Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
PIK3CD	5293	broad.mit.edu	37	1	9783273	9783273	+	Silent	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:9783273C>G	uc001aqb.3	+	20	2725	c.2517C>G	c.(2515-2517)CTC>CTG	p.L839L	PIK3CD_uc010oaf.1_Silent_p.L838L|PIK3CD_uc001aqe.3_Silent_p.L863L	NM_005026	NP_005017	O00329	PK3CD_HUMAN	catalytic phosphatidylinositol 3-kinase delta	839	PI3K/PI4K.				phosphatidylinositol-mediated signaling|protein phosphorylation	phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(4)|skin(2)|central_nervous_system(1)	7	all_lung(157;0.222)	all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0231)|Colorectal(212;7.52e-08)|COAD - Colon adenocarcinoma(227;1.78e-05)|Kidney(185;0.000322)|KIRC - Kidney renal clear cell carcinoma(229;0.00114)|BRCA - Breast invasive adenocarcinoma(304;0.0021)|STAD - Stomach adenocarcinoma(132;0.00395)|READ - Rectum adenocarcinoma(331;0.0419)		ACATCCAACTCAACAAGAGCA	0.597000													5	136					0	0	0.014758	0	0
TMEM51	55092	broad.mit.edu	37	1	15541882	15541882	+	Missense_Mutation	SNP	T	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:15541882T>C	uc001avw.3	+	3	818	c.299T>C	c.(298-300)GTC>GCC	p.V100A	TMEM51_uc010obk.1_Missense_Mutation_p.V100A|TMEM51_uc001avz.2_Missense_Mutation_p.V100A|TMEM51_uc001avy.2_Missense_Mutation_p.V100A|TMEM51_uc001avx.2_Missense_Mutation_p.V100A	NM_001136216	NP_001129688	Q9NW97	TMM51_HUMAN	transmembrane protein 51	100						integral to membrane					0		Renal(390;0.00145)|Breast(348;0.00186)|Colorectal(325;0.00215)|all_lung(284;0.00459)|Lung NSC(340;0.0104)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;2.07e-06)|COAD - Colon adenocarcinoma(227;7.14e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000175)|KIRC - Kidney renal clear cell carcinoma(229;0.00141)|STAD - Stomach adenocarcinoma(313;0.00644)|READ - Rectum adenocarcinoma(331;0.0751)		CTGGCCCATGTCCAGCACCCG	0.657000													5	15					0	0	0.021553	0	0
MST1P2	11209	broad.mit.edu	37	1	16975030	16975030	+	RNA	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:16975030G>A	uc010och.1	+	7		c.1490G>A			MST1P2_uc001azk.2_RNA|MST1P2_uc001azl.3_RNA|MST1P2_uc009vox.2_RNA|MST1P2_uc001azm.3_RNA	NR_027504				Homo sapiens cDNA FLJ43241 fis, clone HEART1000010, weakly  similar to Hepatocyte growth factor-like protein precursor.												0						CTCGGTTCACGTTTACCTCCG	0.607000													4	81					0	0	0.029380	0	0
CROCC	9696	broad.mit.edu	37	1	17257074	17257074	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:17257074G>C	uc001azt.2	+	7	903	c.834G>C	c.(832-834)TGG>TGC	p.W278C	CROCC_uc009voy.1_Missense_Mutation_p.G17A|CROCC_uc009voz.1_Missense_Mutation_p.W41C	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	278					cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		AGGCGGCGTGGAGGCGCGAGG	0.662000													4	20					0	0	0.009096	0	0
EPHA8	2046	broad.mit.edu	37	1	22912997	22912997	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:22912997C>T	uc001bfx.1	+	4	973	c.848C>T	c.(847-849)TCA>TTA	p.S283L	EPHA8_uc001bfw.2_Missense_Mutation_p.S283L	NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	283	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		TTCTACAAGTCAGCCCCTGGG	0.672000													8	35					0	0	0.047766	0	0
NUDC	10726	broad.mit.edu	37	1	27272631	27272631	+	Nonsense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:27272631C>T	uc001bng.1	+	9	1071	c.955C>T	c.(955-957)CAA>TAA	p.Q319*	NUDC_uc001bnh.1_Nonsense_Mutation_p.Q376*|NUDC_uc009vsq.1_Nonsense_Mutation_p.Q293*	NM_006600	NP_006591	Q9Y266	NUDC_HUMAN	nuclear distribution gene C homolog	319					cell proliferation|cytokinesis|mitotic prometaphase|multicellular organismal development	cytosol|microtubule|nucleoplasm	protein binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;6.1e-51)|OV - Ovarian serous cystadenocarcinoma(117;2.87e-29)|Colorectal(126;5.74e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000281)|STAD - Stomach adenocarcinoma(196;0.000604)|KIRC - Kidney renal clear cell carcinoma(1967;0.000739)|READ - Rectum adenocarcinoma(331;0.0421)		GTTCATGGATCAACATCCGGA	0.478000													7	48					0	0	0.038147	0	0
NKAIN1	79570	broad.mit.edu	37	1	31656779	31656779	+	Missense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:31656779G>A	uc010ogd.1	-	4	362	c.356C>T	c.(355-357)CCT>CTT	p.P119L	NKAIN1_uc001bsn.2_Missense_Mutation_p.P75L|NKAIN1_uc010ogc.1_Missense_Mutation_p.P48L	NM_024522	NP_078798	Q4KMZ8	NKAI1_HUMAN	Na+/K+ transporting ATPase interacting 1	119	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(1)	1		Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)|Breast(348;0.141)|all_neural(195;0.146)|Medulloblastoma(700;0.151)		STAD - Stomach adenocarcinoma(196;0.0184)|READ - Rectum adenocarcinoma(331;0.148)		GTTCAGAACAGGTGTCACCAG	0.607000											OREG0004725	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	52					0	0	0.014758	0	0
THRAP3	9967	broad.mit.edu	37	1	36754830	36754830	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:36754830C>T	uc001cae.3	+	5	1434	c.1210C>T	c.(1210-1212)CGG>TGG	p.R404W	THRAP3_uc001caf.3_Missense_Mutation_p.R404W|THRAP3_uc001cag.1_Missense_Mutation_p.R404W	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3	404					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GAAGCCTTTTCGGGGCAGTCA	0.428000			T	USP6	aneurysmal bone cysts								17	69					0	0	0.033300	0	0
ST3GAL3	6487	broad.mit.edu	37	1	44363935	44363935	+	Silent	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:44363935C>T	uc001ckc.2	+	7	603	c.426C>T	c.(424-426)GTC>GTT	p.V142V	ST3GAL3_uc010okj.1_RNA|ST3GAL3_uc001cjz.2_Silent_p.V157V|ST3GAL3_uc001cka.2_Intron|ST3GAL3_uc001ckb.2_Silent_p.V211V|ST3GAL3_uc001ckd.2_Silent_p.V196V|ST3GAL3_uc001cke.2_Silent_p.V126V|ST3GAL3_uc001ckf.2_Silent_p.V180V|ST3GAL3_uc001ckg.2_Silent_p.V142V|ST3GAL3_uc001ckh.2_Intron|ST3GAL3_uc001cki.2_Intron|ST3GAL3_uc009vwv.2_Silent_p.V142V|ST3GAL3_uc001ckj.2_RNA|ST3GAL3_uc009vww.2_RNA|ST3GAL3_uc001ckk.2_Silent_p.V111V|ST3GAL3_uc009vwy.2_Silent_p.V48V|ST3GAL3_uc009vwx.2_RNA|ST3GAL3_uc001ckm.2_Silent_p.V141V|ST3GAL3_uc001ckl.2_Silent_p.V142V|ST3GAL3_uc009vwz.2_Intron|ST3GAL3_uc001ckn.2_RNA|ST3GAL3_uc001ckp.2_Silent_p.V141V|ST3GAL3_uc001cko.2_Silent_p.V126V|ST3GAL3_uc009vxa.2_5'UTR|ST3GAL3_uc001ckq.2_Silent_p.V126V|ST3GAL3_uc001ckr.2_Silent_p.V95V|ST3GAL3_uc009vxb.2_Intron	NM_006279	NP_006270	Q11203	SIAT6_HUMAN	sialyltransferase 6 isoform j	142	Lumenal (Potential).				protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	N-acetyllactosaminide alpha-2,3-sialyltransferase activity			ovary(3)	3	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0518)				TCTTGTCAGTCACCAAAGAGT	0.512000													4	70					0	0	0.014758	0	0
COL24A1	255631	broad.mit.edu	37	1	86342821	86342821	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:86342821C>G	uc001dlj.2	-	33	3056	c.3014G>C	c.(3013-3015)GGA>GCA	p.G1005A	COL24A1_uc001dli.2_Missense_Mutation_p.G141A|COL24A1_uc010osd.1_Missense_Mutation_p.G305A|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	1005	Collagen-like 8.				cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		GCCCATTTCTCCAGGAGGTCC	0.303000													12	13					0	0	0.024245	0	0
CLCC1	23155	broad.mit.edu	37	1	109490305	109490305	+	Silent	SNP	A	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:109490305A>G	uc001dwe.1	-	4	359	c.267T>C	c.(265-267)TAT>TAC	p.Y89Y	AKNAD1_uc010ovb.1_Intron|CLCC1_uc001dwf.1_Silent_p.Y89Y|CLCC1_uc001dwg.1_Silent_p.Y89Y|CLCC1_uc009wes.1_Silent_p.Y89Y|CLCC1_uc009wet.1_Silent_p.Y89Y|CLCC1_uc001dwh.1_Silent_p.Y89Y	NM_001048210	NP_001041675	Q96S66	CLCC1_HUMAN	Mid-1-related chloride channel 1 isoform 1	89						endoplasmic reticulum|Golgi apparatus|integral to membrane|nucleus				liver(1)	1		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.231)		TTTGACTTTCATAGTCTTCCC	0.308000													3	51					0	0	0.009096	0	0
DENND2C	163259	broad.mit.edu	37	1	115167965	115167965	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:115167965C>T	uc001efd.1	-	4	1343	c.641G>A	c.(640-642)CGT>CAT	p.R214H	DENND2C_uc001eez.2_RNA|DENND2C_uc001efc.1_Missense_Mutation_p.R214H	NM_198459	NP_940861	Q68D51	DEN2C_HUMAN	DENN/MADD domain containing 2C	214										skin(3)	3	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GAATGTCCTACGAGGTTTTGG	0.378000													13	80					0	0	0.020292	0	0
LOC200030	200030	broad.mit.edu	37	1	148344705	148344705	+	Silent	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:148344705C>G	uc001eqf.2	-	2	248	c.213G>C	c.(211-213)CTG>CTC	p.L71L	LOC200030_uc001eqe.2_Intron|LOC200030_uc001eqg.2_Intron|NBPF14_uc009wkf.1_Intron|uc001erd.3_Silent_p.L71L|uc001erc.3_Intron|uc010paj.1_Intron|uc010pau.1_5'Flank|uc010pav.1_Silent_p.L71L|uc010paw.1_Intron	NM_017940	NP_060410	Q86T75	NBPFB_HUMAN	hypothetical protein LOC55672	71	Potential.					cytoplasm					0						GCTCATTCCTCAGCATAAATT	0.542000													33	300					0	0	0.098360	0	0
SEMA4A	64218	broad.mit.edu	37	1	156132829	156132829	+	Missense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:156132829G>A	uc001fnl.2	+	10	1182	c.1078G>A	c.(1078-1080)GAA>AAA	p.E360K	SEMA4A_uc009wrq.2_Missense_Mutation_p.E360K|SEMA4A_uc001fnm.2_Missense_Mutation_p.E360K|SEMA4A_uc001fnn.2_Missense_Mutation_p.E228K|SEMA4A_uc001fno.2_Missense_Mutation_p.E360K	NM_022367	NP_071762	Q9H3S1	SEM4A_HUMAN	semaphorin B precursor	360	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)					GTTGAACAAAGAAACTTCACG	0.522000													35	51					0	0	0.069456	0	0
PPOX	5498	broad.mit.edu	37	1	161139704	161139704	+	Nonsense_Mutation	SNP	G	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:161139704G>T	uc001fyj.2	+	9	1167	c.877G>T	c.(877-879)GAG>TAG	p.E293*	PPOX_uc001fyn.2_Intron|PPOX_uc001fyg.2_Nonsense_Mutation_p.E293*|PPOX_uc001fyl.2_Nonsense_Mutation_p.E259*|PPOX_uc001fym.2_RNA|PPOX_uc001fyk.2_Nonsense_Mutation_p.E131*|PPOX_uc001fyh.2_Nonsense_Mutation_p.E131*|PPOX_uc010pkg.1_Nonsense_Mutation_p.E131*|PPOX_uc009wuc.1_Nonsense_Mutation_p.E131*|PPOX_uc010pkh.1_Intron|PPOX_uc001fyi.2_Nonsense_Mutation_p.E131*	NM_001122764	NP_001116236	P50336	PPOX_HUMAN	protoporphyrinogen oxidase	293					heme biosynthetic process	intrinsic to mitochondrial inner membrane|mitochondrial intermembrane space	flavin adenine dinucleotide binding|oxygen-dependent protoporphyrinogen oxidase activity			ovary(1)	1	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			AGTGCTCAGTGAGCTGCTCCC	0.547000									Porphyria_Variegata				22	64					7.16444e-05	7.99465e-05	0.091800	1	0
PTPN14	5784	broad.mit.edu	37	1	214557893	214557893	+	Silent	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:214557893G>A	uc001hkk.1	-	13	1576	c.1305C>T	c.(1303-1305)ATC>ATT	p.I435I	PTPN14_uc010pty.1_Silent_p.I336I	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	435					lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		ACGAGGGCACGATGATCGCGC	0.587000													8	221					0	0	0.058154	0	0
GNPAT	8443	broad.mit.edu	37	1	231398578	231398578	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:231398578C>T	uc001hup.3	+	4	754	c.548C>T	c.(547-549)CCA>CTA	p.P183L	GNPAT_uc009xfo.1_Missense_Mutation_p.P74L|GNPAT_uc009xfp.2_Missense_Mutation_p.P122L	NM_014236	NP_055051	O15228	GNPAT_HUMAN	glyceronephosphate O-acyltransferase	183					ether lipid biosynthetic process|fatty acid metabolic process|organ morphogenesis	peroxisomal matrix|peroxisomal membrane	glycerone-phosphate O-acyltransferase activity			ovary(3)|breast(1)	4	Breast(184;0.0871)	all_cancers(173;0.2)|Prostate(94;0.183)				TTGCCTGTGCCAGTTATAGCA	0.373000													4	60					0	0	0.014758	0	0
FMN2	56776	broad.mit.edu	37	1	240256018	240256018	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:240256018C>G	uc010pyd.1	+	1	834	c.609C>G	c.(607-609)ATC>ATG	p.I203M	FMN2_uc010pye.1_Missense_Mutation_p.I203M	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	203	Potential.|Gln-rich.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			AGCAGGCGATCCGCCTgcagc	0.423000													4	36					0	0	0.014758	0	0
SUV39H2	79723	broad.mit.edu	37	10	14944426	14944426	+	Missense_Mutation	SNP	A	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr10:14944426A>T	uc001inh.2	+	5	1024	c.968A>T	c.(967-969)GAT>GTT	p.D323V	SUV39H2_uc001ing.2_Missense_Mutation_p.D203V|SUV39H2_uc001ini.2_Missense_Mutation_p.D323V|SUV39H2_uc001inj.2_Missense_Mutation_p.D323V|DCLRE1C_uc010qbx.1_Intron	NM_024670	NP_078946	Q9H5I1	SUV92_HUMAN	suppressor of variegation 3-9 homolog 2	383			D -> H (in a breast cancer sample; somatic mutation).		cell cycle|cell differentiation|chromatin assembly or disassembly|chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin|chromosome, centromeric region|nucleus	histone methyltransferase activity (H3-K9 specific)|protein binding|zinc ion binding	p.D323H(2)		breast(2)|ovary(1)	3						ATATCTTCAGATTCTATTGAC	0.343000													9	11					0	0	0.058154	0	0
EPC1	80314	broad.mit.edu	37	10	32576027	32576027	+	Missense_Mutation	SNP	T	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr10:32576027T>C	uc001iwg.1	-	7	1421	c.1151A>G	c.(1150-1152)CAG>CGG	p.Q384R	EPC1_uc001iwi.3_Missense_Mutation_p.Q334R|EPC1_uc009xlt.2_Missense_Mutation_p.Q334R|EPC1_uc001iwh.1_Missense_Mutation_p.Q384R	NM_025209	NP_079485	Q9H2F5	EPC1_HUMAN	enhancer of polycomb 1	384					histone H2A acetylation|histone H4 acetylation|negative regulation of gene expression, epigenetic|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear membrane|Piccolo NuA4 histone acetyltransferase complex				ovary(3)|central_nervous_system(1)	4		Prostate(175;0.0199)				TATTTGTACCTGGGAGAGAGG	0.438000													8	73					0	0	0.047766	0	0
HSD17B7P2	158160	broad.mit.edu	37	10	38654432	38654432	+	Missense_Mutation	SNP	A	G	G	rs2257765		TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr10:38654432A>G	uc010qex.1	+	5	599	c.524A>G	c.(523-525)AAT>AGT	p.N175S	HSD17B7P2_uc001izq.2_RNA|HSD17B7P2_uc001izo.1_RNA|HSD17B7P2_uc001izp.1_Missense_Mutation_p.N173S					SubName: Full=cDNA FLJ60462, highly similar to 3-keto-steroid reductase (EC 1.1.1.270);												0						TCATCTCGCAATGCAAGGAAA	0.453000													3	53					0	0	0.004672	0	0
C10orf27	219793	broad.mit.edu	37	10	72541760	72541760	+	Nonsense_Mutation	SNP	G	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr10:72541760G>T	uc001jrj.1	-	4	464	c.74C>A	c.(73-75)TCA>TAA	p.S25*	C10orf27_uc010qjm.1_Nonsense_Mutation_p.S25*|C10orf27_uc009xqh.1_RNA|C10orf27_uc010qjn.1_Nonsense_Mutation_p.S25*|C10orf27_uc009xqi.1_RNA|C10orf27_uc010qjo.1_Nonsense_Mutation_p.S14*|C10orf27_uc009xqj.1_Nonsense_Mutation_p.S14*|C10orf27_uc010qjp.1_Nonsense_Mutation_p.S14*	NM_152710	NP_689923	Q96M53	SPATL_HUMAN	stromal protein associated with thymii and lymph	25					cell differentiation|multicellular organismal development|spermatogenesis	cytosol				skin(1)	1						CTTGCGCCCTGACTTCTTCTC	0.592000													26	38					4.7796e-09	5.67442e-09	0.099896	1	0
CDHR1	92211	broad.mit.edu	37	10	85965626	85965626	+	Silent	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr10:85965626C>T	uc001kcv.2	+	10	906	c.906C>T	c.(904-906)ATC>ATT	p.I302I	CDHR1_uc001kcw.2_Silent_p.I302I|CDHR1_uc009xst.2_Silent_p.I61I	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	302	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						CTGGAGCCATCTCCATCACTC	0.567000											OREG0020333	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	30					0	0	0.021553	0	0
PIPSL	266971	broad.mit.edu	37	10	95721030	95721030	+	Missense_Mutation	SNP	G	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr10:95721030G>T	uc009xuj.2	-	1	643	c.124C>A	c.(124-126)CAC>AAC	p.H42N		NR_002319				RecName: Full=Phosphatidylinositol-4-phosphate 5-kinase type-1 alpha;          Short=PtdIns(4)P-5-kinase alpha;          Short=PIP5KIalpha;          EC=2.7.1.68; AltName: Full=Phosphatidylinositol-4-phosphate 5-kinase type I alpha; AltName: Full=68 kDa type I phosphatidylinositol-4-phosphate 5-kinase alpha;												0						CCCACAGTGTGGGTAATGCCT	0.498000													3	34					6.4e-05	7.17241e-05	0.004672	1	0
MKI67	4288	broad.mit.edu	37	10	129902237	129902237	+	Missense_Mutation	SNP	T	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr10:129902237T>A	uc001lke.2	-	13	8062	c.7867A>T	c.(7867-7869)ACG>TCG	p.T2623S	MKI67_uc001lkf.2_Missense_Mutation_p.T2263S|MKI67_uc009yav.1_Missense_Mutation_p.T2198S|MKI67_uc009yaw.1_Missense_Mutation_p.T1773S	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	2623	14.|16 X 122 AA approximate repeats.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GATGTTTGCGTGAGCCTCTCA	0.502000													15	62					0	0	0.033300	0	0
PTDSS2	81490	broad.mit.edu	37	11	489708	489708	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr11:489708G>C	uc001lpj.2	+	10	1266	c.1090G>C	c.(1090-1092)GAG>CAG	p.E364Q		NM_030783	NP_110410	Q9BVG9	PTSS2_HUMAN	phosphatidylserine synthase 2	364	Cytoplasmic (Potential).					integral to membrane					0		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;2.76e-26)|Epithelial(43;2.56e-25)|OV - Ovarian serous cystadenocarcinoma(40;7.54e-20)|BRCA - Breast invasive adenocarcinoma(625;8.76e-05)|Lung(200;0.0407)|LUSC - Lung squamous cell carcinoma(625;0.0735)	Phosphatidylserine(DB00144)	GGCCATGCGTGAGATCTACGA	0.657000													3	5					0	0	0.009096	0	0
OR51E1	143503	broad.mit.edu	37	11	4674564	4674564	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr11:4674564C>T	uc001lzi.3	+	2	952	c.808C>T	c.(808-810)CGT>TGT	p.R270C		NM_152430	NP_689643	Q8TCB6	O51E1_HUMAN	olfactory receptor, family 51, subfamily E,	269	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(3)|pancreas(1)	4		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;7.37e-14)|GBM - Glioblastoma multiforme(2;2.85e-05)|BRCA - Breast invasive adenocarcinoma(625;0.00222)|LUSC - Lung squamous cell carcinoma(625;0.19)		TAGCAAGCGGCGTGACTCTCC	0.493000													19	43					0	0	0.038395	0	0
OR2D2	120776	broad.mit.edu	37	11	6912833	6912833	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr11:6912833C>T	uc010rau.1	-	1	899	c.899G>A	c.(898-900)AGG>AAG	p.R300K		NM_003700	NP_003691	Q9H210	OR2D2_HUMAN	olfactory receptor, family 2, subfamily D,	300	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		GGCTACTTTCCTCAGAGCTGC	0.458000													6	22					0	0	0.029380	0	0
IMMP1L	196294	broad.mit.edu	37	11	31477934	31477934	+	Splice_Site	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr11:31477934C>G	uc001msy.1	-	5	391	c.195_splice	c.e5-1	p.R65_splice	IMMP1L_uc001msz.1_Splice_Site_p.R65_splice|IMMP1L_uc009yjo.2_Splice_Site_p.R65_splice|IMMP1L_uc009yjp.2_Splice_Site	NM_144981	NP_659418	Q96LU5	IMP1L_HUMAN	IMP1 inner mitochondrial membrane						proteolysis	mitochondrial inner membrane	serine-type peptidase activity				0	Lung SC(675;0.225)					AATGTCACCTCTGAGGGGGAA	0.348000													6	29					0	0	0.029380	0	0
TTC17	55761	broad.mit.edu	37	11	43429072	43429072	+	Missense_Mutation	SNP	T	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr11:43429072T>G	uc001mxi.2	+	15	2023	c.2009T>G	c.(2008-2010)CTT>CGT	p.L670R	TTC17_uc001mxh.2_Missense_Mutation_p.L670R|TTC17_uc010rfj.1_Missense_Mutation_p.L613R|TTC17_uc001mxj.2_Missense_Mutation_p.L440R	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	670							binding			ovary(5)	5						CATTACGGCCTTCATCTTGAT	0.423000													11	29					0	0	0.093190	0	0
OR8H2	390151	broad.mit.edu	37	11	55872567	55872567	+	Nonsense_Mutation	SNP	G	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr11:55872567G>T	uc010riy.1	+	1	49	c.49G>T	c.(49-51)GGA>TGA	p.G17*		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	17	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					CATCCTTATGGGACTGACACT	0.408000										HNSCC(53;0.14)			40	84					2.20914e-33	2.67152e-33	0.042209	1	0
PYGM	5837	broad.mit.edu	37	11	64525261	64525261	+	Missense_Mutation	SNP	A	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr11:64525261A>G	uc001oax.3	-	5	1467	c.650T>C	c.(649-651)GTG>GCG	p.V217A	PYGM_uc001oay.3_Missense_Mutation_p.V129A	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	217					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	CTGTGTGTCCACCCACTTGGC	0.507000													22	21					0	0	0.076483	0	0
MAP4K2	5871	broad.mit.edu	37	11	64563777	64563777	+	Silent	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr11:64563777G>A	uc001obh.2	-	24	1811	c.1719C>T	c.(1717-1719)CCC>CCT	p.P573P	MAP4K2_uc001obg.2_RNA|MAP4K2_uc001obi.2_Silent_p.P565P	NM_004579	NP_004570	Q12851	M4K2_HUMAN	mitogen-activated protein kinase kinase kinase	573	CNH.				activation of JUN kinase activity|immune response|positive regulation of JNK cascade|vesicle targeting	basolateral plasma membrane|Golgi membrane|soluble fraction	ATP binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(1)|pancreas(1)	2						GGCGGTTGGTGGGGATGGAGA	0.453000													9	41					0	0	0.069234	0	0
SF3B2	10992	broad.mit.edu	37	11	65825538	65825538	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr11:65825538C>T	uc001ogy.1	+	8	831	c.791C>T	c.(790-792)TCT>TTT	p.S264F		NM_006842	NP_006833	Q13435	SF3B2_HUMAN	splicing factor 3B subunit 2	264					interspecies interaction between organisms	catalytic step 2 spliceosome|nucleoplasm|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(2)|breast(1)	3						GATGACCCCTCTGTGGGCCCC	0.458000													3	11					0	0	0.014758	0	0
BBS1	582	broad.mit.edu	37	11	66287093	66287093	+	Silent	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr11:66287093C>T	uc001oij.1	+	8	609	c.597C>T	c.(595-597)GTC>GTT	p.V199V	BBS1_uc001oii.1_Silent_p.V236V|BBS1_uc010rpf.1_RNA|BBS1_uc010rpg.1_Intron|BBS1_uc001oik.1_Silent_p.V123V|BBS1_uc001oil.1_Silent_p.V199V	NM_024649	NP_078925	Q8NFJ9	BBS1_HUMAN	Bardet-Biedl syndrome 1	199					nonmotile primary cilium assembly|photoreceptor cell maintenance|response to stimulus|retina homeostasis	BBSome|cilium membrane|cytoplasm	protein binding			ovary(1)	1						TGTAGACAGTCATCACCACCA	0.567000									Bardet-Biedl_syndrome				13	42					0	0	0.105934	0	0
LRP5	4041	broad.mit.edu	37	11	68181426	68181426	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr11:68181426C>T	uc001ont.2	+	12	2848	c.2773C>T	c.(2773-2775)CGC>TGC	p.R925C	LRP5_uc009ysg.2_Missense_Mutation_p.R335C	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	925	EGF-like 3.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity	p.R925P(1)		lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						CGGCGGCCACCGCTGCGGCTG	0.642000													4	25					0	0	0.014758	0	0
INTS4	92105	broad.mit.edu	37	11	77632453	77632453	+	Missense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr11:77632453G>A	uc001oys.2	-	14	1725	c.1697C>T	c.(1696-1698)TCA>TTA	p.S566L	INTS4_uc001oyt.2_RNA	NM_033547	NP_291025	Q96HW7	INT4_HUMAN	integrator complex subunit 4	566					snRNA processing	integrator complex	protein binding			ovary(2)	2	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		Epithelial(5;1.13e-46)|all cancers(3;8.92e-44)|BRCA - Breast invasive adenocarcinoma(5;8.4e-26)|OV - Ovarian serous cystadenocarcinoma(8;1.05e-23)			GGTGTGATCTGAGAACAATGC	0.408000													21	62					0	0	0.049695	0	0
Unknown	0	broad.mit.edu	37	11	89385731	89385731	+	RNA	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr11:89385731C>G	uc001pcz.2	+	1		c.18C>G								Homo sapiens mRNA for hypothetical protein, partial cds, clone:Hsa11-digit35-15-11-R.																		ATTGTACCATCTTTCAGTGCT	0.338000													4	109					0	0	0.009096	0	0
MMP27	64066	broad.mit.edu	37	11	102575359	102575359	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr11:102575359C>G	uc001phd.1	-	2	273	c.250G>C	c.(250-252)GAG>CAG	p.E84Q		NM_022122	NP_071405	Q9H306	MMP27_HUMAN	matrix metalloproteinase 27 precursor	84					collagen catabolic process|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3	all_cancers(8;0.000843)|all_epithelial(12;0.00362)|Lung NSC(15;0.21)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0509)|Lung(13;0.0696)|LUSC - Lung squamous cell carcinoma(19;0.13)|all cancers(10;0.176)	BRCA - Breast invasive adenocarcinoma(274;0.0151)		TTCATGATCTCAAGGGTGTTT	0.463000													14	63					0	0	0.020292	0	0
MMP12	4321	broad.mit.edu	37	11	102742413	102742413	+	Missense_Mutation	SNP	C	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr11:102742413C>A	uc001phk.2	-	4	581	c.536G>T	c.(535-537)GGA>GTA	p.G179V		NM_002426	NP_002417	P39900	MMP12_HUMAN	matrix metalloproteinase 12 preproprotein	179					positive regulation of epithelial cell proliferation involved in wound healing|proteolysis|wound healing, spreading of epidermal cells	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding				0		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.014)	Acetohydroxamic Acid(DB00551)	GGCTAGGATTCCACCTTTGCC	0.438000													7	5					2.7689e-08	3.24285e-08	0.029380	1	0
Unknown	0	broad.mit.edu	37	11	124135155	124135155	+	IGR	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr11:124135155G>A								OR8G2 (38845 upstream) : OR8D1 (44582 downstream)																							TTTTGCTATTGCAGAGTGTCA	0.463000													5	120					0	0	0.021553	0	0
LTBR	4055	broad.mit.edu	37	12	6494466	6494466	+	Silent	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr12:6494466C>T	uc001qny.1	+	4	561	c.393C>T	c.(391-393)TTC>TTT	p.F131F	LTBR_uc010sfc.1_Silent_p.F112F|LTBR_uc001qnz.1_Silent_p.F126F	NM_002342	NP_002333	P36941	TNR3_HUMAN	lymphotoxin beta receptor precursor	131	Extracellular (Potential).|TNFR-Cys 3.				apoptosis|cellular response to mechanical stimulus|interspecies interaction between organisms|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane	protein binding|receptor activity			lung(2)	2						CGGGAATGTTCTGTGCTGCCT	0.642000													8	54					0	0	0.038147	0	0
GPR19	2842	broad.mit.edu	37	12	12815011	12815011	+	Silent	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr12:12815011G>C	uc001rar.3	-	2	565	c.372C>G	c.(370-372)CTC>CTG	p.L124L	GPR19_uc001raq.2_Silent_p.L124L	NM_006143	NP_006134	Q15760	GPR19_HUMAN	G protein-coupled receptor 19	124	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Prostate(47;0.0802)		BRCA - Breast invasive adenocarcinoma(232;0.048)		TGGTGAACTGGAGCAGGACGA	0.517000													25	50					0	0	0.091800	0	0
PLBD1	79887	broad.mit.edu	37	12	14664479	14664479	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr12:14664479C>G	uc001rcc.1	-	7	1172	c.1011G>C	c.(1009-1011)AAG>AAC	p.K337N		NM_024829	NP_079105	Q6P4A8	PLBL1_HUMAN	phospholipase B domain containing 1	337					lipid catabolic process	extracellular region	hydrolase activity				0						CTGCCCACCTCTTGCCACTAT	0.433000													19	187					0	0	0.062417	0	0
KCNJ8	3764	broad.mit.edu	37	12	21919223	21919223	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr12:21919223C>G	uc001rff.2	-	3	1047	c.709G>C	c.(709-711)GAA>CAA	p.E237Q		NM_004982	NP_004973	Q15842	IRK8_HUMAN	potassium inwardly-rectifying channel J8	237	Cytoplasmic (By similarity).					voltage-gated potassium channel complex					0					Levosimendan(DB00922)	ACCTCCCCTTCAGGTGTAGTT	0.488000													43	61					0	0	0.039052	0	0
ARID2	196528	broad.mit.edu	37	12	46211629	46211629	+	Missense_Mutation	SNP	A	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr12:46211629A>G	uc001ros.1	+	5	595	c.595A>G	c.(595-597)ATC>GTC	p.I199V	ARID2_uc001ror.2_Missense_Mutation_p.I199V	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	199					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		AGATCCTAAAATCATCACTTT	0.348000													14	36					0	0	0.038395	0	0
C12orf68	387856	broad.mit.edu	37	12	48578079	48578079	+	Silent	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr12:48578079G>C	uc001rrj.2	+	1	714	c.174G>C	c.(172-174)GTG>GTC	p.V58V		NM_001013635	NP_001013657	Q52MB2	CL068_HUMAN	hypothetical protein LOC387856	58	Potential.					cytoplasm				central_nervous_system(1)	1						TTGAGGACGTGAGGGCCATGA	0.642000													26	44					0	0	0.083992	0	0
MLL2	8085	broad.mit.edu	37	12	49428024	49428024	+	Silent	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr12:49428024C>T	uc001rta.3	-	38	10566	c.10566G>A	c.(10564-10566)CAG>CAA	p.Q3522Q		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	3522	Gln-rich.				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						TCAGCTGCATCTGTAGGAGCT	0.552000			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			47	89					0	0	0.048971	0	0
FMNL3	91010	broad.mit.edu	37	12	50040737	50040737	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr12:50040737C>T	uc001ruv.1	-	25	3161	c.2927G>A	c.(2926-2928)CGG>CAG	p.R976Q	FMNL3_uc001ruw.1_Missense_Mutation_p.R925Q|FMNL3_uc001rut.1_Missense_Mutation_p.R542Q|FMNL3_uc001ruu.1_Missense_Mutation_p.R826Q	NM_175736	NP_783863	Q8IVF7	FMNL3_HUMAN	formin-like 3 isoform 1	976					actin cytoskeleton organization		actin binding|Rho GTPase binding			breast(2)|pancreas(2)	4						GGCCTGGCGCCGCCTCAACTC	0.572000													6	56					0	0	0.021553	0	0
AQP2	359	broad.mit.edu	37	12	50344816	50344816	+	Missense_Mutation	SNP	A	C	C	rs104894331		TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr12:50344816A>C	uc001rvn.2	+	1	293	c.203A>C	c.(202-204)AAC>ACC	p.N68T		NM_000486	NP_000477	P41181	AQP2_HUMAN	aquaporin 2	68	Cytoplasmic (Potential).|NPA 1.		N -> S (in ANDI).		cellular response to copper ion|cellular response to mercury ion|excretion	apical plasma membrane|integral to membrane|transport vesicle membrane	glycerol transmembrane transporter activity|water channel activity			ovary(2)	2						GCCCACATCAACCCTGCCGTG	0.662000													8	34					0	0	0.033300	0	0
LRIG3	121227	broad.mit.edu	37	12	59284455	59284455	+	Silent	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr12:59284455G>C	uc001sqr.2	-	4	753	c.507C>G	c.(505-507)CTC>CTG	p.L169L	LRIG3_uc009zqh.2_Silent_p.L109L|LRIG3_uc010ssh.1_RNA	NM_153377	NP_700356	Q6UXM1	LRIG3_HUMAN	leucine-rich repeats and immunoglobulin-like	169	LRR 5.					integral to membrane				skin(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;1.17e-18)			ACAGATATTTGAGCTGTAGGG	0.338000													15	55					0	0	0.028581	0	0
BEST3	144453	broad.mit.edu	37	12	70070807	70070807	+	Silent	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr12:70070807C>G	uc001svg.2	-	7	983	c.756G>C	c.(754-756)CTG>CTC	p.L252L	BEST3_uc001svd.1_Silent_p.L252L|BEST3_uc001sve.1_Intron|BEST3_uc001svf.2_Intron|BEST3_uc010stm.1_Silent_p.L146L|BEST3_uc001svh.2_Intron	NM_032735	NP_116124	Q8N1M1	BEST3_HUMAN	vitelliform macular dystrophy 2-like 3 isoform	252	Extracellular (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0	Breast(13;2.31e-06)|Esophageal squamous(21;0.187)		Lung(24;0.000278)|OV - Ovarian serous cystadenocarcinoma(12;0.0019)|STAD - Stomach adenocarcinoma(21;0.00694)			GGCGTCCAATCAGGCACGCAA	0.512000													12	73					0	0	0.093190	0	0
MYF6	4618	broad.mit.edu	37	12	81101787	81101787	+	Missense_Mutation	SNP	G	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr12:81101787G>T	uc001szf.1	+	1	342	c.289G>T	c.(289-291)GCC>TCC	p.A97S		NM_002469	NP_002460	P23409	MYF6_HUMAN	myogenic factor 6	97	Basic motif.				muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						CCGGCGAAAAGCCGCCACCCT	0.632000													12	44					3.07112e-06	3.48686e-06	0.080935	1	0
CABP1	9478	broad.mit.edu	37	12	121098880	121098880	+	Missense_Mutation	SNP	A	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr12:121098880A>G	uc001tyu.2	+	5	1013	c.946A>G	c.(946-948)ACC>GCC	p.T316A	CABP1_uc001tyv.2_Missense_Mutation_p.T173A|CABP1_uc001tyw.2_Missense_Mutation_p.T113A|CABP1_uc001tyx.2_Missense_Mutation_p.T158A	NM_001033677	NP_001028849	Q9NZU7	CABP1_HUMAN	calcium binding protein 1 isoform 3	316	EF-hand 3.|2.					cell cortex|cell junction|Golgi apparatus|perinuclear region of cytoplasm|postsynaptic density|postsynaptic membrane	calcium ion binding|calcium-dependent protein binding|enzyme inhibitor activity|protein binding			central_nervous_system(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CTAGTTTGACACCAATGGTGA	0.542000													21	57					0	0	0.055883	0	0
TMEM120B	144404	broad.mit.edu	37	12	122209422	122209422	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr12:122209422C>T	uc001ubc.3	+	8	790	c.646C>T	c.(646-648)CGC>TGC	p.R216C	TMEM120B_uc009zxh.2_Missense_Mutation_p.R216C	NM_001080825	NP_001074294	A0PK00	T120B_HUMAN	transmembrane protein 120B	216						integral to membrane					0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;5.75e-05)|Epithelial(86;0.000128)|BRCA - Breast invasive adenocarcinoma(302;0.238)		TCAGAAGTTTCGCAACCAGTT	0.488000													12	79					0	0	0.093190	0	0
DHX37	57647	broad.mit.edu	37	12	125467075	125467075	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr12:125467075C>T	uc001ugy.2	-	3	470	c.371G>A	c.(370-372)CGC>CAC	p.R124H		NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	124							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		GTGATACATGCGGTTCCCAGT	0.567000													6	355					0	0	0.029380	0	0
NALCN	259232	broad.mit.edu	37	13	101777027	101777027	+	Silent	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr13:101777027G>A	uc001vox.1	-	18	2313	c.2124C>T	c.(2122-2124)CGC>CGT	p.R708R		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	708	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AAACAGACTTGCGAAGCTGAA	0.328000													13	69					0	0	0.028581	0	0
ERCC5	2073	broad.mit.edu	37	13	103527899	103527899	+	Missense_Mutation	SNP	C	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr13:103527899C>A	uc001vpw.2	+	15	3650	c.3207C>A	c.(3205-3207)AGC>AGA	p.S1069R		NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	1069	Nuclear localization signal (Potential).				negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					AGTCATCAAGCCTGAAAAGAA	0.413000			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				7	116					2.7689e-08	3.24285e-08	0.029380	1	0
LIG4	3981	broad.mit.edu	37	13	108863389	108863389	+	Missense_Mutation	SNP	T	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr13:108863389T>G	uc001vqn.2	-	2	501	c.228A>C	c.(226-228)GAA>GAC	p.E76D	LIG4_uc001vqo.2_Missense_Mutation_p.E76D|LIG4_uc010agg.1_Missense_Mutation_p.E9D|LIG4_uc010agf.2_Missense_Mutation_p.E76D|LIG4_uc001vqp.2_Missense_Mutation_p.E76D	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	76					cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					TTCTCTCTCTTTCTAGCTGAG	0.353000								NHEJ					19	93					0	0	0.038395	0	0
OR11H6	122748	broad.mit.edu	37	14	20692813	20692813	+	Missense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr14:20692813G>A	uc010tlc.1	+	1	945	c.945G>A	c.(943-945)ATG>ATA	p.M315I		NM_001004480	NP_001004480	Q8NGC7	O11H6_HUMAN	olfactory receptor, family 11, subfamily H,	315	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(95;0.00108)		Epithelial(56;1.75e-06)|all cancers(55;1.22e-05)	GBM - Glioblastoma multiforme(265;0.0143)		ACAAAGACATGAAAGATGCTC	0.393000													19	68					0	0	0.069288	0	0
LRRC16B	90668	broad.mit.edu	37	14	24525915	24525915	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr14:24525915G>C	uc001wlj.2	+	12	1107	c.950G>C	c.(949-951)CGA>CCA	p.R317P		NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	317	LRR 3.									ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		ATTTCCCCTCGAGGTACTCGC	0.597000													8	26					0	0	0.047766	0	0
ADCY4	196883	broad.mit.edu	37	14	24787690	24787690	+	Nonsense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr14:24787690G>A	uc001wov.2	-	25	3172	c.3166C>T	c.(3166-3168)CAG>TAG	p.Q1056*	ADCY4_uc001wow.2_Nonsense_Mutation_p.Q1056*|ADCY4_uc010toh.1_Nonsense_Mutation_p.Q742*|ADCY4_uc001wox.2_Nonsense_Mutation_p.Q1056*|ADCY4_uc001woy.2_Nonsense_Mutation_p.Q1056*	NM_139247	NP_640340	Q8NFM4	ADCY4_HUMAN	adenylate cyclase 4	1056	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding|protein binding			ovary(1)|lung(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(265;0.0192)		GTGCAGAGCTGCCCTTTGCCT	0.542000													9	29					0	0	0.047766	0	0
DDHD1	80821	broad.mit.edu	37	14	53558534	53558534	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr14:53558534C>G	uc001xai.2	-	4	1488	c.1258G>C	c.(1258-1260)GAC>CAC	p.D420H	DDHD1_uc001xaj.2_Missense_Mutation_p.D427H|DDHD1_uc001xah.2_Missense_Mutation_p.D420H|DDHD1_uc001xag.2_Missense_Mutation_p.D2H	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	420					lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					CTTCCTTGGTCCATTTTCTGC	0.363000													9	63					0	0	0.058154	0	0
ARID4A	5926	broad.mit.edu	37	14	58831088	58831088	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr14:58831088G>C	uc001xdp.2	+	20	2535	c.2281G>C	c.(2281-2283)GAA>CAA	p.E761Q	ARID4A_uc001xdo.2_Missense_Mutation_p.E761Q|ARID4A_uc001xdq.2_Missense_Mutation_p.E761Q|ARID4A_uc010apg.1_Missense_Mutation_p.E439Q	NM_002892	NP_002883	P29374	ARI4A_HUMAN	retinoblastoma-binding protein 1 isoform I	761					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	transcriptional repressor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|lung(1)	6						CCTGAAGTTAGAAGTTGGAGA	0.333000													33	59					0	0	0.054565	0	0
SYNE2	23224	broad.mit.edu	37	14	64596563	64596563	+	Missense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr14:64596563G>A	uc001xgm.2	+	75	14313	c.14083G>A	c.(14083-14085)GAA>AAA	p.E4695K	SYNE2_uc001xgl.2_Missense_Mutation_p.E4695K|SYNE2_uc010apy.2_Missense_Mutation_p.E1080K|SYNE2_uc010apz.1_Missense_Mutation_p.E587K	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	4695	Potential.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		ACTAAGAGATGAAGGGGAGAG	0.443000													7	43					0	0	0.038147	0	0
DCAF4	26094	broad.mit.edu	37	14	73425480	73425480	+	Silent	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr14:73425480C>T	uc001xng.2	+	14	1675	c.1455C>T	c.(1453-1455)GTC>GTT	p.V485V	DCAF4_uc001xnj.2_Silent_p.V479V|DCAF4_uc010ttr.1_Silent_p.V464V|DCAF4_uc001xnh.2_Silent_p.V385V|DCAF4_uc010tts.1_Silent_p.V425V|DCAF4_uc010ttt.1_Silent_p.V271V|DCAF4_uc001xni.2_Silent_p.V315V	NM_015604	NP_056419	Q8WV16	DCAF4_HUMAN	DDB1 and CUL4 associated factor 4 isoform 1	485						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)|skin(1)	3						TCATGGCTGTCGGGCAGGACC	0.607000													4	64					0	0	0.009096	0	0
PSEN1	5663	broad.mit.edu	37	14	73678482	73678482	+	Missense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr14:73678482G>A	uc001xnr.2	+	10	1245	c.961G>A	c.(961-963)GAA>AAA	p.E321K	PSEN1_uc001xnv.2_Missense_Mutation_p.E317K|PSEN1_uc010ark.2_Missense_Mutation_p.E317K|PSEN1_uc001xnt.1_RNA|PSEN1_uc001xnu.2_RNA	NM_000021	NP_000012	P49768	PSN1_HUMAN	presenilin 1 isoform I-467	321	Cytoplasmic (Potential).				amyloid precursor protein catabolic process|anti-apoptosis|beta-amyloid metabolic process|cell-cell adhesion|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|smooth endoplasmic reticulum calcium ion homeostasis	apical plasma membrane|axon|cell cortex|cell surface|centrosome|ciliary rootlet|dendritic shaft|endoplasmic reticulum membrane|gamma-secretase complex|Golgi membrane|growth cone|integral to plasma membrane|kinetochore|lysosomal membrane|membrane raft|mitochondrial inner membrane|neuromuscular junction|neuronal cell body|nuclear outer membrane|perinuclear region of cytoplasm|rough endoplasmic reticulum|smooth endoplasmic reticulum|Z disc	aspartic-type endopeptidase activity|beta-catenin binding|cadherin binding|calcium channel activity|PDZ domain binding	p.E321*(1)		breast(1)|kidney(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.075)		TGAAGGCACAGAAAGGGAGTC	0.418000													20	70					0	0	0.069288	0	0
VIPAR	63894	broad.mit.edu	37	14	77919688	77919688	+	Silent	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr14:77919688G>A	uc001xtt.1	-	4	488	c.150C>T	c.(148-150)GAC>GAT	p.D50D	VIPAR_uc001xtu.1_Silent_p.D50D|VIPAR_uc010tvj.1_Silent_p.D50D|VIPAR_uc001xtv.1_Silent_p.D50D	NM_022067	NP_071350	Q9H9C1	VIPAR_HUMAN	hypothetical protein LOC63894	50					endosome to lysosome transport|intracellular protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	early endosome|late endosome|recycling endosome	protein binding			central_nervous_system(1)	1						GGTCATCATCGTCATCATCAT	0.517000													90	171					0	0	0.048971	0	0
WARS	7453	broad.mit.edu	37	14	100820164	100820164	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr14:100820164C>T	uc001yhf.1	-	5	669	c.585G>A	c.(583-585)ATG>ATA	p.M195I	WARS_uc001yhe.1_Missense_Mutation_p.M1I|WARS_uc001yhg.1_Missense_Mutation_p.M195I|WARS_uc001yhh.1_Missense_Mutation_p.M195I|WARS_uc001yhi.1_Missense_Mutation_p.M154I|WARS_uc001yhj.1_Missense_Mutation_p.M154I|WARS_uc001yhk.1_Missense_Mutation_p.M154I|WARS_uc001yhl.1_Missense_Mutation_p.M195I	NM_173701	NP_776049	P23381	SYWC_HUMAN	tryptophanyl-tRNA synthetase isoform a	195					angiogenesis|negative regulation of cell proliferation|regulation of angiogenesis|tryptophanyl-tRNA aminoacylation	cytosol|soluble fraction	ATP binding|protein binding|tryptophan-tRNA ligase activity			breast(1)	1		all_cancers(154;0.00223)|all_lung(585;2.48e-06)|all_epithelial(191;0.000564)|Melanoma(154;0.152)			L-Tryptophan(DB00150)	CGTCATCCGTCATCTGGATGA	0.527000													25	37					0	0	0.037714	0	0
AHNAK2	113146	broad.mit.edu	37	14	105418840	105418840	+	Missense_Mutation	SNP	T	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr14:105418840T>C	uc010axc.1	-	7	3068	c.2948A>G	c.(2947-2949)GAC>GGC	p.D983G	AHNAK2_uc001ypx.2_Missense_Mutation_p.D883G	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	983						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CAGGGACAGGTCCCCCTCCAG	0.622000													40	222					0	0	0.045515	0	0
AHNAK2	113146	broad.mit.edu	37	14	105418845	105418845	+	Silent	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr14:105418845C>T	uc010axc.1	-	7	3063	c.2943G>A	c.(2941-2943)GAG>GAA	p.E981E	AHNAK2_uc001ypx.2_Silent_p.E881E	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	981						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			ACAGGTCCCCCTCCAGCCACG	0.622000													42	221					0	0	0.045515	0	0
ADAM6	8755	broad.mit.edu	37	14	106653374	106653374	+	RNA	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr14:106653374C>T	uc010tyt.1	-	973		c.23503G>A								Parts of antibodies, mostly variable regions.												0						CAGTGTTTCTCACACAGTAAT	0.532000													14	28					0	0	0.020292	0	0
C15orf2	23742	broad.mit.edu	37	15	24923174	24923174	+	Nonsense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr15:24923174C>G	uc001ywo.2	+	1	2634	c.2160C>G	c.(2158-2160)TAC>TAG	p.Y720*		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	720					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CCAAGAAGTACCTCCCATTTT	0.527000													5	193					0	0	0.014758	0	0
GABRB3	2562	broad.mit.edu	37	15	26793032	26793032	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr15:26793032C>T	uc001zaz.2	-	9	1472	c.1330G>A	c.(1330-1332)GAT>AAT	p.D444N	GABRB3_uc010uae.1_Missense_Mutation_p.D359N|GABRB3_uc001zba.2_Missense_Mutation_p.D444N|GABRB3_uc001zbb.2_Missense_Mutation_p.D500N	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	444	Cytoplasmic (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	GCATTCACATCGGTTAGATCA	0.458000													6	68					0	0	0.021553	0	0
GABRB3	2562	broad.mit.edu	37	15	26866676	26866676	+	Silent	SNP	A	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr15:26866676A>G	uc001zaz.2	-	4	388	c.246T>C	c.(244-246)TAT>TAC	p.Y82Y	GABRB3_uc010uae.1_5'UTR|GABRB3_uc001zba.2_Silent_p.Y82Y|GABRB3_uc001zbb.2_Silent_p.Y138Y|GABRB3_uc001zbc.2_RNA	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	82	Extracellular (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	TGGTTAAGGTATAATCCTGGG	0.453000													10	47					0	0	0.058154	0	0
GCNT3	9245	broad.mit.edu	37	15	59911513	59911513	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr15:59911513C>G	uc002age.2	+	3	1525	c.1076C>G	c.(1075-1077)TCT>TGT	p.S359C	GCNT3_uc002agd.2_Missense_Mutation_p.S359C	NM_004751	NP_004742	O95395	GCNT3_HUMAN	glucosaminyl (N-acetyl) transferase 3, mucin	359	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane|membrane fraction	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity|N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)	2						GACATGACTTCTATTGCCAGG	0.562000													29	89					0	0	0.034045	0	0
LINS1	55180	broad.mit.edu	37	15	101110021	101110021	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr15:101110021C>G	uc002bwe.2	-	8	1987	c.1696G>C	c.(1696-1698)GAC>CAC	p.D566H	LINS1_uc002bwd.2_Missense_Mutation_p.D153H|LINS1_uc002bwf.2_Missense_Mutation_p.D566H|LINS1_uc002bwg.2_Missense_Mutation_p.D566H|LINS1_uc002bwh.2_Missense_Mutation_p.D566H	NM_001040614	NP_001035704	Q8NG48	LINES_HUMAN	lines homolog 1	566											0	Lung NSC(78;0.0018)|all_lung(78;0.00223)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.00095)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)			GAGCTTTGGTCTTGGACAAGT	0.448000													7	49					0	0	0.038147	0	0
ADCY9	115	broad.mit.edu	37	16	4165289	4165289	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr16:4165289G>C	uc002cvx.2	-	2	694	c.155C>G	c.(154-156)TCT>TGT	p.S52C		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	52	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						GCTGCAGCTAGAGGAGATGCT	0.662000													6	45					0	0	0.029380	0	0
TEKT5	146279	broad.mit.edu	37	16	10788238	10788238	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr16:10788238C>G	uc002czz.1	-	1	565	c.493G>C	c.(493-495)GAG>CAG	p.E165Q		NM_144674	NP_653275	Q96M29	TEKT5_HUMAN	tektin 5	165	Potential.				microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2						TTCTGGTTCTCAGTCAGAAGC	0.607000													36	224					0	0	0.086207	0	0
RUNDC2A	84127	broad.mit.edu	37	16	12136830	12136830	+	Silent	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr16:12136830C>T	uc002dbw.1	+	5	386	c.324C>T	c.(322-324)ATC>ATT	p.I108I		NM_032167	NP_115543	Q9HA26	RUN2A_HUMAN	RUN domain containing 2A	108	RUN.									ovary(1)	1						TGCGCCACATCGCCTCAGACG	0.662000			T	CIITA	PMBL|Hodgkin Lymphona|								12	25					0	0	0.080935	0	0
USP31	57478	broad.mit.edu	37	16	23117737	23117737	+	Silent	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr16:23117737G>C	uc002dll.2	-	3	843	c.843C>G	c.(841-843)CTC>CTG	p.L281L		NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	281					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		GCGCTTGAAAGAGTTCTTGTA	0.388000													4	24					0	0	0.009096	0	0
ZKSCAN2	342357	broad.mit.edu	37	16	25255471	25255471	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr16:25255471C>T	uc002dod.3	-	6	2023	c.1616G>A	c.(1615-1617)CGA>CAA	p.R539Q	ZKSCAN2_uc010vcl.1_Missense_Mutation_p.R335Q	NM_001012981	NP_001012999	Q63HK3	ZKSC2_HUMAN	zinc finger with KRAB and SCAN domains 2	539					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|breast(1)	4				GBM - Glioblastoma multiforme(48;0.0378)		GCCGCACTCTCGAAGCTGTTC	0.498000													32	39					0	0	0.037714	0	0
CCDC135	84229	broad.mit.edu	37	16	57758736	57758736	+	Missense_Mutation	SNP	C	T	T	rs114195136	byFrequency	TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr16:57758736C>T	uc002emi.2	+	12	1836	c.1747C>T	c.(1747-1749)CGG>TGG	p.R583W	CCDC135_uc002emj.2_Missense_Mutation_p.R583W|CCDC135_uc002emk.2_Missense_Mutation_p.R518W	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	583						cytoplasm				central_nervous_system(1)	1						GTCAAACCCCCGGCCCATTGT	0.607000													7	19					0	0	0.029380	0	0
TXNL4B	54957	broad.mit.edu	37	16	72122968	72122968	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr16:72122968C>G	uc002fca.2	-	3	513	c.202G>C	c.(202-204)GTT>CTT	p.V68L	TXNL4B_uc010cgl.2_RNA|TXNL4B_uc010vmn.1_Missense_Mutation_p.V68L|TXNL4B_uc010vmo.1_Missense_Mutation_p.V68L	NM_017853	NP_060323	Q9NX01	TXN4B_HUMAN	thioredoxin-like 4B	68					mitosis|mRNA processing|RNA splicing	spliceosomal complex				ovary(1)	1						TGTGTATAAACTGCAGTTTGG	0.383000													31	29					0	0	0.045705	0	0
GLG1	2734	broad.mit.edu	37	16	74516967	74516967	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr16:74516967C>G	uc002fcy.3	-	10	1677	c.1627G>C	c.(1627-1629)GAA>CAA	p.E543Q	GLG1_uc002fcx.2_Missense_Mutation_p.E543Q|GLG1_uc002fcw.3_Missense_Mutation_p.E532Q|GLG1_uc002fcz.3_Intron	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3	543	Extracellular (Potential).|Cys-rich GLG1 8.					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						AGACGGTGTTCACAGTCTTCT	0.413000													53	61					0	0	0.048971	0	0
GLG1	2734	broad.mit.edu	37	16	74517022	74517022	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr16:74517022C>T	uc002fcy.3	-	10	1622	c.1572G>A	c.(1570-1572)ATG>ATA	p.M524I	GLG1_uc002fcx.2_Missense_Mutation_p.M524I|GLG1_uc002fcw.3_Missense_Mutation_p.M513I|GLG1_uc002fcz.3_Intron	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3	524	Extracellular (Potential).|Cys-rich GLG1 7.					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						ACGACAAGATCCTAGCCATTA	0.403000													36	55					0	0	0.064281	0	0
CDH13	1012	broad.mit.edu	37	16	83636197	83636197	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr16:83636197G>C	uc002fgx.2	+	8	1219	c.1099G>C	c.(1099-1101)GAG>CAG	p.E367Q	CDH13_uc010vns.1_Missense_Mutation_p.E414Q|CDH13_uc010vnt.1_Missense_Mutation_p.E113Q|CDH13_uc010vnu.1_Missense_Mutation_p.E328Q	NM_001257	NP_001248	P55290	CAD13_HUMAN	cadherin 13 preproprotein	367	Cadherin 3.		E -> Q (in a patient with amyotrophic lateral sclerosis).		adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)		CACCAAGAAAGAGGTAAACCC	0.473000													15	119					0	0	0.024245	0	0
MBTPS1	8720	broad.mit.edu	37	16	84108318	84108318	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr16:84108318C>G	uc002fhi.2	-	12	1979	c.1477G>C	c.(1477-1479)GAG>CAG	p.E493Q	MBTPS1_uc002fhh.2_5'UTR	NM_003791	NP_003782	Q14703	MBTP1_HUMAN	membrane-bound transcription factor site-1	493	Lumenal (Potential).				cholesterol metabolic process|proteolysis	endoplasmic reticulum lumen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	serine-type endopeptidase activity			ovary(2)	2						TAGGGACACTCAGTCAGATCT	0.438000													4	34					0	0	0.009096	0	0
ZNF594	84622	broad.mit.edu	37	17	5086862	5086862	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr17:5086862C>G	uc010cla.1	-	2	846	c.690G>C	c.(688-690)CAG>CAC	p.Q230H		NM_032530	NP_115919	Q96JF6	ZN594_HUMAN	zinc finger protein 594	230	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3						TGTGGATTCTCTGGTGCAGGA	0.438000													11	94					0	0	0.093190	0	0
MPDU1	9526	broad.mit.edu	37	17	7487225	7487225	+	Silent	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr17:7487225G>C	uc002ghw.2	+	1	261	c.45G>C	c.(43-45)CCG>CCC	p.P15P	MPDU1_uc010vub.1_5'UTR|MPDU1_uc002ghx.2_Silent_p.P15P|MPDU1_uc010vuc.1_Silent_p.P15P	NM_004870	NP_004861	O75352	MPU1_HUMAN	mannose-P-dolichol utilization defect 1	15					dolichol-linked oligosaccharide biosynthetic process|protein folding	endoplasmic reticulum membrane|integral to membrane|mitochondrion	protein binding			central_nervous_system(1)	1						TGCTCGTGCCGATTCTTTTAC	0.532000													9	149					0	0	0.058154	0	0
CHD3	1107	broad.mit.edu	37	17	7796815	7796815	+	Missense_Mutation	SNP	G	C	C	rs150799852		TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr17:7796815G>C	uc002gje.2	+	5	871	c.721G>C	c.(721-723)GCC>CCC	p.A241P	CHD3_uc002gjd.2_Missense_Mutation_p.A300P|CHD3_uc002gjf.2_Missense_Mutation_p.A241P|CHD3_uc002gjg.1_Missense_Mutation_p.A73P	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	241					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				CGGACCCCCCGCCCTTCCACC	0.498000													5	17					0	0	0.020292	0	0
NTN1	9423	broad.mit.edu	37	17	8926373	8926373	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr17:8926373C>T	uc002glw.3	+	2	790	c.683C>T	c.(682-684)TCG>TTG	p.S228L		NM_004822	NP_004813	O95631	NET1_HUMAN	netrin 1 precursor	228	Laminin N-terminal.				apoptosis|axon guidance		protein binding				0						GGGCGGCCCTCGGCGCACGAC	0.687000													4	6					0	0	0.009096	0	0
ELAC2	60528	broad.mit.edu	37	17	12898357	12898357	+	Nonsense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr17:12898357G>A	uc002gnz.3	-	20	1926	c.1831C>T	c.(1831-1833)CAG>TAG	p.Q611*	ELAC2_uc002gnu.3_Nonsense_Mutation_p.Q8*|ELAC2_uc002gnv.3_Nonsense_Mutation_p.Q239*|ELAC2_uc002gnw.3_Nonsense_Mutation_p.Q269*|ELAC2_uc002gnx.3_Nonsense_Mutation_p.Q371*|ELAC2_uc010vvo.1_Nonsense_Mutation_p.Q409*|ELAC2_uc010vvp.1_Nonsense_Mutation_p.Q592*|ELAC2_uc010vvq.1_Nonsense_Mutation_p.Q610*|ELAC2_uc010vvr.1_Nonsense_Mutation_p.Q571*	NM_018127	NP_060597	Q9BQ52	RNZ2_HUMAN	elaC homolog 2 isoform 1	611					tRNA processing	nucleus	endonuclease activity|metal ion binding|protein binding				0						GCCCCTTCCTGAAGGCATTTG	0.438000									Hereditary_Prostate_Cancer				14	170					0	0	0.020292	0	0
ATAD5	79915	broad.mit.edu	37	17	29171008	29171008	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr17:29171008G>C	uc002hfs.1	+	5	2665	c.2319G>C	c.(2317-2319)TTG>TTC	p.L773F	ATAD5_uc002hft.1_Missense_Mutation_p.L670F	NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	773					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				TTCAGTGTTTGAATGATGTGC	0.289000													20	88					0	0	0.076483	0	0
ACACA	31	broad.mit.edu	37	17	35600460	35600460	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr17:35600460C>G	uc002hnm.2	-	22	2838	c.2647G>C	c.(2647-2649)GAG>CAG	p.E883Q	ACACA_uc002hnk.2_Missense_Mutation_p.E805Q|ACACA_uc002hnl.2_Missense_Mutation_p.E825Q|ACACA_uc002hnn.2_Missense_Mutation_p.E883Q|ACACA_uc002hno.2_Missense_Mutation_p.E920Q|ACACA_uc010cuz.2_Missense_Mutation_p.E883Q	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	883					acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	ATCAATCGCTCTACCCAGTCT	0.388000													5	117					0	0	0.014758	0	0
KRTAP1-3	81850	broad.mit.edu	37	17	39190875	39190875	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr17:39190875C>G	uc002hvv.2	-	1	233	c.199G>C	c.(199-201)GAG>CAG	p.E67Q		NM_030966	NP_112228	Q8IUG1	KRA13_HUMAN	keratin associated protein 1-3	77			Missing (in allele KAP1.9).			extracellular region|keratin filament	structural constituent of epidermis				0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			CAGCTGGTCTCACAGCAGCTT	0.617000													15	56					0	0	0.028581	0	0
ZNF652	22834	broad.mit.edu	37	17	47388722	47388722	+	Missense_Mutation	SNP	C	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr17:47388722C>A	uc002iov.3	-	5	1725	c.1261G>T	c.(1261-1263)GAT>TAT	p.D421Y	ZNF652_uc002iow.2_Missense_Mutation_p.D421Y|ZNF652_uc002iou.3_RNA	NM_001145365	NP_001138837	Q9Y2D9	ZN652_HUMAN	zinc finger protein 652	421	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1	all_cancers(4;6.81e-14)|Breast(4;4.97e-29)|all_epithelial(4;1.53e-17)		BRCA - Breast invasive adenocarcinoma(1;3.1e-14)|Epithelial(5;2.92e-06)|all cancers(6;3.15e-05)			ATGTTGAAATCCTTGCCACAC	0.438000													10	89					7.48243e-07	8.57018e-07	0.058154	1	0
BPTF	2186	broad.mit.edu	37	17	65941593	65941593	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr17:65941593C>T	uc002jgf.2	+	21	6830	c.6769C>T	c.(6769-6771)CCA>TCA	p.P2257S	BPTF_uc002jge.2_Missense_Mutation_p.P2383S|BPTF_uc002jgg.2_Missense_Mutation_p.P57S|BPTF_uc002jgh.2_5'Flank	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2383					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			AACCCTGCCACCAGCTCAGTC	0.398000													9	28					0	0	0.047766	0	0
RECQL5	9400	broad.mit.edu	37	17	73654526	73654526	+	Nonsense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr17:73654526C>T	uc010dgl.2	-	7	1157	c.1001G>A	c.(1000-1002)TGG>TAG	p.W334*	RECQL5_uc010dgk.2_Nonsense_Mutation_p.W307*|RECQL5_uc002jpb.1_Nonsense_Mutation_p.W334*|RECQL5_uc002joz.3_Nonsense_Mutation_p.W334*|RECQL5_uc002jpa.3_Nonsense_Mutation_p.W334*	NM_004259	NP_004250	O94762	RECQ5_HUMAN	RecQ protein-like 5 isoform 1	334	Helicase C-terminal.				DNA recombination|DNA repair	cytoplasm|nuclear membrane|nucleolus|nucleoplasm	ATP binding|ATP-dependent helicase activity|DNA helicase activity|nucleic acid binding			kidney(3)	3	all_cancers(13;2.73e-08)|Breast(9;6.04e-09)|all_epithelial(9;6.79e-09)		all cancers(21;1.15e-06)|Epithelial(20;2.19e-06)|Lung(188;0.101)|LUSC - Lung squamous cell carcinoma(166;0.112)			GGCAATATTCCAATGGGCGAC	0.537000								Other_identified_genes_with_known_or_suspected_DNA_repair_function					20	109					0	0	0.049695	0	0
TNRC6C	57690	broad.mit.edu	37	17	76045615	76045615	+	Missense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr17:76045615G>A	uc002jud.2	+	4	1072	c.472G>A	c.(472-474)GAG>AAG	p.E158K	TNRC6C_uc002juf.2_Missense_Mutation_p.E158K|TNRC6C_uc002jue.2_Missense_Mutation_p.E158K	NM_018996	NP_061869	Q9HCJ0	TNR6C_HUMAN	trinucleotide repeat containing 6C isoform 2	158	Sufficient for interaction with argonaute family proteins.				gene silencing by RNA|regulation of translation		nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			GCTGCCACAAGAGAGCACAGA	0.478000													39	64					0	0	0.074837	0	0
GCDH	2639	broad.mit.edu	37	19	13008605	13008605	+	Missense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr19:13008605G>A	uc002mvq.2	+	11	1248	c.1171G>A	c.(1171-1173)GGG>AGG	p.G391R	GCDH_uc010xms.1_3'UTR|GCDH_uc002mvp.2_Missense_Mutation_p.G391R|GCDH_uc010xmt.1_Missense_Mutation_p.G225R|GCDH_uc010xmu.1_Missense_Mutation_p.G347R	NM_000159	NP_000150	Q92947	GCDH_HUMAN	glutaryl-Coenzyme A dehydrogenase isoform a	391	FAD (By similarity).				lysine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|glutaryl-CoA dehydrogenase activity|protein binding				0						CATGCTGGGGGGGAATGGGAT	0.602000													42	25					0	0	0.104719	0	0
CAPNS1	826	broad.mit.edu	37	19	36640737	36640737	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr19:36640737C>T	uc002odj.2	+	11	960	c.803C>T	c.(802-804)TCC>TTC	p.S268F	CAPNS1_uc002odi.1_3'UTR|CAPNS1_uc002odk.2_Missense_Mutation_p.S268F|CAPNS1_uc002odl.2_Missense_Mutation_p.S268F	NM_001749	NP_001740	P04632	CPNS1_HUMAN	calpain, small subunit 1	268	EF-hand 5.			WLQLTMYS -> VRTPILGYGCLGGPHPSALHTSSELQSPS SYFASRPWVRAKGLVLLGFPVLTLHPPLPSGCS (in Ref. 7; AAH11903).	positive regulation of cell proliferation	cytoplasm|plasma membrane	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity				0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			ACTATGTATTCCTGAACTGGA	0.622000													11	72					0	0	0.020292	0	0
APOC1	341	broad.mit.edu	37	19	45422486	45422486	+	Nonstop_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr19:45422486G>C	uc002pac.1	+	5	503	c.251G>C	c.(250-252)TGA>TCA	p.*84S	APOC1_uc002pad.1_Nonstop_Mutation_p.*84S|APOC1_uc002pae.1_Nonstop_Mutation_p.*84S|APOC1_uc002paf.1_RNA	NM_001645	NP_001636	P02654	APOC1_HUMAN	apolipoprotein C-I precursor	84					cholesterol efflux|chylomicron remnant clearance|high-density lipoprotein particle remodeling|lipoprotein metabolic process|negative regulation of cholesterol transport|negative regulation of fatty acid biosynthetic process|negative regulation of lipoprotein lipase activity|negative regulation of phosphatidylcholine catabolic process|negative regulation of receptor-mediated endocytosis|negative regulation of very-low-density lipoprotein particle clearance|phospholipid efflux|positive regulation of cholesterol esterification|very-low-density lipoprotein particle assembly|very-low-density lipoprotein particle clearance	chylomicron|endoplasmic reticulum|high-density lipoprotein particle|very-low-density lipoprotein particle	fatty acid binding|phosphatidylcholine binding|phosphatidylcholine-sterol O-acyltransferase activator activity|phospholipase inhibitor activity				0	Lung NSC(12;0.0018)|all_lung(12;0.00481)	Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00327)|Epithelial(262;0.174)		ATTGACTCATGAGGACCTGAA	0.547000													3	160					0	0	0.004672	0	0
ZC3H4	23211	broad.mit.edu	37	19	47593271	47593271	+	Missense_Mutation	SNP	T	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr19:47593271T>C	uc002pga.3	-	5	706	c.668A>G	c.(667-669)GAG>GGG	p.E223G	ZC3H4_uc002pgb.1_RNA	NM_015168	NP_055983	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	223							nucleic acid binding|zinc ion binding			skin(4)|ovary(2)	6		all_cancers(25;3.3e-08)|all_epithelial(76;2.28e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.0889)		OV - Ovarian serous cystadenocarcinoma(262;5.76e-05)|all cancers(93;7.69e-05)|Epithelial(262;0.00354)|GBM - Glioblastoma multiforme(486;0.0372)		CTGGTTCAGCTCTTTGGTGAA	0.602000													8	55					0	0	0.038147	0	0
SIGLEC10	89790	broad.mit.edu	37	19	51920033	51920033	+	Missense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr19:51920033G>A	uc002pwo.2	-	3	1209	c.593C>T	c.(592-594)TCA>TTA	p.S198L	SIGLEC10_uc002pwp.2_Intron|SIGLEC10_uc002pwq.2_Intron|SIGLEC10_uc002pwr.2_Missense_Mutation_p.S198L|SIGLEC10_uc010ycy.1_Missense_Mutation_p.S198L|SIGLEC10_uc010ycz.1_Missense_Mutation_p.S150L|SIGLEC10_uc010eow.2_5'UTR|SIGLEC10_uc002pws.1_Intron	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	198	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		GCTGAGCACTGAGAAGTGGGA	0.592000													9	34					0	0	0.047766	0	0
SIGLEC14	100049587	broad.mit.edu	37	19	52149138	52149138	+	Silent	SNP	G	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr19:52149138G>T	uc002pxf.3	-	3	717	c.597C>A	c.(595-597)ACC>ACA	p.T199T		NM_001098612	NP_001092082	Q08ET2	SIG14_HUMAN	sialic acid binding Ig-like lectin 14 precursor	199	Ig-like C2-type 1.|Extracellular (Potential).				cell adhesion	integral to membrane|plasma membrane	protein binding|sugar binding			ovary(1)	1		all_neural(266;0.0299)		GBM - Glioblastoma multiforme(134;0.000965)|OV - Ovarian serous cystadenocarcinoma(262;0.0195)		TGGGGGTGAGGGTGAGCTCCG	0.627000													5	29					0.000602214	0.000663457	0.014758	1	0
PPP2R1A	5518	broad.mit.edu	37	19	52723005	52723005	+	Missense_Mutation	SNP	T	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr19:52723005T>A	uc002pyp.2	+	10	1349	c.1190T>A	c.(1189-1191)ATC>AAC	p.I397N	PPP2R1A_uc010ydk.1_Missense_Mutation_p.I342N|PPP2R1A_uc002pyq.2_Missense_Mutation_p.I218N	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	397	PP2A subunit B binding.|HEAT 10.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		GTGATTGGCATCCGGCAGCTG	0.577000			Mis		clear cell ovarian carcinoma								11	78					0	0	0.105934	0	0
ZNF160	90338	broad.mit.edu	37	19	53589517	53589517	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr19:53589517G>C	uc010eqk.2	-	4	429	c.13C>G	c.(13-15)CAG>GAG	p.Q5E	ZNF160_uc002qaq.3_Missense_Mutation_p.Q5E|ZNF160_uc002qar.3_Missense_Mutation_p.Q5E|ZNF160_uc002qas.3_Missense_Mutation_p.Q5E	NM_001102603	NP_001096073	Q9HCG1	ZN160_HUMAN	zinc finger protein 160	5					hemopoiesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(134;0.02)		CACTTTACCTGAGTAAGGGCC	0.428000													7	61					0	0	0.038147	0	0
BIRC8	112401	broad.mit.edu	37	19	53793351	53793351	+	Missense_Mutation	SNP	G	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr19:53793351G>T	uc002qbk.2	-	1	1525	c.277C>A	c.(277-279)CAA>AAA	p.Q93K		NM_033341	NP_203127	Q96P09	BIRC8_HUMAN	baculoviral IAP repeat-containing 8	93					apoptosis		zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(134;0.00304)		TTGGTAGTTTGTACCAGAGCT	0.373000													22	114					3.62473e-10	4.343e-10	0.062417	1	0
LILRP2	79166	broad.mit.edu	37	19	55221457	55221457	+	RNA	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr19:55221457G>A	uc002qgs.1	+	1		c.1857G>A			LILRP2_uc002qgt.1_RNA	NR_003061				Homo sapiens leukocyte immunoglobulin-like receptor pseudogene 2 (LILRP2), non-coding RNA.												0						TGTACAAGGAGGGGGGACATG	0.662000													11	30					0	0	0.080935	0	0
PXDN	7837	broad.mit.edu	37	2	1647149	1647149	+	Missense_Mutation	SNP	A	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:1647149A>T	uc002qxa.2	-	19	4007	c.3943T>A	c.(3943-3945)TGC>AGC	p.C1315S		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1315					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CCTTCACAGCAGTCCTGCCAC	0.602000													6	56					0	0	0.038147	0	0
ROCK2	9475	broad.mit.edu	37	2	11332586	11332586	+	Missense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:11332586G>A	uc002rbd.1	-	31	4389	c.3940C>T	c.(3940-3942)CCT>TCT	p.P1314S		NM_004850	NP_004841	O75116	ROCK2_HUMAN	Rho-associated, coiled-coil containing protein	1314	PH.|Phorbol-ester/DAG-type.				axon guidance|cytokinesis|intracellular signal transduction	cytosol|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|structural molecule activity			stomach(2)|skin(2)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.137)|OV - Ovarian serous cystadenocarcinoma(76;0.162)		CCTTTGCAAGGTGCTATAATC	0.353000													9	80					0	0	0.058154	0	0
PREB	10113	broad.mit.edu	37	2	27354887	27354887	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:27354887G>C	uc002rix.1	-	7	1243	c.990C>G	c.(988-990)TTC>TTG	p.F330L	PREB_uc002riy.1_Missense_Mutation_p.F258L|PREB_uc002riz.1_RNA|PREB_uc002rja.1_Missense_Mutation_p.F272L	NM_013388	NP_037520	Q9HCU5	PREB_HUMAN	prolactin regulatory element binding protein	330	Cytoplasmic (Potential).|WD 3.				COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|nucleus	DNA binding|guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCTGGAGAGAGAAAGCTATGT	0.547000													25	125					0	0	0.099896	0	0
ABCG8	64241	broad.mit.edu	37	2	44073355	44073355	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:44073355C>T	uc002rtq.2	+	3	317	c.227C>T	c.(226-228)ACA>ATA	p.T76I	ABCG8_uc010yoa.1_Missense_Mutation_p.T76I	NM_022437	NP_071882	Q9H221	ABCG8_HUMAN	ATP-binding cassette sub-family G member 8	76	ABC transporter.|Cytoplasmic (Potential).				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				ATGCCCTGGACATCTCCCAGC	0.537000													10	81					0	0	0.058154	0	0
MOGS	7841	broad.mit.edu	37	2	74688914	74688914	+	Missense_Mutation	SNP	G	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:74688914G>T	uc010ffj.2	-	4	2165	c.2002C>A	c.(2002-2004)CCC>ACC	p.P668T	MOGS_uc010ffh.2_Missense_Mutation_p.P393T|MOGS_uc010yrt.1_Missense_Mutation_p.P549T|MOGS_uc010ffi.2_Missense_Mutation_p.P562T	NM_006302	NP_006293	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase isoform 1	668	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|membrane fraction	mannosyl-oligosaccharide glucosidase activity				0						CCCTGAGGGGGCCTGGGCTTC	0.582000													4	115					0.00909568	0.00989488	0.009096	1	0
Unknown	0	broad.mit.edu	37	2	89475820	89475820	+	RNA	SNP	G	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:89475820G>T	uc010ytr.1	-	28		c.3661C>A			uc002stl.2_Intron					Parts of antibodies, mostly variable regions.																		TGAGGAAATTGTGTAGCTTGC	0.502000													5	230					1.024e-07	1.18857e-07	0.014758	1	0
AFF3	3899	broad.mit.edu	37	2	100623769	100623769	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:100623769C>T	uc002tag.2	-	5	564	c.328G>A	c.(328-330)GAA>AAA	p.E110K	AFF3_uc002taf.2_Missense_Mutation_p.E135K|AFF3_uc010fiq.1_Missense_Mutation_p.E110K|AFF3_uc010yvr.1_Missense_Mutation_p.E264K|AFF3_uc002tah.1_Missense_Mutation_p.E135K|AFF3_uc010fir.1_Missense_Mutation_p.E187K|AFF3_uc002tai.2_Missense_Mutation_p.E32K	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	110					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						ACAAAATGTTCATCGATCTTG	0.468000													17	32					0	0	0.033300	0	0
SPOPL	339745	broad.mit.edu	37	2	139308479	139308479	+	Silent	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:139308479G>A	uc002tvh.2	+	4	607	c.207G>A	c.(205-207)CTG>CTA	p.L69L		NM_001001664	NP_001001664	Q6IQ16	SPOPL_HUMAN	speckle-type POZ protein-like	69	MATH.					nucleus		p.L69L(1)		skin(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0296)		TTAGGTGCCTGAGGGTAAACC	0.299000													10	63					0	0	0.093190	0	0
ZEB2	9839	broad.mit.edu	37	2	145147383	145147383	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:145147383C>T	uc002tvu.2	-	10	3760	c.3280G>A	c.(3280-3282)GAG>AAG	p.E1094K	ZEB2_uc002tvv.2_Missense_Mutation_p.E1088K|ZEB2_uc010zbm.1_Missense_Mutation_p.E1065K|ZEB2_uc010fnp.2_Intron	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	1094	Glu-rich (acidic).					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		TCGCGCGCCTCGCGCTCCGCC	0.617000													8	62					0	0	0.038147	0	0
HOXD10	3236	broad.mit.edu	37	2	176982180	176982180	+	Missense_Mutation	SNP	G	T	T	rs148563899		TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:176982180G>T	uc002ukj.2	+	1	689	c.619G>T	c.(619-621)GGC>TGC	p.G207C		NM_002148	NP_002139	P28358	HXD10_HUMAN	homeobox D10	207						nucleus	sequence-specific DNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		GCCCGTGAGCGGCCAGGAGCC	0.652000													7	41					8.12818e-05	8.99288e-05	0.029380	1	0
TTN	7273	broad.mit.edu	37	2	179604131	179604131	+	Missense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:179604131G>A	uc010zfh.1	-	46	13540	c.13316C>T	c.(13315-13317)ACA>ATA	p.T4439I	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.T4372I|TTN_uc010zfj.1_Missense_Mutation_p.T4247I|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			CACTAAAGGTGTATGTATCAT	0.423000													8	69					0	0	0.058154	0	0
TTN	7273	broad.mit.edu	37	2	179641600	179641600	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:179641600C>T	uc010zfg.1	-	28	5215	c.4991G>A	c.(4990-4992)CGG>CAG	p.R1664Q	TTN_uc010zfh.1_Missense_Mutation_p.R1618Q|TTN_uc010zfi.1_Missense_Mutation_p.R1618Q|TTN_uc010zfj.1_Missense_Mutation_p.R1618Q|TTN_uc002unb.2_Missense_Mutation_p.R1664Q|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1664							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.R1618Q(1)		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)			ATATGTCCCCCGTGGGATGAT	0.458000													8	31					0	0	0.038147	0	0
STK17B	9262	broad.mit.edu	37	2	197004445	197004445	+	Silent	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:197004445G>A	uc002utk.2	-	7	1059	c.735C>T	c.(733-735)CTC>CTT	p.L245L	STK17B_uc010fsh.2_Silent_p.L245L	NM_004226	NP_004217	O94768	ST17B_HUMAN	serine/threonine kinase 17B	245	Protein kinase.				apoptosis|induction of apoptosis|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity			lung(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.141)			GAGAAATATTGAGGTATGTTT	0.348000													15	65					0	0	0.028581	0	0
SGOL2	151246	broad.mit.edu	37	2	201435772	201435772	+	Splice_Site	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:201435772G>C	uc002uvw.2	+	7	817	c.704_splice	c.e7-1	p.E235_splice	SGOL2_uc010zhd.1_Splice_Site_p.E235_splice|SGOL2_uc010zhe.1_Splice_Site_p.E235_splice	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1						cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4						TTTCTTAATAGAAAGCCATTC	0.358000													3	35					0	0	0.004672	0	0
KIAA1486	57624	broad.mit.edu	37	2	226446723	226446723	+	Missense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:226446723G>A	uc002voe.2	+	4	765	c.590G>A	c.(589-591)CGA>CAA	p.R197Q	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_5'UTR	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	197										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		AAACCGAAGCGAAATCCGAAC	0.502000													36	129					0	0	0.069456	0	0
TRIP12	9320	broad.mit.edu	37	2	230723835	230723835	+	Nonsense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:230723835G>C	uc002vpw.1	-	3	663	c.554C>G	c.(553-555)TCA>TGA	p.S185*	TRIP12_uc002vpx.1_Nonsense_Mutation_p.S227*|TRIP12_uc002vpy.1_Intron|TRIP12_uc010zlz.1_RNA|TRIP12_uc010fxh.1_Nonsense_Mutation_p.S185*	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	185					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		AGCTTTGGCTGAGGTGGCTGA	0.522000													16	25					0	0	0.024245	0	0
COL6A3	1293	broad.mit.edu	37	2	238267881	238267881	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:238267881C>G	uc002vwl.2	-	19	6607	c.6322G>C	c.(6322-6324)GAA>CAA	p.E2108Q	COL6A3_uc002vwo.2_Missense_Mutation_p.E1902Q|COL6A3_uc010znj.1_Missense_Mutation_p.E1501Q	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2108	Triple-helical region.|Collagen-like 2.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		AGTCCAATTTCTCCTACTTCG	0.408000													11	67					0	0	0.069234	0	0
COL6A3	1293	broad.mit.edu	37	2	238274445	238274445	+	Missense_Mutation	SNP	C	G	G	rs113251155		TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:238274445C>G	uc002vwl.2	-	12	6019	c.5734G>C	c.(5734-5736)GAG>CAG	p.E1912Q	COL6A3_uc002vwo.2_Missense_Mutation_p.E1706Q|COL6A3_uc010znj.1_Missense_Mutation_p.E1305Q	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1912	VWFA 10.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CGGAACTTCTCGAGCATCTCT	0.632000													21	35					0	0	0.055883	0	0
PER2	8864	broad.mit.edu	37	2	239161826	239161826	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:239161826C>G	uc002vyc.2	-	19	3075	c.2838G>C	c.(2836-2838)CAG>CAC	p.Q946H	PER2_uc010znv.1_Missense_Mutation_p.Q946H	NM_022817	NP_073728	O15055	PER2_HUMAN	period 2	946	Pro-rich.				circadian rhythm|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|signal transducer activity			upper_aerodigestive_tract(1)|breast(1)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0423)|all_lung(227;0.114)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Lung NSC(271;0.223)|Hepatocellular(293;0.244)		Epithelial(121;6.84e-24)|OV - Ovarian serous cystadenocarcinoma(60;9.73e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;6.77e-05)|Lung(119;0.00941)|LUSC - Lung squamous cell carcinoma(224;0.0161)		GGAACTCAGGCTGTGAGGCAG	0.677000													6	82					0	0	0.021553	0	0
SIGLEC1	6614	broad.mit.edu	37	20	3677841	3677841	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr20:3677841C>G	uc002wja.2	-	9	2271	c.2271G>C	c.(2269-2271)GAG>GAC	p.E757D	SIGLEC1_uc002wiz.3_Missense_Mutation_p.E757D	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	757	Ig-like C2-type 7.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						GTGTCACGGTCTCCAGGGGAC	0.627000													6	62					0	0	0.021553	0	0
SMOX	54498	broad.mit.edu	37	20	4163401	4163401	+	Silent	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr20:4163401C>T	uc002wkm.1	+	5	1476	c.1275C>T	c.(1273-1275)AGC>AGT	p.S425S	SMOX_uc002wkk.1_Silent_p.S372S|SMOX_uc002wkl.1_Silent_p.S372S|SMOX_uc002wkn.1_Intron|SMOX_uc002wkp.2_Silent_p.S425S|SMOX_uc010zqo.1_Silent_p.S349S|SMOX_uc002wko.1_Silent_p.S425S	NM_175839	NP_787033	Q9NWM0	SMOX_HUMAN	spermine oxidase isoform 1	425					polyamine biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	polyamine oxidase activity			breast(1)	1					Spermine(DB00127)	ATGTGCTGAGCGGCTGGATCT	0.622000													10	42					0	0	0.058154	0	0
PLAGL2	5326	broad.mit.edu	37	20	30784935	30784935	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr20:30784935C>T	uc002wxn.2	-	3	1028	c.811G>A	c.(811-813)GAG>AAG	p.E271K		NM_002657	NP_002648	Q9UPG8	PLAL2_HUMAN	pleiomorphic adenoma gene-like 2	271						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			GGGCTCAGCTCTTCCTTCACA	0.577000													4	49					0	0	0.009096	0	0
MYH7B	57644	broad.mit.edu	37	20	33575936	33575936	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr20:33575936G>C	uc002xbi.1	+	17	1676	c.1584G>C	c.(1582-1584)GAG>GAC	p.E528D	MIR499_hsa-mir-499|MI0003183_5'Flank	NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	486	Myosin head-like.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			TCACCAATGAGAAATTGCAGC	0.557000													12	40					0	0	0.093190	0	0
BPI	671	broad.mit.edu	37	20	36932551	36932551	+	5'Flank	SNP	G	C	C	rs1341022	by1000genomes	TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr20:36932551G>C	uc002xib.2	+							NM_001725	NP_001716	P17213	BPI_HUMAN	bactericidal/permeability-increasing protein						defense response to bacterium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of macrophage activation|negative regulation of tumor necrosis factor production	extracellular region|integral to plasma membrane	lipid binding|lipopolysaccharide binding			ovary(4)	4		Myeloproliferative disorder(115;0.00878)				CATTTCCCCAGCCGACTCTTT	0.562000													3	112					0	0	0.004672	0	0
LPIN3	64900	broad.mit.edu	37	20	39985721	39985721	+	Missense_Mutation	SNP	C	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr20:39985721C>A	uc002xjx.2	+	15	1936	c.1845C>A	c.(1843-1845)TTC>TTA	p.F615L	LPIN3_uc010ggh.2_Missense_Mutation_p.F616L|LPIN3_uc010zwf.1_RNA	NM_022896	NP_075047	Q9BQK8	LPIN3_HUMAN	lipin 3	615	C-LIP.				fatty acid metabolic process	nucleus	phosphatidate phosphatase activity			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(115;0.000739)				ATGTGGTCTTCAGCGTGACCA	0.587000													6	30					0.00116845	0.00128184	0.021553	1	0
C20orf107	388799	broad.mit.edu	37	20	55111233	55111233	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr20:55111233G>C	uc010zzh.1	+	2	335	c.255G>C	c.(253-255)CAG>CAC	p.Q85H	C20orf107_uc002xxz.2_Missense_Mutation_p.Q85H	NM_001013646	NP_001013668	Q5JX69	CT107_HUMAN	hypothetical protein LOC388799 precursor	85	Cytoplasmic (Potential).					integral to membrane					0			Colorectal(105;0.202)			GACAGGAGCAGAGTCCTCCTG	0.398000													23	61					0	0	0.091800	0	0
TPTE	7179	broad.mit.edu	37	21	11014952	11014952	+	RNA	SNP	A	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr21:11014952A>T	uc002yis.1	-	7		c.1494T>A						P56180	TPTE_HUMAN	Homo sapiens putative tyrosine phosphatase mRNA, complete cds.						signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CACATTGTCTACATTGCAGAA	0.333000													3	24					0	0	0.014758	0	0
SON	6651	broad.mit.edu	37	21	34924700	34924700	+	Missense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr21:34924700G>A	uc002yse.1	+	3	3212	c.3163G>A	c.(3163-3165)GAG>AAG	p.E1055K	SON_uc002ysb.1_Missense_Mutation_p.E1055K|SON_uc002ysc.2_Missense_Mutation_p.E1055K|SON_uc002ysd.2_Missense_Mutation_p.E46K|SON_uc002ysf.1_Intron|SON_uc002ysg.2_Missense_Mutation_p.E46K	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	1055	1-7.|14 X 6 AA repeats of [ED]-R-S-M-M-S.				anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						CCCTATGGCTGAGCGCTCTAT	0.517000													10	62					0	0	0.069234	0	0
PWP2	5822	broad.mit.edu	37	21	45548023	45548023	+	Missense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr21:45548023G>A	uc002zeb.2	+	18	2441	c.2351G>A	c.(2350-2352)AGG>AAG	p.R784K		NM_005049	NP_005040	Q15269	PWP2_HUMAN	PWP2 periodic tryptophan protein homolog	784						cytoplasm|nucleolus	signal transducer activity			pancreas(1)	1				STAD - Stomach adenocarcinoma(101;0.172)|Colorectal(79;0.2)		GCGGTGCCCAGGGGCGAGAGT	0.617000													8	11					0	0	0.038147	0	0
CLTCL1	8218	broad.mit.edu	37	22	19183791	19183791	+	Missense_Mutation	SNP	C	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr22:19183791C>A	uc002zpb.2	-	27	4252	c.4177G>T	c.(4177-4179)GAC>TAC	p.D1393Y	CLTCL1_uc011agv.1_Missense_Mutation_p.D1393Y|CLTCL1_uc011agw.1_Missense_Mutation_p.D1372Y|CLTCL1_uc011agt.1_Missense_Mutation_p.D184Y|CLTCL1_uc011agu.1_Missense_Mutation_p.D184Y|CLTCL1_uc010grm.1_Missense_Mutation_p.D153Y|CLTCL1_uc002zpe.2_3'UTR|CLTCL1_uc002zpd.1_Missense_Mutation_p.D300Y	NM_007098	NP_009029	P53675	CLH2_HUMAN	clathrin, heavy polypeptide-like 1 isoform 1	1393	Involved in binding clathrin light chain (By similarity).|Proximal segment.|Heavy chain arm.				anatomical structure morphogenesis|intracellular protein transport|mitosis|positive regulation of glucose import|receptor-mediated endocytosis	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|spindle|trans-Golgi network	protein binding|signal transducer activity|structural molecule activity			ovary(4)|central_nervous_system(1)	5	Colorectal(54;0.0993)					GTAATGATGTCCTTGAACTGA	0.562000			T	?	ALCL								5	31					1.23904e-05	1.40065e-05	0.014758	1	0
H1F0	3005	broad.mit.edu	37	22	38201771	38201771	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr22:38201771C>T	uc003aty.2	+	1	658	c.220C>T	c.(220-222)CGC>TGC	p.R74C	GCAT_uc003atz.2_5'Flank|GCAT_uc003aua.1_5'Flank	NM_005318	NP_005309	P07305	H10_HUMAN	H1 histone family, member 0	74	H15.				DNA fragmentation involved in apoptotic nuclear change|nucleosome assembly	actin cytoskeleton|Golgi apparatus|nucleoplasm|nucleosome	DNA binding				0	Melanoma(58;0.045)					GTCCATCAAGCGCCTGGTCAC	0.592000													44	62					0	0	0.048971	0	0
ADSL	158	broad.mit.edu	37	22	40759015	40759015	+	Silent	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr22:40759015C>T	uc003ayp.3	+	10	1100	c.1041C>T	c.(1039-1041)ACC>ACT	p.T347T	ADSL_uc003ays.3_Silent_p.T347T|ADSL_uc003ayq.3_Silent_p.T361T|ADSL_uc003ayr.3_Silent_p.T123T|ADSL_uc003ayt.3_Silent_p.T332T|ADSL_uc010gyb.1_RNA	NM_000026	NP_000017	P30566	PUR8_HUMAN	adenylosuccinate lyase isoform a	347					AMP biosynthetic process|protein tetramerization|purine base metabolic process	cytosol	(S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamido)succinate AMP-lyase (fumarate-forming) activity|N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity			ovary(1)	1						CATTTCTTACCGCAGATACTA	0.403000													28	129					0	0	0.037714	0	0
SELO	83642	broad.mit.edu	37	22	50655515	50655515	+	Silent	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr22:50655515G>A	uc011arr.1	+	8	1861	c.1803G>A	c.(1801-1803)GCG>GCA	p.A601A	SELO_uc010hap.2_Silent_p.A412A|SELO_uc003bjy.2_Silent_p.A281A|SELO_uc003bjz.2_Silent_p.A352A	NM_031454	NP_113642	Q9BVL4	SELO_HUMAN	selenoprotein O	601											0		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		ACTACATCGCGCAGAATGCCA	0.672000													5	46					0	0	0.021553	0	0
SAPS2	9701	broad.mit.edu	37	22	50879329	50879329	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr22:50879329C>G	uc003blb.1	+	23	2896	c.2474C>G	c.(2473-2475)TCT>TGT	p.S825C	SAPS2_uc003bky.1_Missense_Mutation_p.S792C|SAPS2_uc003bkz.1_Missense_Mutation_p.S791C|SAPS2_uc003blc.2_Missense_Mutation_p.S818C|SAPS2_uc003bla.1_Missense_Mutation_p.S792C|SAPS2_uc003bld.1_Missense_Mutation_p.S351C	NM_014678	NP_055493	O75170	PP6R2_HUMAN	SAPS domain family, member 2	825	Poly-Ser.					cytoplasm|intracellular membrane-bounded organelle	protein binding				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.222)		AGTAGCTCCTCTGGGGGCTCC	0.677000													14	39					0	0	0.024245	0	0
SLC22A13	9390	broad.mit.edu	37	3	38316945	38316945	+	Silent	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr3:38316945C>G	uc003chz.3	+	5	945	c.891C>G	c.(889-891)GTC>GTG	p.V297V	SLC22A13_uc011aym.1_RNA|SLC22A13_uc011ayn.1_Silent_p.V297V	NM_004256	NP_004247	Q9Y226	S22AD_HUMAN	solute carrier family 22 (organic anion	297	Cytoplasmic (Potential).					integral to plasma membrane	organic cation transmembrane transporter activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0533)|Kidney(284;0.067)		CGGCCTCGGTCAATAGGCGGA	0.612000													19	16					0	0	0.043863	0	0
ZPLD1	131368	broad.mit.edu	37	3	102183077	102183077	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr3:102183077G>C	uc003dvs.1	+	14	1625	c.743G>C	c.(742-744)CGA>CCA	p.R248P	ZPLD1_uc003dvt.1_Missense_Mutation_p.R264P|ZPLD1_uc011bhg.1_Missense_Mutation_p.R248P	NM_175056	NP_778226	Q8TCW7	ZPLD1_HUMAN	zona pellucida-like domain containing 1	248	ZP.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)|central_nervous_system(1)	5						GATGACATTCGATATGATCTT	0.323000													12	94					0	0	0.105934	0	0
ALCAM	214	broad.mit.edu	37	3	105266097	105266097	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr3:105266097G>C	uc003dvx.2	+	10	1749	c.1209G>C	c.(1207-1209)AAG>AAC	p.K403N	ALCAM_uc003dvw.1_Missense_Mutation_p.K403N|ALCAM_uc003dvy.2_Missense_Mutation_p.K403N|ALCAM_uc010hpp.2_Missense_Mutation_p.K125N|ALCAM_uc003dvz.2_Missense_Mutation_p.K37N	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	403	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3						AAGGACTAAAGAAAAGAGAGT	0.378000													13	79					0	0	0.105934	0	0
KALRN	8997	broad.mit.edu	37	3	123983408	123983408	+	Silent	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr3:123983408C>T	uc003ehg.2	+	4	448	c.321C>T	c.(319-321)CTC>CTT	p.L107L	KALRN_uc010hrv.1_Silent_p.L107L|KALRN_uc003ehf.1_Silent_p.L107L|KALRN_uc011bjy.1_Silent_p.L107L	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	107	CRAL-TRIO.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						AGTGGGACCTCATCAAGCCCC	0.552000													24	23					0	0	0.069288	0	0
UMPS	7372	broad.mit.edu	37	3	124461011	124461011	+	Missense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr3:124461011G>A	uc003ehl.3	+	5	1277	c.1171G>A	c.(1171-1173)GAG>AAG	p.E391K	UMPS_uc003ehm.3_RNA|UMPS_uc011bka.1_Missense_Mutation_p.E213K|UMPS_uc011bkb.1_Missense_Mutation_p.E299K|UMPS_uc011bkc.1_Missense_Mutation_p.E213K|UMPS_uc003ehn.3_Missense_Mutation_p.E213K|UMPS_uc011bkd.1_Intron	NM_000373	NP_000364	P11172	UMPS_HUMAN	uridine monophosphate synthase	391	OMPdecase.				'de novo' pyrimidine base biosynthetic process|'de novo' UMP biosynthetic process|pyrimidine nucleoside biosynthetic process	cytosol|nucleus	orotate phosphoribosyltransferase activity|orotidine-5'-phosphate decarboxylase activity			kidney(1)	1				GBM - Glioblastoma multiforme(114;0.146)		TAGAATGGCTGAGGAGCACTC	0.348000													42	237					0	0	0.048971	0	0
PODXL2	50512	broad.mit.edu	37	3	127381124	127381124	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr3:127381124C>G	uc003ejq.2	+	4	1200	c.1176C>G	c.(1174-1176)ATC>ATG	p.I392M		NM_015720	NP_056535	Q9NZ53	PDXL2_HUMAN	podocalyxin-like 2 precursor	392	Extracellular (Potential).				leukocyte tethering or rolling	integral to plasma membrane	glycosaminoglycan binding|protein binding			ovary(1)|central_nervous_system(1)	2						AAAACTACATCATTCTGAACA	0.552000													5	34					0	0	0.014758	0	0
MED12L	116931	broad.mit.edu	37	3	151107867	151107867	+	Missense_Mutation	SNP	T	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr3:151107867T>A	uc003eyp.2	+	36	5485	c.5447T>A	c.(5446-5448)CTC>CAC	p.L1816H	MED12L_uc011bnz.1_Missense_Mutation_p.L1676H	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1816					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GGTTACAACCTCGTGGGCCAG	0.502000													48	286					0	0	0.048971	0	0
TNIK	23043	broad.mit.edu	37	3	170828505	170828505	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr3:170828505C>T	uc003fhh.2	-	19	2627	c.2282G>A	c.(2281-2283)CGA>CAA	p.R761Q	TNIK_uc003fhi.2_Missense_Mutation_p.R706Q|TNIK_uc003fhj.2_Missense_Mutation_p.R732Q|TNIK_uc003fhk.2_Missense_Mutation_p.R761Q|TNIK_uc003fhl.2_Missense_Mutation_p.R677Q|TNIK_uc003fhm.2_Missense_Mutation_p.R706Q|TNIK_uc003fhn.2_Missense_Mutation_p.R732Q|TNIK_uc003fho.2_Missense_Mutation_p.R677Q	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	761	Mediates interaction with NEDD4.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			AGTTTTACCTCGAACTCTGGT	0.547000													7	9					0	0	0.029380	0	0
FNDC3B	64778	broad.mit.edu	37	3	172058910	172058910	+	Silent	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr3:172058910G>A	uc003fhy.2	+	17	2032	c.1860G>A	c.(1858-1860)CAG>CAA	p.Q620Q	FNDC3B_uc003fhz.3_Silent_p.Q620Q	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	620	Fibronectin type-III 4.					endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		CAGCGAATCAGTGGGAAGTGG	0.453000													19	170					0	0	0.049695	0	0
PEX5L	51555	broad.mit.edu	37	3	179525526	179525526	+	Nonsense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr3:179525526G>A	uc003fki.1	-	14	1742	c.1612C>T	c.(1612-1614)CAG>TAG	p.Q538*	PEX5L_uc011bqd.1_Nonsense_Mutation_p.Q495*|PEX5L_uc011bqe.1_Nonsense_Mutation_p.Q346*|PEX5L_uc011bqf.1_Nonsense_Mutation_p.Q430*|PEX5L_uc003fkj.1_Nonsense_Mutation_p.Q503*|PEX5L_uc010hxd.1_Nonsense_Mutation_p.Q536*|PEX5L_uc011bqg.1_Nonsense_Mutation_p.Q514*|PEX5L_uc011bqh.1_Nonsense_Mutation_p.Q479*	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	538	TPR 4.				protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			AATCCTGGCTGAATCTCCAGT	0.567000													10	270					0	0	0.058154	0	0
ATP11B	23200	broad.mit.edu	37	3	182590154	182590154	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr3:182590154G>C	uc003flb.2	+	18	2134	c.1877G>C	c.(1876-1878)AGA>ACA	p.R626T	ATP11B_uc003flc.2_Missense_Mutation_p.R210T|ATP11B_uc011bqm.1_5'UTR|ATP11B_uc010hxf.1_5'Flank	NM_014616	NP_055431	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	626	Cytoplasmic (Potential).				aminophospholipid transport|ATP biosynthetic process	integral to membrane|nuclear inner membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;1.2e-42)|Epithelial(37;2.77e-36)|LUSC - Lung squamous cell carcinoma(7;7.58e-24)|Lung(8;4.66e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.35e-20)			AAAGGGCTAAGAACTCTGTGT	0.333000													13	139					0	0	0.093190	0	0
TP63	8626	broad.mit.edu	37	3	189585726	189585726	+	Silent	SNP	C	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr3:189585726C>A	uc003fry.2	+	7	1076	c.987C>A	c.(985-987)ACC>ACA	p.T329T	TP63_uc003frx.2_Silent_p.T329T|TP63_uc003frz.2_Silent_p.T329T|TP63_uc010hzc.1_Silent_p.T329T|TP63_uc003fsa.2_Silent_p.T235T|TP63_uc003fsb.2_Silent_p.T235T|TP63_uc003fsc.2_Silent_p.T235T|TP63_uc003fsd.2_Silent_p.T235T|TP63_uc010hzd.1_Silent_p.T150T|TP63_uc003fse.1_Silent_p.T210T	NM_003722	NP_003713	Q9H3D4	P63_HUMAN	tumor protein p63 isoform 1	329					anti-apoptosis|cellular response to UV|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|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of transcription from RNA polymerase II promoter|Notch signaling pathway|positive regulation of Notch signaling pathway|protein homotetramerization|regulation of neuron apoptosis|response to gamma radiation|response to X-ray	chromatin|cytosol|dendrite|Golgi apparatus|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|identical protein binding|metal ion binding|p53 binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity	p.T329P(1)		skin(5)|lung(4)|ovary(2)|upper_aerodigestive_tract(1)	12	all_cancers(143;3.35e-10)|Ovarian(172;0.0925)		Lung(62;3.33e-05)	GBM - Glioblastoma multiforme(93;0.0227)		CTCTGGAAACCAGAGAGTAAG	0.403000									Hay-Wells_syndrome	HNSCC(45;0.13)			15	28					1.3612e-06	1.55225e-06	0.024245	1	0
OPA1	4976	broad.mit.edu	37	3	193375010	193375010	+	Missense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr3:193375010G>A	uc003ftm.2	+	21	2389	c.2155G>A	c.(2155-2157)GAG>AAG	p.E719K	OPA1_uc003ftg.2_Missense_Mutation_p.E774K|OPA1_uc003fth.2_Missense_Mutation_p.E738K|OPA1_uc003fti.2_Missense_Mutation_p.E756K|OPA1_uc003ftj.2_Missense_Mutation_p.E737K|OPA1_uc003ftk.2_Missense_Mutation_p.E720K|OPA1_uc003ftl.2_Missense_Mutation_p.E701K|OPA1_uc003ftn.2_Missense_Mutation_p.E683K	NM_015560	NP_056375	O60313	OPA1_HUMAN	optic atrophy 1 isoform 1	719	Mitochondrial intermembrane (By similarity).				apoptosis|axon transport of mitochondrion|inner mitochondrial membrane organization|mitochondrial fission|mitochondrial fusion|positive regulation of anti-apoptosis|response to stimulus|visual perception	dendrite|integral to membrane|mitochondrial crista|mitochondrial intermembrane space|mitochondrial outer membrane	GTP binding|GTPase activity|magnesium ion binding|protein binding				0	all_cancers(143;9.56e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;9.19e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000162)		TGACTTTGCGGAGGACAGCTT	0.353000													4	130					0	0	0.009096	0	0
APBB2	323	broad.mit.edu	37	4	41016329	41016329	+	Missense_Mutation	SNP	G	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr4:41016329G>T	uc003gvl.2	-	6	736	c.106C>A	c.(106-108)CCA>ACA	p.P36T	APBB2_uc003gvm.2_Missense_Mutation_p.P36T|APBB2_uc003gvn.2_Missense_Mutation_p.P36T|APBB2_uc011byt.1_Missense_Mutation_p.P19T	NM_173075	NP_775098	Q92870	APBB2_HUMAN	amyloid beta A4 precursor protein-binding,	36					cell cycle arrest|intracellular signal transduction|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|regulation of transcription, DNA-dependent	growth cone|lamellipodium|membrane|nucleus|synapse	beta-amyloid binding|transcription factor binding			ovary(2)|large_intestine(1)	3						AGGGTGTTTGGTGGTGTGGCT	0.483000													21	24					4.35082e-09	5.18905e-09	0.055883	1	0
PPAT	5471	broad.mit.edu	37	4	57273828	57273828	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr4:57273828G>C	uc003hbr.2	-	2	385	c.183C>G	c.(181-183)TTC>TTG	p.F61L		NM_002703	NP_002694	Q06203	PUR1_HUMAN	phosphoribosyl pyrophosphate amidotransferase	61	Glutamine amidotransferase type-2.				glutamine metabolic process|nucleoside metabolic process|purine base biosynthetic process|purine ribonucleoside monophosphate biosynthetic process	cytosol	4 iron, 4 sulfur cluster binding|amidophosphoribosyltransferase activity|metal ion binding				0	Glioma(25;0.08)|all_neural(26;0.101)				L-Glutamine(DB00130)|Thioguanine(DB00352)	TGTGTGATTTGAATGTTGGCA	0.264000													10	41					0	0	0.093190	0	0
C4orf35	85438	broad.mit.edu	37	4	71201722	71201722	+	Silent	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr4:71201722C>T	uc003hff.2	+	1	1052	c.966C>T	c.(964-966)GAC>GAT	p.D322D		NM_033122	NP_149113	Q96KC9	CABS1_HUMAN	testis development protein NYD-SP26	322						flagellum	calcium ion binding				0		all_hematologic(202;0.196)				CCAGATATGACTTCGTTGTCC	0.408000													7	41					0	0	0.029380	0	0
NUP54	53371	broad.mit.edu	37	4	77051823	77051823	+	Nonsense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr4:77051823G>A	uc003hjs.2	-	8	1170	c.1042C>T	c.(1042-1044)CAA>TAA	p.Q348*	NUP54_uc010ije.2_Nonsense_Mutation_p.Q66*|NUP54_uc011cbs.1_Nonsense_Mutation_p.Q168*|NUP54_uc011cbt.1_Nonsense_Mutation_p.Q300*|NUP54_uc003hjt.2_Nonsense_Mutation_p.Q168*	NM_017426	NP_059122	Q7Z3B4	NUP54_HUMAN	nucleoporin 54kDa	348	9 X 2 AA repeats of F-G.				carbohydrate metabolic process|glucose transport|mRNA transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleoplasm				ovary(1)|lung(1)	2						AATCTGGTTTGATGCTGCTTA	0.388000													3	26					0	0	0.014758	0	0
FRAS1	80144	broad.mit.edu	37	4	79440596	79440596	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr4:79440596G>C	uc003hlb.2	+	67	10941	c.10501G>C	c.(10501-10503)GAG>CAG	p.E3501Q		NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	3496	Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						CACCGAGATGGAGTTTTCTTT	0.498000													36	168					0	0	0.086207	0	0
MMRN1	22915	broad.mit.edu	37	4	90816360	90816360	+	Missense_Mutation	SNP	A	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr4:90816360A>C	uc003hst.2	+	1	309	c.238A>C	c.(238-240)AAA>CAA	p.K80Q	MMRN1_uc010iku.2_Intron	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	80					cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		CAGTCTTCTTAAATCAACACT	0.448000													10	44					0	0	0.058154	0	0
SEC24D	9871	broad.mit.edu	37	4	119736623	119736623	+	Missense_Mutation	SNP	C	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr4:119736623C>A	uc003ici.3	-	5	928	c.656G>T	c.(655-657)GGA>GTA	p.G219V	SEC24D_uc003icj.3_Missense_Mutation_p.G219V|SEC24D_uc003icl.2_RNA|SEC24D_uc010imz.1_RNA|SEC24D_uc011cgg.1_RNA	NM_014822	NP_055637	O94855	SC24D_HUMAN	Sec24-related protein D	219	Pro-rich.				COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0						CGGAGGATATCCAGCACCCAA	0.557000													15	50					9.16793e-09	1.08348e-08	0.033300	1	0
FAT4	79633	broad.mit.edu	37	4	126371183	126371183	+	Missense_Mutation	SNP	A	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr4:126371183A>T	uc003ifj.3	+	9	9012	c.9012A>T	c.(9010-9012)AGA>AGT	p.R3004S	FAT4_uc011cgp.1_Missense_Mutation_p.R1302S|FAT4_uc003ifi.1_Missense_Mutation_p.R482S	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3004	Extracellular (Potential).|Cadherin 29.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						AGTTAATCAGAGTTACAGCAA	0.313000													11	52					0	0	0.069234	0	0
MFSD8	256471	broad.mit.edu	37	4	128886250	128886250	+	Silent	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr4:128886250G>C	uc003ifp.2	-	2	202	c.39C>G	c.(37-39)CTC>CTG	p.L13L	MFSD8_uc011cgu.1_Intron|MFSD8_uc011cgv.1_Silent_p.L13L|MFSD8_uc011cgw.1_Intron|MFSD8_uc011cgx.1_Intron|C4orf29_uc003ifq.1_5'Flank|C4orf29_uc003ifr.2_5'Flank|C4orf29_uc003ifs.2_5'Flank	NM_152778	NP_689991	Q8NHS3	MFSD8_HUMAN	major facilitator superfamily domain containing	13	Cytoplasmic (Potential).				cell death|transmembrane transport	integral to membrane|lysosomal membrane				ovary(1)|liver(1)	2						TGTCGCCTAAGAGCGGCTCCT	0.622000													4	25					0	0	0.009096	0	0
OTUD4	54726	broad.mit.edu	37	4	146058813	146058813	+	Missense_Mutation	SNP	T	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr4:146058813T>A	uc003ika.3	-	21	3057	c.2919A>T	c.(2917-2919)AGA>AGT	p.R973S	OTUD4_uc003ijz.3_Missense_Mutation_p.R972S	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3	1037							protein binding	p.S973A(1)		ovary(2)|breast(1)	3	all_hematologic(180;0.151)					ACTGCTTGGATCTACCACTTC	0.418000													28	153					0	0	0.108266	0	0
ARFIP1	27236	broad.mit.edu	37	4	153831253	153831253	+	Missense_Mutation	SNP	A	G	G	rs146931969		TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr4:153831253A>G	uc003imz.2	+	9	1280	c.1004A>G	c.(1003-1005)AAT>AGT	p.N335S	ARFIP1_uc003inb.2_Missense_Mutation_p.N303S|ARFIP1_uc003ina.2_Missense_Mutation_p.N303S|ARFIP1_uc003inc.2_Missense_Mutation_p.N335S|ARFIP1_uc011cij.1_Missense_Mutation_p.N155S	NM_001025595	NP_001020766	P53367	ARFP1_HUMAN	ADP-ribosylation factor interacting protein 1	335	AH.				intracellular protein transport|regulation of protein secretion	cytosol|Golgi membrane				ovary(1)	1	all_hematologic(180;0.093)					CTTTTCCACAATGCCATTGCC	0.428000													4	112					0	0	0.021553	0	0
HEATR7B2	133558	broad.mit.edu	37	5	41039655	41039655	+	Silent	SNP	T	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr5:41039655T>C	uc003jmj.3	-	20	2446	c.1956A>G	c.(1954-1956)GGA>GGG	p.G652G	HEATR7B2_uc003jmi.3_Silent_p.G207G	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	652							binding			ovary(6)|central_nervous_system(2)	8						TAGATGTTATTCCCTAAAATC	0.209000													6	33					0	0	0.029380	0	0
C6	729	broad.mit.edu	37	5	41176632	41176632	+	Silent	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr5:41176632C>T	uc003jmk.2	-	8	1323	c.1113G>A	c.(1111-1113)CTG>CTA	p.L371L	C6_uc003jml.1_Silent_p.L371L	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	371	MACPF.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				ACACGCCTCCCAGGGAGCCAG	0.423000													4	47					0	0	0.009096	0	0
APC	324	broad.mit.edu	37	5	112174700	112174700	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr5:112174700G>C	uc010jby.2	+	16	3789	c.3409G>C	c.(3409-3411)GAT>CAT	p.D1137H	APC_uc011cvt.1_Missense_Mutation_p.D1119H|APC_uc003kpz.3_Missense_Mutation_p.D1137H|APC_uc003kpy.3_Missense_Mutation_p.D1137H|APC_uc010jbz.2_Missense_Mutation_p.D854H|APC_uc010jca.2_Missense_Mutation_p.D437H	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1137	Ser-rich.|Responsible for down-regulation through a process mediated by direct ubiquitination.|Asp/Glu-rich (acidic).				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TGACTATGAAGATGATAAGCC	0.363000		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			3	25					0	0	0.004672	0	0
YTHDC2	64848	broad.mit.edu	37	5	112862370	112862370	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr5:112862370C>G	uc003kqn.2	+	4	746	c.563C>G	c.(562-564)TCT>TGT	p.S188C	YTHDC2_uc010jce.1_Missense_Mutation_p.S188C|YTHDC2_uc010jcf.1_Intron	NM_022828	NP_073739	Q9H6S0	YTDC2_HUMAN	YTH domain containing 2	188							ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(2)|central_nervous_system(1)	3		all_cancers(142;7.69e-05)|all_epithelial(76;6.42e-07)|Colorectal(10;0.00278)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Lung NSC(810;0.143)|all_lung(232;0.163)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;7.2e-08)|Epithelial(69;8.83e-08)|all cancers(49;6.9e-06)|COAD - Colon adenocarcinoma(37;0.0458)|Colorectal(14;0.0594)		GAATTTGATTCTTTTAGGCAG	0.368000													15	41					0	0	0.033300	0	0
PCDHB5	26167	broad.mit.edu	37	5	140516603	140516603	+	Silent	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr5:140516603C>T	uc003liq.2	+	1	1804	c.1587C>T	c.(1585-1587)CGC>CGT	p.R529R		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	529	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCGAGTTCCGCGTGGGAGCCA	0.682000													5	58					0	0	0.014758	0	0
PCDHB6	56130	broad.mit.edu	37	5	140529802	140529802	+	5'Flank	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr5:140529802G>A	uc003lir.2	+						PCDHB6_uc011dah.1_5'UTR	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor						calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATTGGGAGCTGAAAAGGATTT	0.413000													5	12					0	0	0.014758	0	0
JAKMIP2	9832	broad.mit.edu	37	5	147015790	147015790	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr5:147015790C>G	uc003loq.1	-	12	2054	c.1672G>C	c.(1672-1674)GAA>CAA	p.E558Q	JAKMIP2_uc011dbx.1_Missense_Mutation_p.E516Q|JAKMIP2_uc003lor.1_Intron|uc003lop.1_Intron|JAKMIP2_uc010jgo.1_Missense_Mutation_p.E558Q	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	558	Potential.					Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CATACCTTTTCTAAAAGCTCC	0.493000													7	10					0	0	0.029380	0	0
GALNT10	55568	broad.mit.edu	37	5	153755919	153755919	+	Silent	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr5:153755919G>A	uc003lvh.2	+	5	783	c.651G>A	c.(649-651)CTG>CTA	p.L217L	GALNT10_uc003lvg.1_Silent_p.L217L|GALNT10_uc010jic.2_RNA|GALNT10_uc010jid.2_Intron	NM_198321	NP_938080	Q86SR1	GLT10_HUMAN	GalNAc transferase 10 isoform a	217	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)|all_hematologic(541;0.21)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			GGGAAGGGCTGATAAGGACCC	0.522000													29	39					0	0	0.037714	0	0
ODZ2	57451	broad.mit.edu	37	5	167645660	167645660	+	Silent	SNP	C	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr5:167645660C>A	uc010jjd.2	+	23	4737	c.4737C>A	c.(4735-4737)CCC>CCA	p.P1579P	ODZ2_uc003lzr.3_Silent_p.P1349P|ODZ2_uc003lzt.3_Silent_p.P952P|ODZ2_uc010jje.2_Silent_p.P843P	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		CTGCATCCCCCGGAGAGCAGG	0.468000													25	88					4.4004e-07	5.08491e-07	0.083992	1	0
KCNIP1	30820	broad.mit.edu	37	5	169780916	169780916	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr5:169780916C>G	uc003map.2	+	1	36	c.36C>G	c.(34-36)TTC>TTG	p.F12L		NM_001034838	NP_001030010	Q9NZI2	KCIP1_HUMAN	Kv channel interacting protein 1 isoform 3	Error:Variant_position_missing_in_Q9NZI2_after_alignment					detection of calcium ion|signal transduction|synaptic transmission	plasma membrane	potassium channel activity|voltage-gated ion channel activity			skin(2)	2	Renal(175;0.000159)|Lung NSC(126;0.0191)|all_lung(126;0.0297)	Medulloblastoma(196;0.0109)|all_neural(177;0.0177)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGCTTGGGTTCGTGAAATTTG	0.557000													11	22					0	0	0.020292	0	0
ADAMTS2	9509	broad.mit.edu	37	5	178541064	178541064	+	Missense_Mutation	SNP	G	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr5:178541064G>T	uc003mjw.2	-	22	3440	c.3440C>A	c.(3439-3441)TCC>TAC	p.S1147Y	uc003mjv.3_5'Flank	NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1147					collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		ATTGGTGCTGGAGGCATTGAG	0.557000													12	71					3.27435e-08	3.81763e-08	0.020292	1	0
ATXN1	6310	broad.mit.edu	37	6	16326687	16326687	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr6:16326687C>T	uc003nbt.2	-	8	2826	c.1855G>A	c.(1855-1857)GAA>AAA	p.E619K	ATXN1_uc010jpi.2_Missense_Mutation_p.E619K|ATXN1_uc010jpj.1_Intron	NM_000332	NP_000323	P54253	ATX1_HUMAN	ataxin 1	619	Interaction with USP7.|RNA-binding.|AXH.				cell death|negative regulation of transcription, DNA-dependent|nuclear export|RNA processing	cytoplasm|nuclear inclusion body|nuclear matrix|nucleoplasm	identical protein binding|poly(G) RNA binding|poly(U) RNA binding|protein binding|protein C-terminus binding|protein self-association			skin(3)|central_nervous_system(1)	4	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				TGGCTGTCTTCAATCCTCTCT	0.552000													15	91					0	0	0.028581	0	0
MDC1	9656	broad.mit.edu	37	6	30671974	30671974	+	Silent	SNP	A	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr6:30671974A>G	uc003nrg.3	-	10	5426	c.4986T>C	c.(4984-4986)CCT>CCC	p.P1662P	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Silent_p.P1269P	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1662					cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						TGGGGGTAAAAGGCTCAAGAT	0.532000								Other_conserved_DNA_damage_response_genes					3	210					0	0	0.004672	0	0
BTNL2	56244	broad.mit.edu	37	6	32364103	32364103	+	Missense_Mutation	SNP	T	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr6:32364103T>C	uc003obg.1	-	5	791	c.791A>G	c.(790-792)CAG>CGG	p.Q264R	BTNL2_uc010jty.1_5'UTR|BTNL2_uc010jtz.1_RNA|BTNL2_uc010jua.1_Missense_Mutation_p.Q54R	NM_019602	NP_062548	Q9UIR0	BTNL2_HUMAN	butyrophilin-like 2	264	Extracellular (Potential).|Ig-like V-type 3.					integral to membrane				central_nervous_system(1)	1						ACAGGTTAGCTGTATATCTTC	0.483000													4	48					0	0	0.021553	0	0
SLC26A8	116369	broad.mit.edu	37	6	35927343	35927343	+	Missense_Mutation	SNP	T	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr6:35927343T>A	uc003olm.2	-	16	1868	c.1757A>T	c.(1756-1758)AAA>ATA	p.K586I	SLC26A8_uc010jwa.2_RNA|SLC26A8_uc003olk.2_Missense_Mutation_p.K168I|SLC26A8_uc003oln.2_Missense_Mutation_p.K586I|SLC26A8_uc003oll.2_Missense_Mutation_p.K481I	NM_052961	NP_443193	Q96RN1	S26A8_HUMAN	solute carrier family 26, member 8 isoform a	586	STAS.|Cytoplasmic (Potential).				cell differentiation|meiosis|multicellular organismal development|spermatogenesis	integral to membrane|plasma membrane	anion:anion antiporter activity|chloride channel activity|oxalate transmembrane transporter activity|protein binding|sulfate transmembrane transporter activity			ovary(2)	2						TTCTTCTTCTTTAAGAGGCAC	0.438000													106	41					0	0	0.048971	0	0
BTBD9	114781	broad.mit.edu	37	6	38562104	38562104	+	Splice_Site	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr6:38562104C>T	uc003ooa.3	-	4	762	c.186_splice	c.e4-1	p.R62_splice	BTBD9_uc003ony.3_Splice_Site|BTBD9_uc010jwv.2_5'UTR|BTBD9_uc010jww.2_Splice_Site|BTBD9_uc010jwx.2_Splice_Site_p.R62_splice	NM_052893	NP_443125	Q96Q07	BTBD9_HUMAN	BTB (POZ) domain containing 9 isoform a						cell adhesion						0						TAATAATGCTCTGCACATCAG	0.358000													23	47					0	0	0.062417	0	0
KCNQ5	56479	broad.mit.edu	37	6	73787562	73787562	+	Silent	SNP	T	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr6:73787562T>C	uc003pgk.2	+	5	1217	c.870T>C	c.(868-870)GAT>GAC	p.D290D	KCNQ5_uc003pgj.3_Silent_p.D290D|KCNQ5_uc011dyh.1_Silent_p.D290D|KCNQ5_uc011dyi.1_Silent_p.D290D|KCNQ5_uc010kat.2_Silent_p.D290D|KCNQ5_uc011dyj.1_Silent_p.D290D|KCNQ5_uc011dyk.1_Silent_p.D49D	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	290					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		TGGAAAAGGATGCCAATAAAG	0.318000													8	22					0	0	0.038147	0	0
RMND1	55005	broad.mit.edu	37	6	151766898	151766898	+	Missense_Mutation	SNP	A	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr6:151766898A>G	uc003qoi.2	-	2	229	c.49T>C	c.(49-51)TCA>CCA	p.S17P	RMND1_uc011eeq.1_5'Flank|RMND1_uc003qoj.2_Missense_Mutation_p.S17P|RMND1_uc011eer.1_Missense_Mutation_p.S17P	NM_017909	NP_060379	Q9NWS8	RMND1_HUMAN	required for meiotic nuclear division 1 homolog	17											0		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.146)	OV - Ovarian serous cystadenocarcinoma(155;6.8e-11)		TGTGCTTTTGATAATATATGA	0.383000													6	12					0	0	0.021553	0	0
RGS17	26575	broad.mit.edu	37	6	153332762	153332762	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr6:153332762G>C	uc003qpm.2	-	5	736	c.580C>G	c.(580-582)CAA>GAA	p.Q194E		NM_012419	NP_036551	Q9UGC6	RGS17_HUMAN	regulator of G-protein signalling 17	194	RGS.				negative regulation of signal transduction	cytoplasm|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			pancreas(1)	1		Ovarian(120;0.126)		OV - Ovarian serous cystadenocarcinoma(155;1.09e-09)|BRCA - Breast invasive adenocarcinoma(81;0.0429)		TTATAAATTTGAGAGTTCAAA	0.338000									Lung_Cancer_Familial_Clustering_of				10	24					0	0	0.058154	0	0
SLC29A4	222962	broad.mit.edu	37	7	5340136	5340136	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr7:5340136C>G	uc003sod.2	+	10	1454	c.1293C>G	c.(1291-1293)TTC>TTG	p.F431L	SLC29A4_uc003soc.2_Missense_Mutation_p.F431L|SLC29A4_uc003soe.2_Missense_Mutation_p.F417L|SLC29A4_uc010ksw.2_Intron	NM_153247	NP_694979	Q7RTT9	S29A4_HUMAN	solute carrier family 29 (nucleoside	431	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|integral to membrane	nucleoside transmembrane transporter activity			liver(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0903)|OV - Ovarian serous cystadenocarcinoma(56;2.65e-15)		TCCCCCTCTTCATCCTGTGCG	0.667000													48	102					0	0	0.048971	0	0
HDAC9	9734	broad.mit.edu	37	7	18687468	18687468	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr7:18687468C>T	uc003suh.2	+	9	1128	c.1087C>T	c.(1087-1089)CCT>TCT	p.P363S	HDAC9_uc003sue.2_Missense_Mutation_p.P363S|HDAC9_uc011jyd.1_Missense_Mutation_p.P363S|HDAC9_uc003sui.2_Missense_Mutation_p.P366S|HDAC9_uc003suj.2_Missense_Mutation_p.P322S|HDAC9_uc011jya.1_Missense_Mutation_p.P360S|HDAC9_uc003sua.1_Missense_Mutation_p.P341S|HDAC9_uc011jyb.1_Missense_Mutation_p.P319S|HDAC9_uc003sud.1_Missense_Mutation_p.P363S|HDAC9_uc011jyc.1_Missense_Mutation_p.P322S|HDAC9_uc003suf.1_Missense_Mutation_p.P394S|HDAC9_uc010kud.1_Missense_Mutation_p.P366S|HDAC9_uc011jye.1_Missense_Mutation_p.P335S|HDAC9_uc011jyf.1_Missense_Mutation_p.P286S|HDAC9_uc010kue.1_Missense_Mutation_p.P106S	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	363					B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	GCAAGGTGTTCCTCTGCCTGG	0.502000													3	24					0	0	0.004672	0	0
HOXA3	3200	broad.mit.edu	37	7	27147688	27147688	+	Missense_Mutation	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr7:27147688G>A	uc011jzl.1	-	3	1378	c.1178C>T	c.(1177-1179)TCG>TTG	p.S393L	HOXA3_uc011jzk.1_Missense_Mutation_p.S235L|HOXA3_uc003syk.2_Missense_Mutation_p.S393L	NM_030661	NP_109377	O43365	HXA3_HUMAN	homeobox A3 isoform a	393					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(2)	2						CATGGCGCCCGAGGCAGCGTG	0.701000													9	40					0	0	0.069234	0	0
NPC1L1	29881	broad.mit.edu	37	7	44555412	44555412	+	Silent	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr7:44555412G>A	uc003tlb.2	-	19	3923	c.3867C>T	c.(3865-3867)CTC>CTT	p.L1289L	NPC1L1_uc003tlc.2_Silent_p.L1262L|NPC1L1_uc011kbw.1_Silent_p.L1216L|NPC1L1_uc003tla.2_Intron	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	1289	Cytoplasmic (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	CCACGTAGCTGAGGATGACGG	0.547000													4	41					0	0	0.009096	0	0
RABGEF1	27342	broad.mit.edu	37	7	66260522	66260522	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr7:66260522G>C	uc011kee.1	+	5	744	c.580G>C	c.(580-582)GAG>CAG	p.E194Q	RABGEF1_uc003tvf.2_Missense_Mutation_p.E14Q|RABGEF1_uc003tvg.2_5'UTR|RABGEF1_uc010lag.2_Missense_Mutation_p.E180Q|RABGEF1_uc003tvh.2_Missense_Mutation_p.E180Q|RABGEF1_uc003tvi.2_Missense_Mutation_p.E14Q	NM_014504	NP_055319	Q9UJ41	RABX5_HUMAN	RAB guanine nucleotide exchange factor (GEF) 1	358					endocytosis|protein transport	early endosome|recycling endosome	DNA binding|protein binding|zinc ion binding			ovary(1)	1						AGAACAGTCAGAGTGTGCTCA	0.458000													9	87					0	0	0.069234	0	0
RSBN1L	222194	broad.mit.edu	37	7	77325639	77325639	+	5'Flank	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr7:77325639C>T	uc010ldt.1	+						RSBN1L_uc003ugm.2_5'Flank|uc003ugj.1_RNA	NM_198467	NP_940869	Q6PCB5	RSBNL_HUMAN	round spermatid basic protein 1-like							nucleus				ovary(1)	1						TTGATTGGCTCTTAGGTGGAT	0.682000													6	9					0	0	0.021553	0	0
SEMA3A	10371	broad.mit.edu	37	7	83610701	83610701	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr7:83610701C>T	uc003uhz.2	-	14	1903	c.1588G>A	c.(1588-1590)GCC>ACC	p.A530T		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	530					axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						GGGTCTCGGGCGAGGCAACAC	0.463000													4	23					0	0	0.014758	0	0
METTL2B	55798	broad.mit.edu	37	7	128119454	128119454	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr7:128119454G>C	uc003vnf.2	+	3	482	c.445G>C	c.(445-447)GAA>CAA	p.E149Q	METTL2B_uc003vng.2_Missense_Mutation_p.E84Q|METTL2B_uc011kop.1_Missense_Mutation_p.E13Q	NM_018396	NP_060866	Q6P1Q9	MTL2B_HUMAN	methyltransferase like 2B	149							methyltransferase activity			skin(1)	1						GAAGAGCCTTGAACATAAAAC	0.418000													15	77					0	0	0.024245	0	0
NRF1	4899	broad.mit.edu	37	7	129395013	129395013	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr7:129395013G>C	uc003voz.2	+	11	1621	c.1504G>C	c.(1504-1506)GAA>CAA	p.E502Q	NRF1_uc003vpa.2_Missense_Mutation_p.E521Q|NRF1_uc011kpa.1_Missense_Mutation_p.E341Q|NRF1_uc003vpb.2_Missense_Mutation_p.E502Q	NM_005011	NP_005002	Q16656	NRF1_HUMAN	nuclear respiratory factor 1	502					generation of precursor metabolites and energy|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1						GGTGACATTGGAACAGTGACA	0.493000													6	51					0	0	0.021553	0	0
ZNF862	643641	broad.mit.edu	37	7	149557788	149557788	+	Silent	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr7:149557788G>A	uc010lpn.2	+	7	1731	c.1539G>A	c.(1537-1539)GTG>GTA	p.V513V	ZNF862_uc003wgm.2_RNA	NM_001099220	NP_001092690	O60290	ZN862_HUMAN	zinc finger protein 862	513	TTF-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|nucleic acid binding|protein dimerization activity			skin(1)	1						CTTTTAAAGTGGAGACTTTAA	0.468000													34	62					0	0	0.050027	0	0
GIMAP8	155038	broad.mit.edu	37	7	150171486	150171486	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr7:150171486G>C	uc003whj.2	+	4	1399	c.1069G>C	c.(1069-1071)GAG>CAG	p.E357Q		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	357						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		AAAATTCTTTGAGTACATGAT	0.423000													10	88					0	0	0.058154	0	0
PRKAG2	51422	broad.mit.edu	37	7	151292526	151292526	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr7:151292526C>G	uc003wkk.2	-	6	1380	c.769G>C	c.(769-771)GAA>CAA	p.E257Q	PRKAG2_uc003wki.2_Missense_Mutation_p.E16Q|PRKAG2_uc011kvl.1_Missense_Mutation_p.E132Q|PRKAG2_uc003wkj.2_Missense_Mutation_p.E213Q|PRKAG2_uc003wkl.2_5'UTR|PRKAG2_uc010lqe.1_RNA	NM_016203	NP_057287	Q9UGJ0	AAKG2_HUMAN	AMP-activated protein kinase gamma2 subunit	257					ATP biosynthetic process|carnitine shuttle|cell cycle arrest|fatty acid biosynthetic process|glycogen metabolic process|insulin receptor signaling pathway|intracellular protein kinase cascade|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein kinase activity|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation|regulation of glucose import|regulation of glycolysis|sterol biosynthetic process	AMP-activated protein kinase complex|cytosol|nucleoplasm	ADP binding|ATP binding|cAMP-dependent protein kinase inhibitor activity|cAMP-dependent protein kinase regulator activity|phosphorylase kinase regulator activity|protein kinase activator activity|protein kinase binding			breast(1)|kidney(1)	2	all_neural(206;0.187)	all_hematologic(28;0.0605)	OV - Ovarian serous cystadenocarcinoma(82;0.00252)	UCEC - Uterine corpus endometrioid carcinoma (81;0.185)		ACACCACTTTCTGAGTCTTCT	0.244000													12	28					0	0	0.024245	0	0
LZTS1	11178	broad.mit.edu	37	8	20107234	20107234	+	Silent	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr8:20107234C>T	uc003wzr.2	-	3	1901	c.1790G>A	c.(1789-1791)TGA>TAA	p.*597*	LZTS1_uc010ltg.1_3'UTR	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	597					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		GGCAGCCCCTCAGATCTCAGT	0.647000													10	58					0	0	0.058154	0	0
KIAA0146	23514	broad.mit.edu	37	8	48614331	48614331	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr8:48614331C>T	uc003xqd.2	+	13	1831	c.1822C>T	c.(1822-1824)CAT>TAT	p.H608Y	KIAA0146_uc011ldb.1_Missense_Mutation_p.H608Y|KIAA0146_uc010lxs.2_Missense_Mutation_p.H83Y|KIAA0146_uc011ldc.1_Missense_Mutation_p.H538Y|KIAA0146_uc011ldd.1_Missense_Mutation_p.H548Y|KIAA0146_uc003xqe.2_Missense_Mutation_p.H83Y|KIAA0146_uc003xqf.2_RNA|KIAA0146_uc011lde.1_Missense_Mutation_p.H297Y|KIAA0146_uc010lxt.2_Missense_Mutation_p.H297Y|KIAA0146_uc011ldf.1_Missense_Mutation_p.H113Y|KIAA0146_uc011ldg.1_Missense_Mutation_p.H98Y|KIAA0146_uc010lxv.1_Missense_Mutation_p.H102Y	NM_001080394	NP_001073863	Q14159	K0146_HUMAN	hypothetical protein LOC23514	608											0		Lung NSC(58;0.175)				CCTCACAGCTCATCCAAATCT	0.398000													38	142					0	0	0.064281	0	0
PRKDC	5591	broad.mit.edu	37	8	48761816	48761816	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr8:48761816C>G	uc003xqi.2	-	55	7236	c.7179G>C	c.(7177-7179)TTG>TTC	p.L2393F	PRKDC_uc003xqj.2_Missense_Mutation_p.L2393F|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2393					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				AGAGTGTTTTCAACACTCCAT	0.507000								NHEJ					14	120					0	0	0.105934	0	0
MIR151	442893	broad.mit.edu	37	8	141742741	141742741	+	RNA	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr8:141742741G>A	hsa-mir-151|MI0000809	-			c.12G>A			PTK2_uc003yvo.2_Intron|PTK2_uc011ljq.1_Intron|PTK2_uc003yvp.2_Intron|PTK2_uc003yvq.2_Intron|PTK2_uc003yvr.2_Intron|PTK2_uc003yvs.2_Intron|PTK2_uc003yvt.2_Intron|PTK2_uc003yvu.2_Intron|PTK2_uc003yvv.2_Intron|PTK2_uc011ljr.1_Intron																	0						tgagctcctcgagggcaggaa	0.020000													7	22					0	0	0.029380	0	0
KANK1	23189	broad.mit.edu	37	9	711531	711531	+	Silent	SNP	G	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr9:711531G>A	uc003zgl.1	+	7	1414	c.765G>A	c.(763-765)GTG>GTA	p.V255V	KANK1_uc003zgm.2_Silent_p.V255V|KANK1_uc003zgn.1_Silent_p.V255V|KANK1_uc003zgo.1_Silent_p.V255V|KANK1_uc003zgp.1_Silent_p.V255V|KANK1_uc003zgq.2_Silent_p.V97V|KANK1_uc003zgr.1_Silent_p.V97V|KANK1_uc003zgs.1_Silent_p.V97V	NM_015158	NP_055973	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1 isoform a	255					negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)		TGACCAACGTGAGCCCCATGC	0.627000													9	55					0	0	0.058154	0	0
GLDC	2731	broad.mit.edu	37	9	6534789	6534789	+	Splice_Site	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr9:6534789C>G	uc003zkc.2	-	24	3032	c.2839_splice	c.e24-1	p.M947_splice		NM_000170	NP_000161	P23378	GCSP_HUMAN	glycine dehydrogenase (decarboxylating)						glycine catabolic process	mitochondrion	electron carrier activity|glycine dehydrogenase (decarboxylating) activity|lyase activity|pyridoxal phosphate binding			ovary(2)	2		Acute lymphoblastic leukemia(23;0.161)		GBM - Glioblastoma multiforme(50;0.0421)|Lung(218;0.134)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	GTGGAGACATCTGAGACAGAG	0.547000													10	24					0	0	0.058154	0	0
C9orf11	54586	broad.mit.edu	37	9	27296981	27296981	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr9:27296981C>T	uc003zql.2	-	1	157	c.73G>A	c.(73-75)GAA>AAA	p.E25K	C9orf11_uc011lnq.1_Missense_Mutation_p.E25K|C9orf11_uc003zqm.2_Missense_Mutation_p.E25K	NM_020641	NP_065692	Q9NQ60	AFAF_HUMAN	Acr formation associated factor isoform 1	25	Vesicular (Potential).					acrosomal membrane|integral to membrane				ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(39;7.39e-08)|Lung(218;1.26e-05)|LUSC - Lung squamous cell carcinoma(38;0.000106)		CTCTCACCTTCAATAGTAGGC	0.303000													4	24					0	0	0.009096	0	0
NTNG2	84628	broad.mit.edu	37	9	135042422	135042422	+	Missense_Mutation	SNP	C	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr9:135042422C>G	uc004cbh.2	+	2	980	c.204C>G	c.(202-204)TTC>TTG	p.F68L		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	68	Laminin N-terminal.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		CTGAGAGGTTCTGCTCCCATG	0.582000													12	27					0	0	0.080935	0	0
TUBBP5	643224	broad.mit.edu	37	9	141071420	141071420	+	Missense_Mutation	SNP	G	A	A	rs147421666	by1000genomes	TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr9:141071420G>A	uc004com.2	+	4	1084	c.823G>A	c.(823-825)GAC>AAC	p.D275N	TUBBP5_uc010ncq.2_3'UTR					RecName: Full=Putative tubulin beta-4q chain;												0						CTGGTTCCCCGACAACGTAAA	0.512000													4	61					0	0	0.021553	0	0
Unknown	0	broad.mit.edu	37	X	47663315	47663315	+	IGR	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chrX:47663315G>C								LOC100133957 (143539 upstream) : ZNF81 (32986 downstream)																							AGAAAATTAAGATGGGGCAAG	0.438000													4	64					0	0	0.009096	0	0
NUDT10	170685	broad.mit.edu	37	X	51076024	51076024	+	Silent	SNP	G	A	A	rs143435240	byFrequency	TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chrX:51076024G>A	uc004dph.2	+	2	427	c.207G>A	c.(205-207)GAG>GAA	p.E69E	NUDT10_uc004dpi.3_Silent_p.E69E	NM_153183	NP_694853	Q8NFP7	NUD10_HUMAN	nudix-type motif 10	69	Nudix box.|Nudix hydrolase.	Magnesium 1 (By similarity).				cytoplasm	diphosphoinositol-polyphosphate diphosphatase activity|metal ion binding				0	Ovarian(276;0.236)					TGTACGAAGAGGCGGGAGTCA	0.657000													3	48					0	0	0.004672	0	0
AR	367	broad.mit.edu	37	X	66931424	66931424	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chrX:66931424G>C	uc004dwu.1	+	4	3181	c.2066G>C	c.(2065-2067)GGA>GCA	p.G689A	AR_uc004dwv.1_Missense_Mutation_p.G157A	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	688	Interaction with MYST2.		G -> E (in AIS).		cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	GTGTGTGCTGGACACGACAAC	0.527000									Androgen_Insensitivity_Syndrome				8	36					0	0	0.038147	0	0
MAGT1	84061	broad.mit.edu	37	X	77112282	77112282	+	Missense_Mutation	SNP	C	A	A			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chrX:77112282C>A	uc004fof.2	-	5	778	c.716G>T	c.(715-717)AGA>ATA	p.R239I	MAGT1_uc004fog.3_Intron	NM_032121	NP_115497	Q9H0U3	MAGT1_HUMAN	magnesium transporter 1	207					protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				upper_aerodigestive_tract(1)	1						CATATTACTTCTTCGAAGATA	0.353000													6	111					3.59834e-05	4.05008e-05	0.021553	1	0
NOX1	27035	broad.mit.edu	37	X	100118508	100118508	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chrX:100118508C>T	uc004egj.2	-	3	424	c.218G>A	c.(217-219)CGC>CAC	p.R73H	uc010nnf.2_Intron|NOX1_uc004egl.3_Missense_Mutation_p.R73H|NOX1_uc010nne.2_Intron	NM_007052	NP_008983	Q9Y5S8	NOX1_HUMAN	NADPH oxidase 1 isoform long	73	Cytoplasmic (Potential).|Ferric oxidoreductase.				angiogenesis|cell migration|electron transport chain|FADH2 metabolic process|hydrogen peroxide metabolic process|inflammatory response|intracellular pH elevation|positive regulation of integrin biosynthetic process|positive regulation of smooth muscle cell proliferation|positive regulation vascular endothelial growth factor production|respiratory burst|response to pH|signal transduction|superoxide anion generation	cell junction|early endosome|invadopodium membrane|NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|Rac GTPase binding|superoxide-generating NADPH oxidase activity|voltage-gated proton channel activity			ovary(1)	1						CAGCAGATTGCGACACACAGG	0.517000													12	36					0	0	0.105934	0	0
NXF3	56000	broad.mit.edu	37	X	102333517	102333517	+	Silent	SNP	G	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chrX:102333517G>T	uc004eju.2	-	17	1493	c.1422C>A	c.(1420-1422)ACC>ACA	p.T474T	NXF3_uc010noi.1_Missense_Mutation_p.L321I	NM_022052	NP_071335	Q9H4D5	NXF3_HUMAN	nuclear RNA export factor 3	474	NTF2.					cytoplasm|nuclear RNA export factor complex	nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3						TAGCAATGAAGGTCCGGGTGA	0.542000													52	151					1.74971e-23	2.10613e-23	0.048971	1	0
TRPC5	7224	broad.mit.edu	37	X	111078298	111078298	+	Silent	SNP	A	G	G			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chrX:111078298A>G	uc004epl.1	-	7	2666	c.1747T>C	c.(1747-1749)TTA>CTA	p.L583L	TRPC5_uc004epm.1_Silent_p.L583L	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	583	Extracellular (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						TATAGATTTAAAAGGCCAAAT	0.398000													29	311					0	0	0.041601	0	0
MAP7D3	79649	broad.mit.edu	37	X	135318427	135318427	+	Missense_Mutation	SNP	C	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chrX:135318427C>T	uc004ezt.2	-	7	803	c.712G>A	c.(712-714)GAA>AAA	p.E238K	MAP7D3_uc004ezs.2_Missense_Mutation_p.E202K|MAP7D3_uc011mwc.1_Missense_Mutation_p.E220K|MAP7D3_uc010nsa.1_Missense_Mutation_p.E237K	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	238						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					TCGGCTTGTTCTTTATCAGTA	0.328000													8	141					0	0	0.047766	0	0
MAGEC1	9947	broad.mit.edu	37	X	140994453	140994453	+	Missense_Mutation	SNP	G	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chrX:140994453G>C	uc004fbt.2	+	4	1549	c.1263G>C	c.(1261-1263)TTG>TTC	p.L421F	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	421							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CTACTTTATTGAGTATTTTAC	0.463000										HNSCC(15;0.026)			43	201					0	0	0.045515	0	0
F8	2157	broad.mit.edu	37	X	154066005	154066005	+	Missense_Mutation	SNP	G	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chrX:154066005G>T	uc004fmt.2	-	26	7094	c.6923C>A	c.(6922-6924)TCC>TAC	p.S2308Y	F8_uc004fms.2_Missense_Mutation_p.S173Y	NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	2308	F5/8 type C 2.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	AGGTGTGAAGGAGTCTTGATT	0.483000													8	33					7.48243e-07	8.57018e-07	0.058154	1	0
RPS6KA1	6195	broad.mit.edu	37	1	26898762	26898763	+	Frame_Shift_Del	DEL	AC	-	-			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:26898762_26898763delAC	uc001bmr.1	+	20	2088_2089	c.1925_1926delAC	c.(1924-1926)AACfs	p.N642fs	RPS6KA1_uc010ofe.1_Frame_Shift_Del_p.N550fs|RPS6KA1_uc001bms.1_Frame_Shift_Del_p.N651fs|RPS6KA1_uc009vsl.1_Frame_Shift_Del_p.N485fs	NM_002953	NP_002944	Q15418	KS6A1_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	642	Protein kinase 2.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|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	cytosol|nucleoplasm	ATP binding|caspase inhibitor activity|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(1)	1		all_cancers(24;2.49e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00571)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;1.12e-50)|OV - Ovarian serous cystadenocarcinoma(117;2.89e-29)|Colorectal(126;1.4e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000537)|KIRC - Kidney renal clear cell carcinoma(1967;0.000759)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0361)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.161)|LUSC - Lung squamous cell carcinoma(448;0.234)		GGAAATTGGAACACAGTTTCAG	0.535													10	49	---	---	---	---					
Unknown	0	broad.mit.edu	37	1	31128136	31128138	+	IGR	DEL	TGG	-	-			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:31128136_31128138delTGG								None (None upstream) : MATN1 (55988 downstream)																							gtggtggtgatggtggtggtggt	0.000													3	3	---	---	---	---					
CD101	9398	broad.mit.edu	37	1	117556245	117556246	+	Frame_Shift_Del	DEL	AA	-	-			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr1:117556245_117556246delAA	uc010oxb.1	+	4	1117_1118	c.1059_1060delAA	c.(1057-1062)TCAAAGfs	p.S353fs	CD101_uc009whd.2_Frame_Shift_Del_p.S353fs|CD101_uc010oxc.1_Frame_Shift_Del_p.S353fs|CD101_uc010oxd.1_Frame_Shift_Del_p.S291fs	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	353_354	Ig-like C2-type 3.|Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						TCCAGGTTTCAAAGTTAGGCCC	0.500													11	67	---	---	---	---					
Unknown	0	broad.mit.edu	37	12	30700730	30700731	+	IGR	DEL	TA	-	-	rs72206815		TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr12:30700730_30700731delTA								TMTC1 (763038 upstream) : IPO8 (81192 downstream)																							TCTAACCATTTATAGGCTGGTA	0.406													3	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	12	132152375	132152376	+	IGR	INS	-	AAA	AAA	rs34559456		TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr12:132152375_132152376insAAA								LOC116437 (454900 upstream) : SFRS8 (43259 downstream)																							TGGTTATTGttaaaaaaaaaaa	0.460													4	5	---	---	---	---					
SPTLC2	9517	broad.mit.edu	37	14	78045373	78045385	+	Frame_Shift_Del	DEL	CGATTCCAGTTGT	-	-	rs116730455	by1000genomes	TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr14:78045373_78045385delCGATTCCAGTTGT	uc001xub.2	-	3	583_595	c.395_407delACAACTGGAATCG	c.(394-408)GACAACTGGAATCGGfs	p.D132fs		NM_004863	NP_004854	O15270	SPTC2_HUMAN	serine palmitoyltransferase, long chain base	132_136						integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups			upper_aerodigestive_tract(1)|ovary(1)	2			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0346)	L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	ACAGATTGGCCGATTCCAGTTGTCTCTTATCCT	0.394													11	42	---	---	---	---					
INTS2	57508	broad.mit.edu	37	17	60005524	60005527	+	5'Flank	DEL	CAAG	-	-	rs3217606		TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr17:60005524_60005527delCAAG	uc002izn.2	-						INTS2_uc002izm.2_5'Flank	NM_020748	NP_065799	Q9H0H0	INT2_HUMAN	integrator complex subunit 2						snRNA processing	integral to membrane|integrator complex|nuclear membrane	protein binding			ovary(1)|lung(1)|pancreas(1)	3						TCCTTTTAGACAAGCAAGCCACTG	0.431													3	3	---	---	---	---					
C17orf90	339229	broad.mit.edu	37	17	79633582	79633582	+	Frame_Shift_Del	DEL	C	-	-			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr17:79633582delC	uc002kba.2	-	1	37	c.26delG	c.(25-27)GGAfs	p.G9fs	C17orf90_uc002kbb.2_Frame_Shift_Del_p.G9fs|CCDC137_uc002kbc.3_5'Flank|CCDC137_uc002kbd.2_5'Flank	NM_001039842	NP_001034931	Q5BKU9	CQ090_HUMAN	hypothetical protein LOC339229	9											0	all_neural(118;0.0878)|all_lung(278;0.23)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			CGCCCGGCCTCCCTCGACCAC	0.741													3	6	---	---	---	---					
Unknown	0	broad.mit.edu	37	19	21823321	21823322	+	IGR	INS	-	T	T			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr19:21823321_21823322insT								ZNF429 (84253 upstream) : ZNF100 (83522 downstream)																							ttgtttttttgttttttttttg	0.010													3	6	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	91899626	91899626	+	IGR	DEL	A	-	-			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:91899626delA								LOC654342 (51651 upstream) : GGT8P (63742 downstream)																							CCAGAGGCTCAAAAAAAAAAA	0.289													3	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	92031435	92031436	+	IGR	INS	-	C	C			TCGA-FU-A23L-01A-11D-A16O-08	TCGA-FU-A23L-10A-01D-A16O-08									Somatic	Phase_I	Capture				Illumina GAIIx	99551676-a16b-4a7c-84a2-571731130d86	6881795c-5c2f-4406-ae0a-62c58056b4f2	g.chr2:92031435_92031436insC								GGT8P (61282 upstream) : FKSG73 (97723 downstream)																							CCACCAGCCCTCCTGTGGTAGG	0.653													4	6	---	---	---	---					
