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
NBPF1	55672	broad.mit.edu	37	1	16918653	16918653	+	Splice_Site	SNP	C	T	T			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr1:16918653C>T	uc009vos.1	-	6	853	c.-35_splice	c.e6+1		NBPF1_uc010oce.1_Intron	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672							cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		TCTTAACTTACTGTTGTGAAA	0.418000													3	38					0	0	0.004672	0	0
FUCA1	2517	broad.mit.edu	37	1	24192102	24192102	+	Missense_Mutation	SNP	T	C	C			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr1:24192102T>C	uc001bie.2	-	2	448	c.403A>G	c.(403-405)ACG>GCG	p.T135A	FUCA1_uc009vqt.1_RNA|FUCA1_uc010oed.1_RNA	NM_000147	NP_000138	P04066	FUCO_HUMAN	fucosidase, alpha-L-1, tissue precursor	135					fucose metabolic process|glycosaminoglycan catabolic process	lysosome	alpha-L-fucosidase activity|cation binding			breast(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000219)|Lung NSC(340;0.000233)|all_lung(284;0.000321)|Ovarian(437;0.00348)|Breast(348;0.00957)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;1.11e-24)|Colorectal(126;5.69e-08)|COAD - Colon adenocarcinoma(152;3.15e-06)|GBM - Glioblastoma multiforme(114;9.04e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000986)|KIRC - Kidney renal clear cell carcinoma(1967;0.00342)|STAD - Stomach adenocarcinoma(196;0.0128)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.144)		TGCTTTGTCGTCAAAACTACA	0.488000													25	99					0	0	0.034045	0	0
MACF1	23499	broad.mit.edu	37	1	39797681	39797681	+	Missense_Mutation	SNP	G	C	C			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr1:39797681G>C	uc010oiu.1	+	1	872	c.741G>C	c.(739-741)CAG>CAC	p.Q247H	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1812	Plectin 4.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TCATAAGGCAGCTTCAGACAG	0.463000													38	56					0	0	0.064281	0	0
PABPC4	8761	broad.mit.edu	37	1	40029530	40029530	+	Silent	SNP	C	T	T			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr1:40029530C>T	uc010oiv.1	-	11	2368	c.1470G>A	c.(1468-1470)CTG>CTA	p.L490L	PABPC4_uc001cdl.2_Silent_p.L506L|PABPC4_uc001cdm.2_Intron	NM_003819	NP_003810	Q13310	PABP4_HUMAN	poly A binding protein, cytoplasmic 4 isoform 2	490					blood coagulation|RNA catabolic process|RNA processing|translation	cytoplasm|ribonucleoprotein complex	nucleotide binding|poly(A) RNA binding|poly(U) RNA binding|protein binding				0	Lung NSC(20;1.55e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;2.89e-18)|Epithelial(16;6.17e-17)|all cancers(16;1.18e-15)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			AGCTGTCAGTCAGCCCTTGCT	0.557000													39	47					0	0	0.045515	0	0
BEST4	266675	broad.mit.edu	37	1	45250593	45250593	+	Missense_Mutation	SNP	A	G	G			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr1:45250593A>G	uc001cmm.2	-	7	1026	c.977T>C	c.(976-978)ATA>ACA	p.I326T		NM_153274	NP_695006	Q8NFU0	BEST4_HUMAN	bestrophin 4	326	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GTTGCGGTCTATGAGCTGATT	0.562000													10	100					0	0	0.069234	0	0
STXBP3	6814	broad.mit.edu	37	1	109302625	109302625	+	Missense_Mutation	SNP	T	G	G			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr1:109302625T>G	uc001dvy.2	+	6	431	c.356T>G	c.(355-357)TTT>TGT	p.F119C	STXBP3_uc001dvz.2_RNA	NM_007269	NP_009200	O00186	STXB3_HUMAN	syntaxin binding protein 3	119	Mediates interaction with DOC2B (By similarity).				negative regulation of calcium ion-dependent exocytosis|neutrophil degranulation|platelet aggregation|protein transport|vesicle docking involved in exocytosis	cytosol|nucleus|platelet alpha granule|specific granule|tertiary granule	syntaxin-2 binding			ovary(3)|central_nervous_system(1)	4		all_epithelial(167;0.000154)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0386)|Lung(183;0.104)|COAD - Colon adenocarcinoma(174;0.137)|Epithelial(280;0.231)		GATAATCTCTTTAACAAAATT	0.289000													70	91					0	0	0.048971	0	0
ZNF687	57592	broad.mit.edu	37	1	151259373	151259373	+	Silent	SNP	C	G	G			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr1:151259373C>G	uc001exq.2	+	2	704	c.606C>G	c.(604-606)GCC>GCG	p.A202A	ZNF687_uc001exp.1_Silent_p.A211A|ZNF687_uc009wmo.2_Silent_p.A202A|ZNF687_uc009wmp.2_Silent_p.A202A	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	202	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			TTGAGCTGGCCCAGGAGAATG	0.652000													49	58					0	0	0.048971	0	0
SPRR1A	6698	broad.mit.edu	37	1	152957850	152957850	+	Silent	SNP	C	T	T			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr1:152957850C>T	uc009wnu.1	+	2	222	c.144C>T	c.(142-144)CCC>CCT	p.P48P	SPRR1A_uc001faw.2_Silent_p.P48P	NM_005987	NP_005978	P35321	SPR1A_HUMAN	small proline-rich protein 1A	48	6 X 8 AA approximate tandem repeats.|3.				keratinization|peptide cross-linking	cornified envelope|cytoplasm	protein binding, bridging|structural molecule activity				0	Lung NSC(65;1.46e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			TGCCTGAGCCCTGCCACCCCA	0.642000													8	188					0	0	0.028581	0	0
SPRR1B	6699	broad.mit.edu	37	1	153004965	153004965	+	Silent	SNP	C	T	T			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr1:153004965C>T	uc001fba.2	+	2	208	c.144C>T	c.(142-144)CCC>CCT	p.P48P	SPRR1B_uc009wnx.1_RNA	NM_003125	NP_003116	P22528	SPR1B_HUMAN	small proline-rich protein 1B	48	6 X 8 AA approximate tandem repeats.|3.				keratinization|peptide cross-linking	cornified envelope|cytoplasm	protein binding, bridging|structural molecule activity			ovary(1)	1	Lung NSC(65;1.49e-28)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			TGCCTGAGCCCTGCCACCCCA	0.627000													88	132					0	0	0.048971	0	0
CUTC	51076	broad.mit.edu	37	10	101507060	101507060	+	Missense_Mutation	SNP	A	C	C			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr10:101507060A>C	uc001kqd.3	+	6	634	c.486A>C	c.(484-486)TTA>TTC	p.L162F	CUTC_uc010qpk.1_Missense_Mutation_p.L162F|CUTC_uc001kqe.3_RNA	NM_015960	NP_057044	Q9NTM9	CUTC_HUMAN	cutC copper transporter homolog	162					copper ion homeostasis|copper ion transport|protein tetramerization	cytoplasm|nucleus	copper ion binding			breast(1)	1		Colorectal(252;0.234)		Epithelial(162;3e-10)|all cancers(201;2.37e-08)		AGACCCTCTTAACCTTGGGAT	0.438000													33	111					0	0	0.064281	0	0
C10orf119	79892	broad.mit.edu	37	10	121598084	121598084	+	Silent	SNP	A	G	G			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr10:121598084A>G	uc001ler.2	-	12	1675	c.1377T>C	c.(1375-1377)GAT>GAC	p.D459D	C10orf119_uc001leq.1_Silent_p.D284D|C10orf119_uc001les.1_Silent_p.D284D	NM_024834	NP_079110	Q9BTE3	MCMBP_HUMAN	chromosome 10 open reading frame 119	459					cell division|DNA-dependent DNA replication|mitosis|S phase of mitotic cell cycle|sister chromatid cohesion	nucleus	chromatin binding				0		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.0044)		GGAGAGTCTCATCGATTACAA	0.483000													24	42					0	0	0.108266	0	0
ENDOD1	23052	broad.mit.edu	37	11	94862157	94862157	+	Missense_Mutation	SNP	C	G	G	rs61734147		TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr11:94862157C>G	uc001pfh.2	+	2	992	c.917C>G	c.(916-918)TCT>TGT	p.S306C		NM_015036	NP_055851	O94919	ENDD1_HUMAN	endonuclease domain containing 1 precursor	306						extracellular region	endonuclease activity|metal ion binding|nucleic acid binding				0		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.00824)				AGTCCCCTTTCTAGCACCAGG	0.448000													43	58					0	0	0.039052	0	0
UBE4A	9354	broad.mit.edu	37	11	118243839	118243839	+	Missense_Mutation	SNP	G	A	A			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr11:118243839G>A	uc001psw.2	+	7	889	c.760G>A	c.(760-762)GAA>AAA	p.E254K	UBE4A_uc001psv.2_Missense_Mutation_p.E261K	NM_004788	NP_004779	Q14139	UBE4A_HUMAN	ubiquitination factor E4A	254					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	5	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		AGAGGTCATTGAAGCCTTGAT	0.368000													35	36					0	0	0.086207	0	0
MCAM	4162	broad.mit.edu	37	11	119183001	119183001	+	Missense_Mutation	SNP	A	C	C			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr11:119183001A>C	uc001pwf.2	-	8	1028	c.999T>G	c.(997-999)AGT>AGG	p.S333R	MCAM_uc001pwg.1_5'Flank	NM_006500	NP_006491	P43121	MUC18_HUMAN	melanoma cell adhesion molecule	333	Extracellular (Potential).				anatomical structure morphogenesis|cell adhesion	integral to membrane|plasma membrane				ovary(2)|breast(1)|central_nervous_system(1)	4		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.78e-05)		CCTGTGGTTCACTCAGCAGCG	0.622000													32	59					0	0	0.059317	0	0
APOLD1	81575	broad.mit.edu	37	12	12940182	12940182	+	Missense_Mutation	SNP	C	T	T			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr12:12940182C>T	uc001rau.3	+	2	520	c.436C>T	c.(436-438)CGG>TGG	p.R146W	DDX47_uc001rav.2_Intron|APOLD1_uc001raw.3_Missense_Mutation_p.R115W	NM_001130415	NP_001123887	Q96LR9	APLD1_HUMAN	apolipoprotein L domain containing 1 isoform 1	146					angiogenesis|cell differentiation|lipid transport|lipoprotein metabolic process	extracellular region|integral to membrane|plasma membrane	lipid binding			ovary(1)	1		Prostate(47;0.0632)		BRCA - Breast invasive adenocarcinoma(232;0.0338)|GBM - Glioblastoma multiforme(207;0.149)		CTGCAACTCCCGGGAGCTGCG	0.682000													22	62					0	0	0.055883	0	0
ANP32D	23519	broad.mit.edu	37	12	48866497	48866497	+	Missense_Mutation	SNP	C	A	A			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr12:48866497C>A	uc010slt.1	+	1	50	c.50C>A	c.(49-51)TCC>TAC	p.S17Y		NM_012404	NP_036536	O95626	AN32D_HUMAN	acidic nuclear phosphoprotein 32D	17										ovary(1)|central_nervous_system(1)	2						AGGACGCCCTCCGATGTGAAA	0.448000													115	103					7.7863e-71	1.00703e-70	0.048971	1	0
KRT4	3851	broad.mit.edu	37	12	53205646	53205646	+	Missense_Mutation	SNP	C	G	G			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr12:53205646C>G	uc001saz.2	-	2	1071	c.800G>C	c.(799-801)AGT>ACT	p.S267T		NM_002272	NP_002263	B4DRS2	B4DRS2_HUMAN	keratin 4	193						keratin filament	structural molecule activity			ovary(4)|skin(2)	6						CCTCAGGACACTGAGGTAGGT	0.537000													41	71					0	0	0.092188	0	0
LRRIQ1	84125	broad.mit.edu	37	12	85449852	85449852	+	Silent	SNP	G	T	T			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr12:85449852G>T	uc001tac.2	+	8	1392	c.1281G>T	c.(1279-1281)GTG>GTT	p.V427V	LRRIQ1_uc001tab.1_Silent_p.V427V|LRRIQ1_uc001taa.1_Silent_p.V402V	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	427										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		AAAATCTAGTGGATGAAAATT	0.294000													26	192					2.85442e-18	3.50479e-18	0.045705	1	0
SYCP3	50511	broad.mit.edu	37	12	102125409	102125409	+	Silent	SNP	T	C	C			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr12:102125409T>C	uc001tiq.2	-	7	621	c.489A>G	c.(487-489)CAA>CAG	p.Q163Q	SYCP3_uc001tir.2_Silent_p.Q163Q|SYCP3_uc001tis.2_Silent_p.Q163Q	NM_153694	NP_710161	Q8IZU3	SYCP3_HUMAN	synaptonemal complex protein 3	163	Potential.|Gln-rich.				cell division|male meiosis I|spermatogenesis, exchange of chromosomal proteins	nucleus	DNA binding				0						CAATTCTAGATTGTTGAAGAA	0.259000													19	14					0	0	0.069288	0	0
GATC	283459	broad.mit.edu	37	12	120884511	120884511	+	Missense_Mutation	SNP	C	T	T			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr12:120884511C>T	uc010szi.1	+	2	133	c.133C>T	c.(133-135)CTT>TTT	p.L45F	TRIAP1_uc001tyg.2_5'Flank	NM_176818	NP_789788	O43716	GATCL_HUMAN	glutamyl-tRNA(Gln) amidotransferase, subunit C	45					regulation of translational fidelity						0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GCGTCTAGCGCTTGTGGACTT	0.682000													29	72					0	0	0.045705	0	0
GPR133	283383	broad.mit.edu	37	12	131590407	131590407	+	Silent	SNP	C	A	A			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr12:131590407C>A	uc001uit.3	+	17	2443	c.1884C>A	c.(1882-1884)GGC>GGA	p.G628G	GPR133_uc010tbm.1_Silent_p.G660G|GPR133_uc009zyo.2_Intron|GPR133_uc001uiv.1_Silent_p.G147G|GPR133_uc009zyp.2_RNA	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	628	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		TCGAGCCGGGCACGGTGAGTG	0.612000													16	13					6.31663e-08	7.47211e-08	0.024245	1	0
MNAT1	4331	broad.mit.edu	37	14	61434959	61434959	+	Silent	SNP	T	C	C			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr14:61434959T>C	uc001xfd.2	+	8	933	c.822T>C	c.(820-822)CAT>CAC	p.H274H	MNAT1_uc001xfe.2_Silent_p.H232H	NM_002431	NP_002422	P51948	MAT1_HUMAN	menage a trois 1 (CAK assembly factor)	274					cell proliferation|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein complex assembly|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|S phase of mitotic cell cycle|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	cytoplasm|holo TFIIH complex	protein N-terminus binding|zinc ion binding			ovary(1)|lung(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.0174)		ATTTAAACCATGTCAGAGCTG	0.388000								Direct_reversal_of_damage|NER					25	49					0	0	0.034045	0	0
Unknown	0	broad.mit.edu	37	16	15023266	15023266	+	Missense_Mutation	SNP	C	G	G			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr16:15023266C>G	uc010uzk.1	+	6	1111	c.835C>G	c.(835-837)CTG>GTG	p.L279V	NPIP_uc002dcx.3_RNA					SubName: Full=cDNA FLJ57488, highly similar to Polycystin-1;																		CGAGGAGCCCCTGACGCTGGC	0.701000													4	70					0	0	0.009096	0	0
TERF2	7014	broad.mit.edu	37	16	69402345	69402345	+	Missense_Mutation	SNP	C	G	G			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr16:69402345C>G	uc002exd.2	-	6	880	c.755G>C	c.(754-756)AGT>ACT	p.S252T		NM_005652	NP_005643	Q15554	TERF2_HUMAN	telomeric repeat binding factor 2	252					age-dependent telomere shortening|cell cycle|cellular senescence|negative regulation of telomere maintenance via semi-conservative replication|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|regulation of transcription, DNA-dependent|telomeric loop formation	Golgi apparatus|nuclear telomere cap complex|nucleoplasm	double-stranded telomeric DNA binding|protein C-terminus binding|protein homodimerization activity			lung(1)	1		Ovarian(137;0.101)				CTTCCCTGTACTTGAGGCAGC	0.478000													50	78					0	0	0.048971	0	0
GINS2	51659	broad.mit.edu	37	16	85715212	85715212	+	Missense_Mutation	SNP	T	C	C			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr16:85715212T>C	uc002fja.2	-	3	365	c.281A>G	c.(280-282)GAA>GGA	p.E94G	GINS2_uc002fjb.2_Missense_Mutation_p.E94G	NM_016095	NP_057179	Q9Y248	PSF2_HUMAN	DNA replication complex GINS protein PSF2	94					DNA strand elongation involved in DNA replication|S phase of mitotic cell cycle	nucleoplasm	protein binding				0						CTTCGTAAGTTCCATGTAGTA	0.294000													51	45					0	0	0.048971	0	0
COX10	1352	broad.mit.edu	37	17	14005508	14005508	+	Silent	SNP	T	A	A			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr17:14005508T>A	uc002gof.3	+	4	777	c.573T>A	c.(571-573)CTT>CTA	p.L191L	COX10_uc010vvs.1_5'UTR|COX10_uc010vvt.1_Intron	NM_001303	NP_001294	Q12887	COX10_HUMAN	heme A:farnesyltransferase precursor	191	Helical; (Potential).				heme a biosynthetic process|heme O biosynthetic process|respiratory chain complex IV assembly	integral to membrane|mitochondrial membrane	protoheme IX farnesyltransferase activity				0		all_lung(20;0.06)|Lung SC(565;0.168)		UCEC - Uterine corpus endometrioid carcinoma (92;0.106)		GTTTCCTGCTTACTTCTGTTG	0.473000													171	90					0	0	0.048971	0	0
POTEC	388468	broad.mit.edu	37	18	14513780	14513780	+	Nonsense_Mutation	SNP	C	A	A			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr18:14513780C>A	uc010dln.2	-	10	1868	c.1414G>T	c.(1414-1416)GAA>TAA	p.E472*	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	472										skin(3)	3						TCATTTTGTTCGTCACTAGAA	0.373000													27	23					9.17885e-22	1.14147e-21	0.059317	1	0
RPSAP58	388524	broad.mit.edu	37	19	24010294	24010294	+	Missense_Mutation	SNP	C	G	G			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr19:24010294C>G	uc002nrn.2	+	4	754	c.331C>G	c.(331-333)CAG>GAG	p.Q111E		NM_002295	NP_002286			ribosomal protein SA												0						CTTCACTAACCAGATCCAGGC	0.567000													3	47					0	0	0.004672	0	0
FAM187B	148109	broad.mit.edu	37	19	35718874	35718874	+	Missense_Mutation	SNP	C	T	T			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr19:35718874C>T	uc002nyk.1	-	1	755	c.710G>A	c.(709-711)GGA>GAA	p.G237E		NM_152481	NP_689694	Q17R55	F187B_HUMAN	family with sequence similarity 187, member B	237	Extracellular (Potential).					integral to membrane				ovary(2)	2						GTACATGGATCCTAAGGGACA	0.507000													12	21					0	0	0.093190	0	0
FCGBP	8857	broad.mit.edu	37	19	40367841	40367841	+	Silent	SNP	T	G	G			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr19:40367841T>G	uc002omp.3	-	29	13127	c.13119A>C	c.(13117-13119)GCA>GCC	p.A4373A		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	4373	TIL 10.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			TCGTAAGGGGTGCAGGGGACG	0.627000													6	21					0	0	0.028581	0	0
ZNF780B	163131	broad.mit.edu	37	19	40540794	40540794	+	Missense_Mutation	SNP	G	C	C			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr19:40540794G>C	uc002omu.2	-	5	2037	c.1972C>G	c.(1972-1974)CAA>GAA	p.Q658E	ZNF780B_uc002omv.2_Missense_Mutation_p.Q510E	NM_001005851	NP_001005851	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	658	C2H2-type 18.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					CTCTGATGTTGAACAAGGTTT	0.388000													91	149					0	0	0.048971	0	0
ATP1A3	478	broad.mit.edu	37	19	42492245	42492245	+	Missense_Mutation	SNP	G	A	A			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr19:42492245G>A	uc002osg.2	-	4	354	c.200C>T	c.(199-201)CCT>CTT	p.P67L	ATP1A3_uc010xwf.1_Missense_Mutation_p.P78L|ATP1A3_uc010xwg.1_Missense_Mutation_p.P37L|ATP1A3_uc010xwh.1_Missense_Mutation_p.P80L|ATP1A3_uc002osh.2_Missense_Mutation_p.P67L	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	67	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						GAGTGCGTTAGGCCCATCCCG	0.637000													14	103					0	0	0.020292	0	0
ZNF836	162962	broad.mit.edu	37	19	52660096	52660096	+	Silent	SNP	G	A	A			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr19:52660096G>A	uc010ydi.1	-	5	1214	c.840C>T	c.(838-840)GGC>GGT	p.G280G	ZNF836_uc010ydj.1_Silent_p.G280G	NM_001102657	NP_001096127	Q6ZNA1	ZN836_HUMAN	zinc finger protein 836	280	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGAAGATCTTGCCACATACAC	0.413000													38	58					0	0	0.111260	0	0
ZNF814	730051	broad.mit.edu	37	19	58386285	58386285	+	Missense_Mutation	SNP	G	A	A			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr19:58386285G>A	uc002qqo.2	-	3	745	c.473C>T	c.(472-474)GCA>GTA	p.A158V	ZNF814_uc002qqk.2_Intron|ZNF814_uc010yhl.1_Intron	NM_001144989	NP_001138461	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	158				A -> V (in Ref. 1; BAH13293).	regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0						ACACCTCTTTGCAAACAACGC	0.488000													6	12					0	0	0.029380	0	0
REG1P	5969	broad.mit.edu	37	2	79364374	79364374	+	RNA	SNP	C	G	G	rs11678299	by1000genomes	TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr2:79364374C>G	uc002soa.1	-	3		c.236G>C			REG1P_uc002sob.1_RNA|REG1P_uc002soc.1_RNA					Homo sapiens mRNA for Reg-related sequence derived peptide-1, complete cds.												0						AGGTCTCATGCTCTTCATTAA	0.572000													3	47					0	0	0.009096	0	0
REG1P	5969	broad.mit.edu	37	2	79364397	79364397	+	RNA	SNP	G	A	A	rs3819317	by1000genomes	TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr2:79364397G>A	uc002soa.1	-	3		c.213C>T			REG1P_uc002sob.1_RNA|REG1P_uc002soc.1_RNA					Homo sapiens mRNA for Reg-related sequence derived peptide-1, complete cds.												0						TAGTAGCAGTGGGAGCCTTAG	0.542000													3	46					0	0	0.004672	0	0
NEB	4703	broad.mit.edu	37	2	152507333	152507333	+	Missense_Mutation	SNP	C	T	T			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr2:152507333C>T	uc010fnx.2	-	53	7173	c.6982G>A	c.(6982-6984)GAC>AAC	p.D2328N		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2328	Nebulin 62.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		AGTTTTGGGTCATCTTGCAGA	0.413000													125	118					0	0	0.048971	0	0
RAPGEF4	11069	broad.mit.edu	37	2	173832042	173832042	+	Missense_Mutation	SNP	G	A	A			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr2:173832042G>A	uc002uhv.3	+	10	1061	c.874G>A	c.(874-876)GAT>AAT	p.D292N	RAPGEF4_uc002uhu.2_Missense_Mutation_p.D292N|RAPGEF4_uc002uhw.3_Missense_Mutation_p.D148N|RAPGEF4_uc010zec.1_Missense_Mutation_p.D139N|RAPGEF4_uc010zed.1_Missense_Mutation_p.D121N|RAPGEF4_uc010zee.1_Missense_Mutation_p.D139N|RAPGEF4_uc010fqo.2_Missense_Mutation_p.D121N|RAPGEF4_uc010zef.1_Missense_Mutation_p.D72N|RAPGEF4_uc010zeg.1_Missense_Mutation_p.D119N|RAPGEF4_uc010fqp.1_Missense_Mutation_p.D72N|RAPGEF4_uc010zeh.1_Missense_Mutation_p.D72N	NM_007023	NP_008954	Q8WZA2	RPGF4_HUMAN	Rap guanine nucleotide exchange factor (GEF) 4	292					blood coagulation|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of insulin secretion|regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex|membrane fraction|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity|Ras GTPase binding|Ras guanyl-nucleotide exchange factor activity			large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.194)			ATTTCTGGATGATGAGCACGA	0.527000													16	14					0	0	0.028581	0	0
TNS1	7145	broad.mit.edu	37	2	218712984	218712984	+	Silent	SNP	G	C	C			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr2:218712984G>C	uc002vgt.2	-	17	2279	c.1881C>G	c.(1879-1881)CCC>CCG	p.P627P	TNS1_uc002vgr.2_Silent_p.P627P|TNS1_uc002vgs.2_Silent_p.P627P|TNS1_uc010zjv.1_Silent_p.P627P|TNS1_uc010fvj.1_Silent_p.P695P|TNS1_uc010fvk.1_Silent_p.P752P|TNS1_uc010fvi.1_Silent_p.P314P	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	627						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		GGGGCAGCTGGGGTTCAGCTT	0.552000													34	37					0	0	0.059317	0	0
MYEOV2	150678	broad.mit.edu	37	2	241073371	241073371	+	Missense_Mutation	SNP	C	G	G			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr2:241073371C>G	uc010zof.1	-	2	161	c.115G>C	c.(115-117)GTT>CTT	p.V39L	MYEOV2_uc002vyu.1_Missense_Mutation_p.V70L	NM_001163424	NP_001156896	Q8WXC6	MYOV2_HUMAN	hypothetical protein LOC150678 isoform 2	39											0		all_epithelial(40;1.56e-11)|Breast(86;0.0002)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.229)|Melanoma(123;0.238)		Epithelial(121;3.81e-30)|all cancers(36;1.1e-27)|OV - Ovarian serous cystadenocarcinoma(60;2.74e-14)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;8.54e-06)|Lung(119;0.00361)|LUSC - Lung squamous cell carcinoma(224;0.0153)|Colorectal(34;0.0202)|COAD - Colon adenocarcinoma(134;0.143)		TCTGCATGAACGGCCTTTTCA	0.483000													51	80					0	0	0.048971	0	0
SCARF2	91179	broad.mit.edu	37	22	20791897	20791897	+	Missense_Mutation	SNP	G	T	T			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr22:20791897G>T	uc002zsj.1	-	1	250	c.145C>A	c.(145-147)CGC>AGC	p.R49S	SCARF2_uc002zsk.1_Missense_Mutation_p.R49S	NM_153334	NP_699165	Q96GP6	SREC2_HUMAN	scavenger receptor class F, member 2 isoform 1	49	Extracellular (Potential).				cell adhesion	integral to membrane	protein binding|receptor activity			breast(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			TTGCGGCCGCGAGGGTTCAGT	0.537000													6	9					8.12818e-05	9.27569e-05	0.029380	1	0
LOC96610	96610	broad.mit.edu	37	22	22661564	22661564	+	RNA	SNP	C	G	G			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr22:22661564C>G	uc011aim.1	+	28		c.1788C>G			LOC96610_uc011aiq.1_RNA|LOC96610_uc011aip.1_RNA|LOC96610_uc010gto.2_RNA					Parts of antibodies, mostly variable regions.												0						TCAGACCATCCCGCTCTGTTA	0.453000													33	36					0	0	0.059317	0	0
LOC96610	96610	broad.mit.edu	37	22	22663086	22663087	+	RNA	DNP	TA	GG	GG	rs1054157	by1000genomes	TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr22:22663086_22663087TA>GG	uc011aim.1	+	29		c.1859_1860TA>GG			LOC96610_uc011aiq.1_RNA|LOC96610_uc011aip.1_RNA|LOC96610_uc010gto.2_RNA					Parts of antibodies, mostly variable regions.												0						AGCTGCCACATAAGTTGTCCTT	0.302000													3	20					0	0	0.004672	0	0
TTLL3	26140	broad.mit.edu	37	3	9877081	9877081	+	Missense_Mutation	SNP	G	A	A			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr3:9877081G>A	uc003btg.2	+	13	2443	c.2227G>A	c.(2227-2229)GTG>ATG	p.V743M	ARPC4_uc003btc.1_Intron|TTLL3_uc003btd.3_3'UTR|TTLL3_uc003btf.3_3'UTR|TTLL3_uc003bth.3_3'UTR|TTLL3_uc011atj.1_3'UTR|TTLL3_uc003btj.3_3'UTR|TTLL3_uc003bti.3_3'UTR	NM_001025930	NP_001021100	Q9Y4R7	TTLL3_HUMAN	tubulin tyrosine ligase-like family, member 3	743					axoneme assembly|cilium assembly|protein polyglycylation	cilium axoneme|cytoplasm|microtubule	protein-glycine ligase activity, initiating|tubulin-tyrosine ligase activity			large_intestine(2)	2	Medulloblastoma(99;0.227)					AAAGAAACAAGTGAAGTATTT	0.567000													93	169					0	0	0.048971	0	0
NISCH	11188	broad.mit.edu	37	3	52526307	52526307	+	Missense_Mutation	SNP	C	A	A			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr3:52526307C>A	uc011beg.1	+	22	4396	c.4324C>A	c.(4324-4326)CTC>ATC	p.L1442I	NISCH_uc003ded.3_Missense_Mutation_p.L1442I|NISCH_uc003dee.3_Missense_Mutation_p.L931I|NISCH_uc003deg.1_Intron|NISCH_uc003deh.3_Missense_Mutation_p.L191I	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	1442					apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)		AGGTCATGACCTCATGGGCAG	0.657000													112	254					3.42828e-54	4.31874e-54	0.048971	1	0
KIAA2018	205717	broad.mit.edu	37	3	113376680	113376680	+	Silent	SNP	G	T	T			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr3:113376680G>T	uc003eam.2	-	7	4260	c.3849C>A	c.(3847-3849)GGC>GGA	p.G1283G	KIAA2018_uc003eal.2_Silent_p.G1227G	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	1283					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						GAGGTTGACTGCCATAGGAGC	0.468000													118	69					1.81142e-54	2.31195e-54	0.048971	1	0
KIAA1109	84162	broad.mit.edu	37	4	123254840	123254840	+	Missense_Mutation	SNP	A	G	G			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr4:123254840A>G	uc003ieh.2	+	66	11567	c.11522A>G	c.(11521-11523)AAG>AGG	p.K3841R	KIAA1109_uc003iem.2_Missense_Mutation_p.K232R	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	3841	Poly-Lys.				regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AAAAAGAAGAAGTTTCAAACT	0.348000													21	20					0	0	0.062417	0	0
NUDT6	11162	broad.mit.edu	37	4	123843660	123843660	+	Missense_Mutation	SNP	G	A	A			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr4:123843660G>A	uc003iew.2	-	1	100	c.68C>T	c.(67-69)TCG>TTG	p.S23L	SPATA5_uc003iey.2_5'Flank|SPATA5_uc003iez.3_5'Flank|NUDT6_uc003iex.2_Intron	NM_007083	NP_009014	P53370	NUDT6_HUMAN	nudix-type motif 6 isoform a	23						mitochondrion|nucleus	growth factor activity|hydrolase activity				0						GTAACCCGCCGAAGGCCCGGG	0.677000													5	29					0	0	0.014758	0	0
CBR4	84869	broad.mit.edu	37	4	169931208	169931208	+	Silent	SNP	G	T	T			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr4:169931208G>T	uc003iry.2	-	1	215	c.33C>A	c.(31-33)TCC>TCA	p.S11S	CBR4_uc011cjy.1_RNA|CBR4_uc003irz.1_Silent_p.S11S	NM_032783	NP_116172	Q8N4T8	CBR4_HUMAN	carbonic reductase 4	11	NAD or NADP (By similarity).				fatty acid biosynthetic process|protein homotetramerization	mitochondrial matrix	NADPH binding|NADPH dehydrogenase (quinone) activity|protein binding|quinone binding				0		Prostate(90;0.00263)|Renal(120;0.0183)|Melanoma(52;0.123)		GBM - Glioblastoma multiforme(119;0.0321)		CAATGCCTCGGGAGCCTCCAA	0.602000											OREG0016397	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	17					4.35082e-09	5.21024e-09	0.055883	1	0
FAT1	2195	broad.mit.edu	37	4	187540602	187540602	+	Missense_Mutation	SNP	C	T	T			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr4:187540602C>T	uc003izf.2	-	10	7326	c.7138G>A	c.(7138-7140)GTT>ATT	p.V2380I		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2380	Extracellular (Potential).|Cadherin 21.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						AGGTCGGTAACGTCCACCGTG	0.502000										HNSCC(5;0.00058)			34	30					0	0	0.045705	0	0
RGNEF	64283	broad.mit.edu	37	5	73136427	73136427	+	Silent	SNP	T	C	C			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr5:73136427T>C	uc011csq.1	+	10	1280	c.1269T>C	c.(1267-1269)AGT>AGC	p.S423S	RGNEF_uc003kcx.2_Silent_p.S423S|RGNEF_uc003kcy.1_Silent_p.S423S|RGNEF_uc010izf.2_Silent_p.S423S|RGNEF_uc011csr.1_Silent_p.S110S	NM_001080479	NP_001073948	Q8N1W1	RGNEF_HUMAN	Rho-guanine nucleotide exchange factor	423					cell differentiation|intracellular signal transduction|regulation of Rho protein signal transduction	cytoplasm|plasma membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|RNA binding				0		Lung NSC(167;0.0378)|all_lung(232;0.04)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.25e-51)		CAGAAACCAGTCCCAGTGTGT	0.493000													24	27					0	0	0.091800	0	0
DNAH8	1769	broad.mit.edu	37	6	38704982	38704982	+	Missense_Mutation	SNP	A	T	T			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr6:38704982A>T	uc003ooe.1	+	4	851	c.251A>T	c.(250-252)GAA>GTA	p.E84V		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GGAGAATCTGAAAAACATATT	0.313000													40	44					0	0	0.045515	0	0
DFNA5	1687	broad.mit.edu	37	7	24745817	24745817	+	Missense_Mutation	SNP	A	T	T			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr7:24745817A>T	uc010kus.1	-	8	1257	c.1169T>A	c.(1168-1170)GTC>GAC	p.V390D	DFNA5_uc003swz.2_Missense_Mutation_p.V226D|DFNA5_uc003sxa.1_Missense_Mutation_p.V390D|DFNA5_uc010kut.1_Missense_Mutation_p.V226D	NM_001127453	NP_001120925	O60443	DFNA5_HUMAN	deafness, autosomal dominant 5 protein isoform	390					sensory perception of sound					ovary(1)	1						GAGGGCACTGACCAAGAAGTA	0.537000													80	61					0	0	0.048971	0	0
SGK223	157285	broad.mit.edu	37	8	8235103	8235103	+	Silent	SNP	A	T	T			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr8:8235103A>T	uc003wsh.3	-	2	816	c.816T>A	c.(814-816)ACT>ACA	p.T272T		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	272							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						GGGAACCTGCAGTCTGGGAGG	0.677000													19	11					0	0	0.055883	0	0
NIPAL2	79815	broad.mit.edu	37	8	99215364	99215364	+	Silent	SNP	A	T	T			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr8:99215364A>T	uc003yil.1	-	8	1108	c.852T>A	c.(850-852)ATT>ATA	p.I284I	NIPAL2_uc011lgw.1_Silent_p.I80I|NIPAL2_uc003yim.1_Silent_p.I284I	NM_024759	NP_079035	Q9H841	NPAL2_HUMAN	NIPA-like domain containing 2	284	Helical; (Potential).					integral to membrane					0						TTGTAAAGAAAATATGATTAA	0.408000													45	51					0	0	0.048971	0	0
C9orf91	203197	broad.mit.edu	37	9	117400851	117400851	+	Silent	SNP	T	C	C			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr9:117400851T>C	uc004bjd.3	+	8	911	c.694T>C	c.(694-696)TTG>CTG	p.L232L	C9orf91_uc004bje.3_Silent_p.L211L|C9orf91_uc004bjf.3_Silent_p.L131L	NM_153045	NP_694590	Q5VZI3	CI091_HUMAN	hypothetical protein LOC203197	232						integral to membrane				pancreas(1)	1						ATTGAGCCAGTTGTGTGTTGT	0.562000													64	80					0	0	0.048971	0	0
MAMLD1	10046	broad.mit.edu	37	X	149638972	149638972	+	Missense_Mutation	SNP	C	T	T			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chrX:149638972C>T	uc004fee.1	+	3	1203	c.1127C>T	c.(1126-1128)TCG>TTG	p.S376L	MAMLD1_uc011mxt.1_Missense_Mutation_p.S338L|MAMLD1_uc011mxu.1_Missense_Mutation_p.S351L|MAMLD1_uc011mxv.1_Missense_Mutation_p.S351L|MAMLD1_uc011mxw.1_Missense_Mutation_p.S303L	NM_005491	NP_005482	Q13495	MAMD1_HUMAN	mastermind-like domain containing 1	376					male gonad development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(192;6.56e-05)					AATACCTTGTCGGGTAGCACT	0.453000													9	116					0	0	0.080935	0	0
C1orf54	79630	broad.mit.edu	37	1	150248209	150248212	+	Splice_Site	DEL	GTGA	-	-			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr1:150248209_150248212delGTGA	uc001eud.2	+	3	227	c.189_splice	c.e3+1	p.L63_splice	C1orf54_uc001euc.2_Splice_Site_p.L63_splice|C1orf54_uc001eue.2_Splice_Site_p.L63_splice|C1orf54_uc001euf.2_Splice_Site_p.L63_splice|C1orf54_uc001eug.2_Splice_Site_p.L63_splice	NM_024579	NP_078855	Q8WWF1	CA054_HUMAN	hypothetical protein LOC79630 precursor							extracellular region					0	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			GGACAGGCTGGTGAGTGAACTCTA	0.255													17	59	---	---	---	---					
LIPA	3988	broad.mit.edu	37	10	90974746	90974746	+	Frame_Shift_Del	DEL	G	-	-			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr10:90974746delG	uc001kga.3	-	10	1207	c.1039delC	c.(1039-1041)CTTfs	p.L347fs	LIPA_uc001kgb.3_Frame_Shift_Del_p.L291fs|LIPA_uc001kgc.3_Frame_Shift_Del_p.L349fs|LIPA_uc010qnf.1_Frame_Shift_Del_p.L152fs|LIPA_uc009xtq.2_Frame_Shift_Del_p.L347fs	NM_000235	NP_000226	P38571	LICH_HUMAN	lipase A precursor	347					lipid catabolic process	lysosome	lipase activity|sterol esterase activity				0		Colorectal(252;0.0162)		GBM - Glioblastoma multiforme(2;0.00406)		ACATCTGCAAGCCAGTCGTGA	0.493													63	95	---	---	---	---					
ITGAL	3683	broad.mit.edu	37	16	30531249	30531251	+	In_Frame_Del	DEL	GCT	-	-			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr16:30531249_30531251delGCT	uc002dyi.3	+	30	3476_3478	c.3300_3302delGCT	c.(3298-3303)GGGCTG>GGG	p.L1106del	ITGAL_uc002dyj.3_In_Frame_Del_p.L1022del|ITGAL_uc010vev.1_In_Frame_Del_p.L340del	NM_002209	NP_002200	P20701	ITAL_HUMAN	integrin alpha L isoform a precursor	1106	Helical; (Potential).				blood coagulation|heterophilic cell-cell adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell	integrin complex	cell adhesion molecule binding|receptor activity			ovary(3)|lung(3)|central_nervous_system(3)|breast(1)	10					Efalizumab(DB00095)	GCATCGGGGGGCTGCTGCTGCTG	0.601													8	478	---	---	---	---					
LTBP1	4052	broad.mit.edu	37	2	33412000	33412000	+	Frame_Shift_Del	DEL	G	-	-			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr2:33412000delG	uc002ros.2	+	6	1279	c.1279delG	c.(1279-1281)GGAfs	p.G427fs	LTBP1_uc002rot.2_Frame_Shift_Del_p.G101fs|LTBP1_uc002rou.2_Frame_Shift_Del_p.G101fs|LTBP1_uc002rov.2_Frame_Shift_Del_p.G101fs|LTBP1_uc010ymz.1_Frame_Shift_Del_p.G101fs|LTBP1_uc010yna.1_Frame_Shift_Del_p.G101fs	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	427	EGF-like 2.				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				AAATTTCACAGGAAAACTTTG	0.473													20	37	---	---	---	---					
HNF4A	3172	broad.mit.edu	37	20	43052773	43052775	+	In_Frame_Del	DEL	GCT	-	-			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr20:43052773_43052775delGCT	uc002xma.2	+	8	1097_1099	c.1008_1010delGCT	c.(1006-1011)GAGCTG>GAG	p.L341del	HNF4A_uc002xlt.2_In_Frame_Del_p.L319del|HNF4A_uc002xlu.2_In_Frame_Del_p.L319del|HNF4A_uc002xlv.2_In_Frame_Del_p.L319del|HNF4A_uc002xly.2_In_Frame_Del_p.L341del|HNF4A_uc002xlz.2_In_Frame_Del_p.L341del|HNF4A_uc010ggq.2_In_Frame_Del_p.L334del	NM_000457	NP_000448	P41235	HNF4A_HUMAN	hepatocyte nuclear factor 4 alpha isoform b	341					blood coagulation|endocrine pancreas development|glucose homeostasis|negative regulation of cell growth|negative regulation of cell proliferation|ornithine metabolic process|phospholipid homeostasis|positive regulation of cholesterol homeostasis|regulation of growth hormone receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to glucose stimulus|triglyceride homeostasis|xenobiotic metabolic process	cytoplasm	activating transcription factor binding|protein homodimerization activity|receptor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			GCTTTGGAGAGCTGCTGCTGCTG	0.576													7	67	---	---	---	---					
MED15	51586	broad.mit.edu	37	22	20918916	20918918	+	In_Frame_Del	DEL	CAG	-	-			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr22:20918916_20918918delCAG	uc002zsp.2	+	6	711_713	c.631_633delCAG	c.(631-633)CAGdel	p.Q218del	MED15_uc002zsn.1_In_Frame_Del_p.Q137del|MED15_uc002zso.2_In_Frame_Del_p.Q147del|MED15_uc002zsq.2_In_Frame_Del_p.Q218del|MED15_uc010gso.2_In_Frame_Del_p.Q218del|MED15_uc002zsr.2_In_Frame_Del_p.Q192del|MED15_uc011ahs.1_In_Frame_Del_p.Q192del|MED15_uc011aht.1_In_Frame_Del_p.Q192del|MED15_uc002zss.2_In_Frame_Del_p.Q137del|MED15_uc011ahu.1_5'Flank	NM_001003891	NP_001003891	Q96RN5	MED15_HUMAN	mediator complex subunit 15 isoform a	218	Poly-Gln.			Missing (in Ref. 4; CAG30423).	regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|mediator complex	protein binding			skin(1)	1	all_cancers(11;2.07e-24)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)|Epithelial(17;0.209)			gcagcagctccagcagcagcagc	0.187											OREG0026319	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	28	---	---	---	---					
BCLAF1	9774	broad.mit.edu	37	6	136582550	136582550	+	Frame_Shift_Del	DEL	T	-	-	rs146041690		TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr6:136582550delT	uc003qgx.1	-	12	2863	c.2610delA	c.(2608-2610)CAAfs	p.Q870fs	BCLAF1_uc011edb.1_Frame_Shift_Del_p.Q149fs|BCLAF1_uc003qgw.1_Frame_Shift_Del_p.Q697fs|BCLAF1_uc003qgy.1_Frame_Shift_Del_p.Q819fs|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Frame_Shift_Del_p.Q868fs	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	870					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		CTCTGCCACGTTGAAAAGTAC	0.418													103	510	---	---	---	---					
REPIN1	29803	broad.mit.edu	37	7	150068863	150068864	+	Frame_Shift_Ins	INS	-	A	A			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr7:150068863_150068864insA	uc010lpq.1	+	4	1022_1023	c.533_534insA	c.(532-534)ATAfs	p.I178fs	REPIN1_uc003whd.2_Frame_Shift_Ins_p.I167fs|REPIN1_uc010lpr.1_Frame_Shift_Ins_p.I235fs|REPIN1_uc003whc.2_Frame_Shift_Ins_p.I178fs|REPIN1_uc003whe.2_Frame_Shift_Ins_p.I178fs	NM_013400	NP_037532	Q9BWE0	REPI1_HUMAN	replication initiator 1 isoform 1	178	C2H2-type 5.				DNA replication	nuclear origin of replication recognition complex	DNA binding|zinc ion binding			pancreas(1)	1	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.011)			CGGCCCTTCATATGCGGCAACT	0.658													10	30	---	---	---	---					
CSPP1	79848	broad.mit.edu	37	8	68070755	68070755	+	Frame_Shift_Del	DEL	G	-	-			TCGA-B9-7268-01A-11D-2136-08	TCGA-B9-7268-10A-01D-2136-08									Somatic	Phase_I	Capture				Illumina GAIIx	23d1496c-de52-4d78-ba63-f8f751d546d5	d08b6d62-3120-49a5-9cd5-c671278e2eb8	g.chr8:68070755delG	uc003xxi.2	+	20	2436	c.2405delG	c.(2404-2406)CGGfs	p.R802fs	CSPP1_uc003xxg.1_Frame_Shift_Del_p.R794fs|CSPP1_uc003xxh.1_RNA|CSPP1_uc003xxj.2_Frame_Shift_Del_p.R767fs|CSPP1_uc003xxk.2_Frame_Shift_Del_p.R422fs	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	802	Glu-rich.					centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			GAAGAAAGACGGCTTGCAGAA	0.279													13	34	---	---	---	---					
