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	init_n_lod
CAMTA1	23261	broad.mit.edu	37	1	7725168	7725168	+	Missense_Mutation	SNP	C	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr1:7725168C>A	uc001aoi.2	+	9	2768	c.2561C>A	c.(2560-2562)GCC>GAC	p.A854D		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	854					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		GTGGTCTCGGCCGCCTCGGCC	0.672000													37	32					1.06647e-15	1.14589e-15	0.017118	1	0	
EPHA2	1969	broad.mit.edu	37	1	16460017	16460017	+	Missense_Mutation	SNP	A	C	C			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr1:16460017A>C	uc001aya.1	-	10	1960	c.1823T>G	c.(1822-1824)ATC>AGC	p.I608S		NM_004431	NP_004422	P29317	EPHA2_HUMAN	ephrin receptor EphA2 precursor	608	Mediates interaction with ARHGEF16 and ELMO2.|Cytoplasmic (Potential).				activation of Rac GTPase activity|angiogenesis|apoptosis|cell chemotaxis|negative regulation of protein kinase B signaling cascade|positive regulation of establishment of protein localization in plasma membrane|protein kinase B signaling cascade|regulation of blood vessel endothelial cell migration|regulation of cell adhesion mediated by integrin|regulation of lamellipodium assembly|response to growth factor stimulus	focal adhesion|integral to plasma membrane|lamellipodium membrane|ruffle membrane	ATP binding|ephrin receptor activity|protein binding			lung(3)|central_nervous_system(3)|stomach(2)|ovary(2)	10		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|Colorectal(212;3.63e-07)|COAD - Colon adenocarcinoma(227;2.25e-05)|BRCA - Breast invasive adenocarcinoma(304;9.58e-05)|Kidney(64;0.000175)|KIRC - Kidney renal clear cell carcinoma(64;0.00261)|STAD - Stomach adenocarcinoma(313;0.00669)|READ - Rectum adenocarcinoma(331;0.0649)	Dasatinib(DB01254)	GGATGGATGGATCTCGGTAGT	0.592000													5	41					0	0	0.021553	0	0	
MST1P2	11209	broad.mit.edu	37	1	16974955	16974955	+	RNA	SNP	A	G	G	rs149751487	by1000genomes	TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	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	0.657000													4	52					0	0	0.021553	0	0	
HPCAL4	51440	broad.mit.edu	37	1	40150246	40150246	+	Silent	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr1:40150246G>A	uc001cdr.2	-	2	150	c.30C>T	c.(28-30)CCC>CCT	p.P10P	HPCAL4_uc010oix.1_Silent_p.P10P	NM_016257	NP_057341	Q9UM19	HPCL4_HUMAN	hippocalcin-like protein 4	10					central nervous system development	intracellular	calcium ion binding	p.P10H(1)		central_nervous_system(1)	1	all_cancers(7;4.65e-13)|Lung NSC(20;2.88e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			CCAGCACCTCGGGGGCCAGCT	0.627000													11	13					0	0	0.008291	0	0	
KCNJ10	3766	broad.mit.edu	37	1	160011396	160011396	+	Silent	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr1:160011396G>A	uc001fuw.1	-	2	1077	c.927C>T	c.(925-927)TAC>TAT	p.Y309Y		NM_002241	NP_002232	P78508	IRK10_HUMAN	potassium inwardly-rectifying channel, subfamily	309	Cytoplasmic (By similarity).					integral to plasma membrane	ATP binding|ATP-activated inward rectifier potassium channel activity			ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GTGTGAACTCGTAGCCCCAAA	0.532000													7	58					0	0	0.001984	0	0	
GLT25D2	23127	broad.mit.edu	37	1	183938600	183938600	+	Missense_Mutation	SNP	T	C	C	rs35937944	byFrequency	TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr1:183938600T>C	uc001gqr.2	-	5	1007	c.635A>G	c.(634-636)TAT>TGT	p.Y212C	GLT25D2_uc010poj.1_Missense_Mutation_p.Y212C|GLT25D2_uc001gqs.2_Missense_Mutation_p.Y92C	NM_015101	NP_055916	Q8IYK4	GT252_HUMAN	glycosyltransferase 25 domain containing 2	212					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity			ovary(1)|breast(1)	2						GGTCCTCTTATAGAAGCCCTG	0.463000													4	64					0	0	0.014758	0	0	
CAMSAP1L1	23271	broad.mit.edu	37	1	200818182	200818182	+	Missense_Mutation	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr1:200818182G>A	uc001gvl.2	+	12	2588	c.2318G>A	c.(2317-2319)CGT>CAT	p.R773H	CAMSAP1L1_uc001gvk.2_Missense_Mutation_p.R762H|CAMSAP1L1_uc001gvm.2_Missense_Mutation_p.R746H	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein	773						cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GAAAAGAGGCGTGCTATAGAA	0.448000													32	42					0	0	0.009535	0	0	
LOC642826	642826	broad.mit.edu	37	10	47207813	47207813	+	RNA	SNP	T	C	C			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr10:47207813T>C	uc001jei.2	-	12		c.1586A>G			uc009xnf.2_Missense_Mutation_p.H132R					Homo sapiens cDNA, FLJ99065.												0						TTTACTTACATGGTTTGTACA	0.294000													8	22					0	0	0.004482	0	0	
ANK3	288	broad.mit.edu	37	10	61847969	61847969	+	Missense_Mutation	SNP	A	G	G			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr10:61847969A>G	uc001jky.2	-	29	3668	c.3476T>C	c.(3475-3477)GTG>GCG	p.V1159A	ANK3_uc001jkw.2_Missense_Mutation_p.V293A|ANK3_uc009xpa.2_Missense_Mutation_p.V293A|ANK3_uc001jkx.2_Missense_Mutation_p.V337A|ANK3_uc010qih.1_Missense_Mutation_p.V1160A|ANK3_uc001jkz.3_Missense_Mutation_p.V1153A|ANK3_uc001jla.1_Missense_Mutation_p.V225A|ANK3_uc001jlb.1_Missense_Mutation_p.V677A	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1159					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						AACAAGGGGCACTGTGGTGCT	0.478000													60	73					0	0	0.014410	0	0	
TSPAN32	10077	broad.mit.edu	37	11	2334953	2334953	+	Missense_Mutation	SNP	C	T	T			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr11:2334953C>T	uc001lvy.1	+	5	561	c.424C>T	c.(424-426)CGG>TGG	p.R142W	TSPAN32_uc001lvx.1_Intron|TSPAN32_uc009ydk.1_Missense_Mutation_p.R152W|TSPAN32_uc010qxk.1_Missense_Mutation_p.R177W|TSPAN32_uc009ydl.1_RNA|TSPAN32_uc001lvz.1_Missense_Mutation_p.R112W|TSPAN32_uc001lwb.1_Missense_Mutation_p.R112W|TSPAN32_uc001lwc.1_Missense_Mutation_p.R87W|TSPAN32_uc001lwd.1_5'Flank	NM_139022	NP_620591	Q96QS1	TSN32_HUMAN	tumor-suppressing subtransferable candidate 6	142					cell-cell signaling	integral to membrane				central_nervous_system(1)	1		all_epithelial(84;4.89e-05)|Breast(177;0.000962)|Medulloblastoma(188;0.00106)|Ovarian(85;0.0014)|all_neural(188;0.00791)|Lung NSC(207;0.209)		BRCA - Breast invasive adenocarcinoma(625;0.000533)|LUSC - Lung squamous cell carcinoma(625;0.082)|Lung(200;0.153)		GTCCCACGTCCGGCGGCAGGA	0.647000													3	7					0	0	0.009096	0	0	
DLG2	1740	broad.mit.edu	37	11	83252774	83252774	+	Missense_Mutation	SNP	T	C	C			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr11:83252774T>C	uc001paj.2	-	15	2056	c.1753A>G	c.(1753-1755)ATG>GTG	p.M585V	DLG2_uc001pai.2_Missense_Mutation_p.M482V|DLG2_uc010rsy.1_Missense_Mutation_p.M552V|DLG2_uc010rsz.1_Missense_Mutation_p.M585V|DLG2_uc010rta.1_Missense_Mutation_p.M585V|DLG2_uc001pak.2_Missense_Mutation_p.M690V|DLG2_uc010rtb.1_Missense_Mutation_p.M552V|DLG2_uc010rsw.1_Missense_Mutation_p.M67V|DLG2_uc010rsx.1_Missense_Mutation_p.M66V	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	585	SH3.					cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				CCCTCCAGCATGACTCTCCTG	0.478000													12	77					0	0	0.016723	0	0	
ABCC9	10060	broad.mit.edu	37	12	21958215	21958215	+	Missense_Mutation	SNP	G	C	C			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr12:21958215G>C	uc001rfi.1	-	38	4563	c.4543C>G	c.(4543-4545)CTT>GTT	p.L1515V	ABCC9_uc001rfh.2_Intron|ABCC9_uc001rfj.1_Missense_Mutation_p.L1479V|ABCC9_uc001rfg.2_Intron	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	1515	Cytoplasmic (Potential).|ABC transporter 2.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	ACTAAAACAAGGCCTGCATCC	0.403000													17	34					0	0	0.007413	0	0	
LRRK2	120892	broad.mit.edu	37	12	40618972	40618972	+	Silent	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr12:40618972G>A	uc001rmg.3	+	1	160	c.39G>A	c.(37-39)GAG>GAA	p.E13E		NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	13					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				AAGAGGACGAGGAAACTCTGA	0.562000													5	31					0	0	0.014758	0	0	
ITGB7	3695	broad.mit.edu	37	12	53585371	53585371	+	Missense_Mutation	SNP	C	T	T			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr12:53585371C>T	uc009zmv.2	-	15	2437	c.2366G>A	c.(2365-2367)CGC>CAC	p.R789H	ITGB7_uc001scc.2_Missense_Mutation_p.R789H|ITGB7_uc010snz.1_RNA	NM_000889	NP_000880	P26010	ITB7_HUMAN	integrin, beta 7 precursor	789	Cytoplasmic (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|regulation of immune response	integrin complex	identical protein binding|metal ion binding|receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|breast(1)	8						CTCTTGAAAGCGAGGATTGAT	0.507000													14	66					0	0	0.028581	0	0	
NOS1	4842	broad.mit.edu	37	12	117768839	117768839	+	Missense_Mutation	SNP	C	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr12:117768839C>A	uc001twm.1	-	2	722	c.36G>T	c.(34-36)CAG>CAT	p.Q12H		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	12	Interaction with NOSIP (By similarity).				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	TGACATTGGGCTGGATTTGCT	0.517000													25	94					4.87955e-14	5.1337e-14	0.027356	1	0	
SFRS8	6433	broad.mit.edu	37	12	132195869	132195869	+	Missense_Mutation	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr12:132195869G>A	uc001uja.1	+	1	235	c.95G>A	c.(94-96)CGA>CAA	p.R32Q	SFRS8_uc010tbn.1_Missense_Mutation_p.R32Q|SFRS8_uc001ujb.1_5'UTR|SFRS8_uc001uiz.1_5'UTR	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	32					mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		GGGGGCAGCCGAGTGGAGCTC	0.697000													5	33					0	0	0.014758	0	0	
PABPC3	5042	broad.mit.edu	37	13	25670907	25670907	+	Missense_Mutation	SNP	C	T	T	rs76264750	byFrequency	TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr13:25670907C>T	uc001upy.2	+	1	632	c.571C>T	c.(571-573)CCC>TCC	p.P191S		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	191	RRM 3.				mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		AAAAGAGTTCCCCAATGTTTA	0.428000													35	101					0	0	0.019004	0	0	
MTUS2	23281	broad.mit.edu	37	13	30077317	30077317	+	Missense_Mutation	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr13:30077317G>A	uc001usl.3	+	14	4172	c.4114G>A	c.(4114-4116)GCC>ACC	p.A1372T	MTUS2_uc001usm.3_Missense_Mutation_p.A341T|MTUS2_uc010aau.2_Missense_Mutation_p.A251T|MTUS2_uc010tdq.1_Missense_Mutation_p.A124T	NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	1362						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						CTCCTCTCCGGCCAGAGTCAG	0.652000													4	55					0	0	0.014758	0	0	
LOC647288	647288	broad.mit.edu	37	13	75814192	75814192	+	Silent	SNP	T	C	C			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr13:75814192T>C	uc010ths.1	-	1	326	c.285A>G	c.(283-285)AAA>AAG	p.K95K		NR_027466				Homo sapiens mRNA; cDNA DKFZp434F0327 (from clone DKFZp434F0327).												0						TAAGGCTAAATTTTTCAAGTA	0.393000													15	84					0	0	0.006122	0	0	
CBLN3	643866	broad.mit.edu	37	14	24897156	24897156	+	Missense_Mutation	SNP	C	G	G			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr14:24897156C>G	uc001wpg.3	-	3	928	c.457G>C	c.(457-459)GCC>CCC	p.A153P	KHNYN_uc010tpc.1_5'Flank|KHNYN_uc001wph.3_5'Flank|KHNYN_uc010alw.2_5'Flank	NM_001039771	NP_001034860	Q6UW01	CBLN3_HUMAN	cerebellin 3 precursor	153	Necessary for interaction with CBLN3, and homotrimerization (By similarity).|C1q.					cell junction|extracellular region|synapse				central_nervous_system(1)	1				GBM - Glioblastoma multiforme(265;0.00159)		TTGGCAAAGGCTGAGATGACA	0.647000													6	77					0	0	0.021553	0	0	
SIVA1	10572	broad.mit.edu	37	14	105223032	105223032	+	Silent	SNP	C	T	T			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr14:105223032C>T	uc001yph.2	+	3	474	c.405C>T	c.(403-405)TGC>TGT	p.C135C	INF2_uc010tyi.1_Intron|SIVA1_uc010tyj.1_Silent_p.C135C|SIVA1_uc001ypg.1_3'UTR|SIVA1_uc001ypi.2_Silent_p.C70C	NM_006427	NP_006418	O15304	SIVA_HUMAN	CD27-binding (Siva) protein isoform 1	135					activation of caspase activity by cytochrome c|activation-induced cell death of T cells|apoptosis|induction of apoptosis|interspecies interaction between organisms|negative regulation of anti-apoptosis|negative regulation of NF-kappaB transcription factor activity	cytoplasm|mitochondrion|nucleoplasm|nucleus	caspase activator activity|CD27 receptor binding|metal ion binding|viral receptor activity|zinc ion binding				0		all_cancers(154;0.14)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00153)|OV - Ovarian serous cystadenocarcinoma(23;0.0148)|Epithelial(46;0.0396)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.173)		GAGCCCTGTGCGGGCAGTGTG	0.642000													23	14					0	0	0.016522	0	0	
ZSCAN29	146050	broad.mit.edu	37	15	43661186	43661186	+	Missense_Mutation	SNP	C	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr15:43661186C>A	uc001zrk.1	-	2	605	c.458G>T	c.(457-459)AGC>ATC	p.S153I	ZSCAN29_uc001zrj.1_Missense_Mutation_p.S33I|ZSCAN29_uc010bdf.1_Missense_Mutation_p.S152I|ZSCAN29_uc001zrl.1_RNA|ZSCAN29_uc010bdg.1_Missense_Mutation_p.S152I|ZSCAN29_uc001zrm.2_Missense_Mutation_p.S152I|TUBGCP4_uc001zrn.2_5'Flank|TUBGCP4_uc001zro.2_5'Flank	NM_152455	NP_689668	Q8IWY8	ZSC29_HUMAN	zinc finger protein 690	153					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.97e-07)		CAGGTCTGGGCTTCTTGCCCT	0.512000													27	218					2.44723e-14	2.60179e-14	0.024334	1	0	
FBN1	2200	broad.mit.edu	37	15	48741086	48741086	+	Silent	SNP	A	G	G			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr15:48741086A>G	uc001zwx.1	-	46	5878	c.5550T>C	c.(5548-5550)CGT>CGC	p.R1850R	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	1850	EGF-like 31; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GACATTCATTACGATCTGTAA	0.353000													12	18					0	0	0.010729	0	0	
OTOA	146183	broad.mit.edu	37	16	21698948	21698948	+	Missense_Mutation	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr16:21698948G>A	uc002djh.2	+	7	615	c.614G>A	c.(613-615)CGC>CAC	p.R205H	uc002diq.3_Intron|OTOA_uc010vbj.1_Missense_Mutation_p.R126H	NM_144672	NP_653273	Q7RTW8	OTOAN_HUMAN	otoancorin isoform 1	205					sensory perception of sound	anchored to membrane|apical plasma membrane|proteinaceous extracellular matrix				ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(48;0.0414)		CGGGACCTGCGCGAGGATGCC	0.423000													13	33					0	0	0.016723	0	0	
Unknown	0	broad.mit.edu	37	16	70268080	70268080	+	RNA	SNP	T	C	C	rs149244259	by1000genomes	TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr16:70268080T>C	uc010cfp.1	-	3		c.335A>G								Homo sapiens cDNA, FLJ98908.																		GTCTTACTGTTGGCTAAAAGG	0.373000													3	10					0	0	0.004672	0	0	
Unknown	0	broad.mit.edu	37	16	70268158	70268158	+	RNA	SNP	A	C	C			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr16:70268158A>C	uc010cfp.1	-	3		c.257T>G								Homo sapiens cDNA, FLJ98908.																		TTCTTCATTAAAACAGCTACT	0.333000													4	17					0	0	0.009096	0	0	
TP53	7157	broad.mit.edu	37	17	7577121	7577121	+	Missense_Mutation	SNP	G	A	A	rs121913343		TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr17:7577121G>A	uc002gim.2	-	8	1011	c.817C>T	c.(817-819)CGT>TGT	p.R273C	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R273C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141C|TP53_uc010cng.1_Missense_Mutation_p.R141C|TP53_uc002gii.1_Missense_Mutation_p.R141C|TP53_uc010cnh.1_Missense_Mutation_p.R273C|TP53_uc010cni.1_Missense_Mutation_p.R273C|TP53_uc002gij.2_Missense_Mutation_p.R273C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R273H(467)|p.R273C(396)|p.R273L(83)|p.R273P(24)|p.R273S(11)|p.R273G(9)|p.0?(7)|p.R273fs*72(3)|p.?(2)|p.R273fs*33(2)|p.F270fs*72(1)|p.R273_C275delRVC(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273R(1)|p.E258fs*71(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GCACAAACACGCACCTCAAAG	0.542000	R273C(SH10TC_STOMACH)|R273C(SUDHL4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(8MGBA_CENTRAL_NERVOUS_SYSTEM)|R273C(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273C(BL70_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(SW1710_URINARY_TRACT)|R273C(RH30_SOFT_TISSUE)|R273C(PANC0213_PANCREAS)|R273C(SJRH30_SOFT_TISSUE)|R273C(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(RDES_BONE)|R273C(TT2609C02_THYROID)|R273C(MFE319_ENDOMETRIUM)|R273C(RPMI8402_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(EFO27_OVARY)|R273C(NCIH1048_LUNG)|R273C(KARPAS299_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			20	11					0	0	0.007413	0	0	
MYH4	4622	broad.mit.edu	37	17	10368834	10368834	+	Nonsense_Mutation	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr17:10368834G>A	uc002gmn.2	-	5	541	c.430C>T	c.(430-432)CGA>TGA	p.R144*	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	144	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						TTTTTGCCTCGGTAGGCTGTC	0.537000													60	64					0	0	0.014410	0	0	
Unknown	0	broad.mit.edu	37	17	39296184	39296184	+	RNA	SNP	G	T	T			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr17:39296184G>T	uc010cxk.1	-	1		c.520C>A								Homo sapiens partial mRNA for keratin associated protein 4.6 (KRTAP4.6 gene).																		CAGGTTGGGCGATAGCAAGTG	0.433000													3	8					0.00024832	0.000250803	0.009096	1	0	
WNK4	65266	broad.mit.edu	37	17	40936102	40936102	+	Silent	SNP	T	C	C			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr17:40936102T>C	uc002ibj.2	+	3	960	c.939T>C	c.(937-939)CCT>CCC	p.P313P	WNK4_uc010wgx.1_Missense_Mutation_p.L7P|WNK4_uc002ibk.1_Silent_p.P85P|WNK4_uc010wgy.1_5'Flank	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	313	Protein kinase.				intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		TCACGGGACCTACTGGCTCTG	0.602000													16	174					0	0	0.024245	0	0	
KIF2B	84643	broad.mit.edu	37	17	51901905	51901905	+	Missense_Mutation	SNP	G	A	A	rs143245314	byFrequency	TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr17:51901905G>A	uc002iua.2	+	1	1667	c.1511G>A	c.(1510-1512)CGG>CAG	p.R504Q	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	504					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						CTGGTGCTCCGGGACTCCTTT	0.473000													26	45					0	0	0.021523	0	0	
LAMA3	3909	broad.mit.edu	37	18	21399825	21399825	+	Missense_Mutation	SNP	T	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr18:21399825T>A	uc002kuq.2	+	19	2254	c.2168T>A	c.(2167-2169)TTC>TAC	p.F723Y	LAMA3_uc002kur.2_Missense_Mutation_p.F723Y	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	723	Domain V.|Laminin EGF-like 8.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AACTACTATTTCCCAGATTTG	0.378000													5	101					0	0	0.001984	0	0	
KIAA1632	57724	broad.mit.edu	37	18	43490580	43490580	+	Missense_Mutation	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr18:43490580G>A	uc002lbm.2	-	23	4211	c.4111C>T	c.(4111-4113)CGT>TGT	p.R1371C	KIAA1632_uc002lbo.1_Missense_Mutation_p.R1371C|KIAA1632_uc010xcq.1_5'UTR|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Missense_Mutation_p.R246C	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	1371					autophagy						0						GCTGGAACACGGAGGGCCTTG	0.522000											OREG0024952	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	33	31					0	0	0.009535	0	0	
ZNF556	80032	broad.mit.edu	37	19	2877321	2877321	+	Missense_Mutation	SNP	G	T	T			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr19:2877321G>T	uc002lwp.1	+	4	452	c.365G>T	c.(364-366)CGT>CTT	p.R122L	ZNF556_uc002lwq.2_Missense_Mutation_p.R121L	NM_024967	NP_079243	Q9HAH1	ZN556_HUMAN	zinc finger protein 556	122					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)	3				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)		GGTAATAAACGTGGAAGAACC	0.373000													22	64					8.04996e-18	8.74243e-18	0.012319	1	0	
KDM4B	23030	broad.mit.edu	37	19	5033012	5033012	+	Silent	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr19:5033012G>A	uc002mbq.3	+	3	337	c.111G>A	c.(109-111)TCG>TCA	p.S37S	KDM4B_uc010xil.1_Silent_p.S37S|KDM4B_uc010xim.1_Silent_p.S37S	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	37	JmjN.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						ACATAGAGTCGCAGGGAGCCC	0.622000													80	127					0	0	0.014410	0	0	
UNC13A	23025	broad.mit.edu	37	19	17756598	17756598	+	Silent	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr19:17756598G>A	uc002nhd.2	-	19	2505	c.2505C>T	c.(2503-2505)GAC>GAT	p.D835D		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	747	C2 2.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						ATTTGATGTCGTCATCCTCGT	0.592000													15	17					0	0	0.020292	0	0	
TSHZ3	57616	broad.mit.edu	37	19	31767753	31767753	+	Silent	SNP	C	T	T			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr19:31767753C>T	uc002nsy.3	-	2	3011	c.2946G>A	c.(2944-2946)GCG>GCA	p.A982A		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	982	C2H2-type 4.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					TGATTTGGGACGCACAATCGT	0.498000													22	48					0	0	0.012319	0	0	
EHD3	30845	broad.mit.edu	37	2	31489161	31489161	+	Missense_Mutation	SNP	A	G	G			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr2:31489161A>G	uc002rnu.2	+	6	1807	c.1199A>G	c.(1198-1200)GAG>GGG	p.E400G	EHD3_uc010ymt.1_3'UTR	NM_014600	NP_055415	Q9NZN3	EHD3_HUMAN	EH-domain containing 3	400					blood coagulation|endocytic recycling|protein homooligomerization	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			skin(2)	2	Acute lymphoblastic leukemia(172;0.155)					GTGCGCCAGGAGGAGTCACAG	0.622000													3	32					0	0	0.004672	0	0	
LRRTM4	80059	broad.mit.edu	37	2	77746894	77746894	+	Missense_Mutation	SNP	C	G	G			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr2:77746894C>G	uc002snr.2	-	3	516	c.101G>C	c.(100-102)TGC>TCC	p.C34S	LRRTM4_uc002snq.2_Missense_Mutation_p.C34S|LRRTM4_uc002sns.2_Missense_Mutation_p.C34S|LRRTM4_uc002snt.2_Missense_Mutation_p.C35S	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	34	Extracellular (Potential).|LRRNT.					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		GTTCTTTGGGCAAGCTCTCTG	0.473000													21	16					0	0	0.008871	0	0	
MARCH4	57574	broad.mit.edu	37	2	217142429	217142429	+	Silent	SNP	G	A	A	rs138565372	by1000genomes	TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr2:217142429G>A	uc002vgb.2	-	3	2598	c.831C>T	c.(829-831)TAC>TAT	p.Y277Y		NM_020814	NP_065865	Q9P2E8	MARH4_HUMAN	membrane-associated ring finger (C3HC4) 4	277	Helical; (Potential).					Golgi membrane|Golgi stack|integral to membrane|trans-Golgi network	ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Renal(323;0.0854)		Epithelial(149;2.19e-05)|all cancers(144;0.00121)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(261;0.0125)		CATACATCCCGTAGCAGATCT	0.557000													84	88					0	0	0.014410	0	0	
KIF1A	547	broad.mit.edu	37	2	241709052	241709052	+	Silent	SNP	C	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr2:241709052C>A	uc002vzy.2	-	15	1532	c.1386G>T	c.(1384-1386)CGG>CGT	p.R462R	KIF1A_uc010fzk.2_Silent_p.R471R|KIF1A_uc002vzz.1_Silent_p.R471R	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	462	Potential.				anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		ACCTCTCCATCCGGATGGCTT	0.622000													4	14					0.00024832	0.000250803	0.009096	1	0	
APP	351	broad.mit.edu	37	21	27425588	27425588	+	Silent	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr21:27425588G>A	uc002ylz.2	-	4	632	c.432C>T	c.(430-432)TGC>TGT	p.C144C	APP_uc010glk.2_Silent_p.C139C|APP_uc002yma.2_Silent_p.C144C|APP_uc011ach.1_Silent_p.C88C|APP_uc002ymb.2_Silent_p.C144C|APP_uc010glj.2_Silent_p.C88C|APP_uc011aci.1_Silent_p.C109C|APP_uc011acj.1_Silent_p.C144C	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	144	Extracellular (Potential).	Required for Cu(2+) reduction.		C->S: Binds copper. No dimer formation. No copper reducing activity.	adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				GATGAGTTTCGCAAACATCCA	0.453000													13	70					0	0	0.013537	0	0	
KRTAP26-1	388818	broad.mit.edu	37	21	31691973	31691973	+	Silent	SNP	C	T	T			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr21:31691973C>T	uc002ynw.2	-	1	635	c.381G>A	c.(379-381)CCG>CCA	p.P127P		NM_203405	NP_981950	Q6PEX3	KR261_HUMAN	keratin associated protein 26-1	127						intermediate filament				ovary(1)	1						TATTGAGCAGCGGCCTCAGTG	0.532000													34	56					0	0	0.012213	0	0	
MICAL3	57553	broad.mit.edu	37	22	18347703	18347703	+	Missense_Mutation	SNP	C	T	T			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr22:18347703C>T	uc002zng.3	-	19	2920	c.2567G>A	c.(2566-2568)CGG>CAG	p.R856Q	MICAL3_uc011agl.1_Missense_Mutation_p.R856Q|MICAL3_uc002znh.2_Missense_Mutation_p.R856Q|MICAL3_uc002znj.1_Missense_Mutation_p.R584Q|MICAL3_uc002znk.1_Missense_Mutation_p.R856Q|MICAL3_uc002znl.1_Missense_Mutation_p.R489Q|MICAL3_uc002znm.2_Missense_Mutation_p.R357Q|MICAL3_uc010grf.2_Missense_Mutation_p.R980Q	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	856						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		GGCGTTGGCCCGTCCGTTTGC	0.582000													20	67					0	0	0.010504	0	0	
Unknown	0	broad.mit.edu	37	22	18844888	18844888	+	RNA	SNP	A	G	G			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr22:18844888A>G	uc002zoe.2	+	4		c.2142A>G			uc002zof.2_5'Flank					Homo sapiens cDNA FLJ76361 complete cds.																		GCTCACGGAAATACAGCTTCA	0.587000													9	36					0	0	0.004482	0	0	
HIRA	7290	broad.mit.edu	37	22	19341023	19341023	+	Missense_Mutation	SNP	G	C	C			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr22:19341023G>C	uc002zpf.1	-	23	2924	c.2704C>G	c.(2704-2706)CGG>GGG	p.R902G	HIRA_uc011agx.1_Missense_Mutation_p.R768G|HIRA_uc010grn.1_Missense_Mutation_p.R695G|HIRA_uc010gro.1_Missense_Mutation_p.R858G|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	902	Interaction with histone H4.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					GAGAAGAGCCGGGCAGCCTGC	0.612000													16	7					0	0	0.028581	0	0	
COL7A1	1294	broad.mit.edu	37	3	48630223	48630223	+	Silent	SNP	C	T	T			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr3:48630223C>T	uc003ctz.2	-	6	832	c.831G>A	c.(829-831)CCG>CCA	p.P277P		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	277	Nonhelical region (NC1).|Fibronectin type-III 1.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GCCGCTCACTCGGCAGTGGCT	0.607000													13	50					0	0	0.016723	0	0	
WDR6	11180	broad.mit.edu	37	3	49049728	49049728	+	Missense_Mutation	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr3:49049728G>A	uc003cvj.2	+	2	989	c.851G>A	c.(850-852)TGC>TAC	p.C284Y	WDR6_uc011bbx.1_Missense_Mutation_p.C155Y|WDR6_uc011bby.1_Intron|WDR6_uc010hkn.2_Missense_Mutation_p.C228Y|WDR6_uc011bbz.1_Missense_Mutation_p.C203Y	NM_018031	NP_060501	Q9NNW5	WDR6_HUMAN	WD repeat domain 6 protein	254					cell cycle arrest|negative regulation of cell proliferation	cytoplasm				central_nervous_system(1)	1				Kidney(197;9.12e-07)|KIRC - Kidney renal clear cell carcinoma(197;1.32e-05)|BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000155)		ATTGGGCACTGCTTTGGGCAC	0.557000													23	77					0	0	0.014323	0	0	
GRM2	2912	broad.mit.edu	37	3	51747088	51747088	+	Missense_Mutation	SNP	G	C	C			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr3:51747088G>C	uc010hlv.2	+	3	1289	c.1050G>C	c.(1048-1050)GAG>GAC	p.E350D	GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	350	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	AATTCTGGGAGCAGAGGTTCC	0.592000													10	15					0	0	0.008291	0	0	
SDHAP2	727956	broad.mit.edu	37	3	195400728	195400728	+	Silent	SNP	A	G	G	rs12107841	by1000genomes	TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr3:195400728A>G	uc003fuw.2	+	9	1218	c.24A>G	c.(22-24)CCA>CCG	p.P8P	SDHAP2_uc011btb.1_Missense_Mutation_p.S156G|SDHAP2_uc011btc.1_RNA|SDHAP2_uc003fuv.2_RNA					SubName: Full=cDNA FLJ16373 fis, clone THYMU3000269, highly similar to Succinate dehydrogenase (ubiquinone) flavoprotein subunit, mitochondrial (EC 1.3.5.1);												0						GATTGTGCCCAGCCTGTACGC	0.587000													6	24					0	0	0.003080	0	0	
SPON2	10417	broad.mit.edu	37	4	1164196	1164196	+	Missense_Mutation	SNP	C	T	T			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr4:1164196C>T	uc003gcn.3	-	4	832	c.805G>A	c.(805-807)GCC>ACC	p.A269T	SPON2_uc003gco.3_Missense_Mutation_p.A269T|SPON2_uc010ibr.2_Missense_Mutation_p.A269T|SPON2_uc003gcm.1_3'UTR	NM_012445	NP_036577	Q9BUD6	SPON2_HUMAN	spondin 2, extracellular matrix protein	269					axon guidance|cell adhesion|innate immune response	proteinaceous extracellular matrix	metal ion binding			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.00805)	UCEC - Uterine corpus endometrioid carcinoma (64;0.139)|Colorectal(103;0.19)		TTACCTGAGGCGCTGTCTACA	0.617000													52	122					0	0	0.014410	0	0	
WDFY3	23001	broad.mit.edu	37	4	85617299	85617299	+	Missense_Mutation	SNP	C	T	T			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr4:85617299C>T	uc003hpd.2	-	58	9133	c.8725G>A	c.(8725-8727)GAG>AAG	p.E2909K	WDFY3_uc003hpe.1_Missense_Mutation_p.E520K	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	2909	BEACH.					cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TCAATCCACTCATGTAGATGG	0.403000													15	120					0	0	0.020292	0	0	
SEC24B	10427	broad.mit.edu	37	4	110460756	110460756	+	Silent	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr4:110460756G>A	uc003hzk.2	+	24	3787	c.3732G>A	c.(3730-3732)TTG>TTA	p.L1244L	SEC24B_uc003hzl.2_Silent_p.L1209L|SEC24B_uc011cfp.1_Silent_p.L1274L|SEC24B_uc011cfq.1_Silent_p.L1243L|SEC24B_uc011cfr.1_Silent_p.L1208L	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	1244					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		TTCAGCATTTGATTGAAGACC	0.308000													11	52					0	0	0.010729	0	0	
TTC29	83894	broad.mit.edu	37	4	147755035	147755035	+	Silent	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr4:147755035G>A	uc003ikw.3	-	9	1127	c.900C>T	c.(898-900)TAC>TAT	p.Y300Y	TTC29_uc010ipc.2_RNA|TTC29_uc003ikx.3_Silent_p.Y326Y|TTC29_uc010ipd.1_Silent_p.Y300Y	NM_031956	NP_114162	Q8NA56	TTC29_HUMAN	tetratricopeptide repeat domain 29	300	TPR 3.						binding				0	all_hematologic(180;0.151)					AGATTTTACAGTAAGTGTCAA	0.393000													6	30					0	0	0.021553	0	0	
PLEKHG4B	153478	broad.mit.edu	37	5	140749	140749	+	Silent	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr5:140749G>A	uc003jak.2	+	1	377	c.327G>A	c.(325-327)AGG>AGA	p.R109R		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	109					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		CAGGCTCCAGGCCTGGGGGCC	0.647000													6	9					0	0	0.001984	0	0	
ADAMTS16	170690	broad.mit.edu	37	5	5237184	5237184	+	Missense_Mutation	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr5:5237184G>A	uc003jdl.2	+	14	2264	c.2126G>A	c.(2125-2127)CGT>CAT	p.R709H	ADAMTS16_uc003jdk.1_Missense_Mutation_p.R709H|ADAMTS16_uc010itk.1_Intron	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	709	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						GAGGATAGCCGTAATGTTTGT	0.279000													24	73					0	0	0.024334	0	0	
AMACR	23600	broad.mit.edu	37	5	33989517	33989517	+	Missense_Mutation	SNP	T	G	G			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr5:33989517T>G	uc003jig.2	-	5	912	c.830A>C	c.(829-831)GAG>GCG	p.E277A	AMACR_uc003jih.2_3'UTR|AMACR_uc003jii.2_Missense_Mutation_p.E262A|AMACR_uc003jij.2_Missense_Mutation_p.E277A	NM_014324	NP_055139	Q9UHK6	AMACR_HUMAN	alpha-methylacyl-CoA racemase isoform 1	277					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	mitochondrion|peroxisomal matrix	alpha-methylacyl-CoA racemase activity				0						CTTCGTCTTCTCTGCAAATAC	0.443000													4	59					0	0	0.009096	0	0	
PCDHA9	9752	broad.mit.edu	37	5	140229393	140229393	+	Missense_Mutation	SNP	C	T	T			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr5:140229393C>T	uc003lhu.2	+	1	2037	c.1313C>T	c.(1312-1314)ACG>ATG	p.T438M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.T438M	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	438	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGTGGGCCACGGCCAGGGTG	0.657000													59	111					0	0	0.014410	0	0	
PCDHGA9	56107	broad.mit.edu	37	5	140782934	140782934	+	Missense_Mutation	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr5:140782934G>A	uc003lkh.1	+	1	415	c.415G>A	c.(415-417)GAA>AAA	p.E139K	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Missense_Mutation_p.E139K	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	139	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGAAAGTCTGGAAGTAAAAAT	0.458000													48	94					0	0	0.014410	0	0	
PCDHGA9	56107	broad.mit.edu	37	5	140782949	140782949	+	Missense_Mutation	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr5:140782949G>A	uc003lkh.1	+	1	430	c.430G>A	c.(430-432)GAA>AAA	p.E144K	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Missense_Mutation_p.E144K	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	144	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAAAATTAACGAAATCGCGGT	0.473000													44	94					0	0	0.009718	0	0	
PIP5K1P1	206426	broad.mit.edu	37	6	7988124	7988124	+	Missense_Mutation	SNP	G	A	A	rs113626281		TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr6:7988124G>A	uc003mxx.3	+	1	1790	c.1355G>A	c.(1354-1356)CGG>CAG	p.R452Q	TXNDC5_uc003mxw.2_Intron	NR_027712				RecName: Full=Phosphatidylinositol-4-phosphate 5-kinase type-1 alpha;          Short=PtdIns(4)P-5-kinase alpha;          Short=PIP5KIalpha;          EC=2.7.1.68; AltName: Full=Phosphatidylinositol-4-phosphate 5-kinase type I alpha; AltName: Full=68 kDa type I phosphatidylinositol-4-phosphate 5-kinase alpha;												0						AAAAAGTTTCGGTCTGGCTTA	0.488000													13	90					0	0	0.013537	0	0	
C6orf127	340204	broad.mit.edu	37	6	35754860	35754860	+	Missense_Mutation	SNP	C	T	T			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr6:35754860C>T	uc003old.3	+	2	242	c.185C>T	c.(184-186)GCG>GTG	p.A62V		NM_001010886	NP_001010886	A2RUU4	CF127_HUMAN	hypothetical protein LOC340204 precursor	62					digestion|lipid catabolic process	extracellular region	enzyme activator activity			skin(1)	1						TCGCACTGCGCGGAGAAGGGG	0.662000													6	12					0	0	0.001984	0	0	
PTPRK	5796	broad.mit.edu	37	6	128643430	128643430	+	Silent	SNP	T	G	G			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr6:128643430T>G	uc003qbk.2	-	3	616	c.249A>C	c.(247-249)TCA>TCC	p.S83S	PTPRK_uc003qbj.2_Silent_p.S83S|PTPRK_uc010kfc.2_Silent_p.S83S|PTPRK_uc011ebu.1_Silent_p.S83S|PTPRK_uc003qbl.1_Intron|PTPRK_uc011ebv.1_Silent_p.S83S|PTPRK_uc003qbm.3_Silent_p.S12S	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	83	Extracellular (Potential).|MAM.				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		GGTCGTGATCTGAAGAGTCCA	0.358000													13	117					0	0	0.020292	0	0	
SDK1	221935	broad.mit.edu	37	7	4188947	4188947	+	Missense_Mutation	SNP	C	T	T	rs146602325		TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr7:4188947C>T	uc003smx.2	+	30	4616	c.4477C>T	c.(4477-4479)CGC>TGC	p.R1493C	SDK1_uc010kso.2_Missense_Mutation_p.R769C|SDK1_uc003smy.2_Translation_Start_Site	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1493	Fibronectin type-III 9.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		AGTGACCGCACGCAGCCTCCG	0.677000													3	18					0	0	0.004672	0	0	
PMS2CL	441194	broad.mit.edu	37	7	6785797	6785797	+	RNA	SNP	C	T	T	rs141880038	by1000genomes	TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr7:6785797C>T	uc003squ.2	+	11		c.1943C>T			PMS2CL_uc003sqv.1_RNA					Homo sapiens PMS2CL mRNA for PMS2-C terminal -like, complete cds.												0						AGAATGGCTTCGATTTTGTTA	0.229000													4	24					0	0	0.021553	0	0	
AHR	196	broad.mit.edu	37	7	17379566	17379566	+	Missense_Mutation	SNP	C	T	T			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr7:17379566C>T	uc011jxz.1	+	10	2730	c.2117C>T	c.(2116-2118)CCT>CTT	p.P706L	AHR_uc003stt.3_RNA	NM_001621	NP_001612	P35869	AHR_HUMAN	aryl hydrocarbon receptor precursor	706					apoptosis|blood vessel development|cell cycle|regulation of B cell proliferation|response to stress|transcription from RNA polymerase II promoter|xenobiotic metabolic process	cytosolic aryl hydrocarbon receptor complex|transcription factor complex	Hsp90 protein binding|ligand-dependent nuclear receptor activity|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			urinary_tract(1)|kidney(1)|pancreas(1)	3	Lung NSC(10;0.0392)|all_lung(11;0.0754)					TGTAATCAGCCTGTATTACCA	0.398000													44	114					0	0	0.007835	0	0	
HDAC9	9734	broad.mit.edu	37	7	18705931	18705931	+	Silent	SNP	C	T	T			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr7:18705931C>T	uc003suh.2	+	11	1595	c.1554C>T	c.(1552-1554)GAC>GAT	p.D518D	HDAC9_uc003sue.2_Silent_p.D518D|HDAC9_uc011jyd.1_Silent_p.D518D|HDAC9_uc003sui.2_Silent_p.D521D|HDAC9_uc003suj.2_Silent_p.D477D|HDAC9_uc011jya.1_Silent_p.D515D|HDAC9_uc003sua.1_Silent_p.D496D|HDAC9_uc011jyb.1_Silent_p.D474D|HDAC9_uc003sud.1_Silent_p.D518D|HDAC9_uc011jyc.1_Silent_p.D477D|HDAC9_uc003suf.1_Silent_p.D549D|HDAC9_uc010kud.1_Silent_p.D521D|HDAC9_uc011jye.1_Silent_p.D490D|HDAC9_uc011jyf.1_Silent_p.D441D|HDAC9_uc010kue.1_Intron	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	518					B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	TGCAGGAAGACAGAGCGCCCT	0.542000											OREG0017877	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	75					0	0	0.021022	0	0	
ST7	7982	broad.mit.edu	37	7	116869938	116869938	+	Missense_Mutation	SNP	A	C	C			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr7:116869938A>C	uc011knn.1	+	14	1470	c.1465A>C	c.(1465-1467)ACC>CCC	p.T489P	ST7_uc003vio.2_3'UTR|ST7_uc003viq.2_3'UTR|ST7_uc011knm.1_3'UTR|ST7_uc003vir.2_3'UTR	NM_021908	NP_068708	Q9NRC1	ST7_HUMAN	suppression of tumorigenicity 7 isoform b	Error:Variant_position_missing_in_Q9NRC1_after_alignment						integral to membrane	binding			central_nervous_system(1)|skin(1)	2	all_cancers(3;3.88e-07)|all_epithelial(6;3.42e-07)|Lung NSC(10;0.00072)|all_lung(10;0.000847)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		CACTCACCTCACCCGCCGCTG	0.507000													112	308					0	0	0.014410	0	0	
WRN	7486	broad.mit.edu	37	8	30977918	30977918	+	Missense_Mutation	SNP	C	T	T			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr8:30977918C>T	uc003xio.3	+	21	3396	c.2608C>T	c.(2608-2610)CCT>TCT	p.P870S	WRN_uc010lvk.2_Missense_Mutation_p.P337S	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	870	Helicase C-terminal.				base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		CCTCTGGGCTCCTGCAGACAT	0.373000			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				29	91					0	0	0.027356	0	0	
FUT10	84750	broad.mit.edu	37	8	33230241	33230241	+	Missense_Mutation	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr8:33230241G>A	uc003xje.2	-	5	1650	c.1294C>T	c.(1294-1296)CGG>TGG	p.R432W	FUT10_uc003xjc.2_Missense_Mutation_p.R439W|FUT10_uc003xjd.2_Missense_Mutation_p.R404W|FUT10_uc011lbi.1_Missense_Mutation_p.R482W	NM_032664	NP_116053	Q6P4F1	FUT10_HUMAN	fucosyltransferase 10	432	Lumenal (Potential).				embryo development|fertilization|hemopoiesis|L-fucose catabolic process|nervous system development|protein folding|protein glycosylation|protein targeting|wound healing	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			ovary(1)|pancreas(1)	2				KIRC - Kidney renal clear cell carcinoma(67;0.129)|Kidney(114;0.154)		GGTGGAGTCCGGAGTGGTGAG	0.507000													21	55					0	0	0.010504	0	0	
DEPDC6	64798	broad.mit.edu	37	8	120942125	120942125	+	Missense_Mutation	SNP	C	G	G			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr8:120942125C>G	uc003yow.3	+	3	559	c.372C>G	c.(370-372)TTC>TTG	p.F124L	DEPDC6_uc011lid.1_Intron	NM_022783	NP_073620	Q8TB45	DPTOR_HUMAN	DEP domain containing 6	124					intracellular signal transduction|negative regulation of cell size|negative regulation of protein kinase activity|negative regulation of TOR signaling cascade|regulation of apoptosis	intracellular	protein binding				0	Lung NSC(37;9.35e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			ACGGCACCTTCCCATTGGATA	0.408000													65	95					0	0	0.014410	0	0	
FAM47B	170062	broad.mit.edu	37	X	34962140	34962140	+	Missense_Mutation	SNP	C	T	T			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chrX:34962140C>T	uc004ddi.1	+	1	1210	c.1192C>T	c.(1192-1194)CGC>TGC	p.R398C		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	398										ovary(3)|breast(1)	4						GCCCCATCTCCGCCTGGTGCT	0.582000													7	66					0	0	0.001984	0	0	
SHROOM4	57477	broad.mit.edu	37	X	50376816	50376816	+	Missense_Mutation	SNP	C	T	T			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chrX:50376816C>T	uc004dpe.2	-	4	2283	c.2257G>A	c.(2257-2259)GAA>AAA	p.E753K	SHROOM4_uc004dpd.3_RNA|SHROOM4_uc004dpf.1_Missense_Mutation_p.E637K	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	753					actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					GCCTTCAATTCCTTGTTGTCA	0.498000													11	87					0	0	0.008291	0	0	
TRMT2B	79979	broad.mit.edu	37	X	100274308	100274308	+	Missense_Mutation	SNP	A	G	G			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chrX:100274308A>G	uc004egq.2	-	11	1552	c.1253T>C	c.(1252-1254)ATT>ACT	p.I418T	TRMT2B_uc004egp.2_RNA|TRMT2B_uc004egr.2_Missense_Mutation_p.I418T|TRMT2B_uc004egs.2_Missense_Mutation_p.I418T|TRMT2B_uc004egt.2_Missense_Mutation_p.I418T|TRMT2B_uc004egu.2_Missense_Mutation_p.I299T|TRMT2B_uc004egv.2_Missense_Mutation_p.I373T	NM_024917	NP_079193	Q96GJ1	TRM2_HUMAN	TRM2 tRNA methyltransferase 2 homolog B	418							tRNA (uracil-5-)-methyltransferase activity			ovary(1)	1						CACAGCAACAATTGACTGTCC	0.468000													11	55					0	0	0.008291	0	0	
F9	2158	broad.mit.edu	37	X	138633424	138633424	+	Splice_Site	SNP	G	A	A			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chrX:138633424G>A	uc004fas.1	+	6	752	c.723_splice	c.e6+1	p.Q241_splice	F9_uc004fat.1_Splice_Site_p.Q203_splice	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein						blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)	CCCTTGGCAGGTACTTTATAC	0.458000													27	31					0	0	0.027356	0	0	
LMTK3	114783	broad.mit.edu	37	19	49000878	49000886	+	In_Frame_Del	DEL	GCGGTGGCG	-	-	rs72051300		TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr19:49000878_49000886delGCGGTGGCG	uc002pjk.2	-	12	3527_3535	c.3527_3535delCGCCACCGC	c.(3526-3537)CCGCCACCGCTG>CTG	p.PPP1176del		NM_001080434	NP_001073903			lemur tyrosine kinase 3											lung(5)|central_nervous_system(1)	6		all_lung(116;0.000147)|Lung NSC(112;0.000251)|all_epithelial(76;0.000326)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000114)|all cancers(93;0.000141)|Epithelial(262;0.00854)|GBM - Glioblastoma multiforme(486;0.0231)		ggcggtggcagcggtggcggcggtggctg	0.526													4	5	---	---	---	---						.
SOX11	6664	broad.mit.edu	37	2	5833478	5833480	+	In_Frame_Del	DEL	GGC	-	-			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr2:5833478_5833480delGGC	uc002qyj.2	+	1	680_682	c.625_627delGGC	c.(625-627)GGCdel	p.G212del		NM_003108	NP_003099	P35716	SOX11_HUMAN	SRY-box 11	212	Poly-Gly.				cardiac ventricle formation|closure of optic fissure|cornea development in camera-type eye|embryonic digestive tract morphogenesis|embryonic skeletal system morphogenesis|eyelid development in camera-type eye|glial cell proliferation|hard palate development|lens morphogenesis in camera-type eye|limb bud formation|lung morphogenesis|negative regulation of cell death|negative regulation of glial cell proliferation|negative regulation of lymphocyte proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|neural crest cell development|neural tube formation|neuroepithelial cell differentiation|noradrenergic neuron differentiation|outflow tract morphogenesis|positive regulation of BMP signaling pathway|positive regulation of hippo signaling cascade|positive regulation of hormone secretion|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of ossification|positive regulation of osteoblast differentiation|positive regulation of stem cell proliferation|regulation of transforming growth factor beta receptor signaling pathway|signal transduction involved in G1/S transition checkpoint|soft palate development|somite development|spinal cord development|sympathetic nervous system development|ventricular septum morphogenesis	cytoplasm|nucleolus	enhancer sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|RNA polymerase II transcription coactivator activity|translation factor activity, nucleic acid binding			central_nervous_system(3)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			OV - Ovarian serous cystadenocarcinoma(76;0.132)		GAGCGGCTCGGGCGGCGGCGGCG	0.517													2	4	---	---	---	---						.
CENPC1	1060	broad.mit.edu	37	4	68383923	68383923	+	Frame_Shift_Del	DEL	T	-	-			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr4:68383923delT	uc003hdd.1	-	7	964	c.781delA	c.(781-783)AGTfs	p.S261fs	CENPC1_uc010ihj.1_RNA|CENPC1_uc010ihk.1_RNA|CENPC1_uc010ihm.1_Frame_Shift_Del_p.S261fs	NM_001812	NP_001803	Q03188	CENPC_HUMAN	centromere protein C 1	261	Nuclear localization signal (Potential).				mitotic prometaphase	condensed chromosome kinetochore|condensed nuclear chromosome, centromeric region|cytosol	DNA binding			urinary_tract(1)|lung(1)	2						GTTGAAAAACTTTTTTTAGCT	0.313													2	4	---	---	---	---						.
