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
MST1P2	11209	broad.mit.edu	37	1	16974955	16974955	+	RNA	SNP	A	G	G	rs149751487	by1000genomes	TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr1:16974955A>G	uc010och.1	+	7		c.1415A>G			MST1P2_uc001azk.2_RNA|MST1P2_uc001azl.3_RNA|MST1P2_uc009vox.2_RNA|MST1P2_uc001azm.3_RNA	NR_027504				Homo sapiens cDNA FLJ43241 fis, clone HEART1000010, weakly  similar to Hepatocyte growth factor-like protein precursor.												0						GCATGCTTTGATGTCTGGGAC	0.657													3	71	---	---	---	---	0	0	1	0	0
GRIK3	2899	broad.mit.edu	37	1	37356590	37356590	+	Missense_Mutation	SNP	G	A	A			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr1:37356590G>A	uc001caz.2	-	2	358	c.223C>T	c.(223-225)CCC>TCC	p.P75S	GRIK3_uc001cba.1_Missense_Mutation_p.P75S	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	75	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	GTTGTGTTGGGCAGCAGAGTC	0.527													5	215	---	---	---	---	0	0	1	0	0
BCL9	607	broad.mit.edu	37	1	147084886	147084886	+	Missense_Mutation	SNP	G	T	T			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr1:147084886G>T	uc001epq.2	+	5	998	c.258G>T	c.(256-258)AAG>AAT	p.K86N	BCL9_uc010ozr.1_Intron	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	86					Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					TGGGGCTGAAGAATGGGGCTG	0.592			T	IGH@|IGL@	B-ALL								20	50	---	---	---	---	1.96292e-10	1.99736e-10	1	1	0
NAV1	89796	broad.mit.edu	37	1	201779154	201779154	+	Silent	SNP	G	A	A			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr1:201779154G>A	uc001gwu.2	+	22	4820	c.4473G>A	c.(4471-4473)GTG>GTA	p.V1491V	NAV1_uc001gwx.2_Silent_p.V1100V	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	1494					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						TCAGCCACGTGAAACGAGTGT	0.517													15	139	---	---	---	---	0	0	1	0	0
ACTA1	58	broad.mit.edu	37	1	229568532	229568532	+	Silent	SNP	G	A	A			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr1:229568532G>A	uc001htm.2	-	3	330	c.225C>T	c.(223-225)CAC>CAT	p.H75H		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	75			H -> L (in NEM3).|H -> R (in NEM3).		muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	TGATGATGCCGTGCTCGATAG	0.582													4	200	---	---	---	---	0	0	1	0	0
SLIT1	6585	broad.mit.edu	37	10	98816982	98816982	+	Missense_Mutation	SNP	T	C	C			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr10:98816982T>C	uc001kmw.2	-	12	1394	c.1142A>G	c.(1141-1143)TAC>TGC	p.Y381C	SLIT1_uc009xvh.1_Missense_Mutation_p.Y391C	NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	381					axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		CTGTAGGGTGTATAGGCCTCC	0.572													3	62	---	---	---	---	0	0	1	0	0
MRPL23	6150	broad.mit.edu	37	11	1977593	1977593	+	Silent	SNP	G	A	A			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr11:1977593G>A	uc001lux.2	+	5	496	c.405G>A	c.(403-405)CAG>CAA	p.Q135Q		NM_021134	NP_066957	Q16540	RM23_HUMAN	mitochondrial ribosomal protein L23	135					translation	mitochondrial large ribosomal subunit	nucleotide binding|RNA binding|structural constituent of ribosome			large_intestine(2)|ovary(1)	3		all_epithelial(84;6.24e-05)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.0026)|Lung(200;0.0171)|LUSC - Lung squamous cell carcinoma(625;0.0842)		AGGAGAGGCAGCAGAGGCAGA	0.682													4	81	---	---	---	---	0	0	1	0	0
LOC650368	650368	broad.mit.edu	37	11	3427765	3427765	+	RNA	SNP	G	C	C			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr11:3427765G>C	uc010qxs.1	+	9		c.758G>C			LOC650368_uc001lxx.2_RNA|LOC650368_uc001lxy.2_RNA	NR_024248				Homo sapiens cDNA FLJ41654 fis, clone FEBRA2025463, weakly  similar to Homo sapiens HMT-1 mRNA for beta-1,4 mannosyltransferase.												0						CACACGTCCTGCAGTGGCCTG	0.602													3	89	---	---	---	---	0	0	1	0	0
PRMT3	10196	broad.mit.edu	37	11	20409654	20409654	+	Missense_Mutation	SNP	G	A	A			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr11:20409654G>A	uc001mqb.2	+	2	335	c.118G>A	c.(118-120)GAT>AAT	p.D40N	PRMT3_uc001mqc.2_Intron|PRMT3_uc010rdn.1_Intron	NM_005788	NP_005779	O60678	ANM3_HUMAN	protein arginine methyltransferase 3 isoform 1	40							zinc ion binding				0						GGACGATGCAGATCTCCCCCA	0.677													3	94	---	---	---	---	0	0	1	0	0
DDX12	440081	broad.mit.edu	37	12	9571764	9571764	+	Missense_Mutation	SNP	T	G	G	rs117821635	by1000genomes	TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr12:9571764T>G	uc010sgs.1	-	25	2675	c.2480A>C	c.(2479-2481)CAC>CCC	p.H827P	DDX12_uc001qvx.3_Missense_Mutation_p.H49P|DDX12_uc001qvy.1_Missense_Mutation_p.H49P	NM_004400	NP_004391			DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 12												0						CTTCCCTGGGTGTGCCTGGCC	0.642													3	20	---	---	---	---	0	0	1	0	0
MSI1	4440	broad.mit.edu	37	12	120794808	120794808	+	Missense_Mutation	SNP	T	G	G			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr12:120794808T>G	uc001tye.1	-	9	613	c.549A>C	c.(547-549)AAA>AAC	p.K183N		NM_002442	NP_002433	O43347	MSI1H_HUMAN	musashi 1	183	RRM 2.				nervous system development	cytoplasm|nucleus	nucleotide binding			central_nervous_system(2)|breast(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TTGGCTGAGCTTTCTTACATT	0.542											OREG0022190	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	55	---	---	---	---	0	0	1	0	0
NIN	51199	broad.mit.edu	37	14	51192784	51192784	+	Missense_Mutation	SNP	C	T	T			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr14:51192784C>T	uc001wym.2	-	30	6270	c.6079G>A	c.(6079-6081)GGA>AGA	p.G2027R	NIN_uc001wyi.2_Missense_Mutation_p.G2027R|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Missense_Mutation_p.G1314R|NIN_uc010tqp.1_Missense_Mutation_p.G2033R	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	2027	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					TCCTGGTTTCCCTGAAGGGAA	0.373			T	PDGFRB	MPD								19	36	---	---	---	---	0	0	1	0	0
CRTC3	64784	broad.mit.edu	37	15	91172490	91172490	+	Missense_Mutation	SNP	C	A	A			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr15:91172490C>A	uc002bpp.2	+	11	1098	c.992C>A	c.(991-993)CCC>CAC	p.P331H	CRTC3_uc002bpo.2_Missense_Mutation_p.P331H	NM_022769	NP_073606	Q6UUV7	CRTC3_HUMAN	transducer of regulated CREB protein 3 isoform	331					interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus			CRTC3/MAML2(26)	salivary_gland(26)|ovary(1)	27	Melanoma(11;0.00551)|Lung NSC(78;0.0931)|all_lung(78;0.163)		BRCA - Breast invasive adenocarcinoma(143;0.0745)			CGGAGTAACCCCTCCATCCAA	0.428			T	MAML2	salivary gland mucoepidermoid								24	45	---	---	---	---	1.10513e-12	1.1446e-12	1	1	0
MED31	51003	broad.mit.edu	37	17	6553677	6553677	+	Silent	SNP	A	G	G			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr17:6553677A>G	uc002gdg.3	-	2	211	c.105T>C	c.(103-105)AAT>AAC	p.N35N	MED31_uc002gdh.3_RNA|C17orf100_uc010clp.1_5'Flank	NM_016060	NP_057144	Q9Y3C7	MED31_HUMAN	mediator of RNA polymerase II transcription,	35					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mediator complex	protein binding				0						ACAACTTACAATTAAGGTAAT	0.353													6	185	---	---	---	---	0	0	1	0	0
Unknown	0	broad.mit.edu	37	17	45105705	45105705	+	RNA	SNP	A	G	G	rs147936028	by1000genomes	TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr17:45105705A>G	uc010wki.1	+	5		c.1307A>G								Homo sapiens cDNA FLJ42521 fis, clone BRACE3000973.																		GCCTGGCACGAAATGCAGTTT	0.303													4	168	---	---	---	---	0	0	1	0	0
SLC1A6	6511	broad.mit.edu	37	19	15063783	15063783	+	Missense_Mutation	SNP	G	A	A			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr19:15063783G>A	uc002naa.1	-	8	1464	c.1456C>T	c.(1456-1458)CCC>TCC	p.P486S	SLC1A6_uc010dzu.1_Missense_Mutation_p.P408S|SLC1A6_uc010xod.1_Missense_Mutation_p.P422S	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	486	Helical; (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	TCTTCCGTGGGCAAGCCGACC	0.592													4	213	---	---	---	---	0	0	1	0	0
ZNF492	57615	broad.mit.edu	37	19	22847878	22847878	+	Missense_Mutation	SNP	G	A	A			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr19:22847878G>A	uc002nqw.3	+	4	1651	c.1407G>A	c.(1405-1407)ATG>ATA	p.M469I		NM_020855	NP_065906	Q9P255	ZN492_HUMAN	zinc finger protein 492	469	C2H2-type 12; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.0266)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00203)|Hepatocellular(1079;0.244)				CACATAAGATGATTCATACTG	0.373													3	80	---	---	---	---	0	0	1	0	0
CNRIP1	25927	broad.mit.edu	37	2	68544345	68544345	+	Missense_Mutation	SNP	C	T	T	rs34128476	byFrequency	TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr2:68544345C>T	uc002sek.3	-	2	925	c.274G>A	c.(274-276)GAA>AAA	p.E92K	CNRIP1_uc002sej.3_Missense_Mutation_p.E92K|CNRIP1_uc002sel.3_RNA|CNRIP1_uc010fdd.1_Missense_Mutation_p.E92K	NM_015463	NP_056278	Q96F85	CNRP1_HUMAN	cannabinoid receptor interacting protein 1	92							protein binding			liver(1)	1						GTCACACCTTCTGTGTCATAT	0.493													38	72	---	---	---	---	0	0	1	0	0
TTL	150465	broad.mit.edu	37	2	113251935	113251935	+	Missense_Mutation	SNP	C	T	T			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr2:113251935C>T	uc002thu.2	+	3	631	c.452C>T	c.(451-453)TCA>TTA	p.S151L		NM_153712	NP_714923	Q8NG68	TTL_HUMAN	tubulin tyrosine ligase	151	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity				0		Ovarian(717;0.024)		BRCA - Breast invasive adenocarcinoma(221;6.17e-07)|STAD - Stomach adenocarcinoma(1183;0.00644)		ATTGCAAAGTCATCAGCCGGT	0.428			T	ETV6	ALL								16	35	---	---	---	---	0	0	1	0	0
FAM182B	728882	broad.mit.edu	37	20	25848606	25848606	+	RNA	SNP	G	A	A			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr20:25848606G>A	uc002wvd.1	-	1		c.181C>T								Homo sapiens cDNA FLJ30282 fis, clone BRACE2002803.												0						atcaccgtccgggcaggcctg	0													3	13	---	---	---	---	0	0	1	0	0
HNF4A	3172	broad.mit.edu	37	20	43043255	43043255	+	Missense_Mutation	SNP	T	A	A			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr20:43043255T>A	uc002xma.2	+	5	690	c.601T>A	c.(601-603)TGG>AGG	p.W201R	HNF4A_uc002xlt.2_Missense_Mutation_p.W179R|HNF4A_uc002xlu.2_Missense_Mutation_p.W179R|HNF4A_uc002xlv.2_Missense_Mutation_p.W179R|HNF4A_uc002xly.2_Missense_Mutation_p.W201R|HNF4A_uc002xlz.2_Missense_Mutation_p.W201R|HNF4A_uc010ggq.2_Missense_Mutation_p.W194R	NM_000457	NP_000448	P41235	HNF4A_HUMAN	hepatocyte nuclear factor 4 alpha isoform b	201					blood coagulation|endocrine pancreas development|glucose homeostasis|negative regulation of cell growth|negative regulation of cell proliferation|ornithine metabolic process|phospholipid homeostasis|positive regulation of cholesterol homeostasis|regulation of growth hormone receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to glucose stimulus|triglyceride homeostasis|xenobiotic metabolic process	cytoplasm	activating transcription factor binding|protein homodimerization activity|receptor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			TCTCGTTGAGTGGGCCAAGTA	0.622													5	32	---	---	---	---	0	0	1	0	0
TTC38	55020	broad.mit.edu	37	22	46669963	46669963	+	Missense_Mutation	SNP	A	G	G			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr22:46669963A>G	uc003bhi.2	+	4	438	c.362A>G	c.(361-363)AAT>AGT	p.N121S	TTC38_uc011aqx.1_Missense_Mutation_p.N121S	NM_017931	NP_060401	Q5R3I4	TTC38_HUMAN	tetratricopeptide repeat domain 38	121	TPR 1.						binding			ovary(1)	1						ACATTTGCCAATGGGTGAGGG	0.632													4	38	---	---	---	---	0	0	1	0	0
SETD5	55209	broad.mit.edu	37	3	9517666	9517666	+	Missense_Mutation	SNP	C	T	T			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr3:9517666C>T	uc003brt.2	+	23	4655	c.4220C>T	c.(4219-4221)GCG>GTG	p.A1407V	SETD5_uc003bru.2_Missense_Mutation_p.A1309V|SETD5_uc003brv.2_Missense_Mutation_p.A1296V|SETD5_uc010hck.2_Missense_Mutation_p.A889V|SETD5_uc003brx.2_Missense_Mutation_p.A1076V	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	1407	Ser-rich.									ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		AGGGTATCTGCGGTTTCCAAT	0.567													15	40	---	---	---	---	0	0	1	0	0
LMLN	89782	broad.mit.edu	37	3	197746190	197746190	+	Silent	SNP	G	A	A			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr3:197746190G>A	uc011buo.1	+	12	1321	c.1299G>A	c.(1297-1299)CAG>CAA	p.Q433Q	LMLN_uc003fyt.2_Silent_p.Q418Q|LMLN_uc010iar.2_Silent_p.Q470Q|LMLN_uc010ias.2_Silent_p.Q381Q|LMLN_uc003fyu.2_Silent_p.Q230Q	NM_033029	NP_149018	Q96KR4	LMLN_HUMAN	leishmanolysin-like isoform 2	433					cell adhesion|cell division|mitosis|proteolysis	cytoplasm|membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)	Lung NSC(153;0.132)	Epithelial(36;9.84e-24)|all cancers(36;3.18e-22)|OV - Ovarian serous cystadenocarcinoma(49;5.35e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.111)		CTTGCAGACAGGACCAGAGAG	0.488													3	105	---	---	---	---	0	0	1	0	0
ZBTB49	166793	broad.mit.edu	37	4	4322849	4322849	+	Missense_Mutation	SNP	G	A	A			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr4:4322849G>A	uc003ghu.2	+	8	2279	c.2104G>A	c.(2104-2106)GAA>AAA	p.E702K	uc003ghw.2_5'Flank|ZBTB49_uc003ghv.2_Missense_Mutation_p.E185K|ZBTB49_uc010icy.2_RNA|ZBTB49_uc010icz.2_Missense_Mutation_p.E280K	NM_145291	NP_660334	Q6ZSB9	ZBT49_HUMAN	zinc finger protein 509	702					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						AGCCGGTGGCGAACCACTGCA	0.602													3	68	---	---	---	---	0	0	1	0	0
PDHA2	5161	broad.mit.edu	37	4	96761557	96761557	+	Missense_Mutation	SNP	C	T	T			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr4:96761557C>T	uc003htr.3	+	1	319	c.256C>T	c.(256-258)CGC>TGC	p.R86C		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	86					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	GAAATTCATTCGCGGTTTCTG	0.517													8	143	---	---	---	---	0	0	1	0	0
PDZD2	23037	broad.mit.edu	37	5	32089285	32089285	+	Missense_Mutation	SNP	A	G	G			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr5:32089285A>G	uc003jhl.2	+	20	6119	c.5731A>G	c.(5731-5733)ACG>GCG	p.T1911A	PDZD2_uc003jhm.2_Missense_Mutation_p.T1911A	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	1911					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GGCTGGGGGGACGGACCACAG	0.582													3	154	---	---	---	---	0	0	1	0	0
ALDH5A1	7915	broad.mit.edu	37	6	24505158	24505158	+	Missense_Mutation	SNP	C	T	T			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr6:24505158C>T	uc003neg.2	+	4	699	c.671C>T	c.(670-672)ACT>ATT	p.T224I	ALDH5A1_uc003nef.2_Missense_Mutation_p.T224I	NM_001080	NP_001071	P51649	SSDH_HUMAN	aldehyde dehydrogenase 5A1 isoform 2 precursor	224					acetate metabolic process|central nervous system development|galactosylceramide metabolic process|gamma-aminobutyric acid catabolic process|glucose metabolic process|glutamate metabolic process|glutamine metabolic process|glutathione metabolic process|glycerophospholipid metabolic process|neurotransmitter catabolic process|neurotransmitter secretion|protein homotetramerization|respiratory electron transport chain|short-chain fatty acid metabolic process|succinate metabolic process	mitochondrial matrix|soluble fraction	succinate-semialdehyde dehydrogenase activity				0					Chlormerodrin(DB00534)|NADH(DB00157)|Succinic acid(DB00139)	GCCGGCTGTACTGTCGTGGTG	0.592													79	102	---	---	---	---	0	0	1	0	0
CALCR	799	broad.mit.edu	37	7	93055811	93055811	+	Missense_Mutation	SNP	C	T	T			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr7:93055811C>T	uc003umv.1	-	15	1645	c.1384G>A	c.(1384-1386)GCT>ACT	p.A462T	CALCR_uc011kia.1_Missense_Mutation_p.A242T|CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Missense_Mutation_p.A428T|CALCR_uc003umw.2_Missense_Mutation_p.A428T	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	444	Poly-Ala.|Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding	p.I462I(1)		ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	GCGGCTGCAGCGCGAGCAGAG	0.592													46	88	---	---	---	---	0	0	1	0	0
MKLN1	4289	broad.mit.edu	37	7	131073683	131073683	+	Nonsense_Mutation	SNP	A	T	T			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr7:131073683A>T	uc011kpm.1	+	4	416	c.352A>T	c.(352-354)AAG>TAG	p.K118*	MKLN1_uc011kpl.1_Nonsense_Mutation_p.K95*|MKLN1_uc010lmh.2_Nonsense_Mutation_p.K118*|MKLN1_uc003vqs.2_5'UTR	NM_013255	NP_037387	Q9UL63	MKLN1_HUMAN	muskelin 1, intracellular mediator containing	118					signal transduction	cytoplasm	protein binding			breast(1)	1	Melanoma(18;0.162)					ATTCACCTTGAAGCATAAAAT	0.284													9	20	---	---	---	---	0	0	1	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	T	T			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr7:140453136A>T	uc003vwc.3	-	15	1860	c.1799T>A	c.(1798-1800)GTG>GAG	p.V600E		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	600	Protein kinase.		V -> D (in a melanoma cell line; requires 2 nucleotide substitutions).|V -> E (in sarcoma, colorectal adenocarcinoma, metastatic melanoma, ovarian serous carcinoma, pilocytic astrocytoma; somatic mutation; most common mutation; constitutive and elevated kinase activity; efficiently induces cell transformation; suppression of mutation in melanoma causes growth arrest and promotes apoptosis).		activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding	p.V600E(16892)|p.V600?(325)|p.V600K(176)|p.V600R(36)|p.V600M(25)|p.V600A(23)|p.V600D(21)|p.V600G(11)|p.V600_K601>E(8)|p.T599_V600insTT(3)|p.T599_R603>I(2)|p.T599_V600>IAL(2)|p.V600L(2)|p.T599_V600insT(2)|p.V600_W604del(1)|p.V600_S605>DV(1)|p.V600_S605>D(1)|p.T599_V600insV(1)|p.T599_V600insDFGLAT(1)	KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	TCGAGATTTCACTGTAGCTAG	0.368	V600E(UACC257_SKIN)|V600D(K029AX_SKIN)|V600E(HS695T_SKIN)|V600E(COLO679_SKIN)|V600E(BT474_BREAST)|V600E(IGR39_SKIN)|V600E(A101D_SKIN)|V600E(COLO783_SKIN)|V600E(IGR37_SKIN)|V600E(A375_SKIN)|V600E(WM793_SKIN)|V600E(COLO818_SKIN)|V600E(HS294T_SKIN)|V600E(SKMEL28_SKIN)|V600E(DU4475_BREAST)|V600E(SIGM5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|V600E(IGR1_SKIN)|V600E(SKHEP1_LIVER)|V600E(WM983B_SKIN)|V600E(GCT_SOFT_TISSUE)|V600E(RVH421_SKIN)|V600D(WM2664_SKIN)|V600E(CL34_LARGE_INTESTINE)|V600E(SKMEL24_SKIN)|V600D(WM115_SKIN)|V600E(MALME3M_SKIN)|V600E(A673_BONE)|V600E(C32_SKIN)|V600E(DBTRG05MG_CENTRAL_NERVOUS_SYSTEM)|V600E(COLO800_SKIN)|V600E(COLO741_SKIN)|V600E(HS939T_SKIN)|V600E(COLO205_LARGE_INTESTINE)|V600E(K029AX_SKIN)|V600E(AM38_CENTRAL_NERVOUS_SYSTEM)|V600E(SH4_SKIN)|V600E(WM88_SKIN)|V600E(KG1C_CENTRAL_NERVOUS_SYSTEM)|V600E(COLO849_SKIN)|V600E(MELHO_SKIN)|V600E(BHT101_THYROID)|V600E(G361_SKIN)|V600E(UACC62_SKIN)|V600E(BCPAP_THYROID)|V600E(8505C_THYROID)|V600E(SW1417_LARGE_INTESTINE)|V600E(COLO829_SKIN)|V600E(RKO_LARGE_INTESTINE)|V600E(A2058_SKIN)|V600E(RPMI7951_SKIN)|V600E(OUMS23_LARGE_INTESTINE)|V600E(SKMEL5_SKIN)|V600E(ES2_OVARY)|V600E(LOXIMVI_SKIN)	61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				25	59	---	---	---	---	0	0	1	0	0
MPDZ	8777	broad.mit.edu	37	9	13125351	13125351	+	Silent	SNP	T	C	C			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr9:13125351T>C	uc010mia.1	-	34	4728	c.4671A>G	c.(4669-4671)AAA>AAG	p.K1557K	MPDZ_uc003zky.3_Silent_p.K119K|MPDZ_uc010mib.2_Silent_p.K262K|MPDZ_uc010mhx.2_Silent_p.K379K|MPDZ_uc011lmm.1_Silent_p.K416K|MPDZ_uc003zkz.3_Silent_p.K250K|MPDZ_uc010mhy.2_Silent_p.K1557K|MPDZ_uc010mhz.2_Silent_p.K1524K|MPDZ_uc011lmn.1_Silent_p.K1524K|MPDZ_uc003zlb.3_Silent_p.K1557K	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1557	PDZ 9.				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)		GGATGGTAAGTTTTACTGTCA	0.443													29	32	---	---	---	---	0	0	1	0	0
GALT	2592	broad.mit.edu	37	9	34647938	34647938	+	Missense_Mutation	SNP	G	A	A			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr9:34647938G>A	uc003zve.2	+	5	554	c.487G>A	c.(487-489)GCC>ACC	p.A163T	GALT_uc003zvf.2_Missense_Mutation_p.A54T|GALT_uc003zvg.2_Missense_Mutation_p.A35T|GALT_uc003zvh.2_Missense_Mutation_p.A115T|GALT_uc011lop.1_Missense_Mutation_p.A115T|IL11RA_uc003zvi.2_5'Flank	NM_000155	NP_000146	P07902	GALT_HUMAN	galactose-1-phosphate uridylyltransferase	163					galactose catabolic process	cytosol	UDP-glucose:hexose-1-phosphate uridylyltransferase activity|zinc ion binding				0	all_epithelial(49;0.102)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.173)		GGAGCTGGGTGCCCAGTACCC	0.587									Galactosemia				30	44	---	---	---	---	0	0	1	0	0
BSPRY	54836	broad.mit.edu	37	9	116116526	116116526	+	Missense_Mutation	SNP	A	G	G			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr9:116116526A>G	uc004bhg.3	+	2	256	c.208A>G	c.(208-210)ATT>GTT	p.I70V	BSPRY_uc010muw.2_Missense_Mutation_p.I70V	NM_017688	NP_060158	Q5W0U4	BSPRY_HUMAN	B-box and SPRY domain containing	70					calcium ion transport	cytoplasm|membrane	zinc ion binding			breast(1)	1						GCAGAACAAGATTGTGGACCA	0.294													30	35	---	---	---	---	0	0	1	0	0
COL5A1	1289	broad.mit.edu	37	9	137721851	137721851	+	Silent	SNP	C	T	T	rs138396959		TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr9:137721851C>T	uc004cfe.2	+	64	5479	c.5097C>T	c.(5095-5097)AAC>AAT	p.N1699N	uc004cff.2_Intron	NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1699	Fibrillar collagen NC1.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		CCAAAGAAAACCCGGGCTCCT	0.537													5	21	---	---	---	---	0	0	1	0	0
Unknown	0	broad.mit.edu	37	MT	6984	6984	+	Missense_Mutation	SNP	T	C	C			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chrM:6984T>C	uc011mfh.1	+	1	1131	c.83T>C	c.(82-84)CTC>CCC	p.L28P	uc004cou.3_5'Flank|uc011mfi.1_5'Flank					Homo sapiens cDNA: FLJ22894 fis, clone KAT04907.																		TATTAGCAAACTCATCACTAG	0.453													5	21	---	---	---	---	0	0	1	0	0
Unknown	0	broad.mit.edu	37	MT	14414	14414	+	RNA	SNP	T	C	C			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chrM:14414T>C	uc004cox.3	+	1		c.2078T>C			uc004coy.2_5'Flank|uc004coz.1_5'Flank					Homo sapiens NADH dehydrogenase subunit 5 (MTND5) mRNA, RNA 5, complete cds; mitochondrial gene for mitochondrial product.																		TCACCAAGACCTCAACCCCTG	0.448													5	30	---	---	---	---	0	0	1	0	0
MAGED2	10916	broad.mit.edu	37	X	54841926	54841926	+	Silent	SNP	T	C	C			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chrX:54841926T>C	uc004dtk.1	+	12	1726	c.1632T>C	c.(1630-1632)AGT>AGC	p.S544S	MAGED2_uc004dtl.1_Silent_p.S544S|MAGED2_uc004dtm.1_Silent_p.S459S|MAGED2_uc010nkc.1_Intron|MAGED2_uc004dtn.1_Silent_p.S544S|MAGED2_uc004dto.1_Silent_p.S518S	NM_177433	NP_803182	Q9UNF1	MAGD2_HUMAN	melanoma antigen family D, 2	544										ovary(2)|breast(1)	3						CCCAAGAGAGTGGcagtgcca	0.428													4	11	---	---	---	---	0	0	1	0	0
NONO	4841	broad.mit.edu	37	X	70511735	70511735	+	Silent	SNP	G	A	A			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chrX:70511735G>A	uc004dzo.2	+	5	971	c.261G>A	c.(259-261)GAG>GAA	p.E87E	BCYRN1_uc011mpt.1_Intron|NONO_uc004dzn.2_Silent_p.E87E|NONO_uc004dzp.2_Silent_p.E87E|NONO_uc011mpv.1_5'UTR|NONO_uc004dzq.2_5'Flank	NM_001145408	NP_001138880	Q15233	NONO_HUMAN	non-POU domain containing, octamer-binding	87	DBHS.|RRM 1.				DNA recombination|DNA repair|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nuclear matrix|paraspeckles	DNA binding|identical protein binding|nucleotide binding|RNA binding		NONO/TFE3(2)	ovary(2)|kidney(2)	4	Renal(35;0.156)					ACATCACTGAGGAAGAAATGA	0.423			T	TFE3	papillary renal cancer								10	99	---	---	---	---	0	0	1	0	0
SDCCAG8	10806	broad.mit.edu	37	1	243471455	243471476	+	Frame_Shift_Del	DEL	TGCAGACCATCGAAAGACTGGT	-	-	rs976529	byFrequency	TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr1:243471455_243471476delTGCAGACCATCGAAAGACTGGT	uc001hzw.2	+	8	1061_1082	c.905_926delTGCAGACCATCGAAAGACTGGT	c.(904-927)ATGCAGACCATCGAAAGACTGGTTfs	p.M302fs	SDCCAG8_uc010pyk.1_Frame_Shift_Del_p.M157fs|SDCCAG8_uc010pyl.1_Frame_Shift_Del_p.M114fs|SDCCAG8_uc001hzx.2_Frame_Shift_Del_p.M114fs	NM_006642	NP_006633	Q86SQ7	SDCG8_HUMAN	serologically defined colon cancer antigen 8	302_309	Sufficient for homodimerization (By similarity).				establishment of cell polarity|G2/M transition of mitotic cell cycle|tube formation	cell-cell junction|centriole|cytosol	protein binding				0	all_cancers(71;0.000545)|all_epithelial(71;0.000509)|all_lung(81;0.0821)|Ovarian(71;0.0919)|all_neural(11;0.101)|Breast(184;0.218)	all_cancers(173;0.00395)	all cancers(7;1.58e-07)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00392)	COAD - Colon adenocarcinoma(196;0.145)		AATGTTCATATGCAGACCATCGAAAGACTGGTTAAGTAAGTA	0.423													22	197	---	---	---	---					
JMJD1C	221037	broad.mit.edu	37	10	64967938	64967938	+	Frame_Shift_Del	DEL	G	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr10:64967938delG	uc001jmn.2	-	10	3791	c.3491delC	c.(3490-3492)CCAfs	p.P1164fs	JMJD1C_uc001jml.2_Frame_Shift_Del_p.P945fs|JMJD1C_uc001jmm.2_Frame_Shift_Del_p.P876fs|JMJD1C_uc010qiq.1_Frame_Shift_Del_p.P982fs|JMJD1C_uc009xpi.2_Frame_Shift_Del_p.P982fs|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc009xpk.1_Frame_Shift_Del_p.P201fs	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	1164					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					AAGATGTTCTGGTATCTTGCC	0.388													92	183	---	---	---	---					
MXI1	4601	broad.mit.edu	37	10	111986020	111986020	+	Frame_Shift_Del	DEL	T	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr10:111986020delT	uc001kza.2	+	1	259	c.52delT	c.(52-54)TTTfs	p.F18fs	MXI1_uc001kyy.2_Intron|MXI1_uc001kyz.2_Intron|MXI1_uc010qrc.1_Frame_Shift_Del_p.F18fs|MXI1_uc009xxu.2_5'UTR|MXI1_uc009xxv.2_5'Flank	NM_005962	NP_005953	P50539	MXI1_HUMAN	MAX interactor 1 isoform a	18					cytoplasmic sequestering of transcription factor|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription corepressor activity				0		Breast(234;0.052)|Lung NSC(174;0.223)		Epithelial(162;1.33e-05)|all cancers(201;0.000277)|BRCA - Breast invasive adenocarcinoma(275;0.127)		GGCTGCCGAGTTTTTGGAGCG	0.677													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	10	134206019	134206020	+	IGR	INS	-	G	G	rs142843997		TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr10:134206019_134206020insG								LRRC27 (11009 upstream) : PWWP2B (4682 downstream)																							atgatggtgatgtgataatggt	0.000													5	11	---	---	---	---					
Unknown	0	broad.mit.edu	37	11	17717451	17717452	+	IGR	INS	-	GGGCCG	GGGCCG			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr11:17717451_17717452insGGGCCG								USH1C (151488 upstream) : MYOD1 (23658 downstream)																							gagaggggccagggccggggcc	0.183													3	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	11	33808523	33808524	+	IGR	DEL	AG	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr11:33808523_33808524delAG								FBXO3 (12452 upstream) : LMO2 (71601 downstream)																							GAGGGAAAAAAGAGAGAGAGAG	0.312													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	11	114239196	114239197	+	IGR	INS	-	C	C	rs145555504	by1000genomes	TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr11:114239196_114239197insC								NNMT (55958 upstream) : C11orf71 (22973 downstream)																							acatggtgagaccccccccgcc	0.000													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	12	32101808	32101808	+	IGR	DEL	A	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr12:32101808delA								H3F3C (156633 upstream) : C12orf35 (10545 downstream)																							TGACAACTAGAAAAAAAAAAA	0.194													3	4	---	---	---	---					
PPHLN1	51535	broad.mit.edu	37	12	42717961	42717961	+	5'Flank	DEL	G	-	-	rs3747557	by1000genomes	TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr12:42717961delG	uc001rng.1	+						PPHLN1_uc001rmy.2_Intron|PPHLN1_uc001rna.2_5'Flank|PPHLN1_uc001rne.2_5'Flank|PPHLN1_uc001rnb.2_5'Flank|PPHLN1_uc001rnd.2_5'Flank|PPHLN1_uc001rnc.2_5'Flank|PPHLN1_uc001rnf.2_5'Flank|PPHLN1_uc010skq.1_5'Flank|PPHLN1_uc010skr.1_5'Flank|PPHLN1_uc010sks.1_5'Flank|PPHLN1_uc010skt.1_5'Flank|PPHLN1_uc001rni.1_5'Flank|PPHLN1_uc001rnh.1_5'Flank|PPHLN1_uc010sku.1_5'Flank|ZCRB1_uc001rmz.2_Intron	NM_016488	NP_057572	Q8NEY8	PPHLN_HUMAN	periphilin 1 isoform 1						keratinization	cytoplasm|nucleus				ovary(1)|breast(1)	2	all_cancers(12;0.00049)|Breast(8;0.165)	Lung NSC(34;0.123)		GBM - Glioblastoma multiforme(48;0.0875)		ttctttttttgttgtttgaga	0.174													8	19	---	---	---	---					
CMKLR1	1240	broad.mit.edu	37	12	108735681	108735681	+	5'Flank	DEL	A	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr12:108735681delA	uc001tmw.2	-						CMKLR1_uc001tmv.2_5'Flank|CMKLR1_uc009zuv.2_5'Flank	NM_001142343	NP_001135815	Q99788	CML1_HUMAN	chemokine-like receptor 1 isoform a						chemotaxis|immune response|negative regulation of interleukin-12 production|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage chemotaxis|regulation of calcium-mediated signaling|skeletal system development	integral to plasma membrane	chemokine receptor activity			lung(3)|ovary(1)|pancreas(1)	5						gggaaagaggagaggaggagg	0.035													6	0	---	---	---	---					
Unknown	0	broad.mit.edu	37	13	88013404	88013404	+	IGR	DEL	C	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr13:88013404delC								None (None upstream) : SLITRK5 (311466 downstream)																							accaccaccaccacacacaca	0.154													4	6	---	---	---	---					
Unknown	0	broad.mit.edu	37	15	31476159	31476164	+	IGR	DEL	CCCTCC	-	-	rs71420555		TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr15:31476159_31476164delCCCTCC								TRPM1 (82235 upstream) : KLF13 (142919 downstream)																							ctcctcctctccctccccctccccct	0.000													3	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	15	91586479	91586481	+	IGR	DEL	TCC	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr15:91586479_91586481delTCC								VPS33B (20646 upstream) : SV2B (56702 downstream)																							ctgttcctcttcctcctcctcct	0.468													2	4	---	---	---	---					
TRADD	8717	broad.mit.edu	37	16	67189037	67189039	+	In_Frame_Del	DEL	GGC	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr16:67189037_67189039delGGC	uc002eri.1	-	4	668_670	c.588_590delGCC	c.(586-591)CCGCCA>CCA	p.196_197PP>P	TRADD_uc002erh.1_In_Frame_Del_p.136_137PP>P	NM_003789	NP_003780	Q15628	TRADD_HUMAN	TNFRSF1A-associated via death domain	196_197	Poly-Pro.|Death.				activation of caspase activity|activation of pro-apoptotic gene products|induction of apoptosis by extracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|tumor necrosis factor-mediated signaling pathway	cytoskeleton|cytosol|receptor complex	binding, bridging|death domain binding|identical protein binding|kinase binding|signal transducer activity			lung(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.0335)|all cancers(182;0.184)		CTGGGCAGGTGGCGGCGGCGGCG	0.724													3	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	16	80989228	80989230	+	IGR	DEL	GCT	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr16:80989228_80989230delGCT								CDYL2 (151053 upstream) : C16orf61 (20471 downstream)																							accccactacgctgctgctgctg	0.000													3	5	---	---	---	---					
CHD3	1107	broad.mit.edu	37	17	7788146	7788148	+	In_Frame_Del	DEL	GAG	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr17:7788146_7788148delGAG	uc002gjd.2	+	1	24_26	c.22_24delGAG	c.(22-24)GAGdel	p.E14del		NM_001005271	NP_001005271	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				TCTGAGggacgaggaggaggagg	0.094													3	3	---	---	---	---					
REXO1	57455	broad.mit.edu	37	19	1827021	1827023	+	In_Frame_Del	DEL	GGA	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr19:1827021_1827023delGGA	uc002lua.3	-	2	1860_1862	c.1765_1767delTCC	c.(1765-1767)TCCdel	p.S589del	REXO1_uc010dsr.1_In_Frame_Del_p.S543del	NM_020695	NP_065746	Q8N1G1	REXO1_HUMAN	transcription elongation factor B polypeptide 3	589	Ser-rich.					nucleus	exonuclease activity|nucleic acid binding				0		Ovarian(11;1.78e-06)|Hepatocellular(1079;0.137)		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)		CGCTggaggtggaggaggaggag	0.463													3	5	---	---	---	---					
SBSN	374897	broad.mit.edu	37	19	36019046	36019047	+	Frame_Shift_Del	DEL	CT	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr19:36019046_36019047delCT	uc002oae.1	-	1	207_208	c.137_138delAG	c.(136-138)GAGfs	p.E46fs	SBSN_uc002oad.1_Frame_Shift_Del_p.E46fs	NM_198538	NP_940940	Q6UWP8	SBSN_HUMAN	suprabasin isoform 2 precursor	46						extracellular region				ovary(1)	1	all_lung(56;1.62e-08)|Lung NSC(56;2.47e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			CCTTGCCCACCTCTCTCTCTGC	0.579													7	294	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	47959049	47959050	+	IGR	INS	-	C	C	rs2908443		TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr2:47959049_47959050insC								MSH2 (52541 upstream) : MSH6 (51171 downstream)																							aaacaaaaaaaaaaaaaaaaaa	0.149													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	133118776	133118777	+	IGR	INS	-	G	G			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr2:133118776_133118777insG								NCRNA00164 (103234 upstream) : GPR39 (55370 downstream)																							CTCCTTTGCCAGGGGCTGGGCA	0.723													2	4	---	---	---	---					
IRS1	3667	broad.mit.edu	37	2	227664082	227664084	+	5'Flank	DEL	TGC	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr2:227664082_227664084delTGC	uc002voh.3	-							NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1						fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		ctgttgctgttgctgctgctgct	0.527													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	239887273	239887274	+	IGR	INS	-	T	T	rs72541496	by1000genomes	TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr2:239887273_239887274insT								TWIST2 (55036 upstream) : HDAC4 (82591 downstream)																							AGTTGCTTCCCCCATGGCCTAG	0.639													4	2	---	---	---	---					
PTTG1IP	754	broad.mit.edu	37	21	46276194	46276196	+	In_Frame_Del	DEL	GCA	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr21:46276194_46276196delGCA	uc002zgb.1	-	4	571_573	c.361_363delTGC	c.(361-363)TGCdel	p.C121del	PTTG1IP_uc011afj.1_RNA|PTTG1IP_uc011afk.1_Intron	NM_004339	NP_004330	P53801	PTTG_HUMAN	pituitary tumor-transforming gene 1	121	Poly-Cys.|Cytoplasmic (Potential).				protein import into nucleus	cytoplasm|integral to membrane|nucleus				ovary(1)	1				Colorectal(79;0.0659)		TCTTCCTCCTGCAGCAGCAGCAG	0.616													9	125	---	---	---	---					
Unknown	0	broad.mit.edu	37	4	13979377	13979377	+	IGR	DEL	A	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr4:13979377delA								BOD1L (350049 upstream) : None (None downstream)																							GCAGAATAAGAAAAAAGACAG	0.423													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	4	117589584	117589586	+	IGR	DEL	CTC	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr4:117589584_117589586delCTC								MIR1973 (368660 upstream) : TRAM1L1 (415130 downstream)																							cttcatccttctcctcctcctCc	0.005													3	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	6	465282	465284	+	IGR	DEL	GGG	-	-	rs36010831		TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr6:465282_465284delGGG								IRF4 (53840 upstream) : EXOC2 (19855 downstream)																							TGGACACTGTGGGGGGGGGGGGG	0.586													4	4	---	---	---	---					
KCNQ5	56479	broad.mit.edu	37	6	73331984	73331986	+	In_Frame_Del	DEL	GCG	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr6:73331984_73331986delGCG	uc003pgk.2	+	1	414_416	c.67_69delGCG	c.(67-69)GCGdel	p.A27del	KCNQ5_uc003pgj.3_In_Frame_Del_p.A27del|KCNQ5_uc011dyh.1_In_Frame_Del_p.A27del|KCNQ5_uc011dyi.1_In_Frame_Del_p.A27del|KCNQ5_uc010kat.2_In_Frame_Del_p.A27del|KCNQ5_uc011dyj.1_In_Frame_Del_p.A27del|KCNQ5_uc011dyk.1_5'UTR	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	27					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		GAgcggcgcagcggcggcggcgg	0.616													2	4	---	---	---	---					
LMTK2	22853	broad.mit.edu	37	7	97736519	97736521	+	In_Frame_Del	DEL	GCT	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr7:97736519_97736521delGCT	uc003upd.1	+	1	323_325	c.30_32delGCT	c.(28-33)AGGCTG>AGG	p.L16del		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	16					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					TGCGGCGGAGGCTGCTGCTGCTG	0.665													2	4	---	---	---	---					
PTCD1	26024	broad.mit.edu	37	7	99032605	99032607	+	In_Frame_Del	DEL	CTC	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chr7:99032605_99032607delCTC	uc003uqh.2	-	2	390_392	c.259_261delGAG	c.(259-261)GAGdel	p.E87del	PTCD1_uc011kiw.1_In_Frame_Del_p.E136del	NM_015545	NP_056360	O75127	PTCD1_HUMAN	pentatricopeptide repeat domain 1	87										ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			TCCCAAAACTCTCCTCCTCCTCC	0.606													7	185	---	---	---	---					
Unknown	0	broad.mit.edu	37	M	11032	11032	+	RNA	DEL	A	-	-			TCGA-EL-A3GU-01A-11D-A21A-08	TCGA-EL-A3GU-11A-21D-A21A-08									Somatic	Phase_I	Capture				Illumina GAIIx	c8595cf5-599e-46e5-b5ba-33521664356a	494c10c7-1916-4269-884e-186ef3bfdc19	g.chrM:11032delA	uc004cov.3	+	1		c.455delA			uc004cow.1_5'Flank|uc004cox.3_5'Flank					Homo sapiens potential LAG1 interactor mRNA, partial cds.																		CCACTATCACGAAAAAAACTC	0.423													23	5	---	---	---	---					
