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	isArtifactMode	oxoGCut
PLEKHN1	84069	broad.mit.edu	37	1	909316	909316	+	Missense_Mutation	SNP	G	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr1:909316G>T	uc001ace.2	+	13	1729	c.1694G>T	c.(1693-1695)GGC>GTC	p.G565V	PLEKHN1_uc001acd.2_Missense_Mutation_p.G513V|PLEKHN1_uc001acf.2_Missense_Mutation_p.G478V	NM_032129	NP_115505	Q494U1	PKHN1_HUMAN	pleckstrin homology domain containing, family N	565											0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;4.31e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.93e-23)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.00095)|Kidney(185;0.0023)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.199)		TGCTCCTCCGGCCCCGCTGGC	0.692000													6	28					3.59834e-05	4.32883e-05	1	0
CCNL2	81669	broad.mit.edu	37	1	1325617	1325617	+	Silent	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr1:1325617G>A	uc001afi.2	-	8	1031	c.999C>T	c.(997-999)CCC>CCT	p.P333P	CCNL2_uc010nym.1_RNA|CCNL2_uc001aff.1_Silent_p.P111P|CCNL2_uc001afg.1_Silent_p.P111P|CCNL2_uc001afh.2_3'UTR|CCNL2_uc001afj.2_3'UTR|CCNL2_uc001afk.2_3'UTR	NM_030937	NP_112199	Q96S94	CCNL2_HUMAN	cyclin L2 isoform A	333					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nuclear speck	protein kinase binding			ovary(2)|central_nervous_system(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.03e-36)|OV - Ovarian serous cystadenocarcinoma(86;4.17e-22)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.0023)|BRCA - Breast invasive adenocarcinoma(365;0.00465)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.146)		CACCCAGCTTGGGGGCAGGAG	0.597000													24	140					0	0	0	0
CLCNKA	1187	broad.mit.edu	37	1	16359665	16359665	+	Missense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr1:16359665G>A	uc001axu.2	+	19	2010	c.1930G>A	c.(1930-1932)GCA>ACA	p.A644T	CLCNKA_uc001axt.2_RNA|CLCNKA_uc001axv.2_Missense_Mutation_p.A643T|CLCNKA_uc010obw.1_Missense_Mutation_p.A601T|CLCNKB_uc001axw.3_Intron	NM_004070	NP_004061	P51800	CLCKA_HUMAN	chloride channel Ka isoform 1	644	CBS 2.				excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)	Niflumic Acid(DB04552)	CCCCATCCAGGCACAAAACCT	0.627000											OREG0013132	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	205					0	0	0	0
GPSM2	29899	broad.mit.edu	37	1	109446790	109446790	+	Nonsense_Mutation	SNP	C	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr1:109446790C>G	uc010ovc.1	+	10	1602	c.1106C>G	c.(1105-1107)TCA>TGA	p.S369*	AKNAD1_uc010ovb.1_Intron|GPSM2_uc010ovd.1_Nonsense_Mutation_p.S369*|GPSM2_uc010ove.1_Nonsense_Mutation_p.S369*	NM_013296	NP_037428	P81274	GPSM2_HUMAN	LGN protein	369					G-protein coupled receptor protein signaling pathway	cell cortex|nucleus	GTPase activator activity|identical protein binding			central_nervous_system(1)	1		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0353)|Lung(183;0.0984)|COAD - Colon adenocarcinoma(174;0.129)|Epithelial(280;0.175)|all cancers(265;0.209)		CTTAATCTCTCAGACCTTCAA	0.348000													7	40					0	0	0	0
PDE4DIP	9659	broad.mit.edu	37	1	144882464	144882464	+	Silent	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr1:144882464G>A	uc001elw.3	-	24	3846	c.3555C>T	c.(3553-3555)TTC>TTT	p.F1185F	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Intron|PDE4DIP_uc001elv.3_Silent_p.F192F	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1185					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CATCCACTGTGAAGGTAGCCC	0.502000			T	PDGFRB	MPD								7	107					0	0	0	0
ATP1A2	477	broad.mit.edu	37	1	160109515	160109515	+	Missense_Mutation	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr1:160109515C>T	uc001fvc.2	+	21	3058	c.2926C>T	c.(2926-2928)CGC>TGC	p.R976C	ATP1A2_uc001fvd.2_Missense_Mutation_p.R695C	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	976	Extracellular (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			TGTAGCCCTCCGCATGTACCC	0.557000													18	47					0	0	0	0
SOX13	9580	broad.mit.edu	37	1	204082212	204082212	+	Missense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr1:204082212G>A	uc001ham.2	+	2	764	c.169G>A	c.(169-171)GAT>AAT	p.D57N	SOX13_uc001hal.2_Missense_Mutation_p.D57N|SOX13_uc010pqp.1_Missense_Mutation_p.D57N|SOX13_uc010pqq.1_5'Flank	NM_005686	NP_005677	Q9UN79	SOX13_HUMAN	SRY-box 13	57					anatomical structure morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)	2	all_cancers(21;0.0754)|Breast(84;0.116)|all_epithelial(62;0.189)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.109)			GGCCTCCCAGGATAGTGCTGA	0.652000													5	18					0	0	0	0
RBM34	23029	broad.mit.edu	37	1	235324324	235324324	+	Missense_Mutation	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr1:235324324C>T	uc001hwn.2	-	2	142	c.112G>A	c.(112-114)GTC>ATC	p.V38I	RBM34_uc001hwo.2_RNA|ARID4B_uc001hwp.2_RNA|RBM34_uc010pxp.1_Missense_Mutation_p.V38I	NM_015014	NP_055829	P42696	RBM34_HUMAN	RNA binding motif protein 34 isoform 1	38						nucleolus	nucleotide binding|RNA binding			central_nervous_system(1)	1	Ovarian(103;0.0398)	all_cancers(173;0.177)|Prostate(94;0.0166)	OV - Ovarian serous cystadenocarcinoma(106;5.43e-05)|Epithelial(3;0.000121)			CTACTGGCGACCTGTCCAAGC	0.597000													4	64					0	0	0	0
CEP170	9859	broad.mit.edu	37	1	243362360	243362360	+	Splice_Site	SNP	A	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr1:243362360A>G	uc001hzs.2	-	7	1039	c.631_splice	c.e7+1	p.G211_splice	CEP170_uc001hzt.2_Splice_Site_p.G211_splice|CEP170_uc001hzu.2_Splice_Site_p.G211_splice	NM_014812	NP_055627	Q5SW79	CE170_HUMAN	centrosomal protein 170kDa isoform alpha							centriole|microtubule|spindle				ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2	all_neural(11;0.101)	all_cancers(173;0.003)	all cancers(7;5.81e-06)|GBM - Glioblastoma multiforme(7;0.000443)|OV - Ovarian serous cystadenocarcinoma(106;0.0101)			AGATTTTTTTACCTGATGTTC	0.403000													5	36					0	0	0	0
OR2T12	127064	broad.mit.edu	37	1	248458187	248458187	+	Missense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr1:248458187G>A	uc010pzj.1	-	1	694	c.694C>T	c.(694-696)CGC>TGC	p.R232C		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	232	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			GCCTTCTTGCGGGCTTCTGTA	0.522000													24	86					0	0	0	0
IL2RA	3559	broad.mit.edu	37	10	6066285	6066285	+	Missense_Mutation	SNP	G	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr10:6066285G>C	uc001iiz.1	-	3	448	c.289C>G	c.(289-291)CAA>GAA	p.Q97E	IL2RA_uc009xih.1_Missense_Mutation_p.Q97E|IL2RA_uc001ija.1_Missense_Mutation_p.Q59E	NM_000417	NP_000408	P01589	IL2RA_HUMAN	interleukin 2 receptor, alpha chain precursor	97	Extracellular (Potential).				cell proliferation	integral to membrane	interleukin-2 receptor activity			ovary(1)|skin(1)	2					Aldesleukin(DB00041)|Basiliximab(DB00074)|Daclizumab(DB00111)|Denileukin diftitox(DB00004)	TCTTCAGGTTGAGGTGTCACT	0.423000													6	46					0	0	0	0
ITGA8	8516	broad.mit.edu	37	10	15628625	15628625	+	Missense_Mutation	SNP	A	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr10:15628625A>G	uc001ioc.1	-	23	2330	c.2330T>C	c.(2329-2331)CTG>CCG	p.L777P	ITGA8_uc010qcb.1_Missense_Mutation_p.L762P	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	777	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						GTTGATTTGCAGGCTCACAAA	0.358000													8	34					0	0	0	0
LDB3	11155	broad.mit.edu	37	10	88452313	88452313	+	Missense_Mutation	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr10:88452313C>T	uc001kdv.2	+	6	904	c.881C>T	c.(880-882)GCT>GTT	p.A294V	LDB3_uc010qml.1_Missense_Mutation_p.A294V|LDB3_uc010qmm.1_Missense_Mutation_p.A362V|LDB3_uc001kdu.2_Missense_Mutation_p.A247V|LDB3_uc009xsz.2_Intron|LDB3_uc001kdr.2_Missense_Mutation_p.A247V|LDB3_uc009xsy.2_Missense_Mutation_p.A362V|LDB3_uc001kds.2_Missense_Mutation_p.A294V|LDB3_uc001kdt.2_RNA	NM_007078	NP_009009	O75112	LDB3_HUMAN	LIM domain binding 3 isoform 1	294						cytoskeleton|perinuclear region of cytoplasm|pseudopodium	zinc ion binding			ovary(1)	1						GATGAAGAAGCTCTGCGAAGG	0.602000													15	86					0	0	0	0
NOLC1	9221	broad.mit.edu	37	10	103921945	103921945	+	Silent	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr10:103921945G>A	uc001kuo.2	+	13	2254	c.2019G>A	c.(2017-2019)GAG>GAA	p.E673E	NOLC1_uc001kup.2_Silent_p.E683E|NOLC1_uc001kuq.2_Silent_p.E674E|NOLC1_uc009xxb.1_Silent_p.E392E|NOLC1_uc001kur.2_Silent_p.E392E	NM_004741	NP_004732	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	673					mitosis|rRNA processing	cytoplasm|nucleolus	ATP binding|GTP binding|protein binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		TTCGGCATGAGAAAACCAAGA	0.527000													55	288					0	0	0	0
MUC5B	727897	broad.mit.edu	37	11	1271810	1271810	+	Missense_Mutation	SNP	C	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr11:1271810C>A	uc009ycr.1	+	51	15245	c.15119C>A	c.(15118-15120)GCC>GAC	p.A5040D	MUC5B_uc001ltb.2_Missense_Mutation_p.A4570D	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4567	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.			A -> T (in Ref. 4; CAA96577).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GTGCTTACCGCCACGGCCACC	0.647000													83	240					4.18771e-30	5.49208e-30	1	0
NLRP14	338323	broad.mit.edu	37	11	7059962	7059962	+	Missense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr11:7059962G>A	uc001mfb.1	+	2	468	c.145G>A	c.(145-147)GAA>AAA	p.E49K		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	49	DAPIN.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		ACCCTGGAATGAAGTGAAGAA	0.438000													10	85					0	0	0	0
E2F8	79733	broad.mit.edu	37	11	19259523	19259523	+	Missense_Mutation	SNP	T	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr11:19259523T>C	uc001mpm.2	-	3	694	c.172A>G	c.(172-174)ACA>GCA	p.T58A	E2F8_uc009yhv.2_RNA|E2F8_uc001mpn.3_Missense_Mutation_p.T58A|E2F8_uc001mpo.1_Missense_Mutation_p.T58A	NM_024680	NP_078956	A0AVK6	E2F8_HUMAN	E2F family member 8	58					cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						GCTGTCGGTGTCCACGGCTCT	0.517000													3	172					0	0	0	0
LRP4	4038	broad.mit.edu	37	11	46917452	46917452	+	Missense_Mutation	SNP	T	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr11:46917452T>A	uc001ndn.3	-	10	1312	c.1166A>T	c.(1165-1167)GAT>GTT	p.D389V		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	389	Extracellular (Potential).|EGF-like 1; calcium-binding (Potential).				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		CGTGTGCCCATCCTCTGTGAG	0.557000													22	82					0	0	0	0
SLCO2B1	11309	broad.mit.edu	37	11	74880401	74880401	+	Missense_Mutation	SNP	T	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr11:74880401T>G	uc001owb.2	+	5	1019	c.632T>G	c.(631-633)ATC>AGC	p.I211S	SLCO2B1_uc010rrq.1_Intron|SLCO2B1_uc010rrr.1_Missense_Mutation_p.I67S|SLCO2B1_uc010rrs.1_Missense_Mutation_p.I95S|SLCO2B1_uc001owc.2_Intron|SLCO2B1_uc001owd.2_Missense_Mutation_p.I189S	NM_007256	NP_009187	O94956	SO2B1_HUMAN	solute carrier organic anion transporter family,	211	Helical; Name=4; (Potential).				sodium-independent organic anion transport	integral to membrane	sodium-independent organic anion transmembrane transporter activity			ovary(1)|breast(1)	2					Ergoloid mesylate(DB01049)	CCCTTTGGCATCTCCTACATC	0.597000													9	92					0	0	0	0
GRIN2B	2904	broad.mit.edu	37	12	13717534	13717534	+	Missense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr12:13717534G>A	uc001rbt.2	-	13	2817	c.2638C>T	c.(2638-2640)CGC>TGC	p.R880C		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	880	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	ACAGACTGGCGCTCCTCGATC	0.537000													24	125					0	0	0	0
PTPRO	5800	broad.mit.edu	37	12	15722430	15722430	+	Missense_Mutation	SNP	G	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr12:15722430G>C	uc001rcv.1	+	19	3001	c.2827G>C	c.(2827-2829)GAG>CAG	p.E943Q	PTPRO_uc001rcw.1_Missense_Mutation_p.E915Q|PTPRO_uc001rcx.1_Missense_Mutation_p.E132Q|PTPRO_uc001rcy.1_Missense_Mutation_p.E132Q|PTPRO_uc001rcz.1_Missense_Mutation_p.E104Q|PTPRO_uc001rda.1_Missense_Mutation_p.E104Q	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	943	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	9		Hepatocellular(102;0.244)				TCTTCAGTTTGAGGTGAGTTG	0.448000													4	49					0	0	0	0
MLL2	8085	broad.mit.edu	37	12	49420564	49420564	+	Missense_Mutation	SNP	C	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr12:49420564C>A	uc001rta.3	-	48	15185	c.15185G>T	c.(15184-15186)TGT>TTT	p.C5062F		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	5062					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CCAAAGGGCACAGTTGAGGTG	0.617000			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			19	91					2.4624e-09	3.10223e-09	1	0
TPH2	121278	broad.mit.edu	37	12	72425343	72425343	+	Silent	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr12:72425343C>T	uc009zrw.1	+	11	1482	c.1341C>T	c.(1339-1341)TTC>TTT	p.F447F	TPH2_uc001swy.2_Silent_p.F357F	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	447					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	CAGTATACTTCAATCCCTACA	0.423000													8	55					0	0	0	0
RFX4	5992	broad.mit.edu	37	12	107126831	107126831	+	Missense_Mutation	SNP	C	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr12:107126831C>A	uc001tlr.2	+	15	1667	c.1601C>A	c.(1600-1602)CCT>CAT	p.P534H	RFX4_uc001tls.2_Missense_Mutation_p.P543H|RFX4_uc001tlt.2_Missense_Mutation_p.P543H|RFX4_uc001tlv.2_Missense_Mutation_p.P440H	NM_213594	NP_998759	Q33E94	RFX4_HUMAN	regulatory factor X4 isoform c	534					transcription, DNA-dependent	nucleus	DNA binding			upper_aerodigestive_tract(1)	1						GTTAGCAATCCTTCCCCTGAG	0.478000													5	188					0.00116845	0.00138482	1	0
SSH1	54434	broad.mit.edu	37	12	109201543	109201543	+	Silent	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr12:109201543G>A	uc001tnm.2	-	8	684	c.597C>T	c.(595-597)CCC>CCT	p.P199P	SSH1_uc001tnl.2_5'Flank|SSH1_uc010sxg.1_Silent_p.P210P|SSH1_uc001tnn.3_Silent_p.P199P|SSH1_uc001tno.1_Silent_p.P103P	NM_018984	NP_061857	Q8WYL5	SSH1_HUMAN	slingshot 1 isoform 1	199					actin cytoskeleton organization|cell morphogenesis|cellular response to ATP|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of cellular protein metabolic process|regulation of lamellipodium assembly	cleavage furrow|cytoplasm|cytoskeleton|lamellipodium|midbody|plasma membrane	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(4)	4						CTACACCCCCGGGGAAGTAGT	0.612000													25	68					0	0	0	0
TPTE2	93492	broad.mit.edu	37	13	20041462	20041462	+	Silent	SNP	A	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr13:20041462A>G	uc001umd.2	-	8	626	c.415T>C	c.(415-417)TTA>CTA	p.L139L	TPTE2_uc009zzk.2_Intron|TPTE2_uc009zzl.2_Intron|TPTE2_uc001ume.2_Intron|TPTE2_uc009zzm.2_Intron|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	139						endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		ATGTTAAATAAGTCAGAAAAA	0.303000													8	28					0	0	0	0
DZIP1	22873	broad.mit.edu	37	13	96237020	96237020	+	Missense_Mutation	SNP	C	T	T	rs147653120		TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr13:96237020C>T	uc001vmk.2	-	22	3346	c.2494G>A	c.(2494-2496)GCA>ACA	p.A832T	DZIP1_uc001vmi.2_Missense_Mutation_p.A80T|DZIP1_uc001vmj.2_Missense_Mutation_p.A308T|DZIP1_uc001vml.2_Missense_Mutation_p.A813T|DZIP1_uc001vmm.2_5'Flank	NM_198968	NP_945319	Q86YF9	DZIP1_HUMAN	DAZ interacting protein 1 isoform 2	832					germ cell development|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)	2	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.141)			GGATTAAATGCGCCCCAGGCA	0.408000													38	90					0	0	0	0
TMTC4	84899	broad.mit.edu	37	13	101289875	101289875	+	Missense_Mutation	SNP	G	A	A	rs141063052		TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr13:101289875G>A	uc001vou.2	-	8	1019	c.859C>T	c.(859-861)CGC>TGC	p.R287C	TMTC4_uc001vot.2_Missense_Mutation_p.R306C|TMTC4_uc010tja.1_Missense_Mutation_p.R176C|TMTC4_uc001vov.1_Missense_Mutation_p.R32C|TMTC4_uc001vow.1_Missense_Mutation_p.R70C	NM_001079669	NP_001073137	Q5T4D3	TMTC4_HUMAN	transmembrane and tetratricopeptide repeat	287	Helical; (Potential).					integral to membrane	binding			ovary(2)|breast(1)	3	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					ATCCTCCAGCGCACGTAGAGC	0.627000													10	126					0	0	0	0
CCNB1IP1	57820	broad.mit.edu	37	14	20781879	20781879	+	Nonsense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr14:20781879G>A	uc001vwv.2	-	6	1028	c.379C>T	c.(379-381)CAG>TAG	p.Q127*	CCNB1IP1_uc001vww.2_Nonsense_Mutation_p.Q127*|CCNB1IP1_uc001vwx.2_Nonsense_Mutation_p.Q127*|CCNB1IP1_uc001vwy.2_Nonsense_Mutation_p.Q127*|CCNB1IP1_uc001vwz.2_Nonsense_Mutation_p.Q127*	NM_182851	NP_878271	Q9NPC3	CIP1_HUMAN	cyclin B1 interacting protein 1 isoform 3	127	Potential.					chromosome|nucleus	ligase activity|metal ion binding|protein binding		HMGA2/CCNB1IP1(2)	soft_tissue(2)|ovary(1)	3	all_cancers(95;0.00092)	all_lung(585;0.235)	Epithelial(56;8.86e-07)|all cancers(55;4.98e-06)	GBM - Glioblastoma multiforme(265;0.0164)		TGTATTTGCTGAGTATATATC	0.383000			T	HMGA2	leiomyoma								6	46					0	0	0	0
OR6S1	341799	broad.mit.edu	37	14	21109439	21109439	+	Missense_Mutation	SNP	T	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr14:21109439T>C	uc001vxv.1	-	1	412	c.412A>G	c.(412-414)ATG>GTG	p.M138V		NM_001001968	NP_001001968	Q8NH40	OR6S1_HUMAN	olfactory receptor, family 6, subfamily S,	138	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00304)		Epithelial(56;1.23e-06)|all cancers(55;1.01e-05)	GBM - Glioblastoma multiforme(265;0.0135)		GCCCCACTCATGAGCAAGGGG	0.587000													14	54					0	0	0	0
ZFP36L1	677	broad.mit.edu	37	14	69257036	69257036	+	Silent	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr14:69257036G>A	uc001xkh.1	-	2	361	c.231C>T	c.(229-231)CCC>CCT	p.P77P	ZFP36L1_uc001xki.1_Silent_p.P77P	NM_004926	NP_004917	Q07352	TISB_HUMAN	butyrate response factor 1	77					regulation of mRNA stability	cytosol|nucleus	DNA binding|mRNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				all cancers(60;0.00203)|BRCA - Breast invasive adenocarcinoma(234;0.00205)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		AGCTCAGAGCGGGGGCTGGCT	0.692000											OREG0022753	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	47					0	0	0	0
EXD2	55218	broad.mit.edu	37	14	69701563	69701563	+	Silent	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr14:69701563C>T	uc001xkt.2	+	7	1148	c.489C>T	c.(487-489)GTC>GTT	p.V163V	EXD2_uc001xku.2_Silent_p.V33V|EXD2_uc001xkv.2_Silent_p.V288V|EXD2_uc001xkw.2_Silent_p.V163V|EXD2_uc010aqt.2_Silent_p.V288V|EXD2_uc010tte.1_Silent_p.V288V|EXD2_uc001xky.2_Silent_p.V163V	NM_018199	NP_060669	Q9NVH0	EXD2_HUMAN	exonuclease 3'-5' domain containing 2	163					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0						AGGGTGTGGTCGACATCCCAT	0.433000													13	55					0	0	0	0
DYNC1H1	1778	broad.mit.edu	37	14	102516786	102516786	+	Silent	SNP	C	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr14:102516786C>G	uc001yks.2	+	78	13991	c.13827C>G	c.(13825-13827)GTC>GTG	p.V4609V		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	4609					cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						CCTTACCTGTCTACCTGAACT	0.542000													34	266					0	0	0	0
TRPM1	4308	broad.mit.edu	37	15	31294456	31294456	+	Missense_Mutation	SNP	T	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr15:31294456T>C	uc001zfm.2	-	27	4509	c.4381A>G	c.(4381-4383)ATC>GTC	p.I1461V	TRPM1_uc010azy.2_Missense_Mutation_p.I1368V|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	1461	Cytoplasmic (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		TGGTCCGTGATTGAACTGTAC	0.468000													35	120					0	0	0	0
ATP8B4	79895	broad.mit.edu	37	15	50212513	50212513	+	Missense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr15:50212513G>A	uc001zxu.2	-	18	1995	c.1853C>T	c.(1852-1854)GCG>GTG	p.A618V	ATP8B4_uc010ber.2_Missense_Mutation_p.A491V|ATP8B4_uc010ufd.1_Missense_Mutation_p.A428V|ATP8B4_uc010ufe.1_RNA	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	618	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		GGCAGCATTCGCATCTTCAAG	0.448000													9	84					0	0	0	0
UACA	55075	broad.mit.edu	37	15	70960742	70960742	+	Missense_Mutation	SNP	T	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr15:70960742T>C	uc002asr.2	-	16	2385	c.2281A>G	c.(2281-2283)ATT>GTT	p.I761V	UACA_uc010uke.1_Missense_Mutation_p.I652V|UACA_uc002asq.2_Missense_Mutation_p.I748V|UACA_uc010bin.1_Missense_Mutation_p.I736V	NM_018003	NP_060473	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and	761	Potential.					cytoskeleton|extracellular region				ovary(2)|pancreas(1)|skin(1)	4						AGATCATCAATAATTGCATCA	0.303000													11	37					0	0	0	0
TMEM202	338949	broad.mit.edu	37	15	72698993	72698993	+	Missense_Mutation	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr15:72698993C>T	uc002auq.2	+	3	388	c.388C>T	c.(388-390)CTT>TTT	p.L130F	TMEM202_uc002aur.2_RNA	NM_001080462	NP_001073931	A6NGA9	TM202_HUMAN	transmembrane protein 202	130	Helical; (Potential).					integral to membrane				central_nervous_system(1)|skin(1)	2						CTTTACCATACTTACTGGCCT	0.478000													20	122					0	0	0	0
KIAA1199	57214	broad.mit.edu	37	15	81173350	81173350	+	Missense_Mutation	SNP	C	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr15:81173350C>A	uc002bfw.1	+	5	750	c.490C>A	c.(490-492)CTG>ATG	p.L164M	KIAA1199_uc010unn.1_Missense_Mutation_p.L164M	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	164	G8.									upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						CTGGACATTTCTGAACAAGAC	0.493000													24	129					7.33532e-06	8.8913e-06	1	0
CHSY1	22856	broad.mit.edu	37	15	101775715	101775715	+	Missense_Mutation	SNP	G	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr15:101775715G>C	uc002bwt.1	-	3	871	c.388C>G	c.(388-390)CCA>GCA	p.P130A		NM_014918	NP_055733	Q86X52	CHSS1_HUMAN	chondroitin sulfate synthase 1	130	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity				0	Lung NSC(78;0.00217)|all_lung(78;0.00271)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			ACTGGAATTGGTACAGATGTG	0.458000													25	102					0	0	0	0
ADCY9	115	broad.mit.edu	37	16	4164292	4164292	+	Silent	SNP	A	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr16:4164292A>G	uc002cvx.2	-	2	1691	c.1152T>C	c.(1150-1152)CCT>CCC	p.P384P		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	384	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						GCATCTTAAAAGGGCGGAAGG	0.488000													3	133					0	0	0	0
ADCY9	115	broad.mit.edu	37	16	4164320	4164320	+	Missense_Mutation	SNP	A	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr16:4164320A>T	uc002cvx.2	-	2	1663	c.1124T>A	c.(1123-1125)ATC>AAC	p.I375N		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	375	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						AGCTTTTTGGATGGAAGACTT	0.463000													33	111					0	0	0	0
ABCC12	94160	broad.mit.edu	37	16	48173139	48173139	+	Missense_Mutation	SNP	A	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr16:48173139A>G	uc002efc.1	-	5	1112	c.766T>C	c.(766-768)TTT>CTT	p.F256L	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Missense_Mutation_p.F256L|ABCC12_uc010vgj.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	256	ABC transmembrane type-1 1.|Helical; (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				AGAATGAAAAAGGCGTACGCC	0.473000													3	114					0	0	0	0
NFATC3	4775	broad.mit.edu	37	16	68156924	68156924	+	Missense_Mutation	SNP	C	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr16:68156924C>G	uc002evo.1	+	2	1348	c.1138C>G	c.(1138-1140)CAG>GAG	p.Q380E	NFATC3_uc010vkl.1_5'UTR|NFATC3_uc010vkm.1_5'UTR|NFATC3_uc010vkn.1_5'UTR|NFATC3_uc010vko.1_5'UTR|NFATC3_uc010vkp.1_5'UTR|NFATC3_uc010vkq.1_5'UTR|NFATC3_uc002evl.2_Intron|NFATC3_uc002evk.2_Missense_Mutation_p.Q380E|NFATC3_uc002evm.1_Missense_Mutation_p.Q380E|NFATC3_uc002evn.1_Missense_Mutation_p.Q380E|NFATC3_uc010vkr.1_5'UTR|NFATC3_uc010vks.1_5'UTR|NFATC3_uc010vkt.1_5'UTR|NFATC3_uc010vku.1_5'UTR|NFATC3_uc010vkv.1_5'UTR|NFATC3_uc010vkw.1_5'UTR|NFATC3_uc010vkx.1_5'UTR|NFATC3_uc010vky.1_5'UTR|NFATC3_uc010vkz.1_5'UTR|NFATC3_uc010vla.1_5'UTR|NFATC3_uc010vlb.1_5'UTR|NFATC3_uc010vlc.1_5'UTR	NM_173165	NP_775188	Q12968	NFAC3_HUMAN	nuclear factor of activated T-cells,	380					inflammatory response|transcription from RNA polymerase II promoter	nucleolus|plasma membrane	DNA binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0452)|all cancers(182;0.24)		CCTTGGATCTCAGTATCCTTT	0.453000													20	115					0	0	0	0
CA5A	763	broad.mit.edu	37	16	87960541	87960541	+	Silent	SNP	G	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr16:87960541G>C	uc002fkn.1	-	2	209	c.153C>G	c.(151-153)CTC>CTG	p.L51L		NM_001739	NP_001730	P35218	CAH5A_HUMAN	carbonic anhydrase VA, mitochondrial precursor	51					one-carbon metabolic process	mitochondrial matrix	carbonate dehydratase activity|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0513)		GGACCGTCCAGAGTGGGTGCA	0.632000													2	7					0	0	0	0
TP53	7157	broad.mit.edu	37	17	7578406	7578406	+	Missense_Mutation	SNP	C	T	T	rs28934578		TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr17:7578406C>T	uc002gim.2	-	5	718	c.524G>A	c.(523-525)CGC>CAC	p.R175H	TP53_uc002gig.1_Missense_Mutation_p.R175H|TP53_uc002gih.2_Missense_Mutation_p.R175H|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R43H|TP53_uc010cng.1_Missense_Mutation_p.R43H|TP53_uc002gii.1_Missense_Mutation_p.R43H|TP53_uc010cnh.1_Missense_Mutation_p.R175H|TP53_uc010cni.1_Missense_Mutation_p.R175H|TP53_uc002gij.2_Missense_Mutation_p.R175H|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R82H|TP53_uc002gio.2_Missense_Mutation_p.R43H|TP53_uc010vug.1_Missense_Mutation_p.R136H	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	175	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in a sporadic cancer; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R175H(729)|p.R175L(19)|p.R175C(12)|p.R175G(11)|p.0?(7)|p.R175P(5)|p.R175S(5)|p.R43H(5)|p.R82H(5)|p.R175R(4)|p.R174fs*24(3)|p.R175_E180delRCPHHE(3)|p.R175fs*5(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.V173fs*69(1)|p.E171fs*61(1)|p.V173fs*23(1)|p.R174_H178>S(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.E171fs*1(1)|p.R175_H178>X(1)|p.R175fs*6(1)|p.R42fs*24(1)|p.R174_C176delRRC(1)|p.H168fs*69(1)|p.R175fs*72(1)|p.R174fs*70(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.R174_E180>K(1)|p.R174fs*3(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GTGGGGGCAGCGCCTCACAAC	0.652000	R175H(KMS26_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R175H(HCC1395_BREAST)|R175H(KLE_ENDOMETRIUM)|R175H(NCIH196_LUNG)|R175H(AU565_BREAST)|R175H(TYKNU_OVARY)|R175H(DETROIT562_UPPER_AERODIGESTIVE_TRACT)|R175H(SKUT1_SOFT_TISSUE)|R175H(CAL33_UPPER_AERODIGESTIVE_TRACT)|R175H(LS123_LARGE_INTESTINE)|R175H(SKBR3_BREAST)|R175H(RKN_OVARY)|R175H(HUCCT1_BILIARY_TRACT)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			24	58					0	0	0	0
TP53	7157	broad.mit.edu	37	17	7578555	7578555	+	Splice_Site	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr17:7578555C>T	uc002gim.2	-	5	570	c.376_splice	c.e5-1	p.Y126_splice	TP53_uc002gig.1_Splice_Site_p.Y126_splice|TP53_uc002gih.2_Splice_Site_p.Y126_splice|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'UTR|TP53_uc010cng.1_5'UTR|TP53_uc002gii.1_5'UTR|TP53_uc010cnh.1_Splice_Site_p.Y126_splice|TP53_uc010cni.1_Splice_Site_p.Y126_splice|TP53_uc002gij.2_Splice_Site_p.Y126_splice|TP53_uc010cnj.1_Splice_Site|TP53_uc002gin.2_Splice_Site_p.Y33_splice|TP53_uc002gio.2_Splice_Site|TP53_uc010vug.1_Splice_Site_p.Y87_splice	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a						activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.?(31)|p.0?(7)|p.V73fs*9(1)|p.Y126fs*11(1)|p.P13fs*18(1)|p.T125_Y126insX(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CAGGGGAGTACTGTAGGAAGA	0.552000		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			10	22					0	0	0	0
DNAH9	1770	broad.mit.edu	37	17	11556233	11556233	+	Missense_Mutation	SNP	C	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr17:11556233C>G	uc002gne.2	+	14	2577	c.2509C>G	c.(2509-2511)CTT>GTT	p.L837V	DNAH9_uc010coo.2_Missense_Mutation_p.L131V	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	837	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GGAATCCCTTCTTTCTCTGGA	0.388000													18	53					0	0	0	0
NEK8	284086	broad.mit.edu	37	17	27068133	27068133	+	Silent	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr17:27068133C>T	uc002hcp.2	+	13	1770	c.1770C>T	c.(1768-1770)CAC>CAT	p.H590H	TRAF4_uc002hcq.1_5'Flank|TRAF4_uc002hcs.2_5'Flank	NM_178170	NP_835464	Q86SG6	NEK8_HUMAN	NIMA-related kinase 8	590	RCC1 4.					cytoplasm|primary cilium	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|pancreas(1)|liver(1)|skin(1)	6	Lung NSC(42;0.0158)					GCAATCAGCACGGACAGTTGG	0.582000													28	118					0	0	0	0
SEZ6	124925	broad.mit.edu	37	17	27286791	27286791	+	Missense_Mutation	SNP	C	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr17:27286791C>G	uc002hdp.2	-	8	1890	c.1696G>C	c.(1696-1698)GAG>CAG	p.E566Q	SEZ6_uc010crx.1_5'Flank|SEZ6_uc002hdm.2_RNA|SEZ6_uc010cry.1_Missense_Mutation_p.E566Q|SEZ6_uc002hdq.1_Missense_Mutation_p.E441Q	NM_178860	NP_849191	Q53EL9	SEZ6_HUMAN	seizure related 6 homolog isoform 1	566	Extracellular (Potential).|Sushi 2.					integral to membrane|plasma membrane				large_intestine(1)|central_nervous_system(1)	2	Lung NSC(42;0.0137)		Epithelial(11;4.73e-06)|all cancers(11;2.91e-05)|BRCA - Breast invasive adenocarcinoma(11;8.06e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.111)			GAGCCCTGCTCCAGGGTGTAG	0.587000													5	49					0	0	0	0
SGCA	6442	broad.mit.edu	37	17	48243421	48243421	+	Nonsense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr17:48243421G>A	uc002iqi.2	+	1	56	c.20G>A	c.(19-21)TGG>TAG	p.W7*	SGCA_uc010wmh.1_5'UTR|SGCA_uc002iqj.2_Nonsense_Mutation_p.W7*|SGCA_uc010wmi.1_RNA	NM_000023	NP_000014	Q16586	SGCA_HUMAN	sarcoglycan, alpha isoform 1 precursor	7					muscle contraction|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma	calcium ion binding			ovary(2)	2						ACACTCTTCTGGACTCCTCTC	0.517000													13	233					0	0	0	0
CACNA1G	8913	broad.mit.edu	37	17	48695588	48695588	+	Missense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr17:48695588G>A	uc002irk.1	+	32	5683	c.5311G>A	c.(5311-5313)GAC>AAC	p.D1771N	CACNA1G_uc002irj.1_Missense_Mutation_p.D1737N|CACNA1G_uc002irl.1_Missense_Mutation_p.D1748N|CACNA1G_uc002irm.1_Missense_Mutation_p.D1737N|CACNA1G_uc002irn.1_Missense_Mutation_p.D1730N|CACNA1G_uc002iro.1_Missense_Mutation_p.D1737N|CACNA1G_uc002irp.1_Missense_Mutation_p.D1771N|CACNA1G_uc002irq.1_Missense_Mutation_p.D1748N|CACNA1G_uc002irr.1_Missense_Mutation_p.D1771N|CACNA1G_uc002irs.1_Missense_Mutation_p.D1760N|CACNA1G_uc002irt.1_Missense_Mutation_p.D1753N|CACNA1G_uc002irv.1_Missense_Mutation_p.D1760N|CACNA1G_uc002irw.1_Missense_Mutation_p.D1748N|CACNA1G_uc002iru.1_Missense_Mutation_p.D1737N|CACNA1G_uc002irx.1_Missense_Mutation_p.D1684N|CACNA1G_uc002iry.1_Missense_Mutation_p.D1673N|CACNA1G_uc002irz.1_Missense_Mutation_p.D1677N|CACNA1G_uc002isa.1_Missense_Mutation_p.D1650N|CACNA1G_uc002isb.1_Missense_Mutation_p.D1691N|CACNA1G_uc002isc.1_Missense_Mutation_p.D1673N|CACNA1G_uc002isd.1_Missense_Mutation_p.D1659N|CACNA1G_uc002ise.1_Missense_Mutation_p.D1639N|CACNA1G_uc002isf.1_Missense_Mutation_p.D1666N|CACNA1G_uc002isg.1_Missense_Mutation_p.D1632N|CACNA1G_uc002ish.1_Missense_Mutation_p.D1639N|CACNA1G_uc002isi.1_Missense_Mutation_p.D1627N	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	1771	IV.|Extracellular (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	CCCAGAGTGTGACGAGACACA	0.622000													22	66					0	0	0	0
TEX14	56155	broad.mit.edu	37	17	56676800	56676800	+	Missense_Mutation	SNP	T	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr17:56676800T>C	uc010dcz.1	-	14	2042	c.1924A>G	c.(1924-1926)ATA>GTA	p.I642V	TEX14_uc002iwr.1_Missense_Mutation_p.I636V|TEX14_uc002iws.1_Missense_Mutation_p.I636V|TEX14_uc010dda.1_Missense_Mutation_p.I416V	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	642						cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GGCTCTTCTATGTCATCTTCC	0.502000													18	77					0	0	0	0
ABCA6	23460	broad.mit.edu	37	17	67094139	67094139	+	Silent	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr17:67094139C>T	uc002jhw.1	-	23	3217	c.3042G>A	c.(3040-3042)CCG>CCA	p.P1014P		NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	1014	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					AGGAACCATCCGGCAACCCAG	0.358000													6	25					0	0	0	0
LLGL2	3993	broad.mit.edu	37	17	73568022	73568022	+	Silent	SNP	C	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr17:73568022C>A	uc002joh.2	+	19	2491	c.2337C>A	c.(2335-2337)ATC>ATA	p.I779I	LLGL2_uc002joi.2_Silent_p.I779I|LLGL2_uc010dgg.1_Silent_p.I779I|LLGL2_uc002joj.2_Silent_p.I768I|LLGL2_uc010wsd.1_Silent_p.I406I	NM_001031803	NP_001026973	Q6P1M3	L2GL2_HUMAN	lethal giant larvae homolog 2 isoform c	779	WD 12.				cell cycle|cell division|exocytosis|regulation of establishment or maintenance of cell polarity	cytoplasm|intracellular membrane-bounded organelle	PDZ domain binding			ovary(2)	2	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;1.8e-07)|Epithelial(20;1.38e-06)|Lung(188;0.0696)|LUSC - Lung squamous cell carcinoma(166;0.112)			TGGTGGGCATCCTGGTGCTCG	0.667000													7	31					0.00198382	0.0023339	1	0
ST6GALNAC1	55808	broad.mit.edu	37	17	74639688	74639688	+	Silent	SNP	C	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr17:74639688C>G	uc002jsh.2	-	1	207	c.33G>C	c.(31-33)CTG>CTC	p.L11L	ST6GALNAC1_uc002jsi.2_5'UTR|ST6GALNAC1_uc002jsj.2_RNA	NM_018414	NP_060884	Q9NSC7	SIA7A_HUMAN	sialyltransferase 7A	11	Cytoplasmic (Potential).				protein glycosylation	integral to Golgi membrane	alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity				0						CGCCTTGGCTCAGGTGCCTGC	0.562000													6	28					0	0	0	0
SOCS3	9021	broad.mit.edu	37	17	76354904	76354904	+	Silent	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr17:76354904C>T	uc002jvl.2	-	2	689	c.273G>A	c.(271-273)AAG>AAA	p.K91K		NM_003955	NP_003946	O14543	SOCS3_HUMAN	suppressor of cytokine signaling 3	91	SH2.				anti-apoptosis|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|regulation of growth|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytosol	protein kinase inhibitor activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(99;0.000688)|OV - Ovarian serous cystadenocarcinoma(97;0.0554)			TGCGCAGGTTCTTGGTCCCAG	0.657000													7	35					0	0	0	0
PTPRS	5802	broad.mit.edu	37	19	5210481	5210481	+	Missense_Mutation	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr19:5210481C>T	uc002mbv.2	-	35	5720	c.5486G>A	c.(5485-5487)CGG>CAG	p.R1829Q	PTPRS_uc002mbu.1_Missense_Mutation_p.R1398Q|PTPRS_uc010xin.1_Missense_Mutation_p.R1371Q|PTPRS_uc002mbw.2_Missense_Mutation_p.R1791Q|PTPRS_uc002mbx.2_Missense_Mutation_p.R1386Q|PTPRS_uc002mby.2_Missense_Mutation_p.R1382Q	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1829	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		TTCACTCACCCGGGCATCTGT	0.557000													24	82					0	0	0	0
PRAM1	84106	broad.mit.edu	37	19	8563261	8563261	+	Missense_Mutation	SNP	T	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr19:8563261T>C	uc002mkd.2	-	2	1451	c.1431A>G	c.(1429-1431)ATA>ATG	p.I477M	PRAM1_uc002mkc.2_Missense_Mutation_p.I477M	NM_032152	NP_115528	Q96QH2	PRAM_HUMAN	PML-RARA regulated adaptor molecule 1	525							lipid binding|protein binding				0						CTCACCCACCTATGGATGCTG	0.697000													6	5					0	0	0	0
OR7A5	26659	broad.mit.edu	37	19	14938846	14938846	+	Missense_Mutation	SNP	C	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr19:14938846C>A	uc002mzw.2	-	1	431	c.208G>T	c.(208-210)GAC>TAC	p.D70Y	OR7A5_uc010xoa.1_Missense_Mutation_p.D70Y	NM_017506	NP_059976	Q15622	OR7A5_HUMAN	olfactory receptor, family 7, subfamily A,	70	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(2)	2						ACACAAATGTCAGCAAAGGAC	0.488000													39	104					4.32679e-17	5.58296e-17	1	0
BRD4	23476	broad.mit.edu	37	19	15374344	15374344	+	Missense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr19:15374344G>A	uc002nar.2	-	7	1450	c.1228C>T	c.(1228-1230)CGT>TGT	p.R410C	BRD4_uc002nas.2_Missense_Mutation_p.R410C|BRD4_uc002nat.3_Missense_Mutation_p.R410C|BRD4_uc002nau.3_Missense_Mutation_p.R410C	NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	410	Bromo 2.				interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			CGGTACTCACGGGCCTCCAGT	0.532000			T	NUT|C15orf55	lethal midline carcinoma of young people								17	34					0	0	0	0
LILRA1	11024	broad.mit.edu	37	19	55107880	55107880	+	Nonsense_Mutation	SNP	C	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr19:55107880C>G	uc002qgh.1	+	7	1367	c.1185C>G	c.(1183-1185)TAC>TAG	p.Y395*	LILRA2_uc010yfg.1_Nonsense_Mutation_p.Y393*|LILRA1_uc010yfh.1_Nonsense_Mutation_p.Y395*	NM_006863	NP_006854	O75019	LIRA1_HUMAN	leukocyte immunoglobulin-like receptor,	395	Ig-like C2-type 4.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response|regulation of immune response	integral to membrane|plasma membrane	antigen binding|transmembrane receptor activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(193;0.0348)		CGGGGACCTACAGGTGCTACG	0.582000													10	210					0	0	0	0
NBAS	51594	broad.mit.edu	37	2	15417095	15417095	+	Missense_Mutation	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr2:15417095C>T	uc002rcc.1	-	43	5295	c.5269G>A	c.(5269-5271)GAA>AAA	p.E1757K	NBAS_uc010exl.1_Missense_Mutation_p.E829K|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1757										ovary(2)|liver(1)|skin(1)	4						TGCAGCCTTTCGTGATCAAAG	0.438000													12	41					0	0	0	0
ALK	238	broad.mit.edu	37	2	29462560	29462560	+	Missense_Mutation	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr2:29462560C>T	uc002rmy.2	-	13	3248	c.2341G>A	c.(2341-2343)GAC>AAC	p.D781N		NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	781	Extracellular (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	GGGCAGGCGTCCTCTCCCTGC	0.602000			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				14	52					0	0	0	0
NLRC4	58484	broad.mit.edu	37	2	32477515	32477515	+	Missense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr2:32477515G>A	uc002roi.2	-	3	481	c.235C>T	c.(235-237)CCT>TCT	p.P79S	NLRC4_uc002roj.1_Missense_Mutation_p.P79S|NLRC4_uc010ezt.1_Missense_Mutation_p.P79S	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	79	CARD.				activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					TGAAATAGAGGATAGTTCCAC	0.413000													9	62					0	0	0	0
PNPT1	87178	broad.mit.edu	37	2	55895069	55895069	+	Missense_Mutation	SNP	T	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr2:55895069T>G	uc002rzf.2	-	12	1054	c.1001A>C	c.(1000-1002)TAT>TCT	p.Y334S	PNPT1_uc002rzg.2_RNA	NM_033109	NP_149100	Q8TCS8	PNPT1_HUMAN	polyribonucleotide nucleotidyltransferase 1	334					mRNA catabolic process|RNA processing	plasma membrane	3'-5'-exoribonuclease activity|polyribonucleotide nucleotidyltransferase activity|RNA binding				0			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TATTATTTCATATGGATCGGC	0.279000													13	34					0	0	0	0
Unknown	0	broad.mit.edu	37	2	89292132	89292132	+	RNA	SNP	C	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr2:89292132C>A	uc010ytr.1	-	82		c.7074G>T			uc002stl.2_Intron					Parts of antibodies, mostly variable regions.																		TGCTAATACCCTGACTCGCCC	0.507000													51	245					5.13769e-22	6.68317e-22	1	0
VWA3B	200403	broad.mit.edu	37	2	98914471	98914471	+	Missense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr2:98914471G>A	uc002syo.2	+	24	3523	c.3259G>A	c.(3259-3261)GCC>ACC	p.A1087T	VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Missense_Mutation_p.A744T|VWA3B_uc002syp.1_Missense_Mutation_p.A479T|VWA3B_uc002syq.1_Missense_Mutation_p.A363T|VWA3B_uc002syr.1_Missense_Mutation_p.A404T|VWA3B_uc002sys.2_RNA	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	1087										ovary(3)|large_intestine(2)|skin(1)	6						TGTGGGGGGCGCCATGCCCTG	0.587000													21	89					0	0	0	0
TTN	7273	broad.mit.edu	37	2	179474486	179474486	+	Missense_Mutation	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr2:179474486C>T	uc010zfg.1	-	221	44184	c.43960G>A	c.(43960-43962)GTG>ATG	p.V14654M	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.V8349M|TTN_uc010zfi.1_Missense_Mutation_p.V8282M|TTN_uc010zfj.1_Missense_Mutation_p.V8157M	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15581							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTGCTCGCACACGGAATTGG	0.483000													15	411					0	0	0	0
FRG1B	284802	broad.mit.edu	37	20	29625875	29625875	+	Missense_Mutation	SNP	T	C	C	rs143761036	by1000genomes	TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr20:29625875T>C	uc010ztl.1	+	2	61	c.29T>C	c.(28-30)ATC>ACC	p.I10T	FRG1B_uc002wvm.1_RNA|FRG1B_uc010ztj.1_RNA|FRG1B_uc010gdr.1_RNA|FRG1B_uc010ztk.1_Intron					Homo sapiens cDNA FLJ32537 fis, clone SMINT2000400, highly similar to Homo sapiens FRG1 mRNA.												0						ATGTACAGAATCGCCCTGAAA	0.353000													4	78					0	0	0	0
DEFB121	245934	broad.mit.edu	37	20	29992772	29992772	+	Missense_Mutation	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr20:29992772C>T	uc002wvv.1	-	2	211	c.175G>A	c.(175-177)GTA>ATA	p.V59I		NM_001011878	NP_001011878	Q5J5C9	DB121_HUMAN	defensin, beta 121 precursor	59					defense response to bacterium	extracellular region					0	all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			TTTGGTTTTACAGGTACATAC	0.413000													21	56					0	0	0	0
NCOA6	23054	broad.mit.edu	37	20	33369945	33369945	+	Missense_Mutation	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr20:33369945C>T	uc002xav.2	-	4	2785	c.214G>A	c.(214-216)GTG>ATG	p.V72M	NCOA6_uc002xaw.2_Missense_Mutation_p.V72M|NCOA6_uc010gew.1_Missense_Mutation_p.V72M	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	72	TBP/GTF2A-binding region.|NCOA1-binding region.|CREBBP-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						AAATTGGGCACGTTTTTCAAT	0.313000													7	25					0	0	0	0
MYH7B	57644	broad.mit.edu	37	20	33587469	33587469	+	Missense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr20:33587469G>A	uc002xbi.1	+	35	4854	c.4762G>A	c.(4762-4764)GAG>AAG	p.E1588K		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	1546	Potential.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			CGAGAAGAGTGAGATCCAGGC	0.622000													9	41					0	0	0	0
SEMG1	6406	broad.mit.edu	37	20	43836893	43836893	+	Missense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr20:43836893G>A	uc002xni.2	+	2	1012	c.955G>A	c.(955-957)GAA>AAA	p.E319K	SEMG1_uc002xnj.2_Intron|SEMG2_uc010ggz.2_Intron|SEMG1_uc002xnh.2_Missense_Mutation_p.E319K	NM_003007	NP_002998	P04279	SEMG1_HUMAN	semenogelin I preproprotein	319	58 AA repeat 1.				insemination|sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(2)	2		Myeloproliferative disorder(115;0.0122)				TAGCCAAACTGAAGAGAAAGC	0.378000													7	32					0	0	0	0
TTC3	7267	broad.mit.edu	37	21	38467718	38467718	+	Missense_Mutation	SNP	C	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr21:38467718C>G	uc002yvz.2	+	9	861	c.756C>G	c.(754-756)ATC>ATG	p.I252M	TTC3_uc011aee.1_Intron|TTC3_uc002ywa.2_Missense_Mutation_p.I252M|TTC3_uc002ywb.2_Missense_Mutation_p.I252M|TTC3_uc010gnf.2_Missense_Mutation_p.I17M|TTC3_uc011aed.1_Intron|TTC3_uc010gne.1_Missense_Mutation_p.I252M	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	252	TPR 1.				protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				TAGCTATTATCTATTACACCA	0.333000													6	73					0	0	0	0
TRPM2	7226	broad.mit.edu	37	21	45859043	45859044	+	Missense_Mutation	DNP	GG	TT	TT	rs142254503	byFrequency	TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr21:45859043_45859044GG>TT	uc002zet.1	+	31	4474_4475	c.4261_4262GG>TT	c.(4261-4263)GGC>TTC	p.G1421F	TRPM2_uc002zeu.1_Missense_Mutation_p.G1421F|TRPM2_uc002zew.1_Missense_Mutation_p.G1421F|TRPM2_uc010gpt.1_Missense_Mutation_p.G1471F|TRPM2_uc002zex.1_Missense_Mutation_p.G1207F|TRPM2_uc002zey.1_Missense_Mutation_p.G900F|TRPM2_uc011aff.1_Missense_Mutation_p.G102F	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	1421	Nudix hydrolase.|Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GCTGAAGTGCGGCATGGAGGTA	0.599000													7	31					0	0	0	0
CCDC116	164592	broad.mit.edu	37	22	21988525	21988525	+	Missense_Mutation	SNP	G	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr22:21988525G>T	uc002zve.2	+	3	380	c.287G>T	c.(286-288)CGC>CTC	p.R96L	CCDC116_uc011aih.1_Missense_Mutation_p.R96L	NM_152612	NP_689825	Q8IYX3	CC116_HUMAN	coiled-coil domain containing 116	96	Potential.									ovary(1)|skin(1)	2	Colorectal(54;0.105)					GCGACTGAGCGCATGGCTGCC	0.632000													26	66					4.59853e-10	5.8394e-10	1	0
CHEK2	11200	broad.mit.edu	37	22	29091840	29091841	+	Missense_Mutation	DNP	TG	CA	CA	rs142470496	byFrequency	TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr22:29091840_29091841TG>CA	uc003adu.1	-	11	1188_1189	c.1116_1117CA>TG	c.(1114-1119)TCCAAG>TCTGAG	p.K373E	CHEK2_uc003ads.1_Missense_Mutation_p.K152E|CHEK2_uc010gvh.1_Missense_Mutation_p.K282E|CHEK2_uc010gvi.1_Intron|CHEK2_uc010gvj.1_Intron|CHEK2_uc003adr.1_RNA|CHEK2_uc010gvk.1_RNA|CHEK2_uc003adt.1_Missense_Mutation_p.K416E|CHEK2_uc003adv.1_Missense_Mutation_p.K344E|CHEK2_uc003adw.1_Missense_Mutation_p.K373E|CHEK2_uc003adx.1_Missense_Mutation_p.K152E|CHEK2_uc003ady.1_Missense_Mutation_p.K373E|CHEK2_uc003adz.1_Missense_Mutation_p.K177E	NM_007194	NP_009125	O96017	CHK2_HUMAN	protein kinase CHK2 isoform a	373	Protein kinase.				cell cycle|DNA damage checkpoint|DNA damage response, signal transduction resulting in induction of apoptosis|replicative senescence	PML body	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity	p.K373E(2)|p.S372S(1)		central_nervous_system(17)|stomach(1)|ovary(1)|lung(1)	20						CCCAAAATCTTGGAGTGCCCAA	0.416000			F			breast 		Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes	Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|CHEK2-associated_cancer				6	27					0	0	0	0
AP1B1	162	broad.mit.edu	37	22	29737728	29737728	+	Missense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr22:29737728G>A	uc003afj.2	-	13	1742	c.1558C>T	c.(1558-1560)CGG>TGG	p.R520W	AP1B1_uc003afi.2_Missense_Mutation_p.R520W|AP1B1_uc003afk.2_Missense_Mutation_p.R520W|AP1B1_uc003afl.2_Missense_Mutation_p.R520W|AP1B1_uc011ako.1_Missense_Mutation_p.R73W	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	520					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						CCACGGTCCCGCAGGTCTGGG	0.597000													20	36					0	0	0	0
HRH1	3269	broad.mit.edu	37	3	11300945	11300945	+	Silent	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr3:11300945G>A	uc010hdr.2	+	2	564	c.222G>A	c.(220-222)TTG>TTA	p.L74L	HRH1_uc010hds.2_Silent_p.L74L|HRH1_uc010hdt.2_Silent_p.L74L|HRH1_uc003bwb.3_Silent_p.L74L	NM_001098213	NP_001091683	P35367	HRH1_HUMAN	histamine receptor H1	74	Helical; Name=2; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|inflammatory response	cytoplasm|integral to plasma membrane|nucleus	histamine receptor activity			large_intestine(1)|ovary(1)	2					Aceprometazine(DB01615)|Astemizole(DB00637)|Azatadine(DB00719)|Azelastine(DB00972)|Benzquinamide(DB00767)|Bepotastine(DB04890)|Bromodiphenhydramine(DB01237)|Brompheniramine(DB00835)|Buclizine(DB00354)|Carbinoxamine(DB00748)|Cetirizine(DB00341)|Chlophedianol(DB04837)|Chlorpheniramine(DB01114)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clemastine(DB00283)|Clozapine(DB00363)|Cyclizine(DB01176)|Cyproheptadine(DB00434)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexbrompheniramine(DB00405)|Dimenhydrinate(DB00985)|Diphenhydramine(DB01075)|Diphenylpyraline(DB01146)|Doxepin(DB01142)|Doxylamine(DB00366)|Emedastine(DB01084)|Epinastine(DB00751)|Fexofenadine(DB00950)|Flunarizine(DB04841)|Histamine Phosphate(DB00667)|Hydroxyzine(DB00557)|Ketotifen(DB00920)|Levocabastine(DB01106)|Loratadine(DB00455)|Maprotiline(DB00934)|Meclizine(DB00737)|Mequitazine(DB01071)|Methdilazine(DB00902)|Methotrimeprazine(DB01403)|Mianserin(DB06148)|Mirtazapine(DB00370)|Nedocromil(DB00716)|Olanzapine(DB00334)|Olopatadine(DB00768)|Orphenadrine(DB01173)|Pemirolast(DB00885)|Phenindamine(DB01619)|Pheniramine(DB01620)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Terfenadine(DB00342)|Thiethylperazine(DB00372)|Trazodone(DB00656)|Trimeprazine(DB01246)|Tripelennamine(DB00792)|Triprolidine(DB00427)|Ziprasidone(DB00246)	TGGCGGACTTGATCGTGGGTG	0.577000													13	97					0	0	0	0
GALNTL2	117248	broad.mit.edu	37	3	16216900	16216900	+	Missense_Mutation	SNP	T	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr3:16216900T>C	uc003car.3	+	1	717	c.242T>C	c.(241-243)CTG>CCG	p.L81P	GALNTL2_uc003caq.3_Intron	NM_054110	NP_473451	Q8N3T1	GLTL2_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	81	Lumenal (Potential).					Golgi membrane|integral to membrane|transport vesicle	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(1)	1						TACAGCCCTCTGGAGGGCCTG	0.617000													4	64					0	0	0	0
CD200R1L	344807	broad.mit.edu	37	3	112538730	112538730	+	Missense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr3:112538730G>A	uc003dzi.1	-	5	918	c.692C>T	c.(691-693)TCA>TTA	p.S231L	CD200R1L_uc011bhw.1_Missense_Mutation_p.S210L|CD200R1L_uc010hqf.1_Missense_Mutation_p.S210L	NM_001008784	NP_001008784	Q6Q8B3	MO2R2_HUMAN	CD200 cell surface glycoprotein receptor 2	231	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)	1						TGGAGATCCTGAGGTTCTGAG	0.353000													8	58					0	0	0	0
ZXDC	79364	broad.mit.edu	37	3	126180734	126180734	+	Silent	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr3:126180734G>A	uc003eiv.2	-	6	1825	c.1771C>T	c.(1771-1773)CTG>TTG	p.L591L	ZXDC_uc010hsh.2_RNA|ZXDC_uc003eix.2_Silent_p.L591L	NM_025112	NP_079388	Q2QGD7	ZXDC_HUMAN	ZXD family zinc finger C isoform 1	591	Required for transcriptional activation.				positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|LRR domain binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.155)		CCCTGCTGCAGAACCGTGGCT	0.602000													23	90					0	0	0	0
ATP13A3	79572	broad.mit.edu	37	3	194126832	194126832	+	Missense_Mutation	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr3:194126832C>T	uc003fty.3	-	32	3899	c.3497G>A	c.(3496-3498)CGG>CAG	p.R1166Q	ATP13A3_uc003ftx.3_Missense_Mutation_p.R75Q	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	1166					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		TTTTCCCCACCGATCCACTGA	0.433000													7	61					0	0	0	0
GK2	2712	broad.mit.edu	37	4	80328273	80328273	+	Missense_Mutation	SNP	A	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr4:80328273A>G	uc003hlu.2	-	1	1100	c.1082T>C	c.(1081-1083)GTC>GCC	p.V361A		NM_033214	NP_149991	Q14410	GLPK2_HUMAN	glycerol kinase 2	361					glycerol-3-phosphate metabolic process	mitochondrial outer membrane	ATP binding|glycerol kinase activity			ovary(2)|skin(2)	4						AAAGGCTGGGACAAAGTAACA	0.413000													17	89					0	0	0	0
HADH	3033	broad.mit.edu	37	4	108935703	108935703	+	Silent	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr4:108935703G>A	uc003hyq.2	+	3	527	c.378G>A	c.(376-378)GTG>GTA	p.V126V	HADH_uc010ilx.2_Silent_p.V126V|HADH_uc010ily.2_Intron|HADH_uc003hyr.2_Silent_p.V130V	NM_005327	NP_005318	Q16836	HCDH_HUMAN	L-3-hydroxyacyl-Coenzyme A dehydrogenase	126					fatty acid beta-oxidation	mitochondrial matrix	3-hydroxyacyl-CoA dehydrogenase activity|NAD+ binding			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000168)	NADH(DB00157)	ATCTGAAGGTGAAAAACGAGC	0.438000													19	87					0	0	0	0
C4orf49	84709	broad.mit.edu	37	4	140196504	140196504	+	Missense_Mutation	SNP	G	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr4:140196504G>C	uc003ihr.1	-	2	305	c.125C>G	c.(124-126)TCT>TGT	p.S42C		NM_032623	NP_116012	Q8TDB4	CD049_HUMAN	ovary-specific acidic protein	42	Helical; (Potential).					integral to membrane				central_nervous_system(1)|skin(1)	2						ATTTGATCCAGATGATCCAGG	0.368000													3	53					0	0	0	0
FHDC1	85462	broad.mit.edu	37	4	153897721	153897721	+	Missense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr4:153897721G>A	uc003inf.2	+	11	3353	c.3278G>A	c.(3277-3279)CGG>CAG	p.R1093Q		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	1093					actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					AGCAGTGCCCGGGCCCCCAAG	0.682000													5	29					0	0	0	0
CCDC125	202243	broad.mit.edu	37	5	68616363	68616363	+	Missense_Mutation	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr5:68616363C>T	uc003jvv.1	-	1	48	c.5G>A	c.(4-6)AGC>AAC	p.S2N	CCDC125_uc003jvx.1_Missense_Mutation_p.S2N|CCDC125_uc003jvy.1_RNA|CCDC125_uc003jvw.2_5'UTR|CCDC125_uc003jvz.1_Missense_Mutation_p.S2N	NM_176816	NP_789786	Q86Z20	CC125_HUMAN	coiled-coil domain containing 125	2						cytoplasm					0		Lung NSC(167;7.26e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;2.2e-56)|Epithelial(20;2.31e-52)|all cancers(19;5.85e-48)|Lung(70;0.0183)		TGCCACCTTGCTCATGAGCCA	0.393000													13	60					0	0	0	0
PCDHGC4	56098	broad.mit.edu	37	5	140866446	140866446	+	Missense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr5:140866446G>A	uc003lky.1	+	1	1706	c.1706G>A	c.(1705-1707)CGG>CAG	p.R569Q	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_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc011dbb.1_Missense_Mutation_p.R569Q|PCDHGC5_uc011dbc.1_5'Flank|PCDHGC5_uc003lla.1_5'Flank	NM_018928	NP_061751	Q9Y5F7	PCDGL_HUMAN	protocadherin gamma subfamily C, 4 isoform 1	569	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCCGTCCTCGGGCCCGGCCT	0.572000													30	101					0	0	0	0
PDGFRB	5159	broad.mit.edu	37	5	149516594	149516594	+	Missense_Mutation	SNP	G	A	A	rs150173975	byFrequency	TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr5:149516594G>A	uc003lro.2	-	2	486	c.17C>T	c.(16-18)GCG>GTG	p.A6V	PDGFRB_uc010jhd.2_5'UTR|PDGFRB_uc011dcg.1_Missense_Mutation_p.A6V	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	6					aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	AGCTGGCATCGCACCCGGAAG	0.642000			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								11	45					0	0	0	0
C6orf106	64771	broad.mit.edu	37	6	34614452	34614452	+	Missense_Mutation	SNP	A	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr6:34614452A>C	uc003ojr.2	-	3	682	c.437T>G	c.(436-438)ATG>AGG	p.M146R	C6orf106_uc003ojs.2_Intron	NM_024294	NP_077270	Q9H6K1	CF106_HUMAN	chromosome 6 open reading frame 106 isoform a	146										skin(2)|ovary(1)	3						GGGGCTGCACATCTGGACGCT	0.522000													18	234					0	0	0	0
FGD2	221472	broad.mit.edu	37	6	36989314	36989314	+	Silent	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr6:36989314C>T	uc010jwp.1	+	12	1431	c.1260C>T	c.(1258-1260)ATC>ATT	p.I420I	FGD2_uc003ong.2_Silent_p.I142I|FGD2_uc011dtv.1_Silent_p.I48I|FGD2_uc003onj.1_5'Flank	NM_173558	NP_775829	Q7Z6J4	FGD2_HUMAN	FYVE, RhoGEF and PH domain containing 2	420					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|early endosome membrane|Golgi apparatus|lamellipodium|nucleus|ruffle membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			upper_aerodigestive_tract(1)|lung(1)|pancreas(1)	3						TTGACCAAATCGAGAAGCGGA	0.597000											OREG0017395	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	26					0	0	0	0
LRFN2	57497	broad.mit.edu	37	6	40360623	40360623	+	Missense_Mutation	SNP	C	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr6:40360623C>T	uc003oph.1	-	3	1894	c.1429G>A	c.(1429-1431)GTG>ATG	p.V477M		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	477	Fibronectin type-III.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					TTGTTGACCACGAAGGCCTTG	0.557000													3	34					0	0	0	0
SYNE1	23345	broad.mit.edu	37	6	152832220	152832220	+	Missense_Mutation	SNP	T	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr6:152832220T>A	uc010kiw.2	-	7	930	c.328A>T	c.(328-330)AAC>TAC	p.N110Y	SYNE1_uc003qot.3_Missense_Mutation_p.N117Y|SYNE1_uc003qou.3_Missense_Mutation_p.N110Y|SYNE1_uc010kjb.1_Missense_Mutation_p.N110Y|SYNE1_uc003qpa.1_Missense_Mutation_p.N110Y	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	110	Actin-binding.|Cytoplasmic (Potential).|CH 1.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TCGGTGGAGTTAATGTTGACT	0.328000										HNSCC(10;0.0054)			32	109					0	0	0	0
RAPGEF5	9771	broad.mit.edu	37	7	22190076	22190076	+	Silent	SNP	G	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr7:22190076G>C	uc003svg.2	-	18	1687	c.1374C>G	c.(1372-1374)CTC>CTG	p.L458L	RAPGEF5_uc011jyl.1_Silent_p.L139L	NM_012294	NP_036426	Q92565	RPGF5_HUMAN	Rap guanine nucleotide exchange factor (GEF) 5	308					nervous system development|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	nucleus	GTP-dependent protein binding|Rap guanyl-nucleotide exchange factor activity			ovary(1)	1						CAGATGCCTCGAGGGATTTGG	0.343000													10	121					0	0	0	0
OGDH	4967	broad.mit.edu	37	7	44684960	44684960	+	Missense_Mutation	SNP	G	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr7:44684960G>C	uc003tln.2	+	3	366	c.257G>C	c.(256-258)GGA>GCA	p.G86A	OGDH_uc003tlm.2_Missense_Mutation_p.G86A|OGDH_uc011kbx.1_Missense_Mutation_p.G86A|OGDH_uc011kby.1_Intron|OGDH_uc003tlp.2_Missense_Mutation_p.G86A|OGDH_uc011kbz.1_5'UTR|OGDH_uc003tlo.1_5'UTR	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	86					glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)	ACGAATGCCGGAGCCCCACCG	0.582000													21	162					0	0	0	0
MYO1G	64005	broad.mit.edu	37	7	45010561	45010561	+	Missense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr7:45010561G>A	uc003tmh.2	-	8	1088	c.944C>T	c.(943-945)ACG>ATG	p.T315M	MYO1G_uc003tmf.2_5'Flank|MYO1G_uc003tmg.2_Missense_Mutation_p.T77M|MYO1G_uc010kym.2_Missense_Mutation_p.T200M|MYO1G_uc003tmi.1_Missense_Mutation_p.T227M|MYO1G_uc003tmj.2_Missense_Mutation_p.T77M	NM_033054	NP_149043	B0I1T2	MYO1G_HUMAN	myosin IG	315	Myosin head-like.					myosin complex|plasma membrane	actin binding|ATP binding|calmodulin binding|motor activity			breast(2)|ovary(1)|pancreas(1)	4						GGGTGTGGCCGTCAGCTCAGC	0.657000													9	36					0	0	0	0
PEX1	5189	broad.mit.edu	37	7	92146635	92146635	+	Missense_Mutation	SNP	G	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr7:92146635G>C	uc003uly.2	-	5	1290	c.1194C>G	c.(1192-1194)ATC>ATG	p.I398M	PEX1_uc011khr.1_Missense_Mutation_p.I190M|PEX1_uc010ley.2_Missense_Mutation_p.I398M|PEX1_uc011khs.1_Intron|PEX1_uc011kht.1_RNA	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	398					microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			TGGTATATTTGATGGCATTGT	0.343000													22	110					0	0	0	0
CBWD1	55871	broad.mit.edu	37	9	164038	164038	+	Splice_Site	SNP	C	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269000													3	55					0	0	0	0
CDKN2A	1029	broad.mit.edu	37	9	21971186	21971186	+	Nonsense_Mutation	SNP	G	A	A	rs121913387		TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr9:21971186G>A	uc003zpk.2	-	2	384	c.172C>T	c.(172-174)CGA>TGA	p.R58*	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Missense_Mutation_p.P113L	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	58	ANK 2.				cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.R58*(68)|p.?(14)|p.M53_R58del(3)|p.R58fs*59(2)|p.M54fs*61(2)|p.R58fs*89(1)|p.R58R(1)|p.V28_V51del(1)|p.A57_R58>V*(1)|p.R58fs*61(1)|p.R58fs*62(1)|p.G55fs*86(1)|p.R58Q(1)|p.P113L(1)|p.A57fs*85(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		TCCGCCACTCGGGCGCTGCCC	0.677000		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			12	7					0	0	0	0
CHMP5	51510	broad.mit.edu	37	9	33276501	33276501	+	Missense_Mutation	SNP	C	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr9:33276501C>G	uc003zsl.3	+	7	790	c.435C>G	c.(433-435)ATC>ATG	p.I145M	SUGT1P1_uc010mjq.1_Intron|CHMP5_uc003zsm.3_Missense_Mutation_p.I145M|CHMP5_uc011lnv.1_Missense_Mutation_p.I145M	NM_016410	NP_057494	Q9NZZ3	CHMP5_HUMAN	chromatin modifying protein 5	145	Potential.|Interaction with VTA1.				cellular membrane organization|protein transport	cytosol|endosome membrane	protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.00506)			CAAATGAAATCCAAGAAGCAC	0.358000													10	68					0	0	0	0
UNC13B	10497	broad.mit.edu	37	9	35389842	35389842	+	Splice_Site	SNP	G	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr9:35389842G>C	uc003zwq.2	+	24	3140	c.2848_splice	c.e24-1	p.K950_splice	UNC13B_uc003zwr.2_Splice_Site_p.K950_splice	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like						excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			TCTGGATCAAGAAGCAGGAGC	0.498000													18	196					0	0	0	0
TLN1	7094	broad.mit.edu	37	9	35724572	35724572	+	Missense_Mutation	SNP	C	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr9:35724572C>G	uc003zxt.2	-	5	862	c.508G>C	c.(508-510)GAG>CAG	p.E170Q	TLN1_uc003zxu.3_Missense_Mutation_p.E170Q	NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	170	FERM.				axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			TGCTTACACTCATCATCTGTG	0.333000													244	170					0	0	0	0
ANXA1	301	broad.mit.edu	37	9	75775272	75775272	+	Nonsense_Mutation	SNP	G	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr9:75775272G>T	uc004ajf.1	+	5	438	c.364G>T	c.(364-366)GAA>TAA	p.E122*	ANXA1_uc004aje.1_Nonsense_Mutation_p.E122*|ANXA1_uc004ajg.1_Nonsense_Mutation_p.E122*	NM_000700	NP_000691	P04083	ANXA1_HUMAN	annexin I	122					alpha-beta T cell differentiation|anti-apoptosis|cell surface receptor linked signaling pathway|cellular component movement|inflammatory response|keratinocyte differentiation|lipid metabolic process|peptide cross-linking|positive regulation of vesicle fusion	basolateral plasma membrane|cilium|cornified envelope|cytoplasm|extracellular region|nucleus	calcium ion binding|calcium-dependent phospholipid binding|phospholipase A2 inhibitor activity|protein binding, bridging|receptor binding|structural molecule activity			breast(1)|central_nervous_system(1)	2		all_epithelial(88;2.54e-11)		OV - Ovarian serous cystadenocarcinoma(323;2.82e-06)|GBM - Glioblastoma multiforme(74;0.0325)	Alclometasone(DB00240)|Amcinonide(DB00288)|Beclomethasone(DB00394)|Betamethasone(DB00443)|Clobetasol(DB01013)|Clocortolone(DB00838)|Desonide(DB01260)|Desoximetasone(DB00547)|Dexamethasone(DB01234)|Diflorasone(DB00223)|Flumethasone Pivalate(DB00663)|Halobetasol Propionate(DB00596)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Loteprednol Etabonate(DB00873)|Methylprednisolone(DB00959)|Mometasone(DB00764)|Prednicarbate(DB01130)|Prednisone(DB00635)|Rimexolone(DB00896)|Triamcinolone(DB00620)	TGATGCTGATGAACTTCGTGC	0.373000													14	114					7.93312e-07	9.76384e-07	1	0
Unknown	0	broad.mit.edu	37	9	90745310	90745310	+	Missense_Mutation	SNP	G	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr9:90745310G>C	uc011lti.1	-	4	2671	c.2642C>G	c.(2641-2643)CCA>CGA	p.P881R	uc004apx.1_5'Flank					SubName: Full=cDNA FLJ59639;																		TTGCCCATCTGGAAGGAGCAC	0.537000													6	174					0	0	0	0
BAAT	570	broad.mit.edu	37	9	104130542	104130542	+	Missense_Mutation	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr9:104130542G>A	uc010mtd.2	-	3	638	c.529C>T	c.(529-531)CGG>TGG	p.R177W	BAAT_uc004bbd.3_Missense_Mutation_p.R177W	NM_001127610	NP_001121082	Q14032	BAAT_HUMAN	bile acid Coenzyme A: amino acid	177					acyl-CoA metabolic process|bile acid and bile salt transport|bile acid biosynthetic process|digestion|fatty acid metabolic process|glycine metabolic process	cytosol|peroxisomal matrix	carboxylesterase activity|glycine N-choloyltransferase activity|N-acyltransferase activity|palmitoyl-CoA hydrolase activity			ovary(1)|lung(1)|skin(1)	3		Acute lymphoblastic leukemia(62;0.0559)			Glycine(DB00145)	AGGCTGGCCCGAAATTCAAGC	0.478000													7	42					0	0	0	0
ABCA1	19	broad.mit.edu	37	9	107591238	107591238	+	Missense_Mutation	SNP	G	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr9:107591238G>T	uc004bcl.2	-	15	2387	c.2074C>A	c.(2074-2076)CCT>ACT	p.P692T		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	692	Helical; (Potential).				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	ACAAGAAGAGGAATGAGGCTA	0.542000													10	45					1.08611e-07	1.34711e-07	1	0
OR1B1	347169	broad.mit.edu	37	9	125391138	125391138	+	Missense_Mutation	SNP	C	G	G			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr9:125391138C>G	uc011lyz.1	-	1	677	c.677G>C	c.(676-678)CGA>CCA	p.R226P		NM_001004450	NP_001004450	Q8NGR6	OR1B1_HUMAN	olfactory receptor, family 1, subfamily B,	226	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GGCCCCAATTCGGACATAAGA	0.542000													5	79					0	0	0	0
FAM47B	170062	broad.mit.edu	37	X	34961479	34961479	+	Silent	SNP	C	T	T	rs149160457		TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chrX:34961479C>T	uc004ddi.1	+	1	549	c.531C>T	c.(529-531)ACC>ACT	p.T177T		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	177										ovary(3)|breast(1)	4						AGGTACCCACCGAGTCTGGTA	0.612000													11	22					0	0	0	0
MAOA	4128	broad.mit.edu	37	X	43601196	43601196	+	Splice_Site	SNP	G	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chrX:43601196G>C	uc004dfy.2	+	12	1346	c.1165_splice	c.e12-1	p.P389_splice	MAOA_uc011mkw.1_Splice_Site_p.P256_splice	NM_000240	NP_000231	P21397	AOFA_HUMAN	monoamine oxidase A						behavior|neurotransmitter biosynthetic process|neurotransmitter catabolic process|neurotransmitter secretion|xenobiotic metabolic process	integral to membrane|mitochondrial outer membrane	primary amine oxidase activity|protein binding			breast(2)|ovary(1)	3					Almotriptan(DB00918)|Carbidopa(DB00190)|Clonazepam(DB01068)|Dopamine(DB00988)|Fluvoxamine(DB00176)|Ginkgo biloba(DB01381)|Imipramine(DB00458)|Isocarboxazid(DB01247)|Levodopa(DB01235)|Linezolid(DB00601)|Lorazepam(DB00186)|Moclobemide(DB01171)|Nicotine(DB00184)|Norepinephrine(DB00368)|Phenelzine(DB00780)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Pseudoephedrine(DB00852)|Rasagiline(DB01367)|Riboflavin(DB00140)|Rizatriptan(DB00953)|Selegiline(DB01037)|Sumatriptan(DB00669)|Testosterone(DB00624)|Tranylcypromine(DB00752)|Zolmitriptan(DB00315)	CTGAACTGCAGCCAGTGCATT	0.423000													5	17					0	0	0	0
PRAF2	11230	broad.mit.edu	37	X	48931479	48931479	+	Silent	SNP	G	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chrX:48931479G>A	uc004dmi.2	-	1	184	c.168C>T	c.(166-168)CTC>CTT	p.L56L	PRAF2_uc004dmh.2_5'Flank|PRAF2_uc011mmt.1_Intron	NM_007213	NP_009144	O60831	PRAF2_HUMAN	PRA1 domain family, member 2	56	Helical; (Potential).				L-glutamate transport|protein transport	endosome membrane|integral to membrane					0						CGGCGAGAGCGAGGCCGATGC	0.647000													19	24					0	0	0	0
GLRA4	441509	broad.mit.edu	37	X	102979135	102979135	+	Missense_Mutation	SNP	G	T	T			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chrX:102979135G>T	uc011mse.1	-	4	786	c.365C>A	c.(364-366)TCC>TAC	p.S122Y	GLRA4_uc010nou.2_Missense_Mutation_p.S122Y	NM_001024452	NP_001019623	Q5JXX5	GLRA4_HUMAN	glycine receptor, alpha 4 precursor	122	Extracellular (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity				0						GTCCAGCATGGAGGGATCGAG	0.527000													49	53					1.02067e-35	1.34964e-35	1	0
IGSF1	3547	broad.mit.edu	37	X	130409171	130409171	+	Missense_Mutation	SNP	G	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chrX:130409171G>C	uc004ewd.2	-	17	3512	c.3274C>G	c.(3274-3276)CCA>GCA	p.P1092A	IGSF1_uc004ewe.3_Missense_Mutation_p.P1086A|IGSF1_uc004ewf.2_Missense_Mutation_p.P1072A	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	1092	Extracellular (Potential).|Ig-like C2-type 11.				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						GTTGAGTCTGGCAGTTCCCCT	0.547000													7	132					0	0	0	0
MIR363	574031	broad.mit.edu	37	X	133303463	133303463	+	RNA	SNP	T	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chrX:133303463T>A	hsa-mir-363|MI0000764	-			c.20T>A																				0						CAAAATTGCATCGTGATCCAC	0.383000													22	29					0	0	0	0
ARHGAP4	393	broad.mit.edu	37	X	153175297	153175297	+	Missense_Mutation	SNP	T	C	C			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chrX:153175297T>C	uc004fjk.1	-	19	2354	c.2312A>G	c.(2311-2313)GAC>GGC	p.D771G	ARHGAP4_uc004fjj.1_Missense_Mutation_p.D122G|ARHGAP4_uc011mzf.1_Missense_Mutation_p.D748G|ARHGAP4_uc004fjl.1_Missense_Mutation_p.D811G|ARHGAP4_uc010nup.1_RNA	NM_001666	NP_001657	P98171	RHG04_HUMAN	Rho GTPase activating protein 4 isoform 2	771	SH3.				apoptosis|cytoskeleton organization|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|Rho protein signal transduction	cytosol|focal adhesion|nucleus	Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			central_nervous_system(1)	1	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCGCAGTACGTCCCCCCGCCG	0.701000													2	3					0	0	0	0
IRAK1	3654	broad.mit.edu	37	X	153284101	153284101	+	Silent	SNP	C	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chrX:153284101C>A	uc004fjs.1	-	5	757	c.678G>T	c.(676-678)GTG>GTT	p.V226V	IRAK1_uc004fjr.1_Silent_p.V226V|IRAK1_uc004fjt.1_Silent_p.V226V|IRAK1_uc010nur.2_Intron|IRAK1_uc004fju.2_Silent_p.V252V	NM_001569	NP_001560	P51617	IRAK1_HUMAN	interleukin-1 receptor-associated kinase 1	226	ATP (By similarity).|Protein kinase.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|lipopolysaccharide-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|protein autophosphorylation|protein oligomerization|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transmembrane receptor protein serine/threonine kinase signaling pathway	cytosol|endosome membrane|interleukin-1 receptor complex	ATP binding|NF-kappaB-inducing kinase activity|protein binding|protein heterodimerization activity|protein homodimerization activity|ubiquitin-protein ligase activity			lung(5)|ovary(2)|breast(1)|central_nervous_system(1)	9	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCGCCCGGTACACGCACCCAA	0.612000													51	70					1.66251e-12	2.12801e-12	1	0
EMD	2010	broad.mit.edu	37	X	153608360	153608360	+	Silent	SNP	T	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chrX:153608360T>A	uc004fkl.2	+	3	494	c.246T>A	c.(244-246)GCT>GCA	p.A82A		NM_000117	NP_000108	P50402	EMD_HUMAN	emerin	82	Interaction with F-actin (Probable).				cellular response to growth factor stimulus|muscle contraction|muscle organ development|negative regulation of catenin import into nucleus|negative regulation of fibroblast proliferation|positive regulation of protein export from nucleus|regulation of canonical Wnt receptor signaling pathway	endoplasmic reticulum|integral to membrane|microtubule|nuclear inner membrane|nuclear outer membrane	actin binding|beta-tubulin binding				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					AAGAGGACGCTTTACTCTACC	0.557000													63	78					0	0	0	0
GATAD2B	57459	broad.mit.edu	37	1	153790617	153790618	+	Frame_Shift_Ins	INS	-	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr1:153790617_153790618insA	uc001fdb.3	-	5	871_872	c.627_628insT	c.(625-630)ATTGTTfs	p.I209fs		NM_020699	NP_065750	Q8WXI9	P66B_HUMAN	GATA zinc finger domain containing 2B	209_210						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_lung(78;1.34e-32)|Lung NSC(65;1.04e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GATGGCTGAACAATAGATGCTG	0.475													---	---	---							
IVNS1ABP	10625	broad.mit.edu	37	1	185274695	185274696	+	Frame_Shift_Ins	INS	-	CT	CT			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr1:185274695_185274696insCT	uc001grl.2	-	8	1360_1361	c.737_738insAG	c.(736-738)AGTfs	p.S246fs	IVNS1ABP_uc001grj.2_5'UTR|IVNS1ABP_uc009wyj.2_Frame_Shift_Ins_p.S28fs|IVNS1ABP_uc009wyk.2_RNA	NM_006469	NP_006460	Q9Y6Y0	NS1BP_HUMAN	influenza virus NS1A binding protein	246	Sufficient for AHR interaction and signaling.				interspecies interaction between organisms|response to virus|RNA splicing|transcription from RNA polymerase III promoter	cytoplasm|cytoskeleton|spliceosomal complex|transcription factor complex				ovary(4)|central_nervous_system(1)	5						GGTCATCATCACTGCCAAACAC	0.416													---	---	---							
LRIT1	26103	broad.mit.edu	37	10	86001255	86001256	+	5'Flank	INS	-	GCCCAGCAA	GCCCAGCAA	rs142133495	by1000genomes	TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr10:86001255_86001256insGCCCAGCAA	uc001kcz.1	-						LRIT1_uc001kda.1_RNA	NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL							integral to endoplasmic reticulum membrane					0						CCGTCCCACCGGCCCAGCAAGC	0.653													---	---	---							
GALNT4	8693	broad.mit.edu	37	12	89919631	89919632	+	5'Flank	DEL	CC	-	-	rs67346689		TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr12:89919631_89919632delCC	uc001tbd.2	-						POC1B_uc001tba.2_5'Flank|POC1B_uc001tbb.2_5'Flank|POC1B_uc001tbc.2_Intron|POC1B_uc010sun.1_Intron|GALNT4_uc001tbe.2_Intron|GALNT4_uc010suo.1_Intron	NM_003774	NP_003765	Q8N4A0	GALT4_HUMAN	polypeptide N-acetylgalactosaminyltransferase 4						carbohydrate metabolic process	Golgi membrane|integral to membrane|perinuclear region of cytoplasm	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0						CAGGGAGGGACCCCCCCCACCT	0.668													---	---	---							
Unknown	0	broad.mit.edu	37	17	8102780	8102780	+	IGR	DEL	T	-	-			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr17:8102780delT								C17orf59 (9216 upstream) : AURKB (5270 downstream)																							CCCTGGCCTATTTTTTTTTTT	0.358													---	---	---							
CYTSB	92521	broad.mit.edu	37	17	20109115	20109115	+	Frame_Shift_Del	DEL	A	-	-			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr17:20109115delA	uc002gwq.2	+	4	1898	c.1753delA	c.(1753-1755)AAAfs	p.K585fs	CYTSB_uc010cqx.2_Frame_Shift_Del_p.K585fs|CYTSB_uc002gwr.2_Frame_Shift_Del_p.K585fs|CYTSB_uc002gws.2_Frame_Shift_Del_p.K585fs|CYTSB_uc002gwv.2_Frame_Shift_Del_p.K504fs|CYTSB_uc010vzf.1_Intron|CYTSB_uc002gww.2_Frame_Shift_Del_p.K361fs|CYTSB_uc002gwt.2_Frame_Shift_Del_p.K504fs|CYTSB_uc002gwu.2_Frame_Shift_Del_p.K504fs	NM_001033553	NP_001028725	Q5M775	CYTSB_HUMAN	spectrin domain with coiled-coils 1 NSP5b3b	585	Potential.					nucleus					0						AGAAATGTTGAAAGTAGCCCG	0.458													---	---	---							
Unknown	0	broad.mit.edu	37	20	32501243	32501243	+	IGR	DEL	C	-	-	rs143767841		TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr20:32501243delC								CHMP4B (59074 upstream) : RALY (80489 downstream)																							ctgtcagtttccccccccccc	0.269													---	---	---							
BAIAP2L2	80115	broad.mit.edu	37	22	38482353	38482394	+	In_Frame_Del	DEL	TGCGGGAGCGGGACTGGCCATCCCAGTACTCCGAGGGTGCTA	-	-	rs66500630	by1000genomes	TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr22:38482353_38482394delTGCGGGAGCGGGACTGGCCATCCCAGTACTCCGAGGGTGCTA	uc003auw.2	-	12	1466_1507	c.1322_1363delTAGCACCCTCGGAGTACTGGGATGGCCAGTCCCGCTCCCGCA	c.(1321-1365)ATAGCACCCTCGGAGTACTGGGATGGCCAGTCCCGCTCCCGCACC>ACC	p.IAPSEYWDGQSRSR441del	BAIAP2L2_uc003auv.2_RNA	NM_025045	NP_079321	Q6UXY1	BI2L2_HUMAN	BAI1-associated protein 2-like 2	441_454					filopodium assembly|signal transduction		cytoskeletal adaptor activity|SH3 domain binding			pancreas(1)	1	Melanoma(58;0.045)					CGGCTTGGGGTGCGGGAGCGGGACTGGCCATCCCAGTACTCCGAGGGTGCTATGGAGTTGCC	0.674													---	---	---							
SELT	51714	broad.mit.edu	37	3	150321023	150321032	+	5'Flank	DEL	GGCGCATTAC	-	-			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr3:150321023_150321032delGGCGCATTAC	uc011bnx.1	+						SERP1_uc003exz.2_5'Flank|uc003eye.1_5'Flank	NM_016275	NP_057359	P62341	SELT_HUMAN	selenoprotein T precursor						cell redox homeostasis|selenocysteine incorporation		selenium binding				0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			GGGCCGCGCAGGCGCATTACTGCTCCCCTC	0.662													---	---	---							
FAT1	2195	broad.mit.edu	37	4	187629576	187629580	+	Frame_Shift_Del	DEL	TTGTA	-	-			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr4:187629576_187629580delTTGTA	uc003izf.2	-	2	1590_1594	c.1402_1406delTACAA	c.(1402-1407)TACAAAfs	p.Y468fs	FAT1_uc010iso.1_Frame_Shift_Del_p.Y468fs	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	468_469	Extracellular (Potential).|Cadherin 4.				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						AAAAGCAGCTTTGTACGCTGTCTGG	0.473										HNSCC(5;0.00058)			---	---	---							
WRNIP1	56897	broad.mit.edu	37	6	2766468	2766469	+	Frame_Shift_Ins	INS	-	GGGG	GGGG	rs148900120	by1000genomes	TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr6:2766468_2766469insGGGG	uc003mtz.2	+	1	803_804	c.612_613insGGGG	c.(610-615)GGCGGGfs	p.G204fs	WRNIP1_uc003mua.2_Frame_Shift_Ins_p.G204fs	NM_020135	NP_064520	Q96S55	WRIP1_HUMAN	Werner helicase interacting protein isoform 1	204_205					DNA replication|DNA synthesis involved in DNA repair|regulation of DNA-dependent DNA replication initiation	mitochondrion|nucleus|perinuclear region of cytoplasm	ATP binding|ATPase activity|DNA binding|metal ion binding|protein binding			ovary(1)|pancreas(1)	2	Ovarian(93;0.0412)	all_hematologic(90;0.0895)				GGGCCAGTggcgggggccgccc	0.465													---	---	---							
Unknown	0	broad.mit.edu	37	6	29770021	29770021	+	IGR	DEL	A	-	-			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr6:29770021delA								HCG4 (9171 upstream) : HLA-G (24735 downstream)																							TAGGGGTGGGAAGAGTGATCC	0.532													---	---	---							
DOPEY1	23033	broad.mit.edu	37	6	83832654	83832656	+	In_Frame_Del	DEL	TTA	-	-			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr6:83832654_83832656delTTA	uc003pjs.1	+	12	1553_1555	c.1293_1295delTTA	c.(1291-1296)CCTTAT>CCT	p.Y433del	DOPEY1_uc011dyy.1_In_Frame_Del_p.Y424del|DOPEY1_uc010kbl.1_In_Frame_Del_p.Y424del	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	433					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		CCTTCGAACCTTATTATATGTGG	0.315													---	---	---							
DNAH11	8701	broad.mit.edu	37	7	21609805	21609806	+	Frame_Shift_Ins	INS	-	A	A			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr7:21609805_21609806insA	uc003svc.2	+	7	1344_1345	c.1313_1314insA	c.(1312-1314)AGAfs	p.R438fs		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	438	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TTCAACTATAGAAAAAAATTGG	0.391									Kartagener_syndrome				---	---	---							
ELN	2006	broad.mit.edu	37	7	73474233	73474250	+	In_Frame_Del	DEL	GGCGTGGCTCCTGGAGTT	-	-			TCGA-CN-5370-01A-01D-2012-08	TCGA-CN-5370-10A-01D-2013-08									Somatic	Phase_I	Capture				Illumina GAIIx	f4ca6755-68ca-4702-b08b-65005d31e9be	34dbe31b-1d26-47b3-b6f7-bad6d590e415	g.chr7:73474233_73474250delGGCGTGGCTCCTGGAGTT	uc003tzw.2	+	23	1541_1558	c.1450_1467delGGCGTGGCTCCTGGAGTT	c.(1450-1467)GGCGTGGCTCCTGGAGTTdel	p.GVAPGV496del	RFC2_uc011kfa.1_Intron|ELN_uc003tzn.2_In_Frame_Del_p.GVAPGV490del|ELN_uc003tzz.2_In_Frame_Del_p.GVAPGV409del|ELN_uc003tzo.2_In_Frame_Del_p.GVAPGV457del|ELN_uc003tzp.2_In_Frame_Del_p.GVAPGV401del|ELN_uc003tzq.2_In_Frame_Del_p.GVAPGV354del|ELN_uc003tzr.2_Intron|ELN_uc003tzs.2_In_Frame_Del_p.GVAPGV471del|ELN_uc003tzt.2_In_Frame_Del_p.GVAPGV495del|ELN_uc003tzu.2_In_Frame_Del_p.GVAPGV476del|ELN_uc003tzv.2_In_Frame_Del_p.GVAPGV461del|ELN_uc003tzx.2_In_Frame_Del_p.GVAPGV480del|ELN_uc011kff.1_In_Frame_Del_p.GVAPGV490del|ELN_uc003tzy.2_In_Frame_Del_p.GVAPGV466del	NM_000501	NP_001075224	P15502	ELN_HUMAN	elastin isoform a precursor	519_524	Ala-rich.				blood circulation|cell proliferation|organ morphogenesis|respiratory gaseous exchange	proteinaceous extracellular matrix	extracellular matrix constituent conferring elasticity|protein binding			ovary(3)|pancreas(2)	5		Lung NSC(55;0.159)			Rofecoxib(DB00533)	TCCTGGTGTCGGCGTGGCTCCTGGAGTTGGCGTGGCTC	0.472			T	PAX5	B-ALL		Supravalvular Aortic Stenosis|Cutis laxa |Williams-Beuren Syndrome						---	---	---							
