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
SYDE2	84144	broad.mit.edu	37	1	85648788	85648788	+	Missense_Mutation	SNP	T	C	C			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr1:85648788T>C	uc009wcm.2	-	3	1586	c.1537A>G	c.(1537-1539)AAT>GAT	p.N513D	SYDE2_uc001dku.3_Missense_Mutation_p.N513D	NM_032184	NP_115560	Q5VT97	SYDE2_HUMAN	synapse defective 1, Rho GTPase, homolog 2	513					activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|central_nervous_system(1)	2				all cancers(265;0.0126)|Epithelial(280;0.0336)		AATGACCAATTAATTGAACTG	0.383000													8	132					0	0	0.003080	0	0
LAMB3	3914	broad.mit.edu	37	1	209800244	209800244	+	Missense_Mutation	SNP	C	T	T	rs144249951		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr1:209800244C>T	uc001hhg.2	-	12	1955	c.1565G>A	c.(1564-1566)CGG>CAG	p.R522Q	LAMB3_uc009xco.2_Missense_Mutation_p.R522Q|LAMB3_uc001hhh.2_Missense_Mutation_p.R522Q|LAMB3_uc010psl.1_RNA	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	522	Laminin EGF-like 5.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		TCCATAGGTCCGGTCTGGACA	0.672000													15	46					0	0	0.020292	0	0
FBXO28	23219	broad.mit.edu	37	1	224302059	224302059	+	Silent	SNP	C	G	G			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr1:224302059C>G	uc001hoh.2	+	1	269	c.228C>G	c.(226-228)CTC>CTG	p.L76L	FBXO28_uc009xef.2_Silent_p.L76L|FBXO28_uc010pvc.1_5'UTR	NM_015176	NP_055991	Q9NVF7	FBX28_HUMAN	F-box protein 28 isoform a	76	F-box.									ovary(2)|kidney(2)|lung(1)	5	Breast(184;0.206)			GBM - Glioblastoma multiforme(131;0.0363)		AGAACATCCTCAGCTTTATGT	0.647000													2	20					0	0	0.004672	0	0
SBF2	81846	broad.mit.edu	37	11	10011061	10011061	+	Missense_Mutation	SNP	C	T	T			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr11:10011061C>T	uc001mib.2	-	13	1516	c.1378G>A	c.(1378-1380)GAG>AAG	p.E460K	SBF2_uc001mif.3_Missense_Mutation_p.E216K	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	460					myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		AATAGTTGCTCAGCAAGTTCC	0.234000													12	38					0	0	0.020292	0	0
TCN1	6947	broad.mit.edu	37	11	59622246	59622246	+	Missense_Mutation	SNP	T	C	C	rs142805308	byFrequency	TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr11:59622246T>C	uc001noj.2	-	7	1098	c.1000A>G	c.(1000-1002)ATC>GTC	p.I334V		NM_001062	NP_001053	P20061	TCO1_HUMAN	transcobalamin I precursor	334					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular region	cobalamin binding			ovary(2)	2		all_epithelial(135;0.198)			Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TTGACGGAGATATATGATTGT	0.423000													5	111					0	0	0.001168	0	0
SLCO2B1	11309	broad.mit.edu	37	11	74880776	74880776	+	Missense_Mutation	SNP	C	A	A			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr11:74880776C>A	uc001owb.2	+	6	1135	c.748C>A	c.(748-750)CGC>AGC	p.R250S	SLCO2B1_uc010rrq.1_Intron|SLCO2B1_uc010rrr.1_Missense_Mutation_p.R106S|SLCO2B1_uc010rrs.1_Missense_Mutation_p.R134S|SLCO2B1_uc001owc.2_Intron|SLCO2B1_uc001owd.2_Missense_Mutation_p.R228S	NM_007256	NP_009187	O94956	SO2B1_HUMAN	solute carrier organic anion transporter family,	250	Helical; Name=5; (Potential).				sodium-independent organic anion transport	integral to membrane	sodium-independent organic anion transmembrane transporter activity			ovary(1)|breast(1)	2					Ergoloid mesylate(DB01049)	CCTCATGCTGCGCCTTTATGT	0.527000													36	91					1.04594e-18	1.30742e-18	0.006230	1	0
BAZ2A	11176	broad.mit.edu	37	12	57005874	57005874	+	Missense_Mutation	SNP	G	A	A			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr12:57005874G>A	uc001slq.1	-	6	1492	c.1298C>T	c.(1297-1299)ACC>ATC	p.T433I	BAZ2A_uc001slp.1_Missense_Mutation_p.T431I|BAZ2A_uc009zow.1_Missense_Mutation_p.T401I	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	433					chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						TGCTGGGGAGGTTGTTGGCGA	0.542000													48	15					0	0	0.014410	0	0
KBTBD7	84078	broad.mit.edu	37	13	41767953	41767953	+	Silent	SNP	G	A	A			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr13:41767953G>A	uc001uxw.1	-	1	750	c.441C>T	c.(439-441)GCC>GCT	p.A147A	uc001uxv.1_Intron	NM_032138	NP_115514	Q8WVZ9	KBTB7_HUMAN	kelch repeat and BTB (POZ) domain containing 7	147							protein binding			ovary(1)	1		Lung NSC(96;0.000105)|Breast(139;0.00715)|Prostate(109;0.0233)|Lung SC(185;0.0367)		all cancers(112;6.21e-09)|Epithelial(112;6.99e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000196)|GBM - Glioblastoma multiforme(144;0.000857)|BRCA - Breast invasive adenocarcinoma(63;0.0669)		GCATGTCGGAGGCCGCGTACA	0.587000													25	65					0	0	0.004656	0	0
TDRD3	81550	broad.mit.edu	37	13	61103190	61103190	+	Missense_Mutation	SNP	G	A	A			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr13:61103190G>A	uc001via.2	+	11	2340	c.1552G>A	c.(1552-1554)GCT>ACT	p.A518T	TDRD3_uc010aef.2_Missense_Mutation_p.A343T|TDRD3_uc001vhz.3_Missense_Mutation_p.A518T|TDRD3_uc010aeg.2_Missense_Mutation_p.A611T|TDRD3_uc001vib.3_Missense_Mutation_p.A517T	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3 isoform 2	518					chromatin modification	cytoplasm|nucleus	chromatin binding|methylated histone residue binding|nucleic acid binding|transcription coactivator activity			upper_aerodigestive_tract(1)|skin(1)	2		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)		ACCTGTCACAGCTGTACCCTG	0.398000													28	46					0	0	0.008361	0	0
FANCM	57697	broad.mit.edu	37	14	45650876	45650876	+	Missense_Mutation	SNP	G	A	A			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr14:45650876G>A	uc001wwd.3	+	16	4453	c.4354G>A	c.(4354-4356)GCT>ACT	p.A1452T	FANCM_uc010anf.2_Missense_Mutation_p.A1426T|FANCM_uc001wwe.3_Missense_Mutation_p.A988T|FANCM_uc010ang.2_Missense_Mutation_p.A666T	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1452					DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						TCCACTTCATGCTGTCAAAAA	0.318000								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				11	31					0	0	0.013537	0	0
TBPL2	387332	broad.mit.edu	37	14	55890942	55890942	+	Missense_Mutation	SNP	A	C	C			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr14:55890942A>C	uc001xby.2	-	6	986	c.986T>G	c.(985-987)ATT>AGT	p.I329S	FBXO34_uc001xbv.2_RNA	NM_199047	NP_950248	Q6SJ96	TBPL2_HUMAN	TATA box binding protein like 2	329					multicellular organismal development|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding				0						CATTCTATAAATAAGACCAGG	0.348000													32	80					0	0	0.019004	0	0
KCNH5	27133	broad.mit.edu	37	14	63447722	63447722	+	Missense_Mutation	SNP	G	T	T			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr14:63447722G>T	uc001xfx.2	-	6	861	c.810C>A	c.(808-810)TTC>TTA	p.F270L	KCNH5_uc001xfy.2_Missense_Mutation_p.F270L|KCNH5_uc001xfz.1_Missense_Mutation_p.F212L|KCNH5_uc001xga.2_Missense_Mutation_p.F212L	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	270	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		CGGGCCCCACGAAAGTCGTGT	0.433000													33	39					8.4185e-14	9.98805e-14	0.012213	1	0
RYR3	6263	broad.mit.edu	37	15	33603296	33603296	+	Missense_Mutation	SNP	C	T	T			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr15:33603296C>T	uc001zhi.2	+	1	120	c.50C>T	c.(49-51)ACT>ATT	p.T17I	RYR3_uc010bar.2_Missense_Mutation_p.T17I	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	17	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TTTCTGAGGACTGTGAGTCTC	0.756000													14	24					0	0	0.003163	0	0
Unknown	0	broad.mit.edu	37	15	102292835	102292835	+	Nonsense_Mutation	SNP	G	A	A			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr15:102292835G>A	uc010usj.1	+	4	482	c.423G>A	c.(421-423)TGG>TGA	p.W141*	uc002bxo.2_5'Flank|uc002bxp.3_5'Flank|uc002bxt.2_5'Flank|uc002bxz.3_5'Flank|uc002byd.2_5'Flank|uc002bye.2_5'Flank|uc002byf.1_5'Flank|uc002byg.2_5'Flank|uc002byi.2_5'Flank|uc002byk.2_5'Flank|uc002bym.2_5'Flank|uc002byn.2_5'Flank|uc010usm.1_5'Flank|uc002byr.2_5'Flank					RecName: Full=Uncharacterized protein C15orf51.; Flags: Fragment;																		GACACTCGTGGAGGCGTCGGC	0.602000													3	12					0	0	0.001168	0	0
WDR90	197335	broad.mit.edu	37	16	716291	716291	+	Missense_Mutation	SNP	C	A	A	rs143767432	by1000genomes	TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr16:716291C>A	uc002cii.1	+	37	4735	c.4681C>A	c.(4681-4683)CGT>AGT	p.R1561S	WDR90_uc002cij.1_Intron|WDR90_uc002cil.1_RNA|WDR90_uc002cin.1_Missense_Mutation_p.R176S|WDR90_uc010uul.1_Missense_Mutation_p.R160S|WDR90_uc002cio.1_Missense_Mutation_p.R160S|WDR90_uc010bqx.1_Missense_Mutation_p.R160S|RHOT2_uc010uum.1_5'Flank|RHOT2_uc002cip.2_5'Flank|RHOT2_uc002ciq.2_5'Flank	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	1561	WD 19.									ovary(1)	1		Hepatocellular(780;0.0218)				GACAACCTTCCGTGTGCTGAG	0.627000													24	58					1.66031e-10	1.93702e-10	0.021523	1	0
GTF3C1	2975	broad.mit.edu	37	16	27519910	27519910	+	Missense_Mutation	SNP	A	G	G			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr16:27519910A>G	uc002dov.1	-	8	1233	c.1193T>C	c.(1192-1194)CTA>CCA	p.L398P	GTF3C1_uc002dou.2_Missense_Mutation_p.L398P	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	398						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						TCTTGCTTCTAGTTTTCCCAC	0.468000													28	65					0	0	0.009535	0	0
SLC6A10P	386757	broad.mit.edu	37	16	32891003	32891003	+	Silent	SNP	T	C	C	rs149883562	by1000genomes	TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr16:32891003T>C	uc002edh.1	-	3	227	c.51A>G	c.(49-51)TCA>TCG	p.S17S	SLC6A10P_uc002edi.1_RNA					RecName: Full=Transporter;												0						TGCCACTGGCTGAGTAGTAGT	0.622000													5	63					0	0	0.001168	0	0
PELP1	27043	broad.mit.edu	37	17	4575082	4575082	+	Silent	SNP	C	T	T			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:4575082C>T	uc002fyi.3	-	16	3430	c.3204G>A	c.(3202-3204)GAG>GAA	p.E1068E	PELP1_uc010vsf.1_Silent_p.E844E	NM_014389	NP_055204	Q8IZL8	PELP1_HUMAN	proline, glutamic acid and leucine rich protein	1068	Glu-rich.|Pro-rich.				transcription, DNA-dependent	cytoplasm|MLL1 complex	protein binding			ovary(1)|central_nervous_system(1)	2						CATCCTCAGTCTCCTCTTCCA	0.602000													11	43					0	0	0.010729	0	0
ARRB2	409	broad.mit.edu	37	17	4623596	4623596	+	Splice_Site	SNP	T	G	G			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:4623596T>G	uc002fyj.2	+	12	1229	c.1001_splice	c.e12+2	p.G334_splice	ARRB2_uc002fyk.2_Splice_Site_p.G319_splice|ARRB2_uc002fyl.2_Splice_Site_p.G334_splice|ARRB2_uc010vsg.1_Splice_Site_p.G355_splice|ARRB2_uc002fym.2_Splice_Site_p.G319_splice|ARRB2_uc002fyn.2_Splice_Site_p.G142_splice|ARRB2_uc010ckq.2_Splice_Site_p.G142_splice|ARRB2_uc002fyo.2_Splice_Site_p.G142_splice	NM_004313	NP_004304	P32121	ARRB2_HUMAN	arrestin, beta 2 isoform 1						cell chemotaxis|desensitization of G-protein coupled receptor protein signaling pathway by arrestin|G-protein coupled receptor internalization|negative regulation of natural killer cell mediated cytotoxicity|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|platelet activation|positive regulation of ERK1 and ERK2 cascade|proteasomal ubiquitin-dependent protein catabolic process|protein transport|protein ubiquitination|transcription from RNA polymerase II promoter|transforming growth factor beta receptor signaling pathway	coated pit|cytoplasmic membrane-bounded vesicle|cytosol|nucleus|plasma membrane	angiotensin receptor binding|ubiquitin protein ligase binding				0						TCGAGGCGGGTGAGTGTCATG	0.607000													7	67					0	0	0.020292	0	0
SOX15	6665	broad.mit.edu	37	17	7492754	7492754	+	Missense_Mutation	SNP	T	C	C			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:7492754T>C	uc002ghy.1	-	2	389	c.241A>G	c.(241-243)AAG>GAG	p.K81E	MPDU1_uc010vuc.1_Intron|SOX15_uc002ghz.1_Missense_Mutation_p.K81E	NM_006942	NP_008873	O60248	SOX15_HUMAN	SRY-box 15	81	HMG box.				chromatin organization|male gonad development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						CCCAGGCGCTTGGAGATCTCG	0.667000											OREG0024139	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	28					0	0	0.010504	0	0
TMEM88	92162	broad.mit.edu	37	17	7758402	7758402	+	Missense_Mutation	SNP	G	T	T			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:7758402G>T	uc002giy.2	+	1	19	c.10G>T	c.(10-12)GTC>TTC	p.V4F	CYB5D1_uc010cnn.1_5'Flank|CYB5D1_uc002gjb.3_5'Flank	NM_203411	NP_981956	Q6PEY1	TMM88_HUMAN	transmembrane protein 88	4						integral to membrane					0		all_cancers(10;0.00528)|Prostate(122;0.202)				CATGGCGGATGTCCCCGGGGC	0.697000													9	25					4.68919e-08	5.29425e-08	0.008291	1	0
TMEM88	92162	broad.mit.edu	37	17	7758962	7758962	+	Missense_Mutation	SNP	C	A	A			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:7758962C>A	uc002giy.2	+	2	419	c.410C>A	c.(409-411)CCG>CAG	p.P137Q	CYB5D1_uc010cnn.1_5'Flank|CYB5D1_uc002gjb.3_5'Flank	NM_203411	NP_981956	Q6PEY1	TMM88_HUMAN	transmembrane protein 88	137						integral to membrane					0		all_cancers(10;0.00528)|Prostate(122;0.202)				CGGCGCGCCCCGCAGCCGCGG	0.667000													3	36					0.00909568	0.00964693	0.009096	1	0
PER1	5187	broad.mit.edu	37	17	8047060	8047060	+	Missense_Mutation	SNP	T	G	G			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:8047060T>G	uc002gkd.2	-	19	2834	c.2596A>C	c.(2596-2598)ACC>CCC	p.T866P	PER1_uc010cns.2_5'Flank|PER1_uc010vuq.1_Intron	NM_002616	NP_002607	O15534	PER1_HUMAN	period 1	866	Pro-rich.				circadian rhythm|entrainment of circadian clock|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			lung(2)|breast(2)|skin(2)|large_intestine(1)|ovary(1)|kidney(1)	9						GGCCAGGGGGTGGAGGGTGGC	0.667000			T	ETV6	AML|CMML			Other_conserved_DNA_damage_response_genes					6	23					0	0	0.001984	0	0
TLCD1	116238	broad.mit.edu	37	17	27052951	27052951	+	Silent	SNP	G	T	T			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:27052951G>T	uc002hco.2	-	1	280	c.165C>A	c.(163-165)TCC>TCA	p.S55S	TLCD1_uc010waw.1_Intron|NEK8_uc002hcp.2_5'Flank	NM_138463	NP_612472	Q96CP7	TLCD1_HUMAN	TLC domain containing 1 isoform 1	55	TLC.|Helical; (Potential).					integral to membrane					0	Lung NSC(42;0.00431)					CCGACACAATGGAGTGAGCGA	0.682000													23	42					1.77063e-15	2.13697e-15	0.005443	1	0
DDX52	11056	broad.mit.edu	37	17	36003445	36003445	+	Missense_Mutation	SNP	T	C	C			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:36003445T>C	uc002hoi.1	-	1	43	c.5A>G	c.(4-6)GAC>GGC	p.D2G	DDX52_uc002hoh.1_5'UTR|DDX52_uc002hoj.1_5'Flank	NM_007010	NP_008941	Q9Y2R4	DDX52_HUMAN	ATP-dependent RNA helicase ROK1 isoform a	2						nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|skin(1)	2		Breast(25;0.00637)|Ovarian(249;0.15)				ATCGTGGACGTCCATCTTTAC	0.622000													14	57					0	0	0.004007	0	0
KRT27	342574	broad.mit.edu	37	17	38933310	38933310	+	Missense_Mutation	SNP	T	C	C			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:38933310T>C	uc002hvg.2	-	8	1362	c.1321A>G	c.(1321-1323)ACT>GCT	p.T441A		NM_181537	NP_853515	Q7Z3Y8	K1C27_HUMAN	keratin 27	441	Tail.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.000812)				TCTTCCACAGTGTGAACTCTG	0.413000													25	90					0	0	0.016522	0	0
Unknown	0	broad.mit.edu	37	17	39296291	39296291	+	RNA	SNP	C	A	A			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:39296291C>A	uc010cxk.1	-	1		c.413G>T								Homo sapiens partial mRNA for keratin associated protein 4.6 (KRTAP4.6 gene).																		agaggggcggcagcagctgga	0.333000													6	45					0.00116845	0.00125833	0.001168	1	0
FOXJ1	2302	broad.mit.edu	37	17	74134123	74134123	+	Missense_Mutation	SNP	C	A	A			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:74134123C>A	uc002jqw.2	-	2	667	c.577G>T	c.(577-579)GGC>TGC	p.G193C	FOXJ1_uc002jqx.2_Missense_Mutation_p.G193C|uc002jqy.1_5'Flank	NM_001454	NP_001445	Q92949	FOXJ1_HUMAN	forkhead box J1	193	Fork-head.				actin cytoskeleton organization|activation of Rho GTPase activity|central tolerance induction|cilium assembly|epithelial cell differentiation|establishment of apical/basal cell polarity|heart looping|humoral immune response|left/right pattern formation|leukocyte migration|lung development|negative regulation of B cell activation|negative regulation of germinal center formation|negative regulation of humoral immune response mediated by circulating immunoglobulin|negative regulation of interleukin-6 biosynthetic process|negative regulation of NF-kappaB transcription factor activity|negative regulation of T cell differentiation in thymus|negative regulation of T cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of central B cell tolerance induction|spermatogenesis	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			pancreas(1)	1			LUSC - Lung squamous cell carcinoma(166;0.187)			CGCCAGAAGCCCCCCTTGCCT	0.607000													17	36					4.7546e-09	5.4561e-09	0.004007	1	0
C17orf90	339229	broad.mit.edu	37	17	79632531	79632531	+	Silent	SNP	C	T	T			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:79632531C>T	uc002kba.2	-	2	155	c.144G>A	c.(142-144)GCG>GCA	p.A48A	C17orf90_uc002kbb.2_3'UTR|CCDC137_uc002kbc.3_5'Flank|CCDC137_uc002kbd.2_5'Flank	NM_001039842	NP_001034931	Q5BKU9	CQ090_HUMAN	hypothetical protein LOC339229	48											0	all_neural(118;0.0878)|all_lung(278;0.23)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			CAGGGGCTTGCGCTCCGGGAT	0.647000													15	57					0	0	0.020292	0	0
HNRNPM	4670	broad.mit.edu	37	19	8551158	8551158	+	Missense_Mutation	SNP	G	A	A			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr19:8551158G>A	uc010dwe.2	+	14	1926	c.1846G>A	c.(1846-1848)GGT>AGT	p.G616S	HNRNPM_uc010xke.1_Missense_Mutation_p.G562S|HNRNPM_uc010dwd.2_Missense_Mutation_p.G577S|HNRNPM_uc002mka.2_Missense_Mutation_p.G481S|HNRNPM_uc002mkb.1_5'Flank	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	616	Poly-Gly.				alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						TGGCGGTGGCGGTGCCAGCTT	0.682000													26	43					0	0	0.018920	0	0
Unknown	0	broad.mit.edu	37	19	23159778	23159778	+	RNA	SNP	C	G	G			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr19:23159778C>G	uc002nqy.1	-	3		c.372G>C			uc002nqz.1_Missense_Mutation_p.D57H					Homo sapiens zinc finger protein 117, mRNA (cDNA clone IMAGE:40112371).																		TTACACTCATCCACATTGGTA	0.338000													3	28					0	0	0.004672	0	0
ZNF497	162968	broad.mit.edu	37	19	58867603	58867603	+	Nonsense_Mutation	SNP	C	A	A			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr19:58867603C>A	uc002qsh.1	-	3	1588	c.1399G>T	c.(1399-1401)GAG>TAG	p.E467*	A1BG_uc002qsd.3_5'Flank|A1BG_uc002qsf.1_Intron|ZNF497_uc002qsi.1_Nonsense_Mutation_p.E467*|uc002qsj.1_5'Flank|uc002qsk.1_5'Flank	NM_198458	NP_940860	Q6ZNH5	ZN497_HUMAN	zinc finger protein 497	467					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(2)	2		all_cancers(17;3.11e-12)|all_epithelial(17;9.43e-09)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0278)		TAGGGCCTCTCGCCCGTGTGC	0.692000													9	17					0.000274275	0.000299988	0.004482	1	0
ATAD2B	54454	broad.mit.edu	37	2	24107699	24107699	+	Silent	SNP	T	G	G			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr2:24107699T>G	uc002rek.3	-	6	1014	c.720A>C	c.(718-720)TCA>TCC	p.S240S	ATAD2B_uc010yki.1_RNA|ATAD2B_uc010exx.1_Silent_p.S240S	NM_017552	NP_060022	Q9ULI0	ATD2B_HUMAN	ATPase family, AAA domain containing 2B	240							ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTCTTCTTAGTGACTTTCTTC	0.323000													2	11					0	0	0.004672	0	0
LRPPRC	10128	broad.mit.edu	37	2	44207047	44207047	+	Silent	SNP	A	G	G			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr2:44207047A>G	uc002rtr.2	-	3	445	c.387T>C	c.(385-387)AGT>AGC	p.S129S	LRPPRC_uc010yob.1_Silent_p.S29S|LRPPRC_uc010faw.1_Silent_p.S103S	NM_133259	NP_573566	P42704	LPPRC_HUMAN	leucine-rich PPR motif-containing protein	129	PPR 1.				mitochondrion transport along microtubule|mRNA transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	condensed nuclear chromosome|cytoskeleton|mitochondrial nucleoid|nuclear inner membrane|nuclear outer membrane|nucleoplasm|perinuclear region of cytoplasm	beta-tubulin binding|microtubule binding|RNA binding			ovary(2)|skin(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				GAGAACCACAACTACGTAGTA	0.368000													21	47					0	0	0.012319	0	0
SCN7A	6332	broad.mit.edu	37	2	167284362	167284362	+	Missense_Mutation	SNP	A	T	T			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr2:167284362A>T	uc002udu.1	-	17	2916	c.2789T>A	c.(2788-2790)ATT>AAT	p.I930N	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	930	Helical; Name=S1 of repeat III; (By similarity).				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						GTTCTCTACAATCTTGCAGCA	0.458000													14	29					0	0	0.020292	0	0
CTCFL	140690	broad.mit.edu	37	20	56090837	56090837	+	Missense_Mutation	SNP	C	G	G			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr20:56090837C>G	uc010gix.1	-	5	1775	c.1113G>C	c.(1111-1113)CAG>CAC	p.Q371H	CTCFL_uc010giw.1_Missense_Mutation_p.Q371H|CTCFL_uc002xym.2_Missense_Mutation_p.Q371H|CTCFL_uc010giz.1_5'UTR|CTCFL_uc010giy.1_5'UTR|CTCFL_uc010gja.1_Missense_Mutation_p.Q371H|CTCFL_uc010gjb.1_Missense_Mutation_p.Q371H|CTCFL_uc010gjc.1_Missense_Mutation_p.Q371H|CTCFL_uc010gjd.1_Missense_Mutation_p.Q371H|CTCFL_uc010gje.2_Missense_Mutation_p.Q371H|CTCFL_uc010gjf.2_Missense_Mutation_p.Q166H|CTCFL_uc010gjg.2_Missense_Mutation_p.Q103H|CTCFL_uc010gjh.1_Intron|CTCFL_uc010gji.1_Missense_Mutation_p.Q166H|CTCFL_uc010gjj.1_Missense_Mutation_p.Q371H	NM_080618	NP_542185	Q8NI51	CTCFL_HUMAN	CCCTC-binding factor-like protein	371	C2H2-type 5.				cell cycle|DNA methylation involved in gamete generation|histone methylation|positive regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|regulation of histone H3-K4 methylation|transcription, DNA-dependent	cytoplasm|nucleus	histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|skin(1)	4	Lung NSC(12;0.00132)|all_lung(29;0.00433)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;3.95e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.09e-07)			ACTGGCAACACTGAAAGGGGC	0.473000													114	130					0	0	0.014410	0	0
MICAL3	57553	broad.mit.edu	37	22	18293564	18293564	+	Missense_Mutation	SNP	C	T	T			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr22:18293564C>T	uc002zng.3	-	28	5814	c.5461G>A	c.(5461-5463)GAG>AAG	p.E1821K	MICAL3_uc011agl.1_Missense_Mutation_p.E1737K|MICAL3_uc010gre.1_RNA	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	1821	Potential.					cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		AGTTCCTCCTCCGTGTAGGTT	0.602000													18	54					0	0	0.008871	0	0
MEI1	150365	broad.mit.edu	37	22	42154472	42154472	+	Silent	SNP	A	C	C			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr22:42154472A>C	uc003baz.1	+	18	2080	c.2055A>C	c.(2053-2055)GGA>GGC	p.G685G	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|MEI1_uc011apd.1_RNA|MEI1_uc003bbb.1_Silent_p.G53G|MEI1_uc003bbc.1_Silent_p.G53G|MEI1_uc010gym.1_Silent_p.G53G|MEI1_uc003bbd.1_5'UTR	NM_152513	NP_689726	Q5TIA1	MEI1_HUMAN	meiosis defective 1	685							binding			central_nervous_system(1)|skin(1)	2						ACATGGAGGGAGCTGCTCGCC	0.582000													12	23					0	0	0.010729	0	0
POLDIP3	84271	broad.mit.edu	37	22	43010826	43010826	+	Missense_Mutation	SNP	C	T	T			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr22:43010826C>T	uc003bcu.2	-	1	137	c.38G>A	c.(37-39)CGC>CAC	p.R13H	POLDIP3_uc003bcv.2_Missense_Mutation_p.R13H|POLDIP3_uc011apq.1_Missense_Mutation_p.R13H|POLDIP3_uc010gza.2_RNA|POLDIP3_uc011apr.1_RNA|POLDIP3_uc010gzb.1_Missense_Mutation_p.R13H	NM_032311	NP_115687	Q9BY77	PDIP3_HUMAN	DNA polymerase delta interacting protein 3	13					positive regulation of translation	cytoplasm|nuclear speck	nucleotide binding|protein binding|RNA binding				0						CGCCGCCCCGCGCTTCCTGAT	0.667000													19	68					0	0	0.016522	0	0
MCAT	27349	broad.mit.edu	37	22	43533107	43533107	+	Missense_Mutation	SNP	C	T	T			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr22:43533107C>T	uc003bdl.1	-	3	758	c.709G>A	c.(709-711)GTG>ATG	p.V237M	MCAT_uc003bdm.1_Intron	NM_173467	NP_775738	Q8IVS2	FABD_HUMAN	mitochondrial malonyltransferase isoform a	237					fatty acid biosynthetic process	mitochondrion	[acyl-carrier-protein] S-malonyltransferase activity|binding			ovary(1)	1		Ovarian(80;0.0694)				CCTGAAATCACCCTGCAATCT	0.532000											OREG0026613	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	55	149					0	0	0.014410	0	0
SHISA5	51246	broad.mit.edu	37	3	48510782	48510782	+	Silent	SNP	C	T	T			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr3:48510782C>T	uc003ctp.1	-	5	755	c.621G>A	c.(619-621)CCG>CCA	p.P207P	SHISA5_uc003ctn.1_Missense_Mutation_p.G76S|SHISA5_uc003ctm.1_Silent_p.P104P|SHISA5_uc011bbk.1_Missense_Mutation_p.G116S|SHISA5_uc003cto.1_Silent_p.P176P|SHISA5_uc003ctq.1_Silent_p.P200P|SHISA5_uc003ctr.1_Silent_p.P176P|SHISA5_uc003cts.1_Silent_p.P176P|SHISA5_uc003ctt.2_Silent_p.P104P|SHISA5_uc003ctu.1_RNA|SHISA5_uc011bbl.1_Silent_p.P105P	NM_016479	NP_057563	Q8N114	SHSA5_HUMAN	scotin precursor	207	Cytoplasmic (Potential).|Pro-rich.				apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade	endoplasmic reticulum membrane|integral to membrane|nuclear membrane	signal transducer activity|WW domain binding				0						CGTGGTAGGCCGGTGGGCCCA	0.657000													22	83					0	0	0.021523	0	0
KPNA4	3840	broad.mit.edu	37	3	160249310	160249310	+	Missense_Mutation	SNP	T	C	C			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr3:160249310T>C	uc003fdn.2	-	6	629	c.323A>G	c.(322-324)GAT>GGT	p.D108G		NM_002268	NP_002259	O00629	IMA4_HUMAN	karyopherin alpha 4	108	ARM 2.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0			Lung(72;0.00149)|LUSC - Lung squamous cell carcinoma(72;0.00216)			TATTAAGTCATCAATTGGTGG	0.269000													22	67					0	0	0.007291	0	0
SLC30A9	10463	broad.mit.edu	37	4	42037333	42037333	+	Missense_Mutation	SNP	T	G	G			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr4:42037333T>G	uc003gwl.2	+	7	798	c.652T>G	c.(652-654)TTC>GTC	p.F218V	SLC30A9_uc011byx.1_Translation_Start_Site	NM_006345	NP_006336	Q6PML9	ZNT9_HUMAN	solute carrier family 30 (zinc transporter),	218					nucleotide-excision repair|zinc ion transport	cytoskeleton|integral to membrane|nucleus	cation transmembrane transporter activity|nucleotide binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3						ATACAGAGATTTCTTGGGAAA	0.299000													27	84					0	0	0.009535	0	0
ZCCHC9	84240	broad.mit.edu	37	5	80600585	80600585	+	Silent	SNP	G	A	A			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr5:80600585G>A	uc003khj.2	+	2	142	c.9G>A	c.(7-9)AGG>AGA	p.R3R	RNU5E_uc011cto.1_Intron|ZCCHC9_uc003khk.3_Silent_p.R3R|ZCCHC9_uc003khi.2_Silent_p.R3R	NM_001131035	NP_001124507	Q8N567	ZCHC9_HUMAN	zinc finger, CCHC domain containing 9	3							nucleic acid binding|zinc ion binding			ovary(1)	1		Lung NSC(167;0.0427)|all_lung(232;0.0464)|Ovarian(174;0.135)		OV - Ovarian serous cystadenocarcinoma(54;8.18e-45)|Epithelial(54;2.72e-39)|all cancers(79;7.33e-34)		TTATGACCAGGTGGGCCCGAG	0.423000													28	76					0	0	0.010818	0	0
PCDHGA6	56109	broad.mit.edu	37	5	140753888	140753888	+	Nonsense_Mutation	SNP	C	T	T			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr5:140753888C>T	uc003ljy.1	+	1	238	c.238C>T	c.(238-240)CGA>TGA	p.R80*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Nonsense_Mutation_p.R80*	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	80	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTGAATCCGCGAAACGGCAG	0.577000													30	56					0	0	0.013726	0	0
PWWP2A	114825	broad.mit.edu	37	5	159520919	159520919	+	Silent	SNP	G	A	A			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr5:159520919G>A	uc011ded.1	-	2	795	c.738C>T	c.(736-738)GTC>GTT	p.V246V	PWWP2A_uc003lxv.3_Silent_p.V246V|PWWP2A_uc011dec.1_Silent_p.V246V	NM_001130864	NP_001124336	Q96N64	PWP2A_HUMAN	PWWP domain containing 2A isoform b	246	Pro-rich.										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)			CGGGATGCGGGACAGGAGAAG	0.512000													33	71					0	0	0.009535	0	0
RPL10A	4736	broad.mit.edu	37	6	35436591	35436591	+	Silent	SNP	C	T	T			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr6:35436591C>T	uc003okp.1	+	2	55	c.21C>T	c.(19-21)CGC>CGT	p.R7R	RPL10A_uc003okq.1_5'UTR|RPL10A_uc003okr.1_5'UTR|RPL10A_uc003oks.1_5'UTR	NM_007104	NP_009035	P62906	RL10A_HUMAN	ribosomal protein L10a	7					anatomical structure morphogenesis|endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|large ribosomal subunit	RNA binding|structural constituent of ribosome			ovary(1)	1						AAGTCTCTCGCGACACCCTGT	0.697000													4	14					0	0	0.009096	0	0
TNFAIP3	7128	broad.mit.edu	37	6	138200108	138200108	+	Missense_Mutation	SNP	C	T	T			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr6:138200108C>T	uc003qhr.2	+	7	1592	c.1526C>T	c.(1525-1527)GCC>GTC	p.A509V	TNFAIP3_uc003qhs.2_Missense_Mutation_p.A509V	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	509	Interaction with NAF1 (By similarity).				anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding	p.0?(22)		haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		GCCAGCCACGCCCCAGACCAC	0.562000			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								15	49					0	0	0.003163	0	0
TBP	6908	broad.mit.edu	37	6	170871058	170871058	+	Silent	SNP	G	A	A	rs113440919		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr6:170871058G>A	uc003qxt.2	+	3	466	c.234G>A	c.(232-234)CAG>CAA	p.Q78Q	TBP_uc003qxu.2_Silent_p.Q78Q|TBP_uc011ehf.1_Silent_p.Q58Q|TBP_uc011ehg.1_Silent_p.Q78Q	NM_003194	NP_003185	P20226	TBP_HUMAN	TATA box binding protein	78	Poly-Gln.				cell death|interspecies interaction between organisms|transcription elongation from RNA polymerase II promoter|transcription from RNA polymerase III promoter|viral reproduction	transcription factor TFIIA complex|transcription factor TFIID complex	repressing transcription factor binding|transcription regulatory region DNA binding			ovary(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;1.07e-22)|BRCA - Breast invasive adenocarcinoma(81;5.01e-06)|GBM - Glioblastoma multiforme(31;0.00591)		agcagcagcagcagcagcagc	0.164000													9	35					0	0	0.004482	0	0
ST7	7982	broad.mit.edu	37	7	116869938	116869938	+	Missense_Mutation	SNP	A	C	C			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr7:116869938A>C	uc011knn.1	+	14	1470	c.1465A>C	c.(1465-1467)ACC>CCC	p.T489P	ST7_uc003vio.2_3'UTR|ST7_uc003viq.2_3'UTR|ST7_uc011knm.1_3'UTR|ST7_uc003vir.2_3'UTR	NM_021908	NP_068708	Q9NRC1	ST7_HUMAN	suppression of tumorigenicity 7 isoform b	Error:Variant_position_missing_in_Q9NRC1_after_alignment						integral to membrane	binding			central_nervous_system(1)|skin(1)	2	all_cancers(3;3.88e-07)|all_epithelial(6;3.42e-07)|Lung NSC(10;0.00072)|all_lung(10;0.000847)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		CACTCACCTCACCCGCCGCTG	0.507000													11	43					0	0	0.014410	0	0
FAM91A1	157769	broad.mit.edu	37	8	124787418	124787418	+	Nonsense_Mutation	SNP	C	A	A			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr8:124787418C>A	uc003yqv.2	+	3	250	c.189C>A	c.(187-189)TAC>TAA	p.Y63*	FAM91A1_uc011lik.1_Nonsense_Mutation_p.Y63*|FAM91A1_uc011lil.1_5'UTR	NM_144963	NP_659400	Q658Y4	F91A1_HUMAN	hypothetical protein LOC157769	63										ovary(1)|central_nervous_system(1)	2	Lung NSC(37;8.76e-13)|Ovarian(258;0.00744)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00192)			AACGCAGATACTATGAGGAAC	0.363000													27	36					1.08312e-15	1.33015e-15	0.009535	1	0
Unknown	0	broad.mit.edu	37	9	68413565	68413565	+	RNA	SNP	G	A	A			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr9:68413565G>A	uc004aex.2	+	1		c.120G>A								Homo sapiens mRNA; cDNA DKFZp564N0763 (from clone DKFZp564N0763).																		AGCTCCCCCAGTGGCGCCGGA	0.547000													2	0					0	0	0.004672	0	0
BSPRY	54836	broad.mit.edu	37	9	116132384	116132384	+	Missense_Mutation	SNP	T	A	A			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr9:116132384T>A	uc004bhg.3	+	6	1219	c.1171T>A	c.(1171-1173)TTT>ATT	p.F391I	BSPRY_uc010muw.2_3'UTR	NM_017688	NP_060158	Q5W0U4	BSPRY_HUMAN	B-box and SPRY domain containing	391	B30.2/SPRY.				calcium ion transport	cytoplasm|membrane	zinc ion binding			breast(1)	1						CTTCCCAGTCTTTGCTGTGGC	0.597000													32	66					0	0	0.015359	0	0
C9orf172	389813	broad.mit.edu	37	9	139739071	139739071	+	Missense_Mutation	SNP	G	C	C			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr9:139739071G>C	uc011meh.1	+	1	205	c.205G>C	c.(205-207)GAG>CAG	p.E69Q		NM_001080482	NP_001073951	C9J069	CI172_HUMAN	chromosome 9 open reading frame 172	69	Pro-rich.										0						GACCCTGCCGGAGCCACCGCC	0.682000													2	4					0	0	0.004672	0	0
ERRFI1	54206	broad.mit.edu	37	1	8075357	8075374	+	Splice_Site	DEL	AGAATACATACCAAGTGG	-	-	rs147802351	byFrequency	TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr1:8075357_8075374delAGAATACATACCAAGTGG	uc001aoz.2	-	3	451	c.202_splice	c.e3+1	p.G68_splice	ERRFI1_uc001apa.1_5'UTR	NM_018948	NP_061821	Q9UJM3	ERRFI_HUMAN	mitogen-inducible gene 6 protein						lung alveolus development|lung epithelium development|lung vasculature development|negative regulation of epidermal growth factor receptor activity|negative regulation of protein autophosphorylation|regulation of keratinocyte differentiation|response to stress|skin morphogenesis	cytoplasm|extrinsic to internal side of plasma membrane|nucleus	protein kinase binding|Rho GTPase activator activity			ovary(1)	1	Ovarian(185;0.06)|all_lung(157;0.151)	all_epithelial(116;1.76e-16)|all_lung(118;3.66e-05)|Lung NSC(185;0.000163)|Renal(390;0.000469)|Colorectal(325;0.0033)|Breast(348;0.0044)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;2.33e-70)|GBM - Glioblastoma multiforme(8;8.05e-37)|Colorectal(212;6.23e-08)|COAD - Colon adenocarcinoma(227;6.9e-06)|Kidney(185;4.89e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.000985)|READ - Rectum adenocarcinoma(331;0.0642)		TCAGATTTTCAGAATACATACCAAGTGGTATTAGGCGC	0.404													12	70	---	---	---	---					
IPP	3652	broad.mit.edu	37	1	46184897	46184898	+	Frame_Shift_Del	DEL	AC	-	-			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr1:46184897_46184898delAC	uc001cou.2	-	6	1430_1431	c.1163_1164delGT	c.(1162-1164)TGTfs	p.C388fs	IPP_uc001cos.3_Frame_Shift_Del_p.C388fs	NM_005897	NP_005888	Q9Y573	IPP_HUMAN	intracisternal A particle-promoted polypeptide	388	Kelch 2.					actin cytoskeleton|cytoplasm	actin binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TAGCCCCATAACACACACACAC	0.317													7	90	---	---	---	---					
COL17A1	1308	broad.mit.edu	37	10	105793785	105793785	+	Frame_Shift_Del	DEL	G	-	-			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr10:105793785delG	uc001kxr.2	-	52	4243	c.4074delC	c.(4072-4074)GGCfs	p.G1358fs	COL17A1_uc001kxq.2_5'Flank	NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	1358	Extracellular (Potential).|Triple-helical region.				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		GTCCGCCATTGCCAGCATACA	0.572													17	82	---	---	---	---					
MICALCL	84953	broad.mit.edu	37	11	12316384	12316389	+	In_Frame_Del	DEL	CTCCTA	-	-	rs3812754	byFrequency	TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr11:12316384_12316389delCTCCTA	uc001mkg.1	+	3	1697_1702	c.1406_1411delCTCCTA	c.(1405-1413)CCTCCTACA>CCA	p.PT470del		NM_032867	NP_116256	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like	470_471					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	mitogen-activated protein kinase binding			skin(1)	1				Epithelial(150;0.00177)		cctcctcctcctcctACAGCGGGAGG	0.432													5	5	---	---	---	---					
PRB1	5542	broad.mit.edu	37	12	11506449	11506450	+	In_Frame_Ins	INS	-	GGA	GGA			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr12:11506449_11506450insGGA	uc001qzw.1	-	4	624_625	c.587_588insTCC	c.(586-588)CCA>CCTCCA	p.196_196P>PP	PRB1_uc001qzu.1_Intron|PRB1_uc001qzv.1_Intron	NM_005039	NP_005030	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1 isoform 1	257	11.|15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-[PAQ]-Q-[GE]-[GD]- [NKS]-[KSQRN]-[PRQS]-[QS] [GPS]-[PQAR]- [PSR].		Missing (in clone CP-4).|Missing (in clone CP-5).			extracellular region					0			OV - Ovarian serous cystadenocarcinoma(49;0.185)			GTGGCTTTCCTGGAGGTGGGGG	0.604													7	354	---	---	---	---					
PCDH8	5100	broad.mit.edu	37	13	53421017	53421018	+	Frame_Shift_Ins	INS	-	AT	AT			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr13:53421017_53421018insAT	uc001vhi.2	-	1	1757_1758	c.1554_1555insAT	c.(1552-1557)ACGGTGfs	p.T518fs	PCDH8_uc001vhj.2_Frame_Shift_Ins_p.T518fs	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	518_519	Extracellular (Potential).|Cadherin 5.				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		CGGGCGGCCACCGTGGCCAGGT	0.723													4	5	---	---	---	---					
ERCC5	2073	broad.mit.edu	37	13	103524612	103524612	+	Frame_Shift_Del	DEL	A	-	-			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr13:103524612delA	uc001vpw.2	+	13	3186	c.2743delA	c.(2743-2745)AAAfs	p.K915fs	ERCC5_uc001vpu.1_Frame_Shift_Del_p.K1369fs|ERCC5_uc010tjc.1_RNA|ERCC5_uc010tjd.1_Frame_Shift_Del_p.K747fs	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	915					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					CACCAAAGTGAAAAAAAAATT	0.428			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				7	66	---	---	---	---					
PIPOX	51268	broad.mit.edu	37	17	27380072	27380083	+	In_Frame_Del	DEL	GGTTGCCCAGGG	-	-	rs148024165	byFrequency	TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:27380072_27380083delGGTTGCCCAGGG	uc002hdr.1	+	3	724_735	c.398_409delGGTTGCCCAGGG	c.(397-411)CGGTTGCCCAGGGGA>CGA	p.LPRG134del		NM_016518	NP_057602	Q9P0Z9	SOX_HUMAN	pipecolic acid oxidase	134_137					tetrahydrofolate metabolic process	peroxisome	L-pipecolate oxidase activity|sarcosine oxidase activity				0	Lung NSC(42;0.015)		Epithelial(11;9.87e-06)|BRCA - Breast invasive adenocarcinoma(11;3.92e-05)|all cancers(11;5.59e-05)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)		Glycine(DB00145)	CCAAATATTCGGTTGCCCAGGGGAGAAGTGGG	0.495													27	100	---	---	---	---					
C17orf70	80233	broad.mit.edu	37	17	79514289	79514299	+	Frame_Shift_Del	DEL	TGAGACTGTAG	-	-			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:79514289_79514299delTGAGACTGTAG	uc002kaq.2	-	5	1864_1874	c.1809_1819delCTACAGTCTCA	c.(1807-1821)TTCTACAGTCTCAGGfs	p.F603fs	C17orf70_uc002kao.1_Frame_Shift_Del_p.F252fs|C17orf70_uc010wuq.1_RNA|C17orf70_uc002kap.2_Frame_Shift_Del_p.F452fs	NM_001109760	NP_001103230	Q0VG06	FP100_HUMAN	Fanconi anemia core complex 100 kDa subunit	603_607					DNA repair	cytoplasm|intermediate filament cytoskeleton|nucleoplasm	DNA binding			ovary(1)|skin(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			ACCACCTCCCTGAGACTGTAGAACAGCGTGC	0.682													30	62	---	---	---	---					
ACVR2A	92	broad.mit.edu	37	2	148684830	148684834	+	Frame_Shift_Del	DEL	AATCT	-	-			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr2:148684830_148684834delAATCT	uc002twg.2	+	12	1798_1802	c.1529_1533delAATCT	c.(1528-1533)GAATCTfs	p.E510fs	ACVR2A_uc010zbn.1_Frame_Shift_Del_p.E402fs|ACVR2A_uc002twh.2_Frame_Shift_Del_p.E510fs	NM_001616	NP_001607	P27037	AVR2A_HUMAN	activin A receptor, type IIA precursor	510_511	Cytoplasmic (Potential).				activin receptor signaling pathway|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of erythrocyte differentiation|positive regulation of osteoblast differentiation|positive regulation of protein phosphorylation	cytoplasm|inhibin-betaglycan-ActRII complex|integral to plasma membrane	ATP binding|coreceptor activity|inhibin beta-A binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			stomach(8)|large_intestine(2)|lung(1)|breast(1)|kidney(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.0969)		CCTCCCAAAGAATCTAGTCTATGAT	0.395													17	63	---	---	---	---					
PDE9A	5152	broad.mit.edu	37	21	44185564	44185565	+	Frame_Shift_Ins	INS	-	G	G			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr21:44185564_44185565insG	uc002zbm.2	+	15	1379_1380	c.1316_1317insG	c.(1315-1317)ATGfs	p.M439fs	PDE9A_uc002zbn.2_Frame_Shift_Ins_p.M312fs|PDE9A_uc002zbo.2_Frame_Shift_Ins_p.M386fs|PDE9A_uc002zbp.2_Frame_Shift_Ins_p.M232fs|PDE9A_uc002zbq.2_Frame_Shift_Ins_p.M337fs|PDE9A_uc002zbs.2_Frame_Shift_Ins_p.M232fs|PDE9A_uc002zbr.2_Frame_Shift_Ins_p.M232fs|PDE9A_uc002zbt.2_Frame_Shift_Ins_p.M311fs|PDE9A_uc002zbu.2_Frame_Shift_Ins_p.M305fs|PDE9A_uc002zbv.2_Frame_Shift_Ins_p.M279fs|PDE9A_uc002zbw.2_Frame_Shift_Ins_p.M222fs|PDE9A_uc002zbx.2_Frame_Shift_Ins_p.M379fs|PDE9A_uc002zby.2_Frame_Shift_Ins_p.M222fs|PDE9A_uc002zbz.2_Frame_Shift_Ins_p.M331fs|PDE9A_uc002zca.2_Frame_Shift_Ins_p.M398fs|PDE9A_uc002zcb.2_Frame_Shift_Ins_p.M413fs|PDE9A_uc002zcc.2_Frame_Shift_Ins_p.M338fs|PDE9A_uc002zcd.2_Frame_Shift_Ins_p.M353fs|PDE9A_uc002zce.2_Frame_Shift_Ins_p.M372fs|PDE9A_uc002zcf.2_Frame_Shift_Ins_p.M232fs|PDE9A_uc002zcg.2_Frame_Shift_Ins_p.M232fs|PDE9A_uc002zch.2_Frame_Shift_Ins_p.M222fs|PDE9A_uc010gpf.1_Frame_Shift_Ins_p.M232fs	NM_002606	NP_002597	O76083	PDE9A_HUMAN	phosphodiesterase 9A isoform a	439	Catalytic (By similarity).				platelet activation|signal transduction	cytosol|endoplasmic reticulum|Golgi apparatus|perinuclear region of cytoplasm|ruffle membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|skin(1)	2						AAAGAGAAAATGGAGAATTTTG	0.480													16	25	---	---	---	---					
SEC14L2	23541	broad.mit.edu	37	22	30805476	30805477	+	Splice_Site	INS	-	T	T			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr22:30805476_30805477insT	uc003ahr.2	+	7	753	c.580_splice	c.e7+1	p.A194_splice	SEC14L2_uc003ahq.2_Splice_Site_p.A194_splice|SEC14L2_uc011akx.1_Splice_Site_p.A140_splice|SEC14L2_uc003ahs.2_Splice_Site_p.A120_splice|SEC14L2_uc011aky.1_Splice_Site_p.A111_splice|SEC14L2_uc003aht.2_Splice_Site|SEC14L2_uc003ahu.3_Splice_Site_p.A18_splice|SEC14L2_uc010gvv.2_Splice_Site|SEC14L2_uc010gvw.1_Splice_Site|MTP18_uc010gvx.1_Splice_Site|MTP18_uc003ahv.1_Splice_Site_p.A18_splice|MTP18_uc010gvy.1_Splice_Site_p.A18_splice	NM_012429	NP_036561	O76054	S14L2_HUMAN	SEC14-like 2 isoform 1						positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	phospholipid binding|transporter activity|vitamin E binding				0					Vitamin E(DB00163)	GTTGTTAAAGGTAAGTTGGGAA	0.436													33	88	---	---	---	---					
SLC35A5	55032	broad.mit.edu	37	3	112282282	112282290	+	In_Frame_Del	DEL	TATGCTCCT	-	-			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr3:112282282_112282290delTATGCTCCT	uc003dze.2	+	2	277_285	c.32_40delTATGCTCCT	c.(31-42)ATATGCTCCTTG>ATG	p.11_14ICSL>M	ATG3_uc003dzd.2_5'Flank|ATG3_uc003dzc.2_5'Flank|ATG3_uc010hqe.2_5'Flank	NM_017945	NP_060415	Q9BS91	S35A5_HUMAN	solute carrier family 35, member A5	11_14	Helical; (Potential).					Golgi membrane|integral to membrane	nucleotide-sugar transmembrane transporter activity|sugar:hydrogen symporter activity			ovary(1)	1						CATCCTGTAATATGCTCCTTGTCAACAAT	0.378													19	72	---	---	---	---					
ADAM9	8754	broad.mit.edu	37	8	38880710	38880711	+	Frame_Shift_Ins	INS	-	GG	GG			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr8:38880710_38880711insGG	uc003xmr.2	+	9	858_859	c.780_781insGG	c.(778-783)GTTGGAfs	p.V260fs	ADAM9_uc011lcf.1_RNA|ADAM9_uc011lcg.1_RNA|ADAM9_uc010lwr.2_RNA	NM_003816	NP_003807	Q13443	ADAM9_HUMAN	ADAM metallopeptidase domain 9 isoform 1	260_261	Extracellular (Potential).|Peptidase M12B.				activation of MAPKK activity|cell-cell adhesion mediated by integrin|cell-matrix adhesion|keratinocyte differentiation|monocyte activation|PMA-inducible membrane protein ectodomain proteolysis|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell adhesion mediated by integrin|positive regulation of keratinocyte migration|positive regulation of macrophage fusion|positive regulation of membrane protein ectodomain proteolysis|positive regulation of protein secretion|response to calcium ion|response to glucocorticoid stimulus|response to hydrogen peroxide|response to manganese ion|response to tumor necrosis factor|transforming growth factor beta receptor signaling pathway	extracellular space|extracellular space|integral to membrane|intrinsic to external side of plasma membrane	collagen binding|integrin binding|laminin binding|metalloendopeptidase activity|protein kinase C binding|SH3 domain binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;2.74e-07)			TTGTGCTAGTTGGACTGGAGAT	0.376													26	54	---	---	---	---					
SUSD1	64420	broad.mit.edu	37	9	114820886	114820886	+	Frame_Shift_Del	DEL	C	-	-			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr9:114820886delC	uc004bfu.2	-	14	1972	c.1931delG	c.(1930-1932)AGCfs	p.S644fs	SUSD1_uc010mui.2_Frame_Shift_Del_p.S644fs|SUSD1_uc010muj.2_Frame_Shift_Del_p.S644fs	NM_022486	NP_071931	Q6UWL2	SUSD1_HUMAN	sushi domain containing 1 precursor	644	Extracellular (Potential).					integral to membrane	calcium ion binding				0						AGAGGCGTTGCTAAAGAAGGA	0.473													34	111	---	---	---	---					
