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
OMA1	115209	broad.mit.edu	37	1	58999969	58999969	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr1:58999969T>C	uc001cyy.2	-	4	852	c.764A>G	c.(763-765)GAG>GGG	p.E255G	DAB1_uc001cyt.1_Intron|OMA1_uc001cyx.1_Missense_Mutation_p.E255G|OMA1_uc009vzz.2_Missense_Mutation_p.E255G	NM_145243	NP_660286	Q96E52	OMA1_HUMAN	OMA1 homolog, zinc metallopeptidase precursor	255					proteolysis	integral to membrane|mitochondrial membrane	metal ion binding|metalloendopeptidase activity			large_intestine(1)	1	all_cancers(7;6.54e-05)					GGCATCTTTCTCAGTTAGCAT	0.338000													30	5					0	0	1	0	0
NTRK1	4914	broad.mit.edu	37	1	156841489	156841489	+	Silent	SNP	G	A	A			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr1:156841489G>A	uc001fqh.1	+	7	848	c.792G>A	c.(790-792)ACG>ACA	p.T264T	NTRK1_uc001fqf.1_Silent_p.T234T|NTRK1_uc009wsi.1_Intron|NTRK1_uc001fqi.1_Silent_p.T264T|NTRK1_uc009wsk.1_Silent_p.T264T	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	264	Ig-like C2-type 1.|Extracellular (Potential).				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	AGAACGTGACGTGCTGGGCAG	0.592000			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			9	94					0	0	1	0	0
CFHR2	3080	broad.mit.edu	37	1	196918612	196918612	+	Missense_Mutation	SNP	A	C	C			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr1:196918612A>C	uc001gtq.1	+	2	163	c.86A>C	c.(85-87)AAC>ACC	p.N29T	CFHR2_uc001gtr.1_Intron	NM_005666	NP_005657	P36980	FHR2_HUMAN	H factor (complement)-like 3 precursor	29	Sushi 1.					extracellular region				skin(2)|ovary(1)	3						CCAAAAATAAACCATGGAATT	0.294000													4	64					0	0	1	0	0
DLG5	9231	broad.mit.edu	37	10	79601943	79601943	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr10:79601943G>A	uc001jzk.2	-	7	1203	c.1133C>T	c.(1132-1134)GCG>GTG	p.A378V	DLG5_uc001jzj.2_Missense_Mutation_p.A133V|DLG5_uc009xru.1_RNA|DLG5_uc001jzl.3_5'UTR	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	378					cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			ATGGTGGATCGCCTCAAACCT	0.652000													60	74					0	0	1	0	0
B4GALNT3	283358	broad.mit.edu	37	12	657235	657235	+	Missense_Mutation	SNP	G	C	C			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr12:657235G>C	uc001qii.1	+	8	753	c.753G>C	c.(751-753)CAG>CAC	p.Q251H	B4GALNT3_uc001qij.1_Missense_Mutation_p.Q153H	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	251	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			TGCACAAGCAGAATGAGGAGG	0.622000													25	35					0	0	1	0	0
B4GALNT3	283358	broad.mit.edu	37	12	665815	665815	+	Silent	SNP	C	T	T	rs150429681	byFrequency	TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr12:665815C>T	uc001qii.1	+	15	2163	c.2163C>T	c.(2161-2163)CGC>CGT	p.R721R	B4GALNT3_uc001qik.1_Silent_p.R270R	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	721	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			AAGGCCAGCGCGTGGTGCGGC	0.622000													29	56					0	0	1	0	0
RNF17	56163	broad.mit.edu	37	13	25399896	25399896	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr13:25399896G>A	uc001upr.2	+	16	2272	c.2231G>A	c.(2230-2232)CGA>CAA	p.R744Q	RNF17_uc010tdd.1_Missense_Mutation_p.R603Q|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.R744Q|RNF17_uc001ups.2_Missense_Mutation_p.R683Q	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	744	Tudor 1.				multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		ATTTGGTACCGAGCAAAAGTT	0.378000													40	157					0	0	1	0	0
BEGAIN	57596	broad.mit.edu	37	14	101005290	101005290	+	Silent	SNP	C	T	T			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr14:101005290C>T	uc010txa.1	-	6	944	c.798G>A	c.(796-798)GCG>GCA	p.A266A	BEGAIN_uc001yhp.2_Silent_p.A202A|BEGAIN_uc001yhq.2_Silent_p.A266A	NM_001159531	NP_001153003	Q9BUH8	BEGIN_HUMAN	brain-enriched guanylate kinase-associated	266						cytoplasm|membrane	protein binding				0		Melanoma(154;0.212)				CCTCCTCGGCCGCGCTGTCAG	0.726000													7	15					0	0	1	0	0
Unknown	0	broad.mit.edu	37	15	85121412	85121412	+	RNA	SNP	T	C	C			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr15:85121412T>C	uc002bko.1	+	3		c.612T>C								Homo sapiens cDNA: FLJ22824 fis, clone KAIA3991.																		GTTAGGATTCTCTGAATCGGA	0.413000													3	30					0	0	1	0	0
LRRC28	123355	broad.mit.edu	37	15	99796139	99796139	+	Translation_Start_Site	SNP	G	A	A			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr15:99796139G>A	uc002bva.1	+	2	132	c.-23G>A	c.(-25--21)GCGTG>GCATG		LRRC28_uc010urs.1_RNA|LRRC28_uc002bvb.1_Translation_Start_Site|LRRC28_uc010urt.1_Translation_Start_Site|LRRC28_uc002bvc.1_Translation_Start_Site|LRRC28_uc010uru.1_Translation_Start_Site|LRRC28_uc002bvd.1_Translation_Start_Site	NM_144598	NP_653199	Q86X40	LRC28_HUMAN	leucine rich repeat containing 28												0	Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00778)|Medulloblastoma(229;0.163)		OV - Ovarian serous cystadenocarcinoma(32;0.00106)			GTGCTGCAGCGTGCCTGATGG	0.353000													27	10					0	0	1	0	0
POLR3K	51728	broad.mit.edu	37	16	97470	97470	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr16:97470T>C	uc002cfi.1	-	3	326	c.287A>G	c.(286-288)AAG>AGG	p.K96R		NM_016310	NP_057394	Q9Y2Y1	RPC10_HUMAN	DNA directed RNA polymerase III polypeptide K	96	TFIIS-type.				innate immune response|response to virus|transcription from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|zinc ion binding				0		all_cancers(16;9.01e-08)|all_epithelial(16;7.64e-07)|Hepatocellular(780;0.000325)|Lung NSC(18;0.0104)|all_lung(18;0.0239)				ATTGCAGCACTTGTAGAAGGT	0.557000													48	63					0	0	1	0	0
ZNF200	7752	broad.mit.edu	37	16	3274532	3274532	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr16:3274532T>C	uc002cuj.2	-	5	1180	c.548A>G	c.(547-549)GAT>GGT	p.D183G	ZNF200_uc002cum.3_Missense_Mutation_p.D182G|ZNF200_uc010bti.2_Missense_Mutation_p.D182G|ZNF200_uc002cuk.2_Missense_Mutation_p.D183G|ZNF200_uc002cui.2_Missense_Mutation_p.D182G|ZNF200_uc002cul.3_Missense_Mutation_p.D182G	NM_003454	NP_003445	P98182	ZN200_HUMAN	zinc finger protein 200 isoform 1	183					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						TTCATCATCATCTGAAGACTT	0.398000													6	99					0	0	1	0	0
KIAA0664	23277	broad.mit.edu	37	17	2595751	2595751	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr17:2595751C>T	uc002fuy.1	-	22	3433	c.3347G>A	c.(3346-3348)GGG>GAG	p.G1116E	KIAA0664_uc002fux.1_Missense_Mutation_p.G1049E|KIAA0664_uc010ckc.1_Missense_Mutation_p.G102E	NM_015229	NP_056044	O75153	K0664_HUMAN	hypothetical protein LOC23277	1116	TPR 3.						binding			breast(2)	2						CTCCATCACCCCGTGCAGCAC	0.701000													6	74					0	0	1	0	0
FASN	2194	broad.mit.edu	37	17	80051592	80051592	+	Silent	SNP	G	A	A			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr17:80051592G>A	uc002kdu.2	-	4	453	c.336C>T	c.(334-336)AGC>AGT	p.S112S		NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	112	Beta-ketoacyl synthase (By similarity).				energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	TCTCAGAGCCGCTCACGCCCA	0.657000													40	76					0	0	1	0	0
ATP13A1	57130	broad.mit.edu	37	19	19767879	19767879	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr19:19767879T>C	uc002nnh.3	-	5	858	c.830A>G	c.(829-831)GAG>GGG	p.E277G	ATP13A1_uc002nnf.3_5'Flank|ATP13A1_uc002nng.2_Missense_Mutation_p.E159G	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	277	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(3)|large_intestine(2)|central_nervous_system(1)	6						CAGCGAGGCCTCGAACGCCAC	0.592000													2	15					0	0	1	0	0
IL1RL1	9173	broad.mit.edu	37	2	102959762	102959762	+	Missense_Mutation	SNP	T	A	A			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr2:102959762T>A	uc002tbu.1	+	8	1128	c.857T>A	c.(856-858)GTT>GAT	p.V286D	IL1RL1_uc010ywa.1_Missense_Mutation_p.V169D|IL18R1_uc002tbw.3_Intron|IL1RL1_uc002tbv.2_Missense_Mutation_p.V286D	NM_016232	NP_057316	Q01638	ILRL1_HUMAN	interleukin 1 receptor-like 1 isoform 1	286	Extracellular (Potential).|Ig-like C2-type 3.				innate immune response	integral to membrane	interleukin-1 receptor activity|receptor signaling protein activity			skin(2)|ovary(1)|central_nervous_system(1)	4						CTAGACATGGTTTTAAGAATA	0.453000													68	170					0	0	1	0	0
IDH1	3417	broad.mit.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	T	T	rs121913500		TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr2:209113112C>T	uc002vcs.2	-	4	641	c.395G>A	c.(394-396)CGT>CAT	p.R132H	IDH1_uc002vct.2_Missense_Mutation_p.R132H|IDH1_uc002vcu.2_Missense_Mutation_p.R132H	NM_005896	NP_005887	O75874	IDHC_HUMAN	isocitrate dehydrogenase 1 (NADP+), soluble	132		Substrate.	R -> G (in a glioma sample; glioblastoma multiforme; somatic mutation).|R -> L (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> S (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> H (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> C (in colorectal cancer and glioma samples; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha- ketoglutarate but instead alpha- ketoglutarate is converted to R(-)-2- hydroxyglutarate).		2-oxoglutarate metabolic process|cellular lipid metabolic process|glyoxylate cycle|isocitrate metabolic process|NADPH regeneration|tricarboxylic acid cycle	cytosol|peroxisomal matrix	isocitrate dehydrogenase (NADP+) activity|magnesium ion binding|NAD binding|protein homodimerization activity	p.R132H(2023)|p.R132C(344)|p.R132?(210)|p.R132G(117)|p.R132S(79)|p.R132L(58)|p.R132V(1)|p.G131_R132>VL(1)		central_nervous_system(2156)|haematopoietic_and_lymphoid_tissue(606)|bone(74)|thyroid(22)|large_intestine(4)|skin(2)|prostate(2)|autonomic_ganglia(1)|soft_tissue(1)	2868				Epithelial(149;0.0322)|LUSC - Lung squamous cell carcinoma(261;0.0711)|Lung(261;0.136)		ATAAGCATGACGACCTATGAT	0.393000			Mis		gliobastoma 								35	52					0	0	1	0	0
CLRN1	7401	broad.mit.edu	37	3	150645865	150645865	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr3:150645865G>A	uc003eyk.1	-	3	848	c.557C>T	c.(556-558)ACC>ATC	p.T186I	CLRN1OS_uc011bny.1_Intron|CLRN1_uc003eyj.2_Missense_Mutation_p.T110I|CLRN1_uc010hvj.1_RNA	NM_174878	NP_777367	P58418	CLRN1_HUMAN	clarin 1 isoform a	186	Helical; (Potential).				equilibrioception|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	integral to membrane					0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			GAATGAGGTGGTATATTTTTC	0.343000													46	58					0	0	1	0	0
SC4MOL	6307	broad.mit.edu	37	4	166263064	166263064	+	Missense_Mutation	SNP	A	G	G			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr4:166263064A>G	uc003ire.2	+	6	978	c.848A>G	c.(847-849)GAA>GGA	p.E283G	SC4MOL_uc003irf.2_Missense_Mutation_p.E152G	NM_006745	NP_006736	Q15800	ERG25_HUMAN	sterol-C4-methyl oxidase-like isoform 1	283					cholesterol biosynthetic process|fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	C-4 methylsterol oxidase activity|iron ion binding				0	all_hematologic(180;0.221)	Prostate(90;0.0959)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.0875)	NADH(DB00157)	GCCTATAATGAAAAGAGGAAG	0.343000													31	57					0	0	1	0	0
CCNB1	891	broad.mit.edu	37	5	68467274	68467274	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr5:68467274C>T	uc003jvm.2	+	4	718	c.541C>T	c.(541-543)CTT>TTT	p.L181F	CCNB1_uc011crd.1_Missense_Mutation_p.L181F|CCNB1_uc010ixb.2_Missense_Mutation_p.L181F	NM_031966	NP_114172	P14635	CCNB1_HUMAN	cyclin B1	181					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitotic cell cycle spindle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|mitotic spindle stabilization|positive regulation of attachment of spindle microtubules to kinetochore|positive regulation of mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of cyclin-dependent protein kinase activity	condensed nuclear chromosome outer kinetochore|cytosol|microtubule organizing center|nucleoplasm|spindle pole					0		Lung NSC(167;5.51e-05)|Prostate(74;0.00634)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.24e-56)|Epithelial(20;1.12e-52)|all cancers(19;2.63e-48)|Lung(70;0.0177)		TCTGAGACAACTTGAGGTAAG	0.328000													31	61					0	0	1	0	0
PTK2B	2185	broad.mit.edu	37	8	27310644	27310644	+	Silent	SNP	G	A	A			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr8:27310644G>A	uc003xfn.1	+	33	3370	c.2562G>A	c.(2560-2562)GGG>GGA	p.G854G	PTK2B_uc003xfo.1_Silent_p.G854G|PTK2B_uc003xfp.1_Silent_p.G854G|PTK2B_uc003xfq.1_Silent_p.G812G	NM_173174	NP_775266	Q14289	FAK2_HUMAN	PTK2B protein tyrosine kinase 2 beta isoform a	854	Interaction with TGFB1I1 (By similarity).|Pro-rich.				apoptosis|bone resorption|positive regulation of cell proliferation|signal complex assembly	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|signal transducer activity			lung(3)|ovary(1)|skin(1)	5		Ovarian(32;2.72e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|Epithelial(17;6.61e-10)|BRCA - Breast invasive adenocarcinoma(99;0.226)|Colorectal(74;0.229)		AGTTCACAGGGCCCCCACAGA	0.542000													53	51					0	0	1	0	0
ZNF157	7712	broad.mit.edu	37	X	47272161	47272161	+	Missense_Mutation	SNP	A	T	T			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chrX:47272161A>T	uc004dhr.1	+	4	758	c.689A>T	c.(688-690)AAG>ATG	p.K230M		NM_003446	NP_003437	P51786	ZN157_HUMAN	zinc finger protein 157	230	C2H2-type 3.				negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TTTGGCAGGAAGTCACAACTC	0.433000													7	94					0	0	1	0	0
ARR3	407	broad.mit.edu	37	X	69500075	69500075	+	Silent	SNP	G	T	T			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chrX:69500075G>T	uc004dyb.2	+	13	1004	c.936G>T	c.(934-936)CTG>CTT	p.L312L	ARR3_uc004dya.2_Silent_p.L312L|RAB41_uc004dyc.2_5'Flank|RAB41_uc010nkv.2_5'Flank	NM_004312	NP_004303	P36575	ARRC_HUMAN	arrestin 3, retinal (X-arrestin)	312					signal transduction|visual perception	cytoplasm|soluble fraction				large_intestine(2)|ovary(2)	4						AAGAGCTGCTGGGGATCCTGG	0.502000													115	145					3.18757e-65	3.27145e-65	1	1	0
TAF1	6872	broad.mit.edu	37	X	70679529	70679529	+	Missense_Mutation	SNP	G	T	T			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chrX:70679529G>T	uc004dzu.3	+	36	5240	c.5189G>T	c.(5188-5190)AGT>ATT	p.S1730I	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.S1751I|TAF1_uc004dzv.3_Missense_Mutation_p.S938I|TAF1_uc010nle.1_RNA|TAF1_uc010nlf.1_Missense_Mutation_p.S155I|TAF1_uc004dzx.2_RNA|TAF1_uc004dzy.2_RNA|TAF1_uc004dzw.1_RNA|TAF1_uc010nlg.1_RNA	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	1730	Asp/Glu-rich (acidic tail).|Protein kinase 2.				G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				GATGCTGGGAGTGATGAAGAA	0.468000													13	174					2.27111e-07	2.27111e-07	1	1	0
CTAG2	30848	broad.mit.edu	37	X	153881577	153881577	+	Silent	SNP	C	T	T	rs140132753		TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chrX:153881577C>T	uc004fmi.1	-	1	266	c.213G>A	c.(211-213)GCG>GCA	p.A71A	CTAG2_uc004fmh.1_Silent_p.A71A	NM_020994	NP_066274	O75638	CTAG2_HUMAN	cancer/testis antigen 2 isoform LAGE-1b	71	Gly-rich.					centrosome				pancreas(1)	1	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TTCCATCCTGCGCAGAAGCGG	0.711000													8	43					0	0	1	0	0
CIC	23152	broad.mit.edu	37	19	42791207	42791208	+	Frame_Shift_Del	DEL	AG	-	-			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr19:42791207_42791208delAG	uc002otf.1	+	3	307_308	c.267_268delAG	c.(265-270)ACAGGGfs	p.T89fs		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	89_90	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				CAGGTGGGACAGGGAGTGCTGA	0.649			T	DUX4	soft tissue sarcoma								10	117	---	---	---	---					
CIC	23152	broad.mit.edu	37	19	42793215	42793218	+	Frame_Shift_Del	DEL	CAGT	-	-			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr19:42793215_42793218delCAGT	uc002otf.1	+	7	1147_1150	c.1107_1110delCAGT	c.(1105-1110)GACAGTfs	p.D369fs		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	369_370					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				GAGAAGTAGACAGTCAGGCGCTAC	0.667			T	DUX4	soft tissue sarcoma								43	55	---	---	---	---					
GIGYF2	26058	broad.mit.edu	37	2	233708758	233708761	+	Frame_Shift_Del	DEL	AAGG	-	-			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr2:233708758_233708761delAAGG	uc002vti.3	+	26	3229_3232	c.2892_2895delAAGG	c.(2890-2895)CAAAGGfs	p.Q964fs	GIGYF2_uc002vtj.3_Frame_Shift_Del_p.Q985fs|GIGYF2_uc002vtk.3_Frame_Shift_Del_p.Q964fs|GIGYF2_uc002vth.3_Frame_Shift_Del_p.Q958fs|GIGYF2_uc010zmk.1_RNA|GIGYF2_uc010zml.1_Frame_Shift_Del_p.K807fs|GIGYF2_uc002vtq.3_Frame_Shift_Del_p.Q297fs	NM_015575	NP_056390	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2 isoform b	964_965	Gln-rich.				cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)		TGCAACAGCAAAGGCGCCAGCAGA	0.343													10	28	---	---	---	---					
MYH7B	57644	broad.mit.edu	37	20	33583356	33583358	+	In_Frame_Del	DEL	AGG	-	-			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr20:33583356_33583358delAGG	uc002xbi.1	+	26	3136_3138	c.3044_3046delAGG	c.(3043-3048)AAGGAG>AAG	p.E1016del		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	974	Potential.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			AAAGCTGAGAAGGAGAAGCAAGC	0.537													13	36	---	---	---	---					
PMPCB	9512	broad.mit.edu	37	7	102948108	102948109	+	Frame_Shift_Del	DEL	AA	-	-	rs141254128		TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr7:102948108_102948109delAA	uc003vbl.2	+	7	836_837	c.802_803delAA	c.(802-804)AAAfs	p.K268fs	PMPCB_uc010liu.1_Frame_Shift_Del_p.K268fs|PMPCB_uc003vbk.1_Frame_Shift_Del_p.K268fs|PMPCB_uc003vbm.2_Frame_Shift_Del_p.K177fs|PMPCB_uc010liv.2_Frame_Shift_Del_p.K174fs|PMPCB_uc010liw.2_Frame_Shift_Del_p.K177fs|PMPCB_uc011kll.1_Frame_Shift_Del_p.K163fs|PMPCB_uc011klm.1_Frame_Shift_Del_p.K143fs	NM_004279	NP_004270	O75439	MPPB_HUMAN	mitochondrial processing peptidase beta subunit	268					proteolysis	mitochondrial matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)	4						ATGCACACACAAAGGAGAAATA	0.396													16	60	---	---	---	---					
MAFA	389692	broad.mit.edu	37	8	144511954	144511956	+	In_Frame_Del	DEL	TGG	-	-			TCGA-HT-8012-01A-11D-2395-08	TCGA-HT-8012-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	1731d809-8fde-4539-82ab-4cdf461abb88	c2b420d7-bb63-411d-979d-d5b9bd30ebc3	g.chr8:144511954_144511956delTGG	uc003yyc.1	-	1	621_623	c.621_623delCCA	c.(619-624)CACCAT>CAT	p.207_208HH>H		NM_201589	NP_963883	Q8NHW3	MAFA_HUMAN	v-maf musculoaponeurotic fibrosarcoma oncogene	207_208	His-rich.				insulin secretion|nitric oxide mediated signal transduction|response to glucose stimulus	nucleus	protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(97;7.39e-11)|all_epithelial(106;5.44e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.237)			CGCGCCGCCAtggtggtggtggt	0.581										HNSCC(29;0.082)			4	3	---	---	---	---					
