Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
MST1P2	11209	broad.mit.edu	37	1	16974662	16974662	+	RNA	SNP	C	A	A	rs28460410	by1000genomes	TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr1:16974662C>A	uc010och.1	+	7		c.1122C>A			MST1P2_uc001azk.2_RNA|MST1P2_uc001azl.3_RNA|MST1P2_uc009vox.2_RNA|MST1P2_uc001azm.3_RNA	NR_027504				Homo sapiens cDNA FLJ43241 fis, clone HEART1000010, weakly  similar to Hepatocyte growth factor-like protein precursor.												0						GCTACCAGATCCGGCGTTGTA	0.692000													7	103	---	---	---	---	7.48243e-07	7.77586e-07	0.058154	1	0
ZFYVE9	9372	broad.mit.edu	37	1	52703746	52703746	+	Silent	SNP	G	A	A			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr1:52703746G>A	uc001cto.2	+	4	829	c.657G>A	c.(655-657)CCG>CCA	p.P219P	ZFYVE9_uc001ctn.2_Silent_p.P219P|ZFYVE9_uc001ctp.2_Silent_p.P219P	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	219					endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8						TGAATAGACCGAAAACAGAGG	0.363000													4	237	---	---	---	---	0	0	0.150653	0	0
MAGOH	4116	broad.mit.edu	37	1	53692748	53692748	+	Missense_Mutation	SNP	A	G	G			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr1:53692748A>G	uc001cvf.1	-	5	498	c.410T>C	c.(409-411)ATT>ACT	p.I137T	MAGOH_uc010ont.1_Missense_Mutation_p.I100T	NM_002370	NP_002361	P61326	MGN_HUMAN	mago-nashi homolog	137					mRNA 3'-end processing|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translation|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|exon-exon junction complex|nuclear speck	protein binding|RNA binding				0						GTGTAATCCAATAAGACTGAA	0.378000													3	41	---	---	---	---	0	0	0.115264	0	0
TGFBR3	7049	broad.mit.edu	37	1	92262932	92262932	+	Missense_Mutation	SNP	G	A	A			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr1:92262932G>A	uc001doh.2	-	3	624	c.158C>T	c.(157-159)GCC>GTC	p.A53V	TGFBR3_uc009wde.2_5'UTR|TGFBR3_uc010osy.1_Missense_Mutation_p.A11V|TGFBR3_uc001doi.2_Missense_Mutation_p.A53V|TGFBR3_uc001doj.2_Missense_Mutation_p.A53V	NM_003243	NP_003234	Q03167	TGBR3_HUMAN	transforming growth factor, beta receptor III	53	Extracellular (Potential).				BMP signaling pathway|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cell growth|cell migration|definitive erythrocyte differentiation|heart trabecula formation|immune response|intracellular protein kinase cascade|liver development|negative regulation of cellular component movement|negative regulation of epithelial cell proliferation|palate development|pathway-restricted SMAD protein phosphorylation|response to follicle-stimulating hormone stimulus|response to luteinizing hormone stimulus|response to prostaglandin E stimulus|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis	external side of plasma membrane|extracellular space|inhibin-betaglycan-ActRII complex|integral to plasma membrane|intracellular membrane-bounded organelle	coreceptor activity|heparin binding|PDZ domain binding|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type III|type II transforming growth factor beta receptor binding			ovary(3)	3		all_lung(203;0.00719)|Lung NSC(277;0.0268)		all cancers(265;0.0108)|Epithelial(280;0.0825)		GCCTCTGCTGGCACAGCCTGA	0.602000													5	280	---	---	---	---	0	0	0.217242	0	0
KCNC4	3749	broad.mit.edu	37	1	110754255	110754255	+	Missense_Mutation	SNP	C	T	T			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr1:110754255C>T	uc001dzh.2	+	1	191	c.134C>T	c.(133-135)ACG>ATG	p.T45M	KCNC4_uc001dzf.2_Missense_Mutation_p.T45M|KCNC4_uc009wfr.2_Missense_Mutation_p.T45M|KCNC4_uc001dzg.2_Missense_Mutation_p.T45M|KCNC4_uc001dzi.2_RNA	NM_004978	NP_004969	Q03721	KCNC4_HUMAN	Shaw-related voltage-gated potassium channel	45	Cytoplasmic (Potential).				synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3		all_cancers(81;9.88e-06)|all_epithelial(167;3.23e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0238)|all cancers(265;0.0693)|Epithelial(280;0.0748)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.135)		GTGGGCGGCACGCGACATGAG	0.657000													3	67	---	---	---	---	0	0	0.150653	0	0
TMEM63A	9725	broad.mit.edu	37	1	226050509	226050509	+	Silent	SNP	G	A	A			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr1:226050509G>A	uc001hpm.1	-	11	1039	c.789C>T	c.(787-789)TGC>TGT	p.C263C		NM_014698	NP_055513	O94886	TM63A_HUMAN	transmembrane protein 63A	263						integral to membrane|lysosomal membrane	nucleotide binding			ovary(1)|breast(1)	2	Breast(184;0.197)					CCACGTTGTAGCACAGCTGCA	0.577000													3	79	---	---	---	---	0	0	0.184627	0	0
TRIM48	79097	broad.mit.edu	37	11	55035844	55035844	+	Missense_Mutation	SNP	T	C	C			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr11:55035844T>C	uc010rid.1	+	4	660	c.574T>C	c.(574-576)TAC>CAC	p.Y192H		NM_024114	NP_077019	Q8IWZ4	TRI48_HUMAN	tripartite motif-containing 48	176						intracellular	zinc ion binding				0						AGACATATTATACAGGTGAGT	0.338000													3	51	---	---	---	---	0	0	0.217242	0	0
CNTF	1270	broad.mit.edu	37	11	58390308	58390308	+	Missense_Mutation	SNP	G	A	A	rs139149169	byFrequency	TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr11:58390308G>A	uc001nna.3	+	1	163	c.83G>A	c.(82-84)CGT>CAT	p.R28H	ZFP91-CNTF_uc010rkm.1_RNA	NM_000614	NP_000605	P26441	CNTF_HUMAN	ciliary neurotrophic factor	28					ciliary neurotrophic factor-mediated signaling pathway|growth|negative regulation of neuron apoptosis|positive regulation of tyrosine phosphorylation of Stat3 protein		ciliary neurotrophic factor receptor binding|growth factor activity|interleukin-6 receptor binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				AGGAAGATTCGTTCAGACCTG	0.483000													13	49	---	---	---	---	0	0	0.160694	0	0
FAM111B	374393	broad.mit.edu	37	11	58892674	58892674	+	Silent	SNP	G	A	A			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr11:58892674G>A	uc001nnl.2	+	4	1347	c.1104G>A	c.(1102-1104)CCG>CCA	p.P368P	FAM111B_uc001nnm.2_Silent_p.P338P|FAM111B_uc010rko.1_Silent_p.P338P	NM_198947	NP_945185	Q6SJ93	F111B_HUMAN	hypothetical protein LOC374393 isoform a	368							catalytic activity			ovary(2)	2						GACGGAGGCCGCATCTGGGTA	0.383000													4	229	---	---	---	---	0	0	0.150653	0	0
OSBP	5007	broad.mit.edu	37	11	59377967	59377967	+	Missense_Mutation	SNP	T	C	C			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr11:59377967T>C	uc001noc.1	-	2	938	c.458A>G	c.(457-459)AAT>AGT	p.N153S		NM_002556	NP_002547	P22059	OSBP1_HUMAN	oxysterol binding protein	153	PH.				lipid transport	Golgi membrane	oxysterol binding			large_intestine(1)	1		all_epithelial(135;0.000236)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		AGCACCCCCATTGGAAATGAT	0.537000													41	119	---	---	---	---	0	0	0.104719	0	0
CD4	920	broad.mit.edu	37	12	6927643	6927643	+	Missense_Mutation	SNP	G	A	A			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr12:6927643G>A	uc001qqv.1	+	8	1458	c.1213G>A	c.(1213-1215)GTC>ATC	p.V405I	CD4_uc010sfj.1_Missense_Mutation_p.V132I|CD4_uc009zfc.1_Missense_Mutation_p.V226I|CD4_uc010sfk.1_Missense_Mutation_p.V132I|CD4_uc010sfl.1_Missense_Mutation_p.V132I|CD4_uc010sfm.1_Missense_Mutation_p.V132I	NM_000616	NP_000607	P01730	CD4_HUMAN	CD4 antigen precursor	405	Helical; (Potential).				cell adhesion|entry into host cell|immune response|induction by virus of host cell-cell fusion|initiation of viral infection|maintenance of protein location in cell|positive regulation of interleukin-2 biosynthetic process|positive regulation of protein kinase activity|protein palmitoleylation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|T cell selection|transmembrane receptor protein tyrosine kinase signaling pathway	early endosome|endoplasmic reticulum membrane|integral to membrane|T cell receptor complex	coreceptor activity|extracellular matrix structural constituent|glycoprotein binding|MHC class II protein binding|protein homodimerization activity|protein kinase binding|transmembrane receptor activity|zinc ion binding				0		Myeloproliferative disorder(1001;0.0122)				GCTGGGGGGCGTCGCCGGCCT	0.622000													4	145	---	---	---	---	0	0	0.184627	0	0
OR6C3	254786	broad.mit.edu	37	12	55725701	55725701	+	Missense_Mutation	SNP	G	A	A	rs139430640		TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr12:55725701G>A	uc010spj.1	+	1	217	c.217G>A	c.(217-219)GTA>ATA	p.V73I		NM_054104	NP_473445	Q9NZP0	OR6C3_HUMAN	olfactory receptor, family 6, subfamily C,	73	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						ATTTACAACCGTATGCATCCC	0.428000													4	149	---	---	---	---	0	0	0.184627	0	0
LOC284232	284232	broad.mit.edu	37	13	19419969	19419969	+	RNA	SNP	T	C	C	rs76149397		TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr13:19419969T>C	uc010tcj.1	-	1		c.26141A>G				NR_027995				Homo sapiens ankyrin repeat domain 20 family, member A2 pseudogene (LOC284232), non-coding RNA.												0						GACAAATTCATTGGTTTAGTT	0.303000													3	116	---	---	---	---	0	0	0.038147	0	0
GSX1	219409	broad.mit.edu	37	13	28367938	28367938	+	Silent	SNP	C	G	G			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr13:28367938C>G	uc001urr.1	+	2	696	c.648C>G	c.(646-648)GGC>GGG	p.G216G		NM_145657	NP_663632	Q9H4S2	GSX1_HUMAN	GS homeobox 1	216	Poly-Gly.				positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Lung SC(185;0.0161)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	GBM - Glioblastoma multiforme(144;0.0402)|all cancers(112;0.0404)|OV - Ovarian serous cystadenocarcinoma(117;0.197)		gcggcggcggcgggggtgccg	0.458000													3	73	---	---	---	---	0	0	0.115264	0	0
ADCY4	196883	broad.mit.edu	37	14	24798362	24798362	+	Silent	SNP	G	A	A			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr14:24798362G>A	uc001wov.2	-	10	1435	c.1429C>T	c.(1429-1431)CTG>TTG	p.L477L	ADCY4_uc001wow.2_Silent_p.L477L|ADCY4_uc010toh.1_Silent_p.L163L|ADCY4_uc001wox.2_Silent_p.L477L|ADCY4_uc001woy.2_Silent_p.L477L	NM_139247	NP_640340	Q8NFM4	ADCY4_HUMAN	adenylate cyclase 4	477	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding|protein binding			ovary(1)|lung(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(265;0.0192)		CGGGTCATCAGCAGTGATGGA	0.622000													3	96	---	---	---	---	0	0	0.115264	0	0
C14orf135	64430	broad.mit.edu	37	14	60591629	60591629	+	Missense_Mutation	SNP	G	A	A	rs141333786		TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr14:60591629G>A	uc001xer.3	+	8	2560	c.2038G>A	c.(2038-2040)GCA>ACA	p.A680T	C14orf135_uc001xeq.2_Missense_Mutation_p.A680T|C14orf135_uc010apm.2_RNA	NM_022495	NP_071940	Q63HM2	CN135_HUMAN	hepatitis C virus F protein-binding protein 2	914						integral to membrane				ovary(2)	2		Myeloproliferative disorder(585;0.163)		OV - Ovarian serous cystadenocarcinoma(108;0.127)		ATGCTTACCCGCAGAGTGGAG	0.433000													4	217	---	---	---	---	0	0	0.184627	0	0
C14orf145	145508	broad.mit.edu	37	14	81251451	81251451	+	Missense_Mutation	SNP	C	T	T			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr14:81251451C>T	uc001xux.2	-	14	2170	c.1999G>A	c.(1999-2001)GAC>AAC	p.D667N	C14orf145_uc010asz.1_RNA	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	667	Potential.					centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		GCAGTGAGGTCAGAAAGGTCC	0.478000													43	160	---	---	---	---	0	0	0.104719	0	0
INF2	64423	broad.mit.edu	37	14	105175025	105175025	+	Silent	SNP	C	T	T			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr14:105175025C>T	uc001ypb.2	+	10	2048	c.1905C>T	c.(1903-1905)GCC>GCT	p.A635A	INF2_uc010tyi.1_Silent_p.A635A|INF2_uc001ypc.2_Silent_p.A635A|INF2_uc010awz.1_RNA	NM_022489	NP_071934	Q27J81	INF2_HUMAN	inverted formin 2 isoform 1	635	FH2.				actin cytoskeleton organization	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm	actin binding|Rho GTPase binding				0		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00188)|OV - Ovarian serous cystadenocarcinoma(23;0.0191)|Epithelial(46;0.047)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.176)		TCCTCGATGCCAAGAAGAGCC	0.622000											OREG0022959	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	181	---	---	---	---	0	0	0.093190	0	0
ADAM6	8755	broad.mit.edu	37	14	106067926	106067926	+	RNA	SNP	G	A	A			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr14:106067926G>A	uc010tyt.1	-	3649		c.62731C>T			uc001yrs.2_Intron|uc001yrt.2_Intron|uc001yrw.1_Missense_Mutation_p.S61F|uc001yrx.1_Missense_Mutation_p.S8F|uc001yrv.1_5'Flank|uc001yru.2_5'Flank|uc010axq.1_5'Flank					Parts of antibodies, mostly variable regions.												0						CCCGTTGAGGGAGCCTGTGTC	0.612000													3	105	---	---	---	---	0	0	0.115264	0	0
ZNF770	54989	broad.mit.edu	37	15	35274879	35274879	+	Missense_Mutation	SNP	G	A	A			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr15:35274879G>A	uc001ziw.2	-	3	1068	c.757C>T	c.(757-759)CGT>TGT	p.R253C		NM_014106	NP_054825	Q6IQ21	ZN770_HUMAN	zinc finger protein 770	253					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(122;4.59e-10)|all_lung(180;8.78e-09)		all cancers(64;1.97e-18)|GBM - Glioblastoma multiforme(113;2.11e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0643)		GATTCTGTACGCCTCTTCTTT	0.368000													3	59	---	---	---	---	0	0	0.115264	0	0
MEFV	4210	broad.mit.edu	37	16	3304298	3304298	+	Missense_Mutation	SNP	G	A	A			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr16:3304298G>A	uc002cun.1	-	2	810	c.770C>T	c.(769-771)CCA>CTA	p.P257L		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	257					inflammatory response	cytoplasm|microtubule|microtubule associated complex|nucleus	actin binding|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|lung(1)	6					Colchicine(DB01394)	GAGAATTTCTGGATTTGCGGG	0.577000													48	178	---	---	---	---	0	0	0.139131	0	0
GPRC5B	51704	broad.mit.edu	37	16	19883499	19883499	+	Silent	SNP	G	A	A			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr16:19883499G>A	uc002dgt.2	-	2	777	c.669C>T	c.(667-669)TGC>TGT	p.C223C	GPRC5B_uc010vav.1_Silent_p.C249C	NM_016235	NP_057319	Q9NZH0	GPC5B_HUMAN	G protein-coupled receptor, family C, group 5,	223	Cytoplasmic (Potential).									lung(1)|breast(1)|skin(1)	3						TGAACTTGCCGCACAGAGTGA	0.592000													3	133	---	---	---	---	0	0	0.150653	0	0
ATP6V0D1	9114	broad.mit.edu	37	16	67473189	67473189	+	Silent	SNP	G	A	A			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr16:67473189G>A	uc002ete.1	-	5	727	c.627C>T	c.(625-627)TGC>TGT	p.C209C	ATP6V0D1_uc010vjo.1_Silent_p.C250C|ATP6V0D1_uc010vjn.1_Silent_p.C132C	NM_004691	NP_004682	P61421	VA0D1_HUMAN	ATPase, H+ transporting, lysosomal, V0 subunit	209					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	endosome membrane|proton-transporting V-type ATPase, V0 domain|vacuolar proton-transporting V-type ATPase complex					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0439)|Epithelial(162;0.101)		CCAGGATGGGGCACATGGCAT	0.627000													4	94	---	---	---	---	0	0	0.150653	0	0
AP2B1	163	broad.mit.edu	37	17	34009806	34009806	+	Missense_Mutation	SNP	G	A	A			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr17:34009806G>A	uc002hjr.2	+	17	2564	c.2375G>A	c.(2374-2376)GGC>GAC	p.G792D	AP2B1_uc002hjq.2_Missense_Mutation_p.G806D|AP2B1_uc010wci.1_Missense_Mutation_p.G768D|AP2B1_uc002hjs.2_Missense_Mutation_p.G735D|AP2B1_uc002hjt.2_Missense_Mutation_p.G806D|AP2B1_uc010ctv.2_Missense_Mutation_p.G806D|AP2B1_uc010wcj.1_Missense_Mutation_p.G543D	NM_001282	NP_001273	P63010	AP2B1_HUMAN	adaptor-related protein complex 2, beta 1	792					axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|coated pit|cytosol|endocytic vesicle membrane|plasma membrane	clathrin binding|protein transporter activity			ovary(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)		AATACCTTGGGCCCAGTCATG	0.438000													4	137	---	---	---	---	0	0	0.184627	0	0
WASH2P	375260	broad.mit.edu	37	2	114356239	114356239	+	Silent	SNP	T	C	C			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr2:114356239T>C	uc002tkh.2	+	6	775	c.717T>C	c.(715-717)CGT>CGC	p.R239R	WASH2P_uc002tka.2_RNA|WASH2P_uc002tkb.2_RNA|WASH2P_uc002tkd.2_RNA	NM_182905	NP_878908			WAS protein family homolog 1												0						CCTTTGCCCGTGTGTCAGACT	0.642000													4	11	---	---	---	---	0	0	0.047766	0	0
RTEL1	51750	broad.mit.edu	37	20	62324212	62324212	+	Missense_Mutation	SNP	G	A	A	rs143317975		TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr20:62324212G>A	uc002yfu.1	+	29	3050	c.2707G>A	c.(2707-2709)GTG>ATG	p.V903M	RTEL1_uc011abc.1_RNA|RTEL1_uc002yft.1_Missense_Mutation_p.V903M|RTEL1_uc011abd.1_Missense_Mutation_p.V927M|RTEL1_uc011abe.1_Missense_Mutation_p.V680M|RTEL1_uc002yfw.2_RNA|RTEL1_uc002yfx.1_Missense_Mutation_p.V148M|TNFRSF6B_uc002yfy.2_5'Flank	NM_016434	NP_057518	Q9NZ71	RTEL1_HUMAN	regulator of telomere elongation helicase 1	903					DNA repair|regulation of double-strand break repair via homologous recombination|telomere maintenance	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding				0	all_cancers(38;6.47e-12)|all_epithelial(29;3.75e-13)		Epithelial(9;1.25e-09)|all cancers(9;5.13e-09)|BRCA - Breast invasive adenocarcinoma(10;7.26e-05)|OV - Ovarian serous cystadenocarcinoma(5;0.00223)|Colorectal(105;0.107)			CATGGTGGCCGTGAAGCAGGA	0.642000													3	137	---	---	---	---	0	0	0.115264	0	0
MYH15	22989	broad.mit.edu	37	3	108224618	108224618	+	Silent	SNP	T	C	C			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr3:108224618T>C	uc003dxa.1	-	3	264	c.207A>G	c.(205-207)AAA>AAG	p.K69K		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	69	Myosin head-like.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						CTTCACTCCCTTTTACCTCAG	0.348000													3	244	---	---	---	---	0	0	0.150653	0	0
HGFAC	3083	broad.mit.edu	37	4	3443797	3443797	+	Silent	SNP	C	G	G			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr4:3443797C>G	uc003ghc.2	+	1	72	c.69C>G	c.(67-69)CTC>CTG	p.L23L	HGFAC_uc010icw.2_Silent_p.L23L	NM_001528	NP_001519	Q04756	HGFA_HUMAN	HGF activator preproprotein	23					proteolysis	extracellular space	protein binding|serine-type endopeptidase activity			central_nervous_system(2)	2				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		TCCTCCTCCTCCTGCTGCTGC	0.716000													3	46	---	---	---	---	0	0	0.115264	0	0
HTRA3	94031	broad.mit.edu	37	4	8307709	8307709	+	Missense_Mutation	SNP	A	G	G			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr4:8307709A>G	uc003gla.2	+	9	1412	c.1208A>G	c.(1207-1209)CAA>CGA	p.Q403R		NM_053044	NP_444272	P83110	HTRA3_HUMAN	HtrA serine peptidase 3 precursor	403	PDZ.				proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity			ovary(1)	1						GGCGGCATCCAAGATGGTGAC	0.647000													5	180	---	---	---	---	0	0	0.058154	0	0
PRRC1	133619	broad.mit.edu	37	5	126887496	126887496	+	Missense_Mutation	SNP	G	A	A			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr5:126887496G>A	uc003kuk.2	+	9	1406	c.1226G>A	c.(1225-1227)CGG>CAG	p.R409Q	PRRC1_uc003kuj.3_3'UTR	NM_130809	NP_570721	Q96M27	PRRC1_HUMAN	proline-rich coiled-coil 1	409						Golgi apparatus					0		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0851)|Epithelial(69;0.113)		AATGTCAGCCGGACTGATTGG	0.527000													3	115	---	---	---	---	0	0	0.115264	0	0
CTTNBP2	83992	broad.mit.edu	37	7	117368303	117368303	+	Missense_Mutation	SNP	A	G	G			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr7:117368303A>G	uc003vjf.2	-	17	3987	c.3895T>C	c.(3895-3897)TCC>CCC	p.S1299P		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	1299										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		TCGCAGGGGGAGGGCGCCTGA	0.512000													3	237	---	---	---	---	0	0	0.150653	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	T	T			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr7:140453136A>T	uc003vwc.3	-	15	1860	c.1799T>A	c.(1798-1800)GTG>GAG	p.V600E		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	600	Protein kinase.		V -> D (in a melanoma cell line; requires 2 nucleotide substitutions).|V -> E (in sarcoma, colorectal adenocarcinoma, metastatic melanoma, ovarian serous carcinoma, pilocytic astrocytoma; somatic mutation; most common mutation; constitutive and elevated kinase activity; efficiently induces cell transformation; suppression of mutation in melanoma causes growth arrest and promotes apoptosis).		activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding	p.V600E(16892)|p.V600?(325)|p.V600K(176)|p.V600R(36)|p.V600M(25)|p.V600A(23)|p.V600D(21)|p.V600G(11)|p.V600_K601>E(8)|p.T599_V600insTT(3)|p.T599_R603>I(2)|p.T599_V600>IAL(2)|p.V600L(2)|p.T599_V600insT(2)|p.V600_W604del(1)|p.V600_S605>DV(1)|p.V600_S605>D(1)|p.T599_V600insV(1)|p.T599_V600insDFGLAT(1)	KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	TCGAGATTTCACTGTAGCTAG	0.368000	V600E(UACC257_SKIN)|V600D(K029AX_SKIN)|V600E(HS695T_SKIN)|V600E(COLO679_SKIN)|V600E(BT474_BREAST)|V600E(IGR39_SKIN)|V600E(A101D_SKIN)|V600E(COLO783_SKIN)|V600E(IGR37_SKIN)|V600E(A375_SKIN)|V600E(WM793_SKIN)|V600E(COLO818_SKIN)|V600E(HS294T_SKIN)|V600E(SKMEL28_SKIN)|V600E(DU4475_BREAST)|V600E(SIGM5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|V600E(IGR1_SKIN)|V600E(SKHEP1_LIVER)|V600E(WM983B_SKIN)|V600E(GCT_SOFT_TISSUE)|V600E(RVH421_SKIN)|V600D(WM2664_SKIN)|V600E(CL34_LARGE_INTESTINE)|V600E(SKMEL24_SKIN)|V600D(WM115_SKIN)|V600E(MALME3M_SKIN)|V600E(A673_BONE)|V600E(C32_SKIN)|V600E(DBTRG05MG_CENTRAL_NERVOUS_SYSTEM)|V600E(COLO800_SKIN)|V600E(COLO741_SKIN)|V600E(HS939T_SKIN)|V600E(COLO205_LARGE_INTESTINE)|V600E(K029AX_SKIN)|V600E(AM38_CENTRAL_NERVOUS_SYSTEM)|V600E(SH4_SKIN)|V600E(WM88_SKIN)|V600E(KG1C_CENTRAL_NERVOUS_SYSTEM)|V600E(COLO849_SKIN)|V600E(MELHO_SKIN)|V600E(BHT101_THYROID)|V600E(G361_SKIN)|V600E(UACC62_SKIN)|V600E(BCPAP_THYROID)|V600E(8505C_THYROID)|V600E(SW1417_LARGE_INTESTINE)|V600E(COLO829_SKIN)|V600E(RKO_LARGE_INTESTINE)|V600E(A2058_SKIN)|V600E(RPMI7951_SKIN)|V600E(OUMS23_LARGE_INTESTINE)|V600E(SKMEL5_SKIN)|V600E(ES2_OVARY)|V600E(LOXIMVI_SKIN)	61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				29	134	---	---	---	---	0	0	0.144211	0	0
GIMAP8	155038	broad.mit.edu	37	7	150163814	150163814	+	Missense_Mutation	SNP	G	A	A	rs143529569		TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr7:150163814G>A	uc003whj.2	+	2	358	c.28G>A	c.(28-30)GAA>AAA	p.E10K		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	10						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding	p.E10K(1)		skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		CCAGATGTCCGAACTGCGGCT	0.507000													3	99	---	---	---	---	0	0	0.115264	0	0
SETX	23064	broad.mit.edu	37	9	135173645	135173645	+	Missense_Mutation	SNP	G	A	A			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr9:135173645G>A	uc004cbk.2	-	13	5786	c.5603C>T	c.(5602-5604)CCG>CTG	p.P1868L	SETX_uc004cbj.2_Missense_Mutation_p.P1487L|SETX_uc010mzt.2_Missense_Mutation_p.P1487L	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	1868					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		TAAATTGGCCGGAAAGTTCTC	0.388000													3	106	---	---	---	---	0	0	0.115264	0	0
Unknown	0	broad.mit.edu	37	10	38978176	38978177	+	IGR	INS	-	C	C			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr10:38978176_38978177insC								LOC399744 (237096 upstream) : None (None downstream)																							TTCATAAGAAGTTTCACTAAAC	0.277													8	23	---	---	---	---					
TFAM	7019	broad.mit.edu	37	10	60148570	60148570	+	Frame_Shift_Del	DEL	A	-	-	rs78912196		TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr10:60148570delA	uc001jkf.2	+	4	564	c.432delA	c.(430-432)ACAfs	p.T144fs	TFAM_uc001jkg.2_RNA|TFAM_uc001jkh.2_Frame_Shift_Del_p.T144fs	NM_003201	NP_003192	Q00059	TFAM_HUMAN	transcription factor A, mitochondrial precursor	144					DNA-dependent DNA replication|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase I promoter|transcription initiation from mitochondrial promoter	mitochondrial nucleoid	mitochondrial light strand promoter sense binding|protein binding|sequence-specific DNA binding transcription factor activity				0						AAGCTATGACAAAAAAAAAAG	0.269													11	107	---	---	---	---					
TNKS2	80351	broad.mit.edu	37	10	93601945	93601946	+	Frame_Shift_Ins	INS	-	A	A			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr10:93601945_93601946insA	uc001khp.2	+	16	2153_2154	c.1856_1857insA	c.(1855-1857)ACAfs	p.T619fs		NM_025235	NP_079511	Q9H2K2	TNKS2_HUMAN	tankyrase, TRF1-interacting ankyrin-related	619	ANK 12.				positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)				GCAGACCCTACAAAAAAAAACA	0.391													8	95	---	---	---	---					
KBTBD4	55709	broad.mit.edu	37	11	47599139	47599139	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr11:47599139delA	uc001nfx.2	-	2	584	c.413delT	c.(412-414)TTGfs	p.L138fs	NDUFS3_uc001nft.3_Intron|KBTBD4_uc001nfw.1_Frame_Shift_Del_p.L163fs|KBTBD4_uc001nfz.2_Frame_Shift_Del_p.L154fs|KBTBD4_uc001nfy.2_Frame_Shift_Del_p.L138fs|NDUFS3_uc010rhn.1_5'Flank|NDUFS3_uc001nga.2_5'Flank	NM_016506	NP_057590	Q9NVX7	KBTB4_HUMAN	kelch repeat and BTB (POZ) domain containing 4	138										ovary(1)|central_nervous_system(1)	2						TGTGCGGGCCAAAAACCGAGA	0.517													9	449	---	---	---	---					
Unknown	0	broad.mit.edu	37	15	20832895	20832895	+	IGR	DEL	G	-	-			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr15:20832895delG								GOLGA8C (51869 upstream) : BCL8 (37161 downstream)																							GAATGCTGCTGGAAATAATGA	0.383													9	68	---	---	---	---					
PLA2G4F	255189	broad.mit.edu	37	15	42439919	42439920	+	Frame_Shift_Ins	INS	-	C	C	rs139732075	by1000genomes	TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr15:42439919_42439920insC	uc001zoz.2	-	12	1163_1164	c.1100_1101insG	c.(1099-1101)CGAfs	p.R367fs	PLA2G4F_uc010bcq.2_5'Flank|PLA2G4F_uc001zoy.2_5'UTR|PLA2G4F_uc010bcr.2_Frame_Shift_Ins_p.R118fs|PLA2G4F_uc001zpa.2_Frame_Shift_Ins_p.R118fs|PLA2G4F_uc010bcs.2_Frame_Shift_Ins_p.R154fs	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	367	PLA2c.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			ovary(4)	4		all_cancers(109;4.82e-12)|all_epithelial(112;5.64e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.97e-07)		AAGACATGGCTCGGGTTCCACC	0.545													7	173	---	---	---	---					
Unknown	0	broad.mit.edu	37	17	36581534	36581534	+	IGR	DEL	G	-	-			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr17:36581534delG								SOCS7 (25517 upstream) : ARHGAP23 (32110 downstream)																							CTGCCTCCCTGGTTCGCCCTG	0.612													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	19	22646636	22646637	+	IGR	INS	-	TA	TA	rs67204169		TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr19:22646636_22646637insTA								ZNF98 (41488 upstream) : ZNF492 (170489 downstream)																							TGGCTACCTGgtgtgtgtgtgt	0.208													6	6	---	---	---	---					
USP34	9736	broad.mit.edu	37	2	61575023	61575025	+	In_Frame_Del	DEL	TGG	-	-			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr2:61575023_61575025delTGG	uc002sbe.2	-	15	2287_2289	c.2265_2267delCCA	c.(2263-2268)CACCAT>CAT	p.755_756HH>H		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	755_756					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			gtggtggtgatggtggtggtggt	0.281													7	135	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	133118724	133118724	+	IGR	DEL	G	-	-			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr2:133118724delG								NCRNA00164 (103182 upstream) : GPR39 (55423 downstream)																							TGCAGGCACAGGGCAGGCATT	0.726													3	4	---	---	---	---					
FILIP1L	11259	broad.mit.edu	37	3	99568273	99568273	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr3:99568273delT	uc003dtm.2	-	5	2710	c.2247delA	c.(2245-2247)AAAfs	p.K749fs	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Frame_Shift_Del_p.K749fs|FILIP1L_uc010hpf.2_Frame_Shift_Del_p.K325fs|FILIP1L_uc010hpg.2_Frame_Shift_Del_p.K509fs|FILIP1L_uc003dtn.2_Frame_Shift_Del_p.K509fs|FILIP1L_uc003dtp.1_Frame_Shift_Del_p.K509fs	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	749	Potential.					cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						GTTGATTTAGTTTTTTTTGCA	0.403													7	202	---	---	---	---					
Unknown	0	broad.mit.edu	37	4	1751143	1751143	+	IGR	DEL	A	-	-			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr4:1751143delA								TACC3 (4248 upstream) : FGFR3 (43896 downstream)																							agccccccccacctccccctt	0.164													2	4	---	---	---	---					
CDKL2	8999	broad.mit.edu	37	4	76539579	76539580	+	Frame_Shift_Ins	INS	-	T	T			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr4:76539579_76539580insT	uc003hiq.2	-	3	747_748	c.222_223insA	c.(220-225)AAACGAfs	p.K74fs	CDKL2_uc011cbp.1_Frame_Shift_Ins_p.K74fs|CDKL2_uc010iix.1_Intron	NM_003948	NP_003939	Q92772	CDKL2_HUMAN	cyclin-dependent kinase-like 2	74_75	Protein kinase.				sex differentiation|signal transduction	cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(2)|stomach(2)|breast(2)|skin(1)	7			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			AGGTACCATCGTTTTTTTTTCT	0.322													9	94	---	---	---	---					
CCT5	22948	broad.mit.edu	37	5	10250047	10250047	+	5'Flank	DEL	C	-	-	rs2607301		TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr5:10250047delC	uc003jeq.2	+						FAM173B_uc003jeo.2_5'Flank|FAM173B_uc003jep.2_5'Flank|FAM173B_uc010itr.2_5'Flank|CCT5_uc011cmq.1_5'Flank|CCT5_uc003jer.2_5'Flank|CCT5_uc010its.2_5'Flank|CCT5_uc011cmr.1_5'Flank|CCT5_uc011cms.1_5'Flank|CCT5_uc011cmt.1_5'Flank	NM_012073	NP_036205	P48643	TCPE_HUMAN	chaperonin containing TCP1, subunit 5 (epsilon)						'de novo' posttranslational protein folding|response to virus	microtubule organizing center|nucleolus	ATP binding|unfolded protein binding			ovary(2)	2						aaaaaaaaaaCCGGAAATGGG	0.423													9	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	5	110285304	110285305	+	IGR	INS	-	T	T			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr5:110285304_110285305insT								SLC25A46 (186822 upstream) : TSLP (120473 downstream)																							AATCATTAAACTTTGTTTTCCA	0.436													10	408	---	---	---	---					
ZNF608	57507	broad.mit.edu	37	5	124079813	124079815	+	In_Frame_Del	DEL	CTC	-	-			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr5:124079813_124079815delCTC	uc003ktq.1	-	1	991_993	c.868_870delGAG	c.(868-870)GAGdel	p.E290del	ZNF608_uc003ktr.1_RNA|ZNF608_uc003kts.1_In_Frame_Del_p.E290del|ZNF608_uc003ktt.1_In_Frame_Del_p.E290del	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	290	Potential.					intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		GCCTGTGGCTCTCCTCCTCCTCC	0.522													7	368	---	---	---	---					
HLA-DRB5	3127	broad.mit.edu	37	6	32557588	32557589	+	5'Flank	INS	-	T	T	rs35683586		TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr6:32557588_32557589insT	uc003obk.3	-						HLA-DRB1_uc003obp.3_5'Flank	NM_002125	NP_002116	Q30154	DRB5_HUMAN	major histocompatibility complex, class II, DR						antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|immune response	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex					0						ACTATGAACCCCTCCACCCACA	0.520													5	8	---	---	---	---					
ZNF318	24149	broad.mit.edu	37	6	43323502	43323502	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr6:43323502delT	uc003oux.2	-	4	1648	c.1570delA	c.(1570-1572)AGGfs	p.R524fs	ZNF318_uc003ouw.2_RNA	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	524					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			CTACGTCGCCTTTTTTCCTGT	0.493													8	520	---	---	---	---					
Unknown	0	broad.mit.edu	37	6	169069614	169069614	+	IGR	DEL	C	-	-			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr6:169069614delC								SMOC2 (943 upstream) : THBS2 (546262 downstream)																							caccctgcgtcccccccactc	0.005													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	9	68438697	68438697	+	IGR	DEL	T	-	-	rs139120646		TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chr9:68438697delT								FAM27B (644508 upstream) : MIR1299 (563542 downstream)																							AAAAATAAAATTGATATTACA	0.254													9	113	---	---	---	---					
Unknown	0	broad.mit.edu	37	M	11140	11140	+	RNA	DEL	C	-	-			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chrM:11140delC	uc004cov.3	+	1		c.563delC			uc004cow.1_5'Flank|uc004cox.3_5'Flank					Homo sapiens potential LAG1 interactor mRNA, partial cds.																		ACCACACTTATCCCCACCTTG	0.443													12	2	---	---	---	---					
USP26	83844	broad.mit.edu	37	X	132160788	132160788	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BJ-A28X-01A-11D-A22D-08	TCGA-BJ-A28X-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d7329a9-54bb-4506-9ce2-eac76b45722b	a9220066-93f2-40a9-bf45-af0e2b0d07e6	g.chrX:132160788delA	uc010nrm.1	-	6	1931	c.1461delT	c.(1459-1461)TTTfs	p.F487fs	USP26_uc011mvf.1_Frame_Shift_Del_p.F487fs	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	487					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity	p.G488fs*6(2)|p.F487fs*7(1)		lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					CTTCTGCTCCAAAAAAAAGAT	0.383													11	324	---	---	---	---					
