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
RNF186	54546	broad.mit.edu	37	1	20141106	20141106	+	Silent	SNP	G	A	A			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr1:20141106G>A	uc001bcr.2	-	1	666	c.489C>T	c.(487-489)GCC>GCT	p.A163A		NM_019062	NP_061935	Q9NXI6	RN186_HUMAN	ring finger protein 186	163	Helical; (Potential).					integral to membrane	zinc ion binding				0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00459)|Lung NSC(340;0.00475)|Breast(348;0.00526)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|COAD - Colon adenocarcinoma(152;1.07e-05)|BRCA - Breast invasive adenocarcinoma(304;7.77e-05)|Kidney(64;0.000162)|GBM - Glioblastoma multiforme(114;0.00036)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		TAATGAGCAAGGCCAGCAGGA	0.607000													6	161	---	---	---	---	0	0	0.217242	0	0
C11orf87	399947	broad.mit.edu	37	11	109294541	109294541	+	Missense_Mutation	SNP	C	T	T			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr11:109294541C>T	uc001pkn.2	+	2	556	c.182C>T	c.(181-183)ACG>ATG	p.T61M	C11orf87_uc010rwb.1_5'Flank	NM_207645	NP_997528	Q6NUJ2	CK087_HUMAN	hypothetical protein LOC399947 precursor	61	Extracellular (Potential).					integral to membrane				ovary(2)	2						TTCTCCTCCACGCTGGTGCTG	0.612000													13	66	---	---	---	---	0	0	0.411799	0	0
A2ML1	144568	broad.mit.edu	37	12	8988135	8988135	+	Silent	SNP	G	A	A			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr12:8988135G>A	uc001quz.3	+	6	614	c.516G>A	c.(514-516)CTG>CTA	p.L172L		NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	16						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						CACAGTGGCTGGAAGTGGTAC	0.532000													4	166	---	---	---	---	0	0	0.150653	0	0
SIRT4	23409	broad.mit.edu	37	12	120741654	120741654	+	Missense_Mutation	SNP	G	A	A			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr12:120741654G>A	uc001tyc.2	+	2	310	c.290G>A	c.(289-291)CGG>CAG	p.R97Q		NM_012240	NP_036372	Q9Y6E7	SIRT4_HUMAN	sirtuin 4	97	Deacetylase sirtuin-type.				chromatin silencing|negative regulation of insulin secretion|protein ADP-ribosylation|protein deacetylation	mitochondrial matrix	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ ADP-ribosyltransferase activity|NAD+ binding|protein binding|zinc ion binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GATTTTGTCCGGAGTGCCCCA	0.582000													3	44	---	---	---	---	0	0	0.150653	0	0
Unknown	0	broad.mit.edu	37	16	70268158	70268158	+	RNA	SNP	A	C	C			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr16:70268158A>C	uc010cfp.1	-	3		c.257T>G								Homo sapiens cDNA, FLJ98908.																		TTCTTCATTAAAACAGCTACT	0.333000													2	12	---	---	---	---	0	0	0.115264	0	0
KIAA1609	57707	broad.mit.edu	37	16	84520509	84520509	+	Missense_Mutation	SNP	G	A	A			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr16:84520509G>A	uc002fib.2	-	5	793	c.686C>T	c.(685-687)ACC>ATC	p.T229I	KIAA1609_uc010vod.1_Missense_Mutation_p.T202I|KIAA1609_uc002fic.2_RNA	NM_020947	NP_065998	Q6P9B6	K1609_HUMAN	hypothetical protein LOC57707	229							protein binding			ovary(2)	2						AGGGACCAGGGTAGTCAGATC	0.562000													3	69	---	---	---	---	0	0	0.115264	0	0
EPB41L3	23136	broad.mit.edu	37	18	5395089	5395089	+	Missense_Mutation	SNP	C	T	T			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr18:5395089C>T	uc002kmt.1	-	21	3216	c.3130G>A	c.(3130-3132)GAT>AAT	p.D1044N	EPB41L3_uc010wzh.1_Missense_Mutation_p.D875N|EPB41L3_uc002kmu.1_Missense_Mutation_p.D822N|EPB41L3_uc010dkq.1_Missense_Mutation_p.D713N|EPB41L3_uc002kms.1_Missense_Mutation_p.D279N|EPB41L3_uc010wze.1_Missense_Mutation_p.D349N|EPB41L3_uc010wzf.1_Missense_Mutation_p.D341N|EPB41L3_uc010wzg.1_Missense_Mutation_p.D316N|EPB41L3_uc010dkr.2_Missense_Mutation_p.D436N	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	1044	Carboxyl-terminal (CTD).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						ATGTCTGCATCCCCCGTGATG	0.443000													21	100	---	---	---	---	0	0	0.667858	0	0
KRTAP10-7	386675	broad.mit.edu	37	21	46021268	46021268	+	Silent	SNP	T	G	G			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr21:46021268T>G	uc002zfn.3	+	2	757	c.732T>G	c.(730-732)TCT>TCG	p.S244S	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198689	NP_941962	P60409	KR107_HUMAN	keratin associated protein 10-7	249	30 X 5 AA repeats of C-C-X(3).					keratin filament					0						CCACCTGCTCTGATGATTCCG	0.642000													52	243	---	---	---	---	0	0	0.870114	0	0
PRMT2	3275	broad.mit.edu	37	21	48069639	48069639	+	Silent	SNP	G	A	A			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr21:48069639G>A	uc002zjx.2	+	7	956	c.642G>A	c.(640-642)GGG>GGA	p.G214G	PRMT2_uc002zjw.2_Silent_p.G214G|PRMT2_uc002zjy.2_Silent_p.G214G|PRMT2_uc010gqm.2_Silent_p.G214G|PRMT2_uc011aga.1_Silent_p.G214G|PRMT2_uc011agb.1_Silent_p.G214G|PRMT2_uc011agc.1_Silent_p.G214G|PRMT2_uc002zjz.1_Silent_p.G100G	NM_206962	NP_996845	P55345	ANM2_HUMAN	HMT1 hnRNP methyltransferase-like 1	214	Interaction with ESR1.				developmental cell growth|induction of apoptosis|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of androgen receptor signaling pathway	cytosol|nucleus	androgen receptor binding|estrogen receptor binding|histone-arginine N-methyltransferase activity|peroxisome proliferator activated receptor binding|progesterone receptor binding|protein homodimerization activity|retinoic acid receptor binding|signal transducer activity|thyroid hormone receptor binding|transcription coactivator activity			ovary(1)	1	Breast(49;0.247)	Lung NSC(3;0.245)		Epithelial(3;1.03e-07)|OV - Ovarian serous cystadenocarcinoma(3;4.68e-07)|all cancers(3;7.48e-07)|Colorectal(79;0.167)|Lung(125;0.203)|LUSC - Lung squamous cell carcinoma(216;0.23)|READ - Rectum adenocarcinoma(84;0.248)		AGTGGATGGGGACCTGCCTGC	0.657000													3	37	---	---	---	---	0	0	0.115264	0	0
CARD10	29775	broad.mit.edu	37	22	37888680	37888680	+	Missense_Mutation	SNP	G	A	A			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr22:37888680G>A	uc003asx.1	-	17	2609	c.2606C>T	c.(2605-2607)TCC>TTC	p.S869F	CARD10_uc003ast.1_RNA|CARD10_uc003asu.1_5'Flank|CARD10_uc003asv.1_5'UTR|CARD10_uc011ank.1_Missense_Mutation_p.S187F|CARD10_uc003asw.1_Missense_Mutation_p.S583F|CARD10_uc003asy.1_Missense_Mutation_p.S869F	NM_014550	NP_055365	Q9BWT7	CAR10_HUMAN	caspase recruitment domain protein 10	869					activation of NF-kappaB-inducing kinase activity|protein complex assembly|regulation of apoptosis	CBM complex	receptor signaling complex scaffold activity			upper_aerodigestive_tract(1)|lung(1)|breast(1)|ovary(1)|prostate(1)|kidney(1)	6	Melanoma(58;0.0574)					GTCCAGCCGGGAGCTGGGCAG	0.682000													6	32	---	---	---	---	0	0	0.248553	0	0
GLYCTK	132158	broad.mit.edu	37	3	52326848	52326848	+	Silent	SNP	G	C	C			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr3:52326848G>C	uc003ddo.2	+	5	1374	c.1278G>C	c.(1276-1278)CTG>CTC	p.L426L	GLYCTK_uc003ddq.2_3'UTR|GLYCTK_uc003ddm.2_Intron|GLYCTK_uc003ddn.2_Intron|GLYCTK_uc003ddp.1_Intron|GLYCTK_uc003ddr.2_Silent_p.L90L	NM_145262	NP_660305	Q8IVS8	GLCTK_HUMAN	glycerate kinase isoform 1	426					protein phosphorylation	Golgi apparatus|mitochondrion	ATP binding|glycerate kinase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(193;3.56e-05)|Kidney(197;0.00171)|KIRC - Kidney renal clear cell carcinoma(197;0.00194)|OV - Ovarian serous cystadenocarcinoma(275;0.235)		ACCAGGAACTGGCCCTGCGTG	0.657000													30	87	---	---	---	---	0	0	0.819951	0	0
LETM1	3954	broad.mit.edu	37	4	1838262	1838262	+	Missense_Mutation	SNP	G	A	A			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr4:1838262G>A	uc003gdv.2	-	4	929	c.632C>T	c.(631-633)CCG>CTG	p.P211L	LETM1_uc010icc.2_5'UTR|LETM1_uc011bvg.1_Missense_Mutation_p.P211L	NM_012318	NP_036450	O95202	LETM1_HUMAN	leucine zipper-EF-hand containing transmembrane	211	Helical; (Potential).|LETM1.				cristae formation	integral to membrane|mitochondrial inner membrane	calcium ion binding|protein binding			central_nervous_system(1)	1			all cancers(2;0.00756)|OV - Ovarian serous cystadenocarcinoma(23;0.00989)|Epithelial(3;0.0141)			CACAAGGAACGGCACCAGGCG	0.562000													31	125	---	---	---	---	0	0	0.796494	0	0
ADAMTS6	11174	broad.mit.edu	37	5	64629869	64629869	+	Missense_Mutation	SNP	C	T	T			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr5:64629869C>T	uc003jtp.2	-	8	1931	c.1117G>A	c.(1117-1119)GGC>AGC	p.G373S	ADAMTS6_uc003jto.2_RNA|ADAMTS6_uc003jtq.2_RNA|ADAMTS6_uc003jtr.1_5'UTR	NM_197941	NP_922932	Q9UKP5	ATS6_HUMAN	ADAM metallopeptidase with thrombospondin type 1	373	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Lung NSC(167;2.44e-06)|Prostate(74;0.014)|Ovarian(174;0.0549)|Breast(144;0.111)|Colorectal(97;0.235)		Lung(70;0.00942)		aaaaaCTTACCCAGTGTTCCA	0.249000													17	47	---	---	---	---	0	0	0.520397	0	0
FAT2	2196	broad.mit.edu	37	5	150925516	150925516	+	Silent	SNP	C	T	T			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr5:150925516C>T	uc003lue.3	-	9	5185	c.5172G>A	c.(5170-5172)TCG>TCA	p.S1724S	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1724	Cadherin 15.|Extracellular (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCTGGTAAGACGAGATTTTCT	0.413000													28	148	---	---	---	---	0	0	0.788014	0	0
PWWP2A	114825	broad.mit.edu	37	5	159520656	159520656	+	Missense_Mutation	SNP	T	C	C			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr5:159520656T>C	uc011ded.1	-	2	1058	c.1001A>G	c.(1000-1002)AAG>AGG	p.K334R	PWWP2A_uc003lxv.3_Missense_Mutation_p.K334R|PWWP2A_uc011dec.1_Missense_Mutation_p.K334R	NM_001130864	NP_001124336	Q96N64	PWP2A_HUMAN	PWWP domain containing 2A isoform b	334											0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TCTAATTTCCTTTTTTTCAGC	0.333000													3	63	---	---	---	---	0	0	0.115264	0	0
LOC442308	442308	broad.mit.edu	37	7	55714382	55714382	+	RNA	SNP	C	T	T			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr7:55714382C>T	uc010kzj.2	+	1		c.1071C>T				NR_003598				Homo sapiens similar to tubulin, beta 5 (LOC442308), non-coding RNA.												0						TGACATCCACCTCATGGCCTC	0.507000													3	80	---	---	---	---	0	0	0.150653	0	0
EIF4H	7458	broad.mit.edu	37	7	73609165	73609165	+	Silent	SNP	T	C	C			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr7:73609165T>C	uc003uad.1	+	6	572	c.564T>C	c.(562-564)CCT>CCC	p.P188P	RFC2_uc011kfa.1_Intron|EIF4H_uc010lbm.2_Intron|EIF4H_uc003uae.1_Silent_p.P168P|EIF4H_uc003uaf.1_RNA	NM_022170	NP_071496	Q15056	IF4H_HUMAN	eukaryotic translation initiation factor 4H	188					interspecies interaction between organisms|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex|perinuclear region of cytoplasm	nucleotide binding|protein binding|translation initiation factor activity				0						GAGATGGCCCTCCCCTCCGTG	0.617000													3	76	---	---	---	---	0	0	0.217242	0	0
USP20	10868	broad.mit.edu	37	9	132631703	132631703	+	Missense_Mutation	SNP	G	A	A			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr9:132631703G>A	uc004bys.2	+	13	1602	c.1391G>A	c.(1390-1392)CGG>CAG	p.R464Q	USP20_uc004byr.2_Missense_Mutation_p.R464Q|USP20_uc004byt.1_Missense_Mutation_p.R464Q	NM_001110303	NP_001103773	Q9Y2K6	UBP20_HUMAN	ubiquitin specific protease 20	464					endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|ubiquitin thiolesterase activity|zinc ion binding			lung(1)|breast(1)	2		Ovarian(14;0.00556)				ACCTGTGACCGGGTGGGTGCC	0.667000													3	94	---	---	---	---	0	0	0.115264	0	0
Unknown	0	broad.mit.edu	37	1	700532	700532	+	RNA	DEL	T	-	-			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr1:700532delT	uc001abo.2	-	7		c.1022delA								Homo sapiens cDNA clone IMAGE:4129277, partial cds.																		aaaaaaaaaaTTCCTTTGGGA	0.214													3	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	10	32391368	32391369	+	IGR	DEL	TT	-	-	rs78896224		TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr10:32391368_32391369delTT								KIF5B (45997 upstream) : EPC1 (166490 downstream)																							CACCTATGTCTTTTTTTTTTTT	0.356													3	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	11	49103435	49103435	+	IGR	DEL	C	-	-			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr11:49103435delC								OR4A47 (592163 upstream) : FOLH1 (64753 downstream)																							GTCTACATAACCGGGATCTTA	0.398													25	69	---	---	---	---					
Unknown	0	broad.mit.edu	37	11	79673885	79673887	+	IGR	DEL	GAG	-	-			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr11:79673885_79673887delGAG								ODZ4 (522190 upstream) : None (None downstream)																							GAGAGGGGAAGAGGAGGAGGAGG	0.522													3	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	13	19761246	19761247	+	IGR	INS	-	T	T			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr13:19761246_19761247insT								TUBA3C (5310 upstream) : LOC100101938 (75694 downstream)																							TATAATTGTGATTTTTTTTTTC	0.396													7	43	---	---	---	---					
SALL2	6297	broad.mit.edu	37	14	21991334	21991336	+	In_Frame_Del	DEL	GGT	-	-	rs113881459		TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr14:21991334_21991336delGGT	uc001wbe.2	-	2	2808_2810	c.2526_2528delACC	c.(2524-2529)CCACCT>CCT	p.842_843PP>P	SALL2_uc010tly.1_In_Frame_Del_p.840_841PP>P|SALL2_uc010tlz.1_In_Frame_Del_p.705_706PP>P|SALL2_uc001wbf.3_Intron|SALL2_uc010tma.1_In_Frame_Del_p.707_708PP>P|SALL2_uc001wbg.1_Intron	NM_005407	NP_005398	Q9Y467	SALL2_HUMAN	sal-like 2	842_843	Poly-Pro.						DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|large_intestine(1)	3	all_cancers(95;0.000662)			GBM - Glioblastoma multiforme(265;0.0151)		CAGGCTGTCAGGTGGTGGTGGTG	0.571													7	119	---	---	---	---					
LTB4R2	56413	broad.mit.edu	37	14	24780427	24780428	+	Frame_Shift_Del	DEL	CT	-	-			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr14:24780427_24780428delCT	uc001woq.1	+	1	2267_2268	c.650_651delCT	c.(649-651)ACTfs	p.T217fs	CIDEB_uc001woo.2_5'UTR|CIDEB_uc001wop.2_5'UTR|LTB4R2_uc010alo.2_Frame_Shift_Del_p.T186fs|LTB4R2_uc001wor.2_Frame_Shift_Del_p.T186fs|LTB4R_uc001wos.2_5'Flank|LTB4R_uc010alp.2_5'Flank	NM_019839	NP_062813	Q9NPC1	LT4R2_HUMAN	leukotriene B4 receptor 2	217	Helical; Name=5; (Potential).				chemotaxis|negative regulation of adenylate cyclase activity	integral to plasma membrane					0				GBM - Glioblastoma multiforme(265;0.018)		AGCCTGGAGACTCTGACCGCTT	0.579													7	17	---	---	---	---					
Unknown	0	broad.mit.edu	37	15	28751704	28751705	+	IGR	INS	-	T	T			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr15:28751704_28751705insT								GOLGA8G (114533 upstream) : WHAMML2 (231024 downstream)																							AGTCTCTGAGGTTTTTTTTTTC	0.292													3	6	---	---	---	---					
Unknown	0	broad.mit.edu	37	17	7044797	7044797	+	IGR	DEL	C	-	-			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr17:7044797delC								ASGR2 (26505 upstream) : ASGR1 (31955 downstream)																							AAAAGACTGTCACCTTCACAC	0.557													2	4	---	---	---	---					
MED9	55090	broad.mit.edu	37	17	17394705	17394707	+	In_Frame_Del	DEL	CAG	-	-			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr17:17394705_17394707delCAG	uc002grh.1	+	2	393_395	c.337_339delCAG	c.(337-339)CAGdel	p.Q117del		NM_018019	NP_060489	Q9NWA0	MED9_HUMAN	mediator complex subunit 9	117	Potential.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		protein binding				0						GAGCCCCGAACAGCAGCAGCAGC	0.581													7	172	---	---	---	---					
Unknown	0	broad.mit.edu	37	17	53627632	53627633	+	IGR	INS	-	T	T			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr17:53627632_53627633insT								MMD (128291 upstream) : TMEM100 (169357 downstream)																							TTGATTGTCTCTTTTTTTTACC	0.193													2	4	---	---	---	---					
COL5A3	50509	broad.mit.edu	37	19	10108779	10108779	+	Frame_Shift_Del	DEL	T	-	-			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr19:10108779delT	uc002mmq.1	-	9	1243	c.1157delA	c.(1156-1158)AAGfs	p.K386fs		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	386	Nonhelical region.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			ACCCCTCACCTTTTCAATCAC	0.552													7	664	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	2540442	2540442	+	IGR	DEL	G	-	-			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr2:2540442delG								MYT1L (205397 upstream) : TSSC1 (652299 downstream)																							GTGTGGGTCTGGGGGGGGAGG	0.453													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	92145698	92145698	+	IGR	DEL	C	-	-			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr2:92145698delC								FKSG73 (15204 upstream) : None (None downstream)																							TACAACCTGTCtttttttttt	0.209													3	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	220549324	220549324	+	IGR	DEL	T	-	-			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr2:220549324delT								SLC4A3 (42623 upstream) : None (None downstream)																							TGTGGATGTCTTTTTTTTTAA	0.368													4	9	---	---	---	---					
Unknown	0	broad.mit.edu	37	3	42700747	42700749	+	In_Frame_Del	DEL	GGA	-	-			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr3:42700747_42700749delGGA	uc003clt.1	+	2	1181_1183	c.900_902delGGA	c.(898-903)CGGGAG>CGG	p.E307del	ZBTB47_uc003clu.1_5'Flank					SubName: Full=cDNA FLJ45122 fis, clone BRAWH3036247, weakly similar to Zinc finger protein 228;																		gcagtggacgggaggaggaggag	0.099													3	5	---	---	---	---					
TNK2	10188	broad.mit.edu	37	3	195597006	195597006	+	Frame_Shift_Del	DEL	G	-	-			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr3:195597006delG	uc003fvu.1	-	11	2065	c.1522delC	c.(1522-1524)CAGfs	p.Q508fs	TNK2_uc003fvq.1_5'Flank|TNK2_uc003fvr.1_Frame_Shift_Del_p.Q18fs|TNK2_uc003fvs.1_Frame_Shift_Del_p.Q540fs|TNK2_uc003fvt.1_Frame_Shift_Del_p.Q571fs|TNK2_uc010hzw.1_RNA|TNK2_uc003fvv.1_Frame_Shift_Del_p.Q338fs	NM_005781	NP_005772	Q07912	ACK1_HUMAN	tyrosine kinase, non-receptor, 2 isoform 1	508				Missing (in Ref. 4; AAH08884).	positive regulation of peptidyl-tyrosine phosphorylation|protein ubiquitination|small GTPase mediated signal transduction	adherens junction|cytoplasmic vesicle membrane|endosome|nucleus	ATP binding|GTPase inhibitor activity|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			ovary(3)|central_nervous_system(3)|lung(2)|stomach(1)|skin(1)	10	all_cancers(143;6.48e-09)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;1.46e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.3e-19)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;0.000757)	Adenosine triphosphate(DB00171)	CCTAGATGCTGGGGGGGCCGG	0.612													3	6	---	---	---	---					
TNRC18	84629	broad.mit.edu	37	7	5352528	5352530	+	In_Frame_Del	DEL	GAG	-	-			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr7:5352528_5352530delGAG	uc003soi.3	-	27	8341_8343	c.7992_7994delCTC	c.(7990-7995)TCCTCT>TCT	p.2664_2665SS>S		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2664_2665	Ser-rich.						DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		agaggaggaagaggaggaggagg	0.291													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	7	31404676	31404676	+	IGR	DEL	A	-	-	rs35317967		TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr7:31404676delA								NEUROD6 (24138 upstream) : CCDC129 (149009 downstream)																							actctgtctcaaaaaaaaaaa	0.000													2	4	---	---	---	---					
TRAPPC9	83696	broad.mit.edu	37	8	141468248	141468257	+	5'Flank	DEL	GGAGGGAGAT	-	-	rs66770170		TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr8:141468248_141468257delGGAGGGAGAT	uc003yvj.2	-						TRAPPC9_uc003yvh.2_Intron	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform						cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						gaggagggaaggagggagatggagggagat	0.205													3	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	9	66960593	66960594	+	IGR	INS	-	T	T			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr9:66960593_66960594insT								LOC442421 (457566 upstream) : AQP7P1 (293673 downstream)																							ATACAGGTTTCCACCCCCCCCC	0.406													3	6	---	---	---	---					
Unknown	0	broad.mit.edu	37	9	67917596	67917598	+	IGR	DEL	GAG	-	-			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chr9:67917596_67917598delGAG								FAM27B (123407 upstream) : None (None downstream)																							CATGGAAGATGAGGAGTCCGTTG	0.468													4	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	X	42384501	42384501	+	IGR	DEL	A	-	-			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chrX:42384501delA								CASK (602214 upstream) : PPP1R2P9 (252118 downstream)																							ttgtctcaggaaaaaaaaaaa	0.149													3	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	X	120878327	120878327	+	IGR	DEL	A	-	-			TCGA-FY-A3R6-01A-11D-A21Z-08	TCGA-FY-A3R6-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5dbf4f84-4b1b-4370-9905-078d55c18835	66eb2d32-79e5-4d4d-8c5b-6a0e04ab346a	g.chrX:120878327delA								GLUD2 (694533 upstream) : None (None downstream)																							tgaatggaagaaaaaggtaaa	0.000													2	4	---	---	---	---					
