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
CROCCL1	84809	broad.mit.edu	37	1	16946434	16946434	+	RNA	SNP	C	T	T	rs367060		TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr1:16946434C>T	uc010ocf.1	-	3		c.464G>A			CROCCL1_uc009vov.1_RNA|CROCCL1_uc001aze.2_RNA|CROCCL1_uc001azf.2_RNA					Homo sapiens mRNA for FLJ00313 protein.												0						CTCAGCCTTCCGCCGGGCCAG	0.672000													6	41					0	0	0.021553	0	0
CROCCL1	84809	broad.mit.edu	37	1	16946438	16946438	+	RNA	SNP	G	A	A	rs28392876	by1000genomes	TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr1:16946438G>A	uc010ocf.1	-	3		c.460C>T			CROCCL1_uc009vov.1_RNA|CROCCL1_uc001aze.2_RNA|CROCCL1_uc001azf.2_RNA					Homo sapiens mRNA for FLJ00313 protein.												0						GCCTTCCGCCGGGCCAGCAGC	0.672000													5	37					0	0	0.014758	0	0
UBR4	23352	broad.mit.edu	37	1	19420561	19420561	+	Missense_Mutation	SNP	G	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr1:19420561G>T	uc001bbi.2	-	95	13823	c.13819C>A	c.(13819-13821)CGC>AGC	p.R4607S	UBR4_uc010ocv.1_Missense_Mutation_p.R130S|UBR4_uc009vph.2_Missense_Mutation_p.R241S|UBR4_uc010ocw.1_Missense_Mutation_p.R271S|UBR4_uc001bbg.2_Missense_Mutation_p.R318S|UBR4_uc001bbh.2_Missense_Mutation_p.R316S	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	4607					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		GGGTTGGAGCGAACAAAGGTG	0.532000													9	28					9.70103e-10	1.05325e-09	0.069234	1	0
ZYG11B	79699	broad.mit.edu	37	1	53236935	53236935	+	Missense_Mutation	SNP	C	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr1:53236935C>A	uc001cuj.2	+	3	635	c.440C>A	c.(439-441)ACT>AAT	p.T147N	ZYG11B_uc009vzg.2_RNA|ZYG11B_uc010onj.1_Missense_Mutation_p.T138N	NM_024646	NP_078922	Q9C0D3	ZY11B_HUMAN	zyg-11 homolog B	147							protein binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						AATTCATTAACTCTCTCCCTC	0.478000													18	39					4.35082e-09	4.67918e-09	0.055883	1	0
SGIP1	84251	broad.mit.edu	37	1	67138996	67138996	+	Missense_Mutation	SNP	C	A	A	rs142151342		TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr1:67138996C>A	uc001dcr.2	+	12	810	c.593C>A	c.(592-594)GCT>GAT	p.A198D	SGIP1_uc010opd.1_5'UTR|SGIP1_uc001dcs.2_5'UTR|SGIP1_uc001dct.2_5'UTR|uc010ope.1_Intron|SGIP1_uc009wat.2_5'UTR	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	198	Pro-rich.				positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						ACGGCCCTTGCTCCTCTCTTT	0.363000													76	162					1.02218e-41	1.22662e-41	0.048971	1	0
BCAR3	8412	broad.mit.edu	37	1	94054731	94054731	+	Silent	SNP	C	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr1:94054731C>T	uc001dpz.2	-	5	1007	c.732G>A	c.(730-732)CAG>CAA	p.Q244Q	BCAR3_uc001dqa.2_Silent_p.Q244Q|BCAR3_uc001dqb.2_Silent_p.Q244Q|BCAR3_uc001dpy.2_Silent_p.Q153Q|uc009wdn.2_5'Flank	NM_003567	NP_003558	O75815	BCAR3_HUMAN	breast cancer antiestrogen resistance 3	244	SH2.				response to drug|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3		all_lung(203;0.00145)|Lung NSC(277;0.00662)		all cancers(265;0.0126)|GBM - Glioblastoma multiforme(16;0.0467)|Epithelial(280;0.166)		TGGCGCCACTCTGCTGGGAGA	0.667000													25	41					0	0	0.037714	0	0
ATP1A1	476	broad.mit.edu	37	1	116931576	116931576	+	Missense_Mutation	SNP	A	C	C			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr1:116931576A>C	uc001ege.2	+	7	1028	c.689A>C	c.(688-690)GAT>GCT	p.D230A	ATP1A1_uc010owv.1_Missense_Mutation_p.D199A|ATP1A1_uc010oww.1_Missense_Mutation_p.D230A|ATP1A1_uc010owx.1_Missense_Mutation_p.D199A	NM_000701	NP_000692	P05023	AT1A1_HUMAN	Na+/K+ -ATPase alpha 1 subunit isoform a	230	Cytoplasmic (Potential).				ATP biosynthetic process	melanosome|sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;1.28e-06)|all_epithelial(167;3.48e-07)|all_lung(203;2.64e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0164)|LUSC - Lung squamous cell carcinoma(189;0.0548)|Colorectal(144;0.0825)|COAD - Colon adenocarcinoma(174;0.127)|all cancers(265;0.24)	Acetyldigitoxin(DB00511)|Almitrine(DB01430)|Aluminium(DB01370)|Bepridil(DB01244)|Bretylium(DB01158)|Captopril(DB01197)|Deslanoside(DB01078)|Diazoxide(DB01119)|Digitoxin(DB01396)|Digoxin(DB00390)|Esomeprazole(DB00736)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Ouabain(DB01092)|Pantoprazole(DB00213)|Trichlormethiazide(DB01021)	AGGTCTCCAGATTTCACAAAT	0.453000													33	50					0	0	0.059317	0	0
PGLYRP3	114771	broad.mit.edu	37	1	153279661	153279661	+	Nonsense_Mutation	SNP	G	C	C			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr1:153279661G>C	uc001fbn.1	-	2	191	c.138C>G	c.(136-138)TAC>TAG	p.Y46*		NM_052891	NP_443123	Q96LB9	PGRP3_HUMAN	peptidoglycan recognition protein 3 precursor	46					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptidoglycan catabolic process	extracellular region|intracellular|membrane	N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4	all_lung(78;3.35e-32)|Lung NSC(65;1.22e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			CTGTGATGATGTAGGCCACAG	0.622000													16	38					0	0	0.055883	0	0
NODAL	4838	broad.mit.edu	37	10	72195424	72195424	+	Missense_Mutation	SNP	T	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr10:72195424T>A	uc001jrc.2	-	2	551	c.509A>T	c.(508-510)GAG>GTG	p.E170V		NM_018055	NP_060525	Q96S42	NODAL_HUMAN	nodal precursor	170					growth	extracellular space	cytokine activity|growth factor activity			large_intestine(1)|kidney(1)	2						CATCTGCTTCTCCAGGGCCCC	0.602000													30	60					0	0	0.050027	0	0
NOLC1	9221	broad.mit.edu	37	10	103917239	103917239	+	Missense_Mutation	SNP	C	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr10:103917239C>T	uc001kuo.2	+	4	603	c.368C>T	c.(367-369)GCA>GTA	p.A123V	NOLC1_uc001kup.2_Missense_Mutation_p.A123V|NOLC1_uc001kuq.2_Missense_Mutation_p.A124V|NOLC1_uc009xxb.1_5'UTR|NOLC1_uc001kur.2_Intron	NM_004741	NP_004732	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	123	11 X 12 AA approximate repeats of an acidic serine cluster.				mitosis|rRNA processing	cytoplasm|nucleolus	ATP binding|GTP binding|protein binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		GCAGCCAAAGCATCAGAGAGT	0.512000													13	34					0	0	0.038395	0	0
BRSK2	9024	broad.mit.edu	37	11	1466623	1466623	+	Silent	SNP	C	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr11:1466623C>T	uc001lti.2	+	10	1298	c.912C>T	c.(910-912)GAC>GAT	p.D304D	BRSK2_uc009ycv.1_Silent_p.D304D|BRSK2_uc001lth.1_Silent_p.D304D|BRSK2_uc001ltj.2_Silent_p.D304D|BRSK2_uc001ltk.2_RNA|BRSK2_uc001ltl.2_Silent_p.D304D|BRSK2_uc001ltm.2_Silent_p.D350D|BRSK2_uc001ltn.2_RNA|BRSK2_uc010qwx.1_RNA	NM_003957	NP_003948	Q8IWQ3	BRSK2_HUMAN	BR serine/threonine kinase 2	304	UBA.				establishment of cell polarity|neuron differentiation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity				0		all_epithelial(84;4.17e-05)|Breast(177;0.000307)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00144)|Lung(200;0.0713)|LUSC - Lung squamous cell carcinoma(625;0.0842)		ACGTGCTGGACAGCATGCACT	0.667000													18	25					0	0	0.055883	0	0
LOC650368	650368	broad.mit.edu	37	11	3427845	3427845	+	RNA	SNP	C	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr11:3427845C>T	uc010qxs.1	+	9		c.838C>T			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						CTTCAAGTGGCAGGAGCAGAA	0.587000													10	133					0	0	0.058154	0	0
EIF3M	10480	broad.mit.edu	37	11	32623898	32623898	+	Missense_Mutation	SNP	A	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr11:32623898A>T	uc001mtu.2	+	11	1121	c.1078A>T	c.(1078-1080)AAT>TAT	p.N360Y	CCDC73_uc001mtv.2_3'UTR|EIF3M_uc010ref.1_Missense_Mutation_p.N228Y	NM_006360	NP_006351	Q7L2H7	EIF3M_HUMAN	eukaryotic translation initiation factor 3,	360	Interaction with HSV-1 and HSV-2.					eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)|breast(1)|skin(1)	3	Breast(20;0.109)					CTGGAAACAAAATCTGAACAA	0.328000													8	11					0	0	0.058154	0	0
TMX2	51075	broad.mit.edu	37	11	57480106	57480106	+	Missense_Mutation	SNP	C	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr11:57480106C>A	uc001nlc.1	+	1	65	c.16C>A	c.(16-18)CCT>ACT	p.P6T	CTNND1_uc001nlf.1_5'UTR|MED19_uc001nla.1_5'Flank|MED19_uc001nlb.2_5'Flank|TMX2_uc001nld.1_5'UTR|TMX2_uc001nle.1_Missense_Mutation_p.P6T	NM_015959	NP_057043	Q9Y320	TMX2_HUMAN	thioredoxin domain containing 14 isoform 1	6					cell redox homeostasis	integral to membrane					0						GGTCTTGGCACCTCTAATTGC	0.592000													19	41					4.4004e-07	4.64487e-07	0.018920	1	0
FAU	2197	broad.mit.edu	37	11	64889268	64889269	+	Missense_Mutation	DNP	GC	TG	TG			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr11:64889268_64889269GC>TG	uc001ocx.2	-	2	124_125	c.17_18GC>CA	c.(16-18)CGC>CCA	p.R6P	FAU_uc001ocy.1_Missense_Mutation_p.R6P|MRPL49_uc001ocz.1_5'Flank|MRPL49_uc001oda.1_5'Flank	NM_001997	NP_001988	P35544	UBIM_HUMAN	ubiquitin-like protein fubi and ribosomal	6											0						GCTCCTGGGCGCGGACAAAGAG	0.535000													28	96					0	0	0.004672	0	0
SIK2	23235	broad.mit.edu	37	11	111590501	111590501	+	Silent	SNP	C	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr11:111590501C>T	uc001plt.2	+	10	1387	c.1269C>T	c.(1267-1269)GTC>GTT	p.V423V		NM_015191	NP_056006	Q9H0K1	SIK2_HUMAN	SNF1-like kinase 2	423					intracellular protein kinase cascade|regulation of insulin receptor signaling pathway	Golgi apparatus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|skin(1)	3						GCGTTTAGGTCAATGGCTGTC	0.517000													17	29					0	0	0.049695	0	0
OAF	220323	broad.mit.edu	37	11	120097580	120097581	+	Missense_Mutation	DNP	AC	CA	CA			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr11:120097580_120097581AC>CA	uc001pxb.2	+	3	663_664	c.422_423AC>CA	c.(421-423)CAC>CCA	p.H141P		NM_178507	NP_848602	Q86UD1	OAF_HUMAN	OAF homolog precursor	141											0		Breast(109;0.00663)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)		GAGCATCTGCACATGGATGTCG	0.619000													30	106					0	0	0.004672	0	0
NFE2	4778	broad.mit.edu	37	12	54689074	54689074	+	Translation_Start_Site	SNP	G	C	C			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr12:54689074G>C	uc009znk.2	-	1	469	c.-41C>G	c.(-43--39)ATCTG>ATGTG		NFE2_uc001sfq.2_Translation_Start_Site|NFE2_uc001sfr.3_Translation_Start_Site|NFE2_uc009znl.2_Translation_Start_Site	NM_006163	NP_006154	Q16621	NFE2_HUMAN	nuclear factor, erythroid derived 2 isoform 1						blood circulation|blood coagulation|multicellular organismal development|nucleosome disassembly|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	actin cytoskeleton|cytoplasm|PML body	protein dimerization activity|protein N-terminus binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|WW domain binding				0						GGAAAGCCCAGATGGCTCTAG	0.562000													22	64					0	0	0.055883	0	0
SMARCC2	6601	broad.mit.edu	37	12	56558312	56558312	+	Missense_Mutation	SNP	T	G	G			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr12:56558312T>G	uc001skb.2	-	27	3449	c.3343A>C	c.(3343-3345)AAC>CAC	p.N1115H	SMARCC2_uc001skd.2_Intron|SMARCC2_uc001ska.2_Intron|SMARCC2_uc001skc.2_Intron|SMARCC2_uc010sqf.1_Intron	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	1115	Pro-rich.				chromatin remodeling|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			lung(2)|central_nervous_system(2)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(18;0.123)			CCATGCAGGTTAGGAGGAGCG	0.592000													97	124					0	0	0.048971	0	0
GLI1	2735	broad.mit.edu	37	12	57861143	57861143	+	Missense_Mutation	SNP	C	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr12:57861143C>A	uc001snx.2	+	9	1018	c.940C>A	c.(940-942)CGC>AGC	p.R314S	GLI1_uc009zpq.2_Missense_Mutation_p.R186S	NM_005269	NP_005260	P08151	GLI1_HUMAN	GLI family zinc finger 1 isoform 1	314	C2H2-type 3.				epidermal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|osteoblast differentiation|positive regulation of DNA replication|positive regulation of smoothened signaling pathway|positive regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	transcription regulatory region DNA binding|zinc ion binding			skin(4)|ovary(4)|breast(3)|central_nervous_system(1)|urinary_tract(1)|kidney(1)|pancreas(1)	15			GBM - Glioblastoma multiforme(3;3.99e-32)			GTCATACTCACGCCTCGAAAA	0.542000													29	126					9.17885e-22	1.07875e-21	0.059317	1	0
C12orf66	144577	broad.mit.edu	37	12	64615826	64615826	+	Silent	SNP	G	C	C			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr12:64615826G>C	uc001srw.3	-	1	251	c.192C>G	c.(190-192)GCC>GCG	p.A64A	uc001srx.2_5'Flank|C12orf66_uc009zql.2_Intron	NM_152440	NP_689653	Q96MD2	CL066_HUMAN	hypothetical protein LOC144577	64										ovary(1)	1						AGACCTTCTCGGCCGCGGCCA	0.637000													10	28					0	0	0.024245	0	0
PEBP1	5037	broad.mit.edu	37	12	118577333	118577333	+	Missense_Mutation	SNP	G	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr12:118577333G>A	uc001twu.1	+	3	468	c.323G>A	c.(322-324)GGC>GAC	p.G108D	PEBP1_uc010szc.1_Missense_Mutation_p.G108D	NM_002567	NP_002558	P30086	PEBP1_HUMAN	prostatic binding protein	108							ATP binding|phosphatidylethanolamine binding|serine-type endopeptidase inhibitor activity			ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GATTATGTGGGCTCGGGGCCT	0.522000								Direct_reversal_of_damage					79	118					0	0	0.048971	0	0
PARP4	143	broad.mit.edu	37	13	25067776	25067776	+	Silent	SNP	T	C	C			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr13:25067776T>C	uc001upl.2	-	8	943	c.837A>G	c.(835-837)GAA>GAG	p.E279E	PARP4_uc010tdc.1_Silent_p.E279E	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	279	PARP alpha-helical.				cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		GAAGCATGTGTTCCAGGTGGC	0.478000													4	13					0	0	0.029380	0	0
RNF31	55072	broad.mit.edu	37	14	24617213	24617213	+	Missense_Mutation	SNP	C	G	G			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr14:24617213C>G	uc001wmn.1	+	2	470	c.221C>G	c.(220-222)ACG>AGG	p.T74R	PSME2_uc001wmj.2_5'Flank|PSME2_uc001wmk.2_5'Flank|RNF31_uc001wml.1_5'UTR|RNF31_uc001wmm.1_Intron|RNF31_uc010alg.1_5'UTR|RNF31_uc001wmo.1_5'Flank	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	74	Polyubiquitin-binding.				CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		ACCCTGTCCACGGCTCTGAAC	0.607000													46	95					0	0	0.048971	0	0
SERPINA1	5265	broad.mit.edu	37	14	94849213	94849213	+	Missense_Mutation	SNP	T	G	G			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr14:94849213T>G	uc001ycx.3	-	2	623	c.362A>C	c.(361-363)CAG>CCG	p.Q121P	SERPINA1_uc001ycw.3_RNA|SERPINA1_uc010auw.2_Missense_Mutation_p.Q121P|SERPINA1_uc010aux.2_Missense_Mutation_p.Q121P|SERPINA1_uc001ycy.3_Missense_Mutation_p.Q121P|SERPINA1_uc010auy.2_Missense_Mutation_p.Q121P|SERPINA1_uc001ycz.3_Missense_Mutation_p.Q121P|SERPINA1_uc010auz.2_Missense_Mutation_p.Q121P|SERPINA1_uc010ava.2_Missense_Mutation_p.Q121P|SERPINA1_uc001ydb.3_Missense_Mutation_p.Q121P|SERPINA1_uc010avb.2_Missense_Mutation_p.Q121P|SERPINA1_uc001ydc.3_Missense_Mutation_p.Q121P|SERPINA1_uc001yda.1_Missense_Mutation_p.Q121P	NM_000295	NP_000286	P01009	A1AT_HUMAN	serine proteinase inhibitor, clade A, member 1	121					acute-phase response|platelet activation|platelet degranulation|regulation of proteolysis	extracellular space|platelet alpha granule lumen|proteinaceous extracellular matrix	protease binding|serine-type endopeptidase inhibitor activity			skin(1)	1		all_cancers(154;0.0649)|all_epithelial(191;0.223)		Epithelial(152;0.135)|COAD - Colon adenocarcinoma(157;0.207)|all cancers(159;0.221)	Alpha-1-proteinase inhibitor(DB00058)	GAGGAGTTCCTGGAAGCCTTC	0.572000									Alpha-1-Antitrypsin_Deficiency				26	86					0	0	0.018920	0	0
WDR20	91833	broad.mit.edu	37	14	102675938	102675938	+	Silent	SNP	T	C	C			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr14:102675938T>C	uc001ykz.2	+	3	1480	c.1431T>C	c.(1429-1431)GAT>GAC	p.D477D	WDR20_uc001yky.1_Silent_p.D220D|WDR20_uc001yla.2_Silent_p.D353D|WDR20_uc001ylb.2_Silent_p.D416D|WDR20_uc010txu.1_Silent_p.D508D|WDR20_uc001ylc.2_Intron|WDR20_uc001yld.2_Silent_p.D477D|WDR20_uc001yle.2_Silent_p.D416D|WDR20_uc001ylf.2_Silent_p.D489D	NM_144574	NP_653175	Q8TBZ3	WDR20_HUMAN	WD repeat domain 20 isoform 2	477											0						ACGAGAAAGATCACAAGCGAA	0.473000											OREG0022939	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	62	136					0	0	0.048971	0	0
PLCB2	5330	broad.mit.edu	37	15	40590557	40590557	+	Missense_Mutation	SNP	G	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr15:40590557G>A	uc001zld.2	-	11	1323	c.1022C>T	c.(1021-1023)TCG>TTG	p.S341L	PLCB2_uc010bbo.2_Missense_Mutation_p.S341L|PLCB2_uc010ucm.1_Missense_Mutation_p.S341L	NM_004573	NP_004564	Q00722	PLCB2_HUMAN	phospholipase C, beta 2	341	PI-PLC X-box.				activation of phospholipase C activity|intracellular signal transduction|lipid catabolic process|phospholipid metabolic process|synaptic transmission	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)|breast(3)|kidney(1)|pancreas(1)	8		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0508)		CATCTCAGCCGAGGAGAGGCC	0.627000													24	68					0	0	0.027356	0	0
ANKDD1A	348094	broad.mit.edu	37	15	65239709	65239709	+	Missense_Mutation	SNP	G	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr15:65239709G>T	uc002aoa.2	+	13	1276	c.1247G>T	c.(1246-1248)TGG>TTG	p.W416L	ANKDD1A_uc002aoc.2_RNA|ANKDD1A_uc010bha.2_Missense_Mutation_p.W293L	NM_182703	NP_874362	Q495B1	AKD1A_HUMAN	ankyrin repeat and death domain containing 1A	416	Death.				signal transduction					ovary(1)	1						TCTGTGCTGTGGCGGCTGGCC	0.597000													10	24					2.35188e-11	2.60305e-11	0.038395	1	0
DENND4A	10260	broad.mit.edu	37	15	65989618	65989618	+	Missense_Mutation	SNP	A	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr15:65989618A>T	uc002aph.2	-	20	3183	c.2805T>A	c.(2803-2805)AGT>AGA	p.S935R	DENND4A_uc002api.2_Missense_Mutation_p.S978R|DENND4A_uc002apj.3_Missense_Mutation_p.S935R	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	935					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						AACTACAATCACTCCCTTTTT	0.303000													3	29					0	0	0.004672	0	0
FAM154B	283726	broad.mit.edu	37	15	82574679	82574679	+	Missense_Mutation	SNP	A	C	C			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr15:82574679A>C	uc002bgv.2	+	3	542	c.473A>C	c.(472-474)CAT>CCT	p.H158P	FAM154B_uc010unr.1_Missense_Mutation_p.H143P|FAM154B_uc010uns.1_RNA	NM_001008226	NP_001008227	Q658L1	F154B_HUMAN	hypothetical protein LOC283726	158										skin(2)	2						TATATACCTCATCAGCTTGAA	0.433000													9	37					0	0	0.047766	0	0
IFT140	9742	broad.mit.edu	37	16	1574816	1574816	+	Missense_Mutation	SNP	C	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr16:1574816C>T	uc002cmb.2	-	23	3328	c.2966G>A	c.(2965-2967)CGC>CAC	p.R989H	IFT140_uc002clz.2_Missense_Mutation_p.R602H	NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140	989										ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)				GCAGTGGATGCGGACCAGGGA	0.662000													5	236					0	0	0.021553	0	0
PALB2	79728	broad.mit.edu	37	16	23646407	23646407	+	Missense_Mutation	SNP	A	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr16:23646407A>T	uc002dlx.1	-	4	1660	c.1460T>A	c.(1459-1461)GTC>GAC	p.V487D		NM_024675	NP_078951	Q86YC2	PALB2_HUMAN	partner and localizer of BRCA2	487					double-strand break repair via homologous recombination	nucleoplasm	DNA binding|protein binding			lung(3)|breast(3)|ovary(2)|skin(1)|kidney(1)|pancreas(1)	11				GBM - Glioblastoma multiforme(48;0.0167)		GGGAGAGCTGACTTTAGTTAA	0.458000			F|N|Mis			Wilms tumor|medulloblastoma|AML ,breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia_type_N|Fanconi_Anemia|PALB2-associated_Familial_Breast_and_Pancreatic_Cancer|Pancreatic_Cancer_Familial_Clustering_of				76	70					0	0	0.048971	0	0
RNF40	9810	broad.mit.edu	37	16	30776526	30776526	+	Missense_Mutation	SNP	A	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr16:30776526A>T	uc002dzq.2	+	7	919	c.796A>T	c.(796-798)ACA>TCA	p.T266S	C16orf93_uc002dzo.2_5'Flank|RNF40_uc010caa.2_Missense_Mutation_p.T266S|RNF40_uc010cab.2_Missense_Mutation_p.T266S|RNF40_uc010vfa.1_Intron|RNF40_uc002dzr.2_Missense_Mutation_p.T266S|RNF40_uc010vfb.1_Intron	NM_014771	NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40	266	Potential.				histone H2B ubiquitination|histone monoubiquitination|ubiquitin-dependent protein catabolic process	nucleus|synaptosome|ubiquitin ligase complex	protein homodimerization activity|ubiquitin protein ligase binding|zinc ion binding			central_nervous_system(1)	1			Colorectal(24;0.198)			GGATAAAGTGACATCGGCAGA	0.537000													67	189					0	0	0.048971	0	0
CYB5D1	124637	broad.mit.edu	37	17	7762716	7762716	+	Missense_Mutation	SNP	C	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr17:7762716C>T	uc002gjb.3	+	4	862	c.473C>T	c.(472-474)TCC>TTC	p.S158F	LSMD1_uc002giz.2_5'Flank|LSMD1_uc002gja.2_5'Flank|CYB5D1_uc010cnn.1_Intron	NM_144607	NP_653208	Q6P9G0	CB5D1_HUMAN	cytochrome b5 domain containing 1	158							heme binding			skin(1)	1		all_cancers(10;0.11)|Prostate(122;0.219)				GTTCTGGAGTCCATATGGGAA	0.502000													21	73					0	0	0.069288	0	0
LOC284100	284100	broad.mit.edu	37	17	36214775	36214775	+	RNA	SNP	G	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr17:36214775G>T	uc002hom.1	-	2		c.184C>A			LOC284100_uc002hon.1_RNA					Homo sapiens cDNA FLJ37577 fis, clone BRCOC2003513, moderately similar to 14-3-3 protein epsilon (14-3-3E).												0						CTTGCCAGTGGTAGCTGCTGG	0.353000													4	14					2.56e-06	2.67743e-06	0.009096	1	0
ERBB2	2064	broad.mit.edu	37	17	37876080	37876080	+	Silent	SNP	A	C	C			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr17:37876080A>C	uc002hso.2	+	16	2177	c.1939A>C	c.(1939-1941)AGA>CGA	p.R647R	ERBB2_uc002hsm.2_Silent_p.R617R|ERBB2_uc010cwa.2_Silent_p.R632R|ERBB2_uc002hsp.2_Silent_p.R450R|ERBB2_uc010cwb.2_Silent_p.R647R|ERBB2_uc010wek.1_Silent_p.R371R	NM_004448	NP_004439	P04626	ERBB2_HUMAN	erbB-2 isoform a	647	Extracellular (Potential).				cell proliferation|heart development|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of cell adhesion|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|protein autophosphorylation|regulation of angiogenesis|regulation of microtubule-based process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|wound healing	integral to membrane|nucleus|perinuclear region of cytoplasm|receptor complex	ATP binding|DNA binding|epidermal growth factor receptor activity|ErbB-3 class receptor binding|identical protein binding|protein C-terminus binding|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(73)|central_nervous_system(16)|ovary(16)|stomach(14)|breast(9)|upper_aerodigestive_tract(5)|large_intestine(3)|liver(3)|endometrium(2)|skin(1)|pancreas(1)	143	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)	Ovarian(249;0.0547)|Colorectal(1115;0.234)	UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;9.42e-64)|all cancers(3;5.61e-57)|BRCA - Breast invasive adenocarcinoma(8;2.5e-45)|STAD - Stomach adenocarcinoma(3;9.03e-13)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|OV - Ovarian serous cystadenocarcinoma(8;0.0917)|LUSC - Lung squamous cell carcinoma(15;0.171)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0767)	Lapatinib(DB01259)|Letrozole(DB01006)|Trastuzumab(DB00072)	CGCCGAGCAGAGAGCCAGGTT	0.597000		1	A|Mis|O		breast|ovarian|other tumour types|NSCLC|gastric					TCGA GBM(5;<1E-08)			45	250					0	0	0.048971	0	0
PLEKHH3	79990	broad.mit.edu	37	17	40822333	40822333	+	Missense_Mutation	SNP	G	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr17:40822333G>A	uc002iau.2	-	11	2083	c.1616C>T	c.(1615-1617)GCG>GTG	p.A539V	PLEKHH3_uc010cyl.1_RNA|PLEKHH3_uc002iat.1_RNA|PLEKHH3_uc002iav.2_RNA|PLEKHH3_uc010cym.1_Intron|PLEKHH3_uc002iaw.2_Missense_Mutation_p.A536V	NM_024927	NP_079203	Q7Z736	PKHH3_HUMAN	pleckstrin homology domain containing, family H	539	FERM.				signal transduction	cytoskeleton				large_intestine(1)|ovary(1)	2		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.14)		GCGCAGCGCCGCCAGGGCGCG	0.567000													2	1					0	0	0.004672	0	0
ATXN7L3	56970	broad.mit.edu	37	17	42275086	42275086	+	Nonsense_Mutation	SNP	C	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr17:42275086C>A	uc002iga.2	-	2	155	c.64G>T	c.(64-66)GAG>TAG	p.E22*	ATXN7L3_uc010wiv.1_5'Flank|ATXN7L3_uc002ifz.2_Nonsense_Mutation_p.E22*	NM_001098833	NP_001092303	Q14CW9	AT7L3_HUMAN	ataxin 7-like 3 isoform b	22					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity|metal ion binding|protein binding				0		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.113)		GCGTATATCTCCTGAGCGATG	0.577000													53	224					5.82388e-19	6.57349e-19	0.048971	1	0
TTLL6	284076	broad.mit.edu	37	17	46865176	46865176	+	Missense_Mutation	SNP	G	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr17:46865176G>A	uc010wlo.1	-	12	1621	c.1586C>T	c.(1585-1587)GCC>GTC	p.A529V	TTLL6_uc002iob.2_Missense_Mutation_p.A222V|TTLL6_uc010dbi.2_RNA|TTLL6_uc002ioc.2_Missense_Mutation_p.A282V|TTLL6_uc002iod.2_Missense_Mutation_p.A376V	NM_001130918	NP_001124390	Q8N841	TTLL6_HUMAN	tubulin tyrosine ligase-like family, member 6	481						cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity				0						TTCCTACCGGGCATACTCCTC	0.537000													6	414					0	0	0.021553	0	0
SPATA20	64847	broad.mit.edu	37	17	48628196	48628196	+	Missense_Mutation	SNP	G	C	C			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr17:48628196G>C	uc002irf.2	+	10	1394	c.1253G>C	c.(1252-1254)GGT>GCT	p.G418A	SPATA20_uc002irc.2_Missense_Mutation_p.G85A|SPATA20_uc002ire.2_Missense_Mutation_p.G374A|SPATA20_uc002ird.2_Missense_Mutation_p.G434A|SPATA20_uc010wmv.1_3'UTR|SPATA20_uc002irg.2_RNA	NM_022827	NP_073738	Q8TB22	SPT20_HUMAN	spermatogenesis associated 20	418					cell differentiation|mannose metabolic process|multicellular organismal development|spermatogenesis	extracellular region	mannose-6-phosphate isomerase activity|protein binding				0	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;9.38e-09)			CCTGTGTTGGGTGCCACCGAG	0.642000											OREG0024568	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	175					0	0	0.048971	0	0
ABCA6	23460	broad.mit.edu	37	17	67108373	67108373	+	Missense_Mutation	SNP	C	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr17:67108373C>T	uc002jhw.1	-	16	2258	c.2083G>A	c.(2083-2085)GGT>AGT	p.G695S	ABCA6_uc002jhx.1_Missense_Mutation_p.G148S	NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	695	ABC transporter 1.				transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					ATAGAAGAACCTGCACACTTC	0.368000													24	27					0	0	0.021523	0	0
SOX9	6662	broad.mit.edu	37	17	70120376	70120376	+	Missense_Mutation	SNP	A	C	C			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr17:70120376A>C	uc002jiw.2	+	3	1750	c.1378A>C	c.(1378-1380)ACC>CCC	p.T460P		NM_000346	NP_000337	P48436	SOX9_HUMAN	transcription factor SOX9	460					cAMP-mediated signaling|negative regulation of transcription, DNA-dependent|positive regulation of branching involved in ureteric bud morphogenesis|protein complex assembly|renal vesicle induction	nucleus|protein complex	core promoter sequence-specific DNA binding|enhancer binding|protein kinase A catalytic subunit binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription				0		Colorectal(1115;0.245)	STAD - Stomach adenocarcinoma(260;0.119)			AGGCCAGGGCACCGGCCTCTA	0.642000													9	231					0	0	0.074837	0	0
TMEM104	54868	broad.mit.edu	37	17	72832672	72832672	+	Missense_Mutation	SNP	G	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr17:72832672G>A	uc002jls.3	+	10	1499	c.1337G>A	c.(1336-1338)CGC>CAC	p.R446H	TMEM104_uc010wrf.1_Intron|TMEM104_uc010wrg.1_Intron|TMEM104_uc010dfx.2_Missense_Mutation_p.R446H	NM_017728	NP_060198	Q8NE00	TM104_HUMAN	transmembrane protein 104	446	Cytoplasmic (Potential).					integral to membrane					0	all_lung(278;0.23)					TACCACTGCCGCAGGGACACC	0.647000													4	153					0	0	0.014758	0	0
DNAH17	8632	broad.mit.edu	37	17	76445563	76445563	+	Missense_Mutation	SNP	T	C	C			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr17:76445563T>C	uc010dhp.1	-	14	2366	c.2144A>G	c.(2143-2145)TAC>TGC	p.Y715C	DNAH17_uc002jvq.2_5'UTR|DNAH17_uc002jvs.2_RNA					SubName: Full=DNAH17 variant protein; Flags: Fragment;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			CGTGTACATGTAGACGGAGTA	0.473000													4	22					0	0	0.009096	0	0
TAF4B	6875	broad.mit.edu	37	18	23969874	23969874	+	Silent	SNP	T	C	C			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr18:23969874T>C	uc002kvu.3	+	15	2976	c.2487T>C	c.(2485-2487)CGT>CGC	p.R829R	TAF4B_uc002kvs.3_RNA|TAF4B_uc002kvt.3_Silent_p.R834R	NM_005640	NP_005631	Q92750	TAF4B_HUMAN	TAF4b RNA polymerase II, TATA box binding	829					transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleolus|transcription factor TFIID complex	DNA binding|NF-kappaB binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)|skin(1)	3	all_cancers(21;0.00151)|Lung NSC(5;0.000401)|all_lung(6;0.00115)|Ovarian(20;0.124)		Epithelial(2;9.57e-07)|all cancers(3;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(3;1.96e-05)|LUSC - Lung squamous cell carcinoma(2;0.00594)|Lung(2;0.0267)			AGTTGCATCGTCCAAGAATCA	0.423000													3	90					0	0	0.004672	0	0
ACSBG2	81616	broad.mit.edu	37	19	6177251	6177251	+	Missense_Mutation	SNP	T	G	G			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr19:6177251T>G	uc002mef.1	+	8	977	c.750T>G	c.(748-750)ATT>ATG	p.I250M	ACSBG2_uc002mee.1_Missense_Mutation_p.I63M|ACSBG2_uc002meg.1_Missense_Mutation_p.I250M|ACSBG2_uc002meh.1_Missense_Mutation_p.I250M|ACSBG2_uc002mei.1_Missense_Mutation_p.I200M|ACSBG2_uc010xiz.1_Missense_Mutation_p.I250M	NM_030924	NP_112186	Q5FVE4	ACBG2_HUMAN	bubblegum-related acyl-CoA synthetase 2	250					cell differentiation|fatty acid metabolic process|multicellular organismal development|spermatogenesis	membrane|microsome|mitochondrion	acyl-CoA thioesterase activity|ATP binding|long-chain fatty acid-CoA ligase activity			ovary(1)	1						TCACGTGGATTGCAGGAGCAG	0.393000													3	53					0	0	0.014758	0	0
KIAA0892	23383	broad.mit.edu	37	19	19454740	19454740	+	Silent	SNP	G	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr19:19454740G>A	uc002nmk.3	+	10	1107	c.1068G>A	c.(1066-1068)GCG>GCA	p.A356A	KIAA0892_uc002nml.3_5'Flank|KIAA0892_uc010ecd.2_5'Flank	NM_015329	NP_056144	Q9Y6X3	SCC4_HUMAN	hypothetical protein LOC23383 precursor	356					cell division|maintenance of mitotic sister chromatid cohesion	chromatin|nucleoplasm|SMC loading complex	protein N-terminus binding				0						AGGCCACGGCGCTGCAGGAGG	0.582000													5	217					0	0	0.014758	0	0
ZNF14	7561	broad.mit.edu	37	19	19823080	19823080	+	Missense_Mutation	SNP	C	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr19:19823080C>A	uc002nnk.1	-	4	1164	c.1010G>T	c.(1009-1011)TGT>TTT	p.C337F		NM_021030	NP_066358	P17017	ZNF14_HUMAN	zinc finger protein 14	337	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Renal(1328;0.0474)				ACATTCTTTACATTTATAAGG	0.378000													11	24					1.61879e-10	1.77444e-10	0.013537	1	0
ATP4A	495	broad.mit.edu	37	19	36050918	36050918	+	Missense_Mutation	SNP	G	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr19:36050918G>T	uc002oal.1	-	7	874	c.845C>A	c.(844-846)GCA>GAA	p.A282E	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	282	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	CGCCAGCGATGCGATGCGCCC	0.647000													57	155					3.7469e-33	4.44944e-33	0.048971	1	0
EIF5B	9669	broad.mit.edu	37	2	99995867	99995867	+	Missense_Mutation	SNP	T	G	G			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr2:99995867T>G	uc002tab.2	+	12	2221	c.2037T>G	c.(2035-2037)AAT>AAG	p.N679K		NM_015904	NP_056988	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B	679					regulation of translational initiation	cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			ovary(2)|pancreas(1)	3						AAGCTATTAATGAACAGACTA	0.343000													4	5					0	0	0.009096	0	0
NCRNA00164	554226	broad.mit.edu	37	2	132905645	132905645	+	RNA	SNP	C	G	G			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr2:132905645C>G	uc002tti.3	-	7		c.1246G>C			NCRNA00164_uc002ttj.3_RNA	NR_027019				Homo sapiens non-protein coding RNA 164, mRNA (cDNA clone IMAGE:5169389), with apparent retained intron.												0						aaTCTTCCCCCTCTTGAATTT	0.219000													2	0					0	0	0.004672	0	0
TRAK2	66008	broad.mit.edu	37	2	202262967	202262967	+	Silent	SNP	G	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr2:202262967G>A	uc002uyb.3	-	6	1037	c.591C>T	c.(589-591)TTC>TTT	p.F197F	TRAK2_uc002uyc.2_Silent_p.F197F	NM_015049	NP_055864	O60296	TRAK2_HUMAN	trafficking protein, kinesin binding 2	197	Potential.					early endosome|plasma membrane	GABA receptor binding				0						AGGACTCATTGAACCGAAGAG	0.438000													8	8					0	0	0.047766	0	0
RUFY4	285180	broad.mit.edu	37	2	218954705	218954705	+	Silent	SNP	C	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr2:218954705C>T	uc002vgw.2	+	14	2969	c.1125C>T	c.(1123-1125)TGC>TGT	p.C375C	RUFY4_uc002vgy.1_RNA|RUFY4_uc010fvl.1_Silent_p.C375C	NM_198483	NP_940885	Q6ZNE9	RUFY4_HUMAN	RUN and FYVE domain containing 4	548	FYVE-type.						metal ion binding			pancreas(1)	1		Renal(207;0.0915)		Epithelial(149;4.11e-06)|all cancers(144;0.000519)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		GCCATGCTTGCTCCATGGATT	0.632000													3	4					0	0	0.014758	0	0
SP140	11262	broad.mit.edu	37	2	231177371	231177371	+	Missense_Mutation	SNP	C	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr2:231177371C>T	uc002vql.2	+	27	2691	c.2576C>T	c.(2575-2577)GCT>GTT	p.A859V	SP140_uc010zma.1_Intron|SP140_uc002vqn.2_Missense_Mutation_p.A745V|SP140_uc002vqm.2_Missense_Mutation_p.A799V|SP140_uc010fxl.2_Missense_Mutation_p.A832V	NM_007237	NP_009168	Q13342	LY10_HUMAN	SP140 nuclear body protein isoform 1	859					defense response	cytoplasm|nuclear envelope|nucleolus|nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Renal(207;0.0112)|all_lung(227;0.0221)|Lung NSC(271;0.0977)|all_hematologic(139;0.103)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		GAAGTGTTTGCTATTCAGGAA	0.264000													39	90					0	0	0.033182	0	0
UBOX5	22888	broad.mit.edu	37	20	3090943	3090943	+	Silent	SNP	G	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr20:3090943G>A	uc002whw.2	-	5	1605	c.1435C>T	c.(1435-1437)CTG>TTG	p.L479L	uc002whv.1_RNA|UBOX5_uc002whx.2_Silent_p.L425L|UBOX5_uc002why.1_Missense_Mutation_p.P477L	NM_014948	NP_055763	O94941	RNF37_HUMAN	U-box domain containing 5 isoform a	479						nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2						TCGGGGCCCAGGATGCTCCCA	0.587000													78	116					0	0	0.048971	0	0
ZSWIM1	90204	broad.mit.edu	37	20	44512145	44512145	+	Missense_Mutation	SNP	A	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr20:44512145A>T	uc010ghi.2	+	2	1027	c.914A>T	c.(913-915)AAT>ATT	p.N305I	ZSWIM1_uc010zxh.1_Missense_Mutation_p.N178I	NM_080603	NP_542170	Q9BR11	ZSWM1_HUMAN	zinc finger, SWIM-type containing 1	305							zinc ion binding			skin(1)	1		Myeloproliferative disorder(115;0.028)				GCCCAGAACAATCATGCTCCC	0.542000													89	207					0	0	0.048971	0	0
GRAMD4	23151	broad.mit.edu	37	22	47068788	47068788	+	Missense_Mutation	SNP	G	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr22:47068788G>A	uc003bhx.2	+	13	1172	c.1133G>A	c.(1132-1134)CGC>CAC	p.R378H	GRAMD4_uc010had.2_Missense_Mutation_p.R317H|GRAMD4_uc003bhy.2_5'Flank	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	378					apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)		ATCTTTAAACGCTGCCCGAGG	0.577000													37	65					0	0	0.023175	0	0
C3orf35	339883	broad.mit.edu	37	3	37458846	37458846	+	Missense_Mutation	SNP	G	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr3:37458846G>A	uc003cha.3	+	5	753	c.89G>A	c.(88-90)CGA>CAA	p.R30Q	C3orf35_uc003chb.2_Missense_Mutation_p.R30Q	NM_178339	NP_848029	Q8IVJ8	APRG1_HUMAN	AP20 region protein isoform B	30						integral to membrane				central_nervous_system(1)	1						TTGTGCGCCCGAACTTTTCAC	0.433000													4	118					0	0	0.009096	0	0
IFT57	55081	broad.mit.edu	37	3	107937434	107937434	+	Missense_Mutation	SNP	G	C	C			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr3:107937434G>C	uc003dwx.3	-	3	690	c.442C>G	c.(442-444)CTT>GTT	p.L148V		NM_018010	NP_060480	Q9NWB7	IFT57_HUMAN	estrogen-related receptor beta like 1	148					activation of caspase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cilium|microtubule basal body	DNA binding|protein binding			ovary(1)|skin(1)|pancreas(1)	3			OV - Ovarian serous cystadenocarcinoma(3;0.0428)|Epithelial(53;0.246)			AAGCAATCAAGAACATAGCAT	0.343000													6	37					0	0	0.029380	0	0
STXBP5L	9515	broad.mit.edu	37	3	120952528	120952528	+	Missense_Mutation	SNP	C	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr3:120952528C>A	uc003eec.3	+	12	1317	c.1177C>A	c.(1177-1179)CAA>AAA	p.Q393K	STXBP5L_uc011bji.1_Missense_Mutation_p.Q393K	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	393					exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		TGATCTGACACAAAGCAAGTA	0.294000													3	13					6.4e-05	6.63273e-05	0.004672	1	0
RARRES1	5918	broad.mit.edu	37	3	158422600	158422600	+	Missense_Mutation	SNP	G	C	C	rs140091959	byFrequency	TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr3:158422600G>C	uc003fci.2	-	4	723	c.652C>G	c.(652-654)CTC>GTC	p.L218V	RARRES1_uc003fcj.2_Missense_Mutation_p.L218V	NM_206963	NP_996846	P49788	TIG1_HUMAN	retinoic acid receptor responder (tazarotene	218	Extracellular (Potential).				negative regulation of cell proliferation	integral to membrane					0			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)		Tretinoin(DB00755)	ACACTAGTGAGCTGTGCCAAG	0.443000													10	29					0	0	0.069234	0	0
GAK	2580	broad.mit.edu	37	4	858925	858925	+	Missense_Mutation	SNP	T	G	G			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr4:858925T>G	uc003gbm.3	-	23	3350	c.3151A>C	c.(3151-3153)ACG>CCG	p.T1051P	GAK_uc003gbn.3_Missense_Mutation_p.T972P|GAK_uc010ibi.2_Missense_Mutation_p.T232P|GAK_uc010ibj.2_RNA|GAK_uc003gbl.3_Missense_Mutation_p.T904P	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	1051					cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		GTGGCTGGCGTGGGGGCCACT	0.637000													5	9					0	0	0.043863	0	0
EVC	2121	broad.mit.edu	37	4	5721079	5721079	+	Silent	SNP	G	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr4:5721079G>A	uc003gil.1	+	2	463	c.279G>A	c.(277-279)TCG>TCA	p.S93S	EVC_uc003gim.1_RNA	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	93					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				TGCAGATGTCGAAGGACAAGG	0.512000													151	213					0	0	0.048971	0	0
BOD1L	259282	broad.mit.edu	37	4	13601241	13601241	+	Missense_Mutation	SNP	G	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr4:13601241G>A	uc003gmz.1	-	10	7400	c.7283C>T	c.(7282-7284)GCG>GTG	p.A2428V	BOD1L_uc010idr.1_Missense_Mutation_p.A1765V	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	2428							DNA binding			ovary(5)|breast(1)	6						TTCTTTTTCCGCACAAACAGC	0.547000											OREG0016115	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	444					0	0	0.021553	0	0
KCTD8	386617	broad.mit.edu	37	4	44449784	44449785	+	Missense_Mutation	DNP	TG	GA	GA			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr4:44449784_44449785TG>GA	uc003gwu.2	-	1	1040_1041	c.756_757CA>TC	c.(754-759)CTCAAC>CTTCAC	p.N253H		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	253						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						CGGCTCTCGTTGAGCGTGTCCC	0.658000										HNSCC(17;0.042)			21	42					0	0	0.004672	0	0
LNX1	84708	broad.mit.edu	37	4	54343092	54343092	+	Missense_Mutation	SNP	C	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr4:54343092C>T	uc003hag.3	-	9	1976	c.1720G>A	c.(1720-1722)GCA>ACA	p.A574T	PDGFRA_uc003haa.2_Intron|LNX1_uc003haf.3_Missense_Mutation_p.A478T|LNX1_uc003hah.3_RNA	NM_001126328	NP_001119800	Q8TBB1	LNX1_HUMAN	ligand of numb-protein X 1 isoform a	574	PDZ 3.					cytoplasm	zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_neural(26;0.153)		GBM - Glioblastoma multiforme(3;8.2e-46)|LUSC - Lung squamous cell carcinoma(32;0.0134)			AATGCCACTGCCTCACTCCGG	0.488000													42	188					0	0	0.036044	0	0
AGPAT9	84803	broad.mit.edu	37	4	84457815	84457815	+	Missense_Mutation	SNP	T	C	C			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr4:84457815T>C	uc003how.2	+	2	258	c.40T>C	c.(40-42)TGG>CGG	p.W14R	AGPAT9_uc003hox.2_Missense_Mutation_p.W14R|AGPAT9_uc003hoy.2_Missense_Mutation_p.W14R	NM_032717	NP_116106	Q53EU6	GPAT3_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 9	14	Helical; (Potential).				phospholipid biosynthetic process|regulation of TOR signaling cascade|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	glycerol-3-phosphate O-acyltransferase activity			skin(1)	1		Hepatocellular(203;0.114)				CCTTTCCACCTGGCTGACGCT	0.582000													31	119					0	0	0.027894	0	0
FAT4	79633	broad.mit.edu	37	4	126371457	126371457	+	Missense_Mutation	SNP	G	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr4:126371457G>T	uc003ifj.3	+	9	9286	c.9286G>T	c.(9286-9288)GCA>TCA	p.A3096S	FAT4_uc011cgp.1_Missense_Mutation_p.A1394S|FAT4_uc003ifi.1_Missense_Mutation_p.A574S	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3096	Cadherin 30.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CCACATGAGTGCAACCATCCC	0.448000													3	21					0.004672	0.00479827	0.004672	1	0
MAML3	55534	broad.mit.edu	37	4	140810713	140810713	+	Missense_Mutation	SNP	T	G	G			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr4:140810713T>G	uc003ihz.1	-	3	2617	c.1865A>C	c.(1864-1866)AAC>ACC	p.N622T	MAML3_uc011chd.1_Intron	NM_018717	NP_061187	Q96JK9	MAML3_HUMAN	mastermind-like 3	622	Gln-rich.				Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)					CATCAAGGGGTTTTTGTTGGG	0.393000													28	474					0	0	0.048971	0	0
SEMA5A	9037	broad.mit.edu	37	5	9119220	9119220	+	Silent	SNP	A	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr5:9119220A>T	uc003jek.2	-	15	2527	c.1815T>A	c.(1813-1815)TCT>TCA	p.S605S		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	605	TSP type-1 2.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						TGCTGCAGGGAGACCACGAGG	0.652000													17	42					0	0	0.043863	0	0
RAI14	26064	broad.mit.edu	37	5	34757668	34757668	+	Silent	SNP	C	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr5:34757668C>T	uc003jir.2	+	3	328	c.132C>T	c.(130-132)GCC>GCT	p.A44A	RAI14_uc010iur.2_Silent_p.A44A|RAI14_uc011coj.1_Silent_p.A44A|RAI14_uc010ius.1_5'UTR|RAI14_uc003jis.2_Silent_p.A47A|RAI14_uc003jit.2_Silent_p.A44A|RAI14_uc011cok.1_Silent_p.A36A	NM_015577	NP_056392	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14 isoform a	44	ANK 1.					cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)					AGAAGGGGGCCAGTGCCACCA	0.542000													26	114					0	0	0.021523	0	0
PARP8	79668	broad.mit.edu	37	5	50123848	50123848	+	Missense_Mutation	SNP	T	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr5:50123848T>A	uc003jon.3	+	21	2230	c.2048T>A	c.(2047-2049)TTT>TAT	p.F683Y	PARP8_uc011cpz.1_Missense_Mutation_p.F575Y|PARP8_uc003joo.2_Missense_Mutation_p.F683Y|PARP8_uc003jop.2_Missense_Mutation_p.F641Y	NM_024615	NP_078891	Q8N3A8	PARP8_HUMAN	poly (ADP-ribose) polymerase family, member 8	683	PARP catalytic.					intracellular	NAD+ ADP-ribosyltransferase activity			lung(3)|large_intestine(1)|ovary(1)	5		Lung NSC(810;0.0305)|Breast(144;0.222)				GAATCCAATTTTAGAGCTGCT	0.383000													28	57					0	0	0.069456	0	0
NR2F1	7025	broad.mit.edu	37	5	92929424	92929424	+	Missense_Mutation	SNP	C	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr5:92929424C>A	uc003kkj.2	+	3	2835	c.1148C>A	c.(1147-1149)TCC>TAC	p.S383Y		NM_005654	NP_005645	P10589	COT1_HUMAN	nuclear receptor subfamily 2, group F, member 1	383					negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding			urinary_tract(1)|ovary(1)|lung(1)	3		all_cancers(142;1.62e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0126)|Lung NSC(167;0.0155)|Ovarian(174;0.0218)|Prostate(281;0.173)|Colorectal(57;0.19)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0416)|all cancers(79;9.57e-18)		GTGTCCTCCTCCGTCATCGAG	0.582000													108	246					6.01805e-51	7.37697e-51	0.048971	1	0
POU5F2	134187	broad.mit.edu	37	5	93076682	93076682	+	Silent	SNP	A	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr5:93076682A>T	uc003kkl.1	-	1	628	c.588T>A	c.(586-588)CTT>CTA	p.L196L	FAM172A_uc010jbd.2_Intron|FAM172A_uc011cuf.1_Intron|FAM172A_uc011cug.1_Intron|FAM172A_uc011cuh.1_Intron|FAM172A_uc011cui.1_Intron|FAM172A_uc011cuj.1_Intron	NM_153216	NP_694948	Q8N7G0	PO5F2_HUMAN	POU domain class 5, transcription factor 2	196						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(142;3.87e-05)|all_epithelial(76;4.59e-07)|all_lung(232;0.0126)|Lung NSC(167;0.0155)|Ovarian(174;0.0218)|Prostate(281;0.173)|Colorectal(57;0.19)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0415)|all cancers(79;2.03e-19)		ATAAGCCCAGAAGGTTCTCTG	0.542000													55	110					0	0	0.048971	0	0
LOC100133050	100133050	broad.mit.edu	37	5	99715528	99715528	+	RNA	SNP	C	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr5:99715528C>T	uc011cuw.1	-	4		c.382G>A				NR_027503				Homo sapiens glucuronidase, beta pseudogene (LOC100133050), non-coding RNA.												0						AGCGGACAGTCGAAGCCCTTC	0.607000													3	31					0	0	0.021553	0	0
FNIP1	96459	broad.mit.edu	37	5	131006178	131006178	+	Missense_Mutation	SNP	G	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr5:131006178G>A	uc003kvs.1	-	15	3228	c.3086C>T	c.(3085-3087)TCA>TTA	p.S1029L	RAPGEF6_uc003kvp.1_Intron|FNIP1_uc003kvt.1_Missense_Mutation_p.S1001L	NM_133372	NP_588613	Q8TF40	FNIP1_HUMAN	folliculin interacting protein 1 isoform 1	1029					regulation of protein phosphorylation	cytoplasm	protein binding			pancreas(1)|skin(1)	2		all_cancers(142;0.00347)|Lung NSC(810;0.106)|all_lung(232;0.123)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0665)		AGATAAATCTGACATCAGACA	0.433000													5	15					0	0	0.021553	0	0
FNIP1	96459	broad.mit.edu	37	5	131042155	131042155	+	Missense_Mutation	SNP	C	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr5:131042155C>A	uc003kvs.1	-	9	1005	c.863G>T	c.(862-864)CGT>CTT	p.R288L	RAPGEF6_uc003kvp.1_Intron|FNIP1_uc003kvt.1_Missense_Mutation_p.R260L|FNIP1_uc010jdm.1_Missense_Mutation_p.R243L|FNIP1_uc003kvu.2_Missense_Mutation_p.R288L	NM_133372	NP_588613	Q8TF40	FNIP1_HUMAN	folliculin interacting protein 1 isoform 1	288					regulation of protein phosphorylation	cytoplasm	protein binding			pancreas(1)|skin(1)	2		all_cancers(142;0.00347)|Lung NSC(810;0.106)|all_lung(232;0.123)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0665)		GCGTCGCCAACGTCGCTGGTA	0.453000													9	41					7.03913e-09	7.49963e-09	0.013537	1	0
HIVEP1	3096	broad.mit.edu	37	6	12123740	12123740	+	Silent	SNP	T	C	C			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr6:12123740T>C	uc003nac.2	+	4	3891	c.3712T>C	c.(3712-3714)TTG>CTG	p.L1238L	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	1238					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				TCCAGAGATTTTGGTCACAGA	0.473000													3	59					0	0	0.009096	0	0
HLA-DQA2	3118	broad.mit.edu	37	6	32713781	32713781	+	Missense_Mutation	SNP	C	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr6:32713781C>T	uc003obx.2	+	3	603	c.545C>T	c.(544-546)TCT>TTT	p.S182F		NM_020056	NP_064440	P01906	DQA2_HUMAN	major histocompatibility complex, class II, DQ	182	Alpha-2.|Extracellular (Potential).|Ig-like C1-type.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|endosome membrane|Golgi apparatus|integral to plasma membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TTCCTCCCTTCTGCTGATGAG	0.502000													81	149					0	0	0.048971	0	0
LEMD2	221496	broad.mit.edu	37	6	33748926	33748926	+	Missense_Mutation	SNP	A	C	C			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr6:33748926A>C	uc011drm.1	-	4	871	c.858T>G	c.(856-858)AAT>AAG	p.N286K	LEMD2_uc010jvg.2_5'Flank|LEMD2_uc011drl.1_5'UTR|LEMD2_uc003ofe.2_5'UTR	NM_181336	NP_851853	Q8NC56	LEMD2_HUMAN	LEM domain containing 2 isoform 1	286						integral to nuclear inner membrane				central_nervous_system(1)	1						CACACTCAAAATTACCTAGGA	0.368000													40	82					0	0	0.039052	0	0
TTBK1	84630	broad.mit.edu	37	6	43251695	43251695	+	Missense_Mutation	SNP	C	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr6:43251695C>A	uc003ouq.1	+	14	3496	c.3217C>A	c.(3217-3219)CTG>ATG	p.L1073M		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	1073						cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			CTCAGGCTCACTGTCGGCCAA	0.687000													43	61					2.45108e-15	2.73944e-15	0.033182	1	0
HTR1B	3351	broad.mit.edu	37	6	78172192	78172192	+	Missense_Mutation	SNP	C	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr6:78172192C>T	uc003pil.1	-	1	929	c.929G>A	c.(928-930)CGC>CAC	p.R310H		NM_000863	NP_000854	P28222	5HT1B_HUMAN	5-hydroxytryptamine (serotonin) receptor 1B	310	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cAMP biosynthetic process|synaptic transmission	integral to plasma membrane	protein binding|serotonin receptor activity				0		all_cancers(76;0.0867)|Acute lymphoblastic leukemia(125;0.00119)|all_hematologic(105;0.0332)		BRCA - Breast invasive adenocarcinoma(397;0.205)	Almotriptan(DB00918)|Dexfenfluramine(DB01191)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Pindolol(DB00960)|Propranolol(DB00571)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Venlafaxine(DB00285)|Zolmitriptan(DB00315)	GGTGGCTTTGCGCTCCCTAGC	0.522000													6	559					0	0	0.029380	0	0
ROS1	6098	broad.mit.edu	37	6	117746764	117746764	+	Missense_Mutation	SNP	C	G	G			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr6:117746764C>G	uc003pxp.1	-	1	255	c.56G>C	c.(55-57)TGC>TCC	p.C19S	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	19					transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		AATCCATAGGCAGCCAAGAGT	0.388000			T	GOPC|ROS1	glioblastoma|NSCLC								38	79					0	0	0.074837	0	0
TMEM184A	202915	broad.mit.edu	37	7	1590513	1590513	+	Missense_Mutation	SNP	G	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr7:1590513G>A	uc003skv.3	-	3	642	c.325C>T	c.(325-327)CTC>TTC	p.L109F	TMEM184A_uc003skt.3_5'UTR|TMEM184A_uc003skw.3_5'UTR	NM_001097620	NP_001091089	Q6ZMB5	T184A_HUMAN	transmembrane protein 184A	109	Helical; (Potential).					integral to membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;5.88e-15)		CCGAGGAGGAGGAGGCTGAGC	0.632000													32	120					0	0	0.030466	0	0
PCLO	27445	broad.mit.edu	37	7	82763635	82763635	+	Silent	SNP	A	G	G			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr7:82763635A>G	uc003uhx.2	-	3	3520	c.3231T>C	c.(3229-3231)AAT>AAC	p.N1077N	PCLO_uc003uhv.2_Silent_p.N1077N	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1023	C4-type (Potential).				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CAGTGCAAGTATTGAAGTTAG	0.368000													12	38					0	0	0.010729	0	0
TFR2	7036	broad.mit.edu	37	7	100228607	100228607	+	Missense_Mutation	SNP	C	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr7:100228607C>T	uc003uvv.1	-	9	1216	c.1175G>A	c.(1174-1176)GGC>GAC	p.G392D	TFR2_uc010lhc.1_5'UTR|TFR2_uc003uvu.1_Missense_Mutation_p.G221D	NM_003227	NP_003218	Q9UP52	TFR2_HUMAN	transferrin receptor 2	392	Extracellular (Potential).				cellular iron ion homeostasis|iron ion transport|proteolysis	cytoplasm|integral to plasma membrane	peptidase activity|transferrin receptor activity			ovary(1)|pancreas(1)	2	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					TGGCCCGGGGCCCAGGTGATA	0.612000													16	38					0	0	0.062417	0	0
MLL3	58508	broad.mit.edu	37	7	151882674	151882674	+	Missense_Mutation	SNP	T	G	G			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr7:151882674T>G	uc003wla.2	-	34	5270	c.5051A>C	c.(5050-5052)AAA>ACA	p.K1684T	MLL3_uc003wkz.2_Missense_Mutation_p.K745T	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1684					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TGAGCTTGCTTTTCTCCACAA	0.343000			N		medulloblastoma								11	81					0	0	0.013537	0	0
AGPAT5	55326	broad.mit.edu	37	8	6614714	6614714	+	Missense_Mutation	SNP	T	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr8:6614714T>A	uc003wqo.2	+	8	1212	c.900T>A	c.(898-900)GAT>GAA	p.D300E	AGPAT5_uc011kwm.1_3'UTR	NM_018361	NP_060831	Q9NUQ2	PLCE_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 5	300					phospholipid biosynthetic process	integral to membrane|mitochondrion	1-acylglycerol-3-phosphate O-acyltransferase activity				0			STAD - Stomach adenocarcinoma(24;0.0578)	READ - Rectum adenocarcinoma(644;0.156)|COAD - Colon adenocarcinoma(149;0.191)		AGTCACCAGATCCAGAAAGAA	0.323000													7	7					0	0	0.038147	0	0
TNKS	8658	broad.mit.edu	37	8	9413684	9413684	+	Missense_Mutation	SNP	C	G	G			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr8:9413684C>G	uc003wss.2	+	1	240	c.235C>G	c.(235-237)CGA>GGA	p.R79G	TNKS_uc011kwv.1_Missense_Mutation_p.R79G|uc003wsr.1_RNA	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	79					mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		CGACAGGCCCCGATCCCCGGA	0.701000													14	45					0	0	0.021523	0	0
KIAA1967	57805	broad.mit.edu	37	8	22464154	22464154	+	Missense_Mutation	SNP	T	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr8:22464154T>A	uc003xch.2	+	4	322	c.185T>A	c.(184-186)GTT>GAT	p.V62D	KIAA1967_uc003xci.2_Missense_Mutation_p.V62D|KIAA1967_uc003xcj.1_5'UTR	NM_199205	NP_954675	Q8N163	K1967_HUMAN	p30 DBC protein	62					apoptosis|positive regulation of apoptosis	mitochondrial matrix|nucleus	enzyme binding|enzyme inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00593)|Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		ACTGGTATTGTTACCAGCTTG	0.463000													39	81					0	0	0.042209	0	0
KCNS2	3788	broad.mit.edu	37	8	99441267	99441267	+	Nonsense_Mutation	SNP	G	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr8:99441267G>T	uc003yin.2	+	2	1410	c.1060G>T	c.(1060-1062)GAG>TAG	p.E354*		NM_020697	NP_065748	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel,	354	Extracellular (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			TGAAAAGGAGGAGAACGAGGG	0.577000													47	127					2.24722e-20	2.58771e-20	0.048971	1	0
FAM135B	51059	broad.mit.edu	37	8	139164000	139164000	+	Silent	SNP	G	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr8:139164000G>T	uc003yuy.2	-	13	2889	c.2718C>A	c.(2716-2718)GGC>GGA	p.G906G	FAM135B_uc003yux.2_Silent_p.G807G|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Silent_p.G468G|FAM135B_uc003yvb.2_Silent_p.G468G	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	906								p.G906S(1)		ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			CTTTAGGCATGCCCTTTGGGG	0.458000										HNSCC(54;0.14)			81	194					8.40228e-50	1.019e-49	0.048971	1	0
FAM135B	51059	broad.mit.edu	37	8	139164004	139164004	+	Missense_Mutation	SNP	T	C	C			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr8:139164004T>C	uc003yuy.2	-	13	2885	c.2714A>G	c.(2713-2715)AAG>AGG	p.K905R	FAM135B_uc003yux.2_Missense_Mutation_p.K806R|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.K467R|FAM135B_uc003yvb.2_Missense_Mutation_p.K467R	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	905										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			AGGCATGCCCTTTGGGGTTTC	0.468000										HNSCC(54;0.14)			79	193					0	0	0.048971	0	0
UNC13B	10497	broad.mit.edu	37	9	35375163	35375163	+	Missense_Mutation	SNP	A	G	G			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr9:35375163A>G	uc003zwq.2	+	13	1625	c.1333A>G	c.(1333-1335)ATG>GTG	p.M445V	UNC13B_uc003zwr.2_Missense_Mutation_p.M445V	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	445					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			CACTTCTGCAATGGCTACACG	0.537000													171	113					0	0	0.048971	0	0
ABL1	25	broad.mit.edu	37	9	133748371	133748371	+	Silent	SNP	C	T	T			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr9:133748371C>T	uc004bzw.2	+	6	1035	c.1032C>T	c.(1030-1032)GCC>GCT	p.A344A	ABL1_uc004bzv.2_Silent_p.A363A	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	344	Protein kinase.				actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding			haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)	TGTACATGGCCACTCAGATCT	0.577000			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								72	43					0	0	0.048971	0	0
IRF2BP2	359948	broad.mit.edu	37	1	234743056	234743058	+	In_Frame_Del	DEL	AGC	-	-			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr1:234743056_234743058delAGC	uc001hwg.2	-	2	1620_1622	c.1589_1591delGCT	c.(1588-1593)TGCTTC>TTC	p.C530del	IRF2BP2_uc009xfw.2_In_Frame_Del_p.C140del|IRF2BP2_uc001hwf.2_In_Frame_Del_p.C514del	NM_182972	NP_892017	Q7Z5L9	I2BP2_HUMAN	interferon regulatory factor 2 binding protein 2	530	Cys-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Ovarian(103;0.0303)	all_cancers(173;0.0236)|Prostate(94;0.0115)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)|Epithelial(3;6.2e-05)			GAGCAAGGGAAGCAGAACTTGTG	0.586													74	243	---	---	---	---					
MYO1H	283446	broad.mit.edu	37	12	109834319	109834319	+	Frame_Shift_Del	DEL	A	-	-			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr12:109834319delA	uc010sxn.1	+	3	373	c.373delA	c.(373-375)ACCfs	p.T125fs		NM_001101421	NP_001094891	Q8N1T3	MYO1H_HUMAN	myosin 1H	Error:Variant_position_missing_in_B4DNW6_after_alignment						myosin complex	motor activity				0						TTTTGCAGTGACCTGCCCAAT	0.498													21	116	---	---	---	---					
ZCCHC8	55596	broad.mit.edu	37	12	122964832	122964833	+	Frame_Shift_Ins	INS	-	A	A			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr12:122964832_122964833insA	uc001ucn.2	-	11	1175_1176	c.1044_1045insT	c.(1042-1047)GTTGGAfs	p.V348fs	ZCCHC8_uc001ucl.2_5'Flank|ZCCHC8_uc001ucm.2_Frame_Shift_Ins_p.V110fs|ZCCHC8_uc009zxp.2_Frame_Shift_Ins_p.V110fs|ZCCHC8_uc009zxq.2_Frame_Shift_Ins_p.V110fs	NM_017612	NP_060082	Q6NZY4	ZCHC8_HUMAN	zinc finger, CCHC domain containing 8	348_349						catalytic step 2 spliceosome	nucleic acid binding|protein binding|zinc ion binding				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.25e-05)|Epithelial(86;0.000113)|BRCA - Breast invasive adenocarcinoma(302;0.202)		TGTATTTCTCCAACTTCTGTTT	0.371													26	34	---	---	---	---					
ITM2B	9445	broad.mit.edu	37	13	48830432	48830433	+	In_Frame_Ins	INS	-	CAA	CAA			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr13:48830432_48830433insCAA	uc001vbz.3	+	3	589_590	c.366_367insCAA	c.(364-369)insCAA	p.122_123insQ		NM_021999	NP_068839	Q9Y287	ITM2B_HUMAN	integral membrane protein 2B	122_123	Lumenal (Potential).				nervous system development	Golgi membrane|integral to membrane|nucleus|plasma membrane	beta-amyloid binding				0		all_cancers(8;2.2e-31)|all_epithelial(8;6.77e-15)|all_lung(13;9.67e-07)|all_hematologic(8;9.72e-06)|Lung NSC(96;8.3e-05)|Breast(56;0.000141)|Acute lymphoblastic leukemia(8;0.00045)|Prostate(109;0.000669)|Myeloproliferative disorder(33;0.039)|Hepatocellular(98;0.0556)|Lung SC(185;0.102)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(144;1.97e-06)		TTAAAATCTTTGAAGAAGAAGA	0.401													26	58	---	---	---	---					
FAM179B	23116	broad.mit.edu	37	14	45433529	45433529	+	Frame_Shift_Del	DEL	C	-	-			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr14:45433529delC	uc001wvv.2	+	1	2114	c.1905delC	c.(1903-1905)CACfs	p.H635fs	FAM179B_uc001wvw.2_Frame_Shift_Del_p.H635fs|FAM179B_uc010anc.2_RNA|KLHL28_uc001wvr.2_5'Flank|FAM179B_uc010anb.1_Frame_Shift_Del_p.H635fs|FAM179B_uc001wvu.2_Frame_Shift_Del_p.H635fs	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	635							binding			skin(2)|upper_aerodigestive_tract(1)	3						ATAGCATGCACATTTATGGAT	0.453													19	40	---	---	---	---					
ISLR2	57611	broad.mit.edu	37	15	74425252	74425252	+	Frame_Shift_Del	DEL	G	-	-			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr15:74425252delG	uc002axd.2	+	4	926	c.157delG	c.(157-159)GTGfs	p.V53fs	ISLR2_uc002axe.2_Frame_Shift_Del_p.V53fs|ISLR2_uc010bjg.2_Frame_Shift_Del_p.V53fs|ISLR2_uc010bjf.2_Frame_Shift_Del_p.V53fs	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	53	LRR 1.|Extracellular (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						GCCTGCCAACGTGACGACGCT	0.632													76	160	---	---	---	---					
LINS1	55180	broad.mit.edu	37	15	101114034	101114034	+	Frame_Shift_Del	DEL	C	-	-			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr15:101114034delC	uc002bwe.2	-	6	1335	c.1044delG	c.(1042-1044)GGGfs	p.G348fs	LINS1_uc002bwd.2_5'Flank|LINS1_uc002bwf.2_Frame_Shift_Del_p.G348fs|LINS1_uc002bwg.2_Frame_Shift_Del_p.G348fs|LINS1_uc002bwh.2_Frame_Shift_Del_p.G348fs|LINS1_uc010usa.1_Frame_Shift_Del_p.G229fs|LINS1_uc002bwi.2_Frame_Shift_Del_p.G348fs	NM_001040614	NP_001035704	Q8NG48	LINES_HUMAN	lines homolog 1	348											0	Lung NSC(78;0.0018)|all_lung(78;0.00223)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.00095)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)			TCTTCAACAACCCCGAATTCA	0.448													57	156	---	---	---	---					
PCDHGA12	26025	broad.mit.edu	37	5	140811171	140811177	+	Frame_Shift_Del	DEL	GGTATGT	-	-			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr5:140811171_140811177delGGTATGT	uc003lkt.1	+	1	1014_1020	c.845_851delGGTATGT	c.(844-852)CGGTATGTGfs	p.R282fs	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_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Frame_Shift_Del_p.R282fs	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	282_284	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TATTCCTTCCGGTATGTGGACGACAAG	0.522													63	196	---	---	---	---					
TNC	3371	broad.mit.edu	37	9	117792668	117792668	+	Frame_Shift_Del	DEL	G	-	-			TCGA-B9-4114-01A-01D-1252-08	TCGA-B9-4114-10A-01D-1252-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc2df365-fa55-4871-8e93-807b85a7e7d0	4acde02c-30d6-41f7-9fb2-b689951809b9	g.chr9:117792668delG	uc004bjj.3	-	24	6299	c.5937delC	c.(5935-5937)CCCfs	p.P1979fs	TNC_uc010mvf.2_Frame_Shift_Del_p.P1706fs	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1979	Fibrinogen C-terminal.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CCTTGGGGAAGGGGTACAGGA	0.498													14	14	---	---	---	---					
