane				ovary(1)|central_nervous_system(1)	2						GGAAGGGGGACTGAATCTGCC	0.567000													21	46					0	0	0.003954	0	0
DENND4A	10260	broad.mit.edu	37	15	65983020	65983020	+	Silent	SNP	C	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr15:65983020C>T	uc002aph.2	-	22	4158	c.3780G>A	c.(3778-3780)GTG>GTA	p.V1260V	DENND4A_uc002api.2_Silent_p.V1303V|DENND4A_uc002apj.3_Silent_p.V1260V	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	1260					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						TGGTAAGTCTCACTGGCTTAG	0.413000													21	57					0	0	0.003330	0	0
SIN3A	25942	broad.mit.edu	37	15	75692465	75692465	+	Silent	SNP	C	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr15:75692465C>T	uc002bai.2	-	12	2029	c.1770G>A	c.(1768-1770)TCG>TCA	p.S590S	SIN3A_uc002baj.2_Silent_p.S590S|SIN3A_uc010uml.1_Silent_p.S590S	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	590	Interactions with SUDS3 and SAP130.|Interaction with NCOR1 (By similarity).				blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						CCTCAGACCACGAAGGGAAGG	0.393000													29	51					0	0	0.006320	0	0
IREB2	3658	broad.mit.edu	37	15	78765591	78765591	+	Silent	SNP	A	G	G			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr15:78765591A>G	uc002bdr.2	+	8	1053	c.891A>G	c.(889-891)GGA>GGG	p.G297G	IREB2_uc010unb.1_Silent_p.G47G|IREB2_uc002bdq.2_Silent_p.G297G	NM_004136	NP_004127	P48200	IREB2_HUMAN	iron-responsive element binding protein 2	297							4 iron, 4 sulfur cluster binding|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)		TAGGGGTTGGAGGCATTGAAA	0.383000													3	151					0	0	0.004672	0	0
PKD1	5310	broad.mit.edu	37	16	2142592	2142592	+	Missense_Mutation	SNP	A	C	C			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr16:2142592A>C	uc002cos.1	-	39	11367	c.11158T>G	c.(11158-11160)TCT>GCT	p.S3720A	PKD1_uc002cot.1_Missense_Mutation_p.S3719A|MIR1225_hsa-mir-1225|MI0006311_5'Flank|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	3720	Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						AGCTCCTCAGACCTGCCACAG	0.687000													4	15					0	0	0.008291	0	0
CIITA	4261	broad.mit.edu	37	16	10992850	10992850	+	Missense_Mutation	SNP	C	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr16:10992850C>A	uc002dai.3	+	5	560	c.427C>A	c.(427-429)CAG>AAG	p.Q143K	CIITA_uc002daj.3_Missense_Mutation_p.Q144K|CIITA_uc002dak.3_Missense_Mutation_p.Q143K|CIITA_uc002dag.2_Missense_Mutation_p.Q143K|CIITA_uc002dah.2_Missense_Mutation_p.Q144K|CIITA_uc010bup.1_Missense_Mutation_p.Q143K	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	143					interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						GCAGAAAAGTCAGAAAAGACG	0.507000			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								22	95					1.64293e-13	2.01392e-13	0.003330	1	0
ANKRD11	29123	broad.mit.edu	37	16	89349917	89349917	+	Missense_Mutation	SNP	C	G	G			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr16:89349917C>G	uc002fmx.1	-	9	3494	c.3033G>C	c.(3031-3033)AAG>AAC	p.K1011N	ANKRD11_uc002fmy.1_Missense_Mutation_p.K1011N|ANKRD11_uc002fnc.1_Missense_Mutation_p.K1011N|ANKRD11_uc002fnb.1_Missense_Mutation_p.K968N	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	1011	Lys-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)		GGCCATCCTTCTTCTCCTTCT	0.517000													64	45					0	0	0.014410	0	0
MYO15A	51168	broad.mit.edu	37	17	18082124	18082124	+	Missense_Mutation	SNP	C	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr17:18082124C>A	uc010vxh.1	+	65	10871	c.10533C>A	c.(10531-10533)AAC>AAA	p.N3511K	uc002gsn.2_Intron|MYO15A_uc010vxi.1_Missense_Mutation_p.P793T|MYO15A_uc002gsl.2_Missense_Mutation_p.P544T|MYO15A_uc010vxm.1_3'UTR|MYO15A_uc010cpv.2_RNA	NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	3511	Tail.|FERM.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					ACGTGGAGAACCTGCTCAGTG	0.552000													44	33					1.47857e-17	1.9046e-17	0.014410	1	0
KIAA1468	57614	broad.mit.edu	37	18	59888685	59888685	+	Silent	SNP	C	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr18:59888685C>T	uc002lil.2	+	5	1028	c.813C>T	c.(811-813)AAC>AAT	p.N271N	KIAA1468_uc002lik.1_Silent_p.N271N|KIAA1468_uc010xel.1_Silent_p.N271N|KIAA1468_uc002lim.2_5'UTR	NM_020854	NP_065905	Q9P260	K1468_HUMAN	hypothetical protein LOC57614	271	LisH.						binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)	6		Colorectal(73;0.186)				TGAAGAATAACTATAAGCTTA	0.303000													24	57					0	0	0.003954	0	0
RHPN2	85415	broad.mit.edu	37	19	33503622	33503622	+	Missense_Mutation	SNP	G	C	C			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr19:33503622G>C	uc002nuf.2	-	5	465	c.399C>G	c.(397-399)ATC>ATG	p.I133M	RHPN2_uc010xro.1_Translation_Start_Site|RHPN2_uc002nue.2_Translation_Start_Site	NM_033103	NP_149094	Q8IUC4	RHPN2_HUMAN	rhophilin, Rho GTPase binding protein 2	133	BRO1.				signal transduction	perinuclear region of cytoplasm	protein binding			central_nervous_system(5)|ovary(1)	6	Esophageal squamous(110;0.137)					AATGTTCCAGGATAAAATCCT	0.348000													23	25					0	0	0.014323	0	0
KIAA0355	9710	broad.mit.edu	37	19	34832921	34832921	+	Silent	SNP	G	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr19:34832921G>A	uc002nvd.3	+	10	2941	c.2082G>A	c.(2080-2082)CTG>CTA	p.L694L		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	694										ovary(1)	1	Esophageal squamous(110;0.162)					AGCCGTCACTGCCTGTGCCCC	0.632000													23	58					0	0	0.006320	0	0
TMEM149	79713	broad.mit.edu	37	19	36230750	36230750	+	Silent	SNP	G	C	C			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr19:36230750G>C	uc002obc.2	-	4	683	c.582C>G	c.(580-582)GCC>GCG	p.A194A	TMEM149_uc002obb.2_Intron|TMEM149_uc002obd.3_Silent_p.A194A|TMEM149_uc010xsy.1_RNA|TMEM149_uc010eej.2_Silent_p.A274A	NM_024660	NP_078936	Q9H665	IGFR1_HUMAN	transmembrane protein 149 precursor	194	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein binding|receptor activity				0	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GATAGGGGTCGGCTTTCTCCT	0.617000													57	74					0	0	0.014410	0	0
CNFN	84518	broad.mit.edu	37	19	42893120	42893120	+	Missense_Mutation	SNP	A	G	G			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr19:42893120A>G	uc002otp.3	-	2	125	c.70T>C	c.(70-72)TGG>CGG	p.W24R	CNFN_uc002otq.3_Missense_Mutation_p.W37R	NM_032488	NP_115877	Q9BYD5	CNFN_HUMAN	cornifelin	24					keratinization	cornified envelope|cytoplasm					0		Prostate(69;0.00899)				CCTGTGTGCCAGTCACTGAGC	0.617000													20	13					0	0	0.010504	0	0
DMPK	1760	broad.mit.edu	37	19	46280763	46280763	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr19:46280763G>A	uc002pdd.1	-	7	1542	c.998C>T	c.(997-999)ACA>ATA	p.T333I	DMPK_uc010xxs.1_Missense_Mutation_p.T234I|DMPK_uc002pde.1_Missense_Mutation_p.T333I|DMPK_uc002pdf.1_Missense_Mutation_p.T323I|DMPK_uc002pdg.1_Missense_Mutation_p.T323I|DMPK_uc002pdh.1_Missense_Mutation_p.T323I|DMPK_uc002pdi.1_Missense_Mutation_p.T349I|DMPK_uc010xxt.1_Missense_Mutation_p.T323I	NM_001081563	NP_001075032	Q09013	DMPK_HUMAN	myotonic dystrophy protein kinase isoform 1	333	Protein kinase.				regulation of heart contraction		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)	3		Ovarian(192;0.0308)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00616)|GBM - Glioblastoma multiforme(486;0.0825)|Epithelial(262;0.24)		GCCCAGCCGTGTCTCCGGGGG	0.647000													26	35					0	0	0.006320	0	0
PRKCG	5582	broad.mit.edu	37	19	54385815	54385815	+	Missense_Mutation	SNP	G	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr19:54385815G>T	uc002qcq.1	+	1	349	c.67G>T	c.(67-69)GGG>TGG	p.G23W	PRKCG_uc010eqz.1_Missense_Mutation_p.G23W|PRKCG_uc010yef.1_Missense_Mutation_p.G23W|PRKCG_uc010yeg.1_Missense_Mutation_p.G23W|PRKCG_uc010yeh.1_5'Flank	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	23					activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)		TTGCAGAAAGGGGGCCCTGAG	0.627000													60	74					4.46356e-37	6.52366e-37	0.014410	1	0
MSL3L2	151507	broad.mit.edu	37	2	234775493	234775493	+	Missense_Mutation	SNP	T	C	C			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr2:234775493T>C	uc010znf.1	-	2	587	c.349A>G	c.(349-351)AAA>GAA	p.K117E		NR_024322				SubName: Full=cDNA FLJ52683, highly similar to Male-specific lethal 3-like 1; SubName: Full=cDNA, FLJ79271, highly similar to Male-specific lethal 3-like 1; SubName: Full=HCG1642047;												0						GTCACCTTTTTATACTGAGCT	0.393000													3	87					0	0	0.009096	0	0
PI4KAP1	728233	broad.mit.edu	37	22	20394630	20394630	+	RNA	SNP	C	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr22:20394630C>A	uc010gse.1	-	4		c.455G>T			PI4KAP1_uc010gsf.1_RNA|PI4KAP1_uc010gsg.1_RNA|PI4KAP1_uc010gsh.1_RNA|PI4KAP1_uc002zsc.3_RNA|PI4KAP1_uc011ahn.1_RNA|PI4KAP1_uc010gsj.1_RNA|PI4KAP1_uc010gsk.1_RNA|PI4KAP1_uc010gsl.2_RNA					Homo sapiens cDNA FLJ11279 fis, clone PLACE1009444, highly similar to PHOSPHATIDYLINOSITOL 4-KINASE ALPHA (EC 2.7.1.67).												0						TAACTGCTCCCGGAGGTCGCC	0.562000													3	23					8.12818e-05	8.82489e-05	0.001984	1	0
PIK3CA	5290	broad.mit.edu	37	3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	rs104886003		TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353000	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			4	55					0	0	0.009096	0	0
ANXA3	306	broad.mit.edu	37	4	79531260	79531260	+	Silent	SNP	A	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr4:79531260A>T	uc003hld.2	+	13	1273	c.963A>T	c.(961-963)GGA>GGT	p.G321G	ANXA3_uc003hle.2_Silent_p.G282G|ANXA3_uc010ijk.2_Silent_p.G282G	NM_005139	NP_005130	P12429	ANXA3_HUMAN	annexin A3	321					defense response to bacterium|neutrophil degranulation|phagocytosis|positive regulation of angiogenesis|positive regulation of endothelial cell migration|positive regulation of sequence-specific DNA binding transcription factor activity	phagocytic vesicle membrane|plasma membrane|specific granule	calcium ion binding|calcium-dependent phospholipid binding|phospholipase A2 inhibitor activity				0						TCTGTGGTGGAGATGACTGAA	0.373000													29	32					0	0	0.013726	0	0
PCDHB5	26167	broad.mit.edu	37	5	140517124	140517124	+	Missense_Mutation	SNP	C	G	G			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr5:140517124C>G	uc003liq.2	+	1	2325	c.2108C>G	c.(2107-2109)TCG>TGG	p.S703W		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	703	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTCCTCTTTTCGGTGCTCCTG	0.701000													5	175					0	0	0.001168	0	0
LARS	51520	broad.mit.edu	37	5	145533344	145533344	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr5:145533344C>T	uc003lnx.1	-	12	1421	c.1183G>A	c.(1183-1185)GAC>AAC	p.D395N	LARS_uc011dbq.1_Missense_Mutation_p.D349N|LARS_uc011dbr.1_Missense_Mutation_p.D341N|LARS_uc011dbs.1_Missense_Mutation_p.D368N	NM_020117	NP_064502	Q9P2J5	SYLC_HUMAN	leucyl-tRNA synthetase	395	Editing domain.				leucyl-tRNA aminoacylation	cytosol	ATP binding|leucine-tRNA ligase activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		L-Leucine(DB00149)	TCAGGGGAGTCGGAAGGAACA	0.363000													26	28					0	0	0.006320	0	0
GRPEL2	134266	broad.mit.edu	37	5	148730749	148730749	+	Silent	SNP	C	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr5:148730749C>T	uc003lqj.2	+	4	708	c.582C>T	c.(580-582)ACC>ACT	p.T194T	GRPEL2_uc011dca.1_3'UTR	NM_152407	NP_689620	Q8TAA5	GRPE2_HUMAN	GrpE-like 2, mitochondrial precursor	194					protein folding	mitochondrial matrix	adenyl-nucleotide exchange factor activity|chaperone binding|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCCTGGCACCGTGGCATTAG	0.527000													34	58					0	0	0.013726	0	0
HIVEP2	3097	broad.mit.edu	37	6	143090729	143090729	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr6:143090729C>T	uc003qjd.2	-	5	5890	c.5147G>A	c.(5146-5148)GGC>GAC	p.G1716D		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1716					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		TGTAAGCTTGCCGGTTCCAGG	0.433000													4	119					0	0	0.009096	0	0
SAMD5	389432	broad.mit.edu	37	6	147830100	147830100	+	Silent	SNP	G	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr6:147830100G>A	uc003qmc.1	+	1	38	c.36G>A	c.(34-36)GCG>GCA	p.A12A		NM_001030060	NP_001025231	Q5TGI4	SAMD5_HUMAN	sterile alpha motif domain containing 5	12	SAM.										0		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;9.55e-10)|GBM - Glioblastoma multiforme(68;0.112)		GGCTCAAAGCGCTGCAGCTTC	0.637000													7	36					0	0	0.004482	0	0
PKD1L1	168507	broad.mit.edu	37	7	47970797	47970797	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr7:47970797G>A	uc003tny.1	-	6	641	c.641C>T	c.(640-642)ACG>ATG	p.T214M		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	214	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						GGTCTCCATCGTGACAGTCCC	0.617000													21	45					0	0	0.012319	0	0
TPK1	27010	broad.mit.edu	37	7	144245631	144245631	+	Missense_Mutation	SNP	C	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr7:144245631C>A	uc003weq.2	-	8	669	c.566G>T	c.(565-567)GGA>GTA	p.G189V	TPK1_uc003weo.2_Missense_Mutation_p.G135V|TPK1_uc003wep.2_RNA|TPK1_uc003wer.2_Missense_Mutation_p.G140V|TPK1_uc003wes.2_RNA	NM_022445	NP_071890	Q9H3S4	TPK1_HUMAN	thiamin pyrophosphokinase 1 isoform a	189					thiamine diphosphate biosynthetic process	cytosol	ATP binding|kinase activity|thiamine diphosphokinase activity			ovary(2)	2					Thiamine(DB00152)	ACAAGGCTGTCCAACAGGAAT	0.398000													49	60					3.56336e-21	4.83599e-21	0.014410	1	0
ZNF767	79970	broad.mit.edu	37	7	149318520	149318520	+	RNA	SNP	G	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr7:149318520G>T	uc003wfy.3	-	2		c.380C>A			ZNF767_uc003wfx.2_RNA|ZNF767_uc011kuq.1_RNA	NR_027789				Homo sapiens cDNA FLJ12700 fis, clone NT2RP1000721.											central_nervous_system(1)	1	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00434)			CTCCACGGCTGTCTTCTCGCA	0.617000													46	50					3.4597e-24	4.96108e-24	0.014410	1	0
MLL3	58508	broad.mit.edu	37	7	151845739	151845739	+	Missense_Mutation	SNP	C	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr7:151845739C>A	uc003wla.2	-	52	13492	c.13273G>T	c.(13273-13275)GAT>TAT	p.D4425Y	MLL3_uc003wkz.2_Missense_Mutation_p.D3543Y|MLL3_uc003wkx.2_Missense_Mutation_p.D583Y|MLL3_uc003wky.2_Missense_Mutation_p.D1989Y	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4425					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ACCCACAGATCCAAGTCAAGG	0.502000			N		medulloblastoma								39	51					2.66277e-13	3.21222e-13	0.006999	1	0
PTPRN2	5799	broad.mit.edu	37	7	157985171	157985171	+	Missense_Mutation	SNP	C	T	T	rs140977880	byFrequency	TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr7:157985171C>T	uc003wno.2	-	5	518	c.397G>A	c.(397-399)GTT>ATT	p.V133I	PTPRN2_uc003wnp.2_Missense_Mutation_p.V116I|PTPRN2_uc003wnq.2_Missense_Mutation_p.V133I|PTPRN2_uc003wnr.2_Missense_Mutation_p.V95I|PTPRN2_uc011kwa.1_Missense_Mutation_p.V156I	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	133	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		TCGCTGCCAACGCTGTGTTTT	0.632000													10	48					0	0	0.010729	0	0
MYOM2	9172	broad.mit.edu	37	8	2044224	2044224	+	Missense_Mutation	SNP	A	G	G			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr8:2044224A>G	uc003wpx.3	+	18	2401	c.2263A>G	c.(2263-2265)AAA>GAA	p.K755E	MYOM2_uc011kwi.1_Missense_Mutation_p.K180E	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	755	Fibronectin type-III 4.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		AGTTCACCATAAAAACTGGCA	0.517000													21	43					0	0	0.008871	0	0
EBF2	64641	broad.mit.edu	37	8	25766022	25766022	+	Missense_Mutation	SNP	C	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr8:25766022C>A	uc003xes.1	-	7	618	c.601G>T	c.(601-603)GCA>TCA	p.A201S	PPP2R2A_uc003xek.2_Intron	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2	201	Interaction with DNA (By similarity).				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		GGGTTTCCTGCTGTTTTCAAA	0.378000													19	26					3.62473e-10	4.23815e-10	0.012319	1	0
FAM110B	90362	broad.mit.edu	37	8	59059734	59059734	+	Silent	SNP	C	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr8:59059734C>T	uc003xtj.1	+	5	1825	c.945C>T	c.(943-945)AGC>AGT	p.S315S		NM_147189	NP_671722	Q8TC76	F110B_HUMAN	hypothetical protein LOC90362	315						microtubule organizing center|mitochondrion|nucleus				large_intestine(1)	1		all_epithelial(80;0.025)|all_lung(136;0.0274)|Lung NSC(129;0.0355)				GCATGATCAGCTCAGACTGTG	0.483000													18	26					0	0	0.004990	0	0
MYBL1	4603	broad.mit.edu	37	8	67477040	67477040	+	Silent	SNP	T	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr8:67477040T>A	uc003xwj.2	-	16	2558	c.2151A>T	c.(2149-2151)ACA>ACT	p.T717T	MYBL1_uc003xwl.2_Silent_p.T657T|MYBL1_uc003xwk.2_Silent_p.T656T	NM_001080416	NP_001073885	P10243	MYBA_HUMAN	v-myb myeloblastosis viral oncogene homolog	717					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)	3			Epithelial(68;0.00211)|all cancers(69;0.00726)|OV - Ovarian serous cystadenocarcinoma(28;0.00989)|BRCA - Breast invasive adenocarcinoma(89;0.0938)			CATAAACCACTGTTTCCCATT	0.328000													4	6					0	0	0.009096	0	0
CSMD3	114788	broad.mit.edu	37	8	113249531	113249531	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr8:113249531G>T	uc003ynu.2	-	67	10674	c.10515C>A	c.(10513-10515)TAC>TAA	p.Y3505*	CSMD3_uc003yns.2_Nonsense_Mutation_p.Y2707*|CSMD3_uc003ynt.2_Nonsense_Mutation_p.Y3465*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.Y3336*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3505	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CTTTGAAATTGTAAGAGCCTT	0.348000										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			34	57					9.78485e-24	1.37713e-23	0.013726	1	0
CSMD3	114788	broad.mit.edu	37	8	113249566	113249566	+	Missense_Mutation	SNP	C	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr8:113249566C>A	uc003ynu.2	-	67	10639	c.10480G>T	c.(10480-10482)GTA>TTA	p.V3494L	CSMD3_uc003yns.2_Missense_Mutation_p.V2696L|CSMD3_uc003ynt.2_Missense_Mutation_p.V3454L|CSMD3_uc011lhx.1_Missense_Mutation_p.V3325L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3494	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TGGGCAAATACATCATCAGGA	0.303000										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			22	43					1.50039e-11	1.78171e-11	0.012319	1	0
DENND3	22898	broad.mit.edu	37	8	142186773	142186773	+	Silent	SNP	C	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr8:142186773C>T	uc003yvy.2	+	15	2657	c.2379C>T	c.(2377-2379)TTC>TTT	p.F793F	DENND3_uc010mep.2_Silent_p.F754F	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	793										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			AAGAAGTCTTCGAAGCCAACC	0.512000													36	44					0	0	0.003271	0	0
FAM83H	286077	broad.mit.edu	37	8	144809117	144809117	+	Silent	SNP	G	C	C			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr8:144809117G>C	uc003yzk.2	-	5	2583	c.2514C>G	c.(2512-2514)GCC>GCG	p.A838A	FAM83H_uc010mfk.1_RNA	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	838					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)		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)			AGTGGCTCTGGGCAGAGAGGA	0.701000													7	13					0	0	0.003080	0	0
SMARCA2	6595	broad.mit.edu	37	9	2110312	2110312	+	Silent	SNP	C	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr9:2110312C>T	uc003zhc.2	+	24	3450	c.3351C>T	c.(3349-3351)TCC>TCT	p.S1117S	SMARCA2_uc003zhd.2_Silent_p.S1117S|SMARCA2_uc010mha.2_Silent_p.S1050S	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	1117	Helicase C-terminal.				chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		AACCTGGATCCCAGTATTTCA	0.453000													24	59					0	0	0.003954	0	0
FLJ46321	389763	broad.mit.edu	37	9	84607771	84607771	+	Missense_Mutation	SNP	G	T	T			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr9:84607771G>T	uc004amn.2	+	4	2433	c.2386G>T	c.(2386-2388)GAT>TAT	p.D796Y		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	796						integral to membrane					0						TTCAGACAAGGATCTGAGGTC	0.463000													31	54					2.85442e-18	3.74027e-18	0.010818	1	0
SVEP1	79987	broad.mit.edu	37	9	113141740	113141740	+	Missense_Mutation	SNP	T	C	C			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr9:113141740T>C	uc010mtz.2	-	44	10632	c.10295A>G	c.(10294-10296)TAT>TGT	p.Y3432C	SVEP1_uc010mty.2_Missense_Mutation_p.Y1358C	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	3432	Sushi 34.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						TCCATATTGATAATGTACGCC	0.403000													29	30					0	0	0.007291	0	0
OR1B1	347169	broad.mit.edu	37	9	125391500	125391500	+	Silent	SNP	G	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr9:125391500G>A	uc011lyz.1	-	1	315	c.315C>T	c.(313-315)TTC>TTT	p.F105F		NM_001004450	NP_001004450	Q8NGR6	OR1B1_HUMAN	olfactory receptor, family 1, subfamily B,	105	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATGCATAGAAGAAAAAGAACT	0.502000													18	27					0	0	0.007413	0	0
EIF1AX	1964	broad.mit.edu	37	X	20152121	20152121	+	Missense_Mutation	SNP	C	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chrX:20152121C>A	uc004czt.2	-	4	417	c.209G>T	c.(208-210)TGG>TTG	p.W70L		NM_001412	NP_001403	P47813	IF1AX_HUMAN	X-linked eukaryotic translation initiation	70	S1-like.					cytosol	translation initiation factor activity			ovary(1)	1						GGTATTTATCCAAACCTACAA	0.323000													15	9					3.52763e-06	3.94265e-06	0.004990	1	0
GPR34	2857	broad.mit.edu	37	X	41555435	41555435	+	Silent	SNP	T	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chrX:41555435T>A	uc004dfp.3	+	3	833	c.549T>A	c.(547-549)CTT>CTA	p.L183L	CASK_uc004dfl.3_Intron|CASK_uc004dfm.3_Intron|CASK_uc004dfn.3_Intron|GPR34_uc004dfq.3_Silent_p.L183L|GPR34_uc010nhg.2_Silent_p.L183L|GPR34_uc004dfr.3_Silent_p.L183L	NM_001097579	NP_001091048	Q9UPC5	GPR34_HUMAN	G protein-coupled receptor 34	183	Helical; Name=4; (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1						TGCTTGCTCTTGGTGGATTCC	0.353000													44	9					0	0	0.009718	0	0
GPRASP1	9737	broad.mit.edu	37	X	101908967	101908967	+	Silent	SNP	C	A	A			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chrX:101908967C>A	uc004ejj.3	+	5	927	c.126C>A	c.(124-126)ACC>ACA	p.T42T	GPRASP1_uc004eji.3_Silent_p.T42T|GPRASP1_uc010nod.2_Silent_p.T42T	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	42						cytoplasm	protein binding			ovary(1)|lung(1)	2						AGGTTAGGACCCAGGCCCAGA	0.562000													4	114					0.00909568	0.00946948	0.009096	1	0
Unknown	0	broad.mit.edu	37	1	700532	700532	+	RNA	DEL	T	-	-			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr1:700532delT	uc001abo.2	-	7		c.1022delA								Homo sapiens cDNA clone IMAGE:4129277, partial cds.																		aaaaaaaaaaTTCCTTTGGGA	0.214													3	3	---	---	---	---					
TXNRD1	7296	broad.mit.edu	37	12	104721450	104721453	+	Splice_Site	DEL	GTGA	-	-			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr12:104721450_104721453delGTGA	uc010swk.1	+	13	1564	c.1542_splice	c.e13+1	p.K514_splice	TXNRD1_uc010swl.1_Splice_Site_p.K364_splice|TXNRD1_uc010swm.1_Splice_Site_p.K416_splice|TXNRD1_uc010swn.1_Splice_Site_p.K364_splice|TXNRD1_uc010swo.1_Splice_Site_p.K364_splice|TXNRD1_uc010swp.1_Splice_Site_p.K326_splice|TXNRD1_uc010swq.1_Splice_Site_p.K414_splice|TXNRD1_uc001tku.2_Splice_Site|TXNRD1_uc009zun.2_Splice_Site_p.K430_splice	NM_001093771	NP_001087240	Q16881	TRXR1_HUMAN	thioredoxin reductase 1 isoform 3						cell redox homeostasis|cellular lipid metabolic process|electron transport chain|nucleobase, nucleoside and nucleotide interconversion|signal transduction|transport	cytosol|nucleolus	electron carrier activity|flavin adenine dinucleotide binding|NADP binding|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity				0						CACTGTCAAGGTGAGTGTTGTGCT	0.466													9	15	---	---	---	---					
IL32	9235	broad.mit.edu	37	16	3119304	3119305	+	Frame_Shift_Ins	INS	-	G	G	rs2981599		TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr16:3119304_3119305insG	uc002cto.2	+	6	864_865	c.653_654insG	c.(652-654)GACfs	p.D218fs	IL32_uc002ctk.2_Frame_Shift_Ins_p.D115fs|IL32_uc010uwp.1_Frame_Shift_Ins_p.D152fs|IL32_uc010btb.2_Frame_Shift_Ins_p.D162fs|IL32_uc002ctl.2_Frame_Shift_Ins_p.D172fs|IL32_uc002ctm.2_Frame_Shift_Ins_p.D172fs|IL32_uc002ctn.2_Frame_Shift_Ins_p.D172fs|IL32_uc002cts.3_Frame_Shift_Ins_p.D172fs|IL32_uc002ctp.2_Frame_Shift_Ins_p.D152fs|IL32_uc002ctq.2_Frame_Shift_Ins_p.D218fs|IL32_uc002ctr.2_Frame_Shift_Ins_p.D152fs|IL32_uc002ctt.2_Frame_Shift_Ins_p.D172fs|IL32_uc010uwr.1_Frame_Shift_Ins_p.D132fs|IL32_uc002ctu.2_Frame_Shift_Ins_p.D163fs	NM_004221	NP_004212	P24001	IL32_HUMAN	interleukin 32 isoform B	218					cell adhesion|defense response|immune response	extracellular space	cytokine activity			pancreas(1)	1						CCACGGGGGGACAAGGAGGAGC	0.574													20	466	---	---	---	---					
COL4A3BP	10087	broad.mit.edu	37	5	74712823	74712828	+	In_Frame_Del	DEL	TACCAT	-	-			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chr5:74712823_74712828delTACCAT	uc011csu.1	-	7	1132_1137	c.710_715delATGGTA	c.(709-717)AATGGTATA>ATA	p.NG237del	COL4A3BP_uc003kds.2_In_Frame_Del_p.NG237del|COL4A3BP_uc003kdt.2_In_Frame_Del_p.NG365del|COL4A3BP_uc003kdu.2_In_Frame_Del_p.NG237del	NM_005713	NP_005704	Q9Y5P4	C43BP_HUMAN	alpha 3 type IV collagen binding protein isoform	237_238					ER to Golgi ceramide transport|immune response	cytosol|endoplasmic reticulum membrane|Golgi apparatus	ceramide binding|phosphatidylinositol-4-phosphate binding|protein binding|protein kinase activity			skin(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;1e-53)		TTAAAGTCTATACCATTAATTCCTTT	0.320													26	48	---	---	---	---					
BCORL1	63035	broad.mit.edu	37	X	129173153	129173154	+	Frame_Shift_Ins	INS	-	CTGG	CTGG			TCGA-BQ-5893-01A-11D-1589-08	TCGA-BQ-5893-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3f8ab09-b776-4ca3-9b9d-f9848542f3dd	bbfe1ddb-1749-401c-b2f8-9b0854ae7d23	g.chrX:129173153_129173154insCTGG	uc004evb.1	+	10	4628_4629	c.4514_4515insCTGG	c.(4513-4515)ATCfs	p.I1505fs	BCORL1_uc004evc.1_Frame_Shift_Ins_p.I341fs	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	1505	ANK 2.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						CTGGAGACCATCTGGCTCCTGC	0.574													22	19	---	---	---	---					
