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	init_n_lod
GPR153	387509	broad.mit.edu	37	1	6314867	6314867	+	Silent	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:6314867G>A	uc001amp.1	-	2	359	c.99C>T	c.(97-99)GGC>GGT	p.G33G		NM_207370	NP_997253	Q6NV75	GP153_HUMAN	G protein-coupled receptor 153	33	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	Ovarian(185;0.0634)	all_cancers(23;8.07e-33)|all_epithelial(116;4.45e-18)|all_lung(118;1.09e-06)|all_neural(13;3.68e-06)|Lung NSC(185;1.52e-05)|all_hematologic(16;2.39e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00475)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;1.91e-37)|GBM - Glioblastoma multiforme(13;4.87e-29)|OV - Ovarian serous cystadenocarcinoma(86;3.03e-19)|Colorectal(212;1.33e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(365;0.00109)|STAD - Stomach adenocarcinoma(132;0.00313)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.246)		TCTGCTTGGCGCCAACGCTGA	0.637000													9	81					0	0	1	0	0	
CLCN6	1185	broad.mit.edu	37	1	11888593	11888593	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:11888593G>A	uc001ate.3	+	12	1146	c.1033G>A	c.(1033-1035)GGC>AGC	p.G345S	CLCN6_uc009vnh.1_Intron|CLCN6_uc010oat.1_Missense_Mutation_p.G61S|CLCN6_uc010oau.1_Missense_Mutation_p.G323S	NM_001286	NP_001277	P51797	CLCN6_HUMAN	chloride channel 6 isoform ClC-6a	345	Helical; (By similarity).				cell volume homeostasis|signal transduction	endosome membrane|integral to membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000816)|KIRC - Kidney renal clear cell carcinoma(229;0.00268)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		GGTCATTGGGGGCCTCCTGGG	0.507000													10	332					0	0	1	0	0	
NPPB	4879	broad.mit.edu	37	1	11918406	11918406	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:11918406C>T	uc001atj.2	-	2	355	c.253G>A	c.(253-255)GAG>AAG	p.E85K		NM_002521	NP_002512	P16860	ANFB_HUMAN	natriuretic peptide precursor B preproprotein	85					body fluid secretion|cGMP biosynthetic process|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation	extracellular space	diuretic hormone activity			ovary(2)	2	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.88e-06)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)	Carvedilol(DB01136)|Nesiritide(DB04899)|Testosterone(DB00624)	CGGATGCCCTCGGTGGCTACC	0.642000													8	56					0	0	1	0	0	
MST1P2	11209	broad.mit.edu	37	1	16975154	16975154	+	RNA	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:16975154G>A	uc010och.1	+	7		c.1614G>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						GCCCTGCGACGCTGCGGTGAG	0.592000													17	122					0	0	1	0	0	
SNRNP40	9410	broad.mit.edu	37	1	31764770	31764770	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:31764770T>C	uc001bso.2	-	3	401	c.355A>G	c.(355-357)ACA>GCA	p.T119A	SNRNP40_uc010oge.1_Missense_Mutation_p.T119A	NM_004814	NP_004805	Q96DI7	SNR40_HUMAN	WD repeat domain 57 (U5 snRNP specific)	119	WD 2.					catalytic step 2 spliceosome|cytoplasm|nucleoplasm|small nucleolar ribonucleoprotein complex|U5 snRNP	protein binding				0						CTGCCATCTGTGTTGTAATGC	0.458000													5	76					0	0	1	0	0	
LEPR	3953	broad.mit.edu	37	1	66101896	66101896	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:66101896T>C	uc001dci.2	+	20	2898	c.2696T>C	c.(2695-2697)TTT>TCT	p.F899S	LEPR_uc009waq.2_Silent_p.L173L	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	899	Cytoplasmic (Potential).				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		GAGCATCTTTTTATCAAGCAT	0.333000													13	181					0	0	1	0	0	
PTGFR	5737	broad.mit.edu	37	1	78958507	78958507	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:78958507C>T	uc001din.2	+	2	345	c.79C>T	c.(79-81)CGG>TGG	p.R27W	PTGFR_uc001dim.2_Missense_Mutation_p.R27W	NM_000959	NP_000950	P43088	PF2R_HUMAN	prostaglandin F receptor isoform a precursor	27	Extracellular (Potential).				parturition	extracellular region|integral to plasma membrane	prostaglandin F receptor activity			ovary(3)|breast(2)|skin(1)	6				Colorectal(170;0.248)	Bimatoprost(DB00905)|Latanoprost(DB00654)|Travoprost(DB00287)	GACGGAAAACCGGCTTTCCGT	0.438000													8	94					0	0	1	0	0	
LOC645166	645166	broad.mit.edu	37	1	148932835	148932835	+	RNA	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:148932835C>T	uc010pbc.1	+	2		c.150C>T			LOC645166_uc010pbd.1_RNA|LOC645166_uc009wkw.1_RNA	NR_027355				Homo sapiens cDNA, FLJ18771.												0						ATAGAGCTGCCCAGCATGGCT	0.602000													7	123					0	0	1	0	0	
S100A9	6280	broad.mit.edu	37	1	153333228	153333228	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:153333228A>C	uc001fbq.2	+	3	302	c.259A>C	c.(259-261)ACC>CCC	p.T87P		NM_002965	NP_002956	P06702	S10A9_HUMAN	S100 calcium-binding protein A9	87	EF-hand 2.				cell-cell signaling	cytoplasm|cytoskeleton|nucleus|plasma membrane	calcium ion binding|protein binding|signal transducer activity				0	all_lung(78;2.81e-33)|Lung NSC(65;9.54e-32)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.171)			GGCGAGGCTAACCTGGGCCTC	0.572000													8	53					0	0	1	0	0	
APOA1BP	128240	broad.mit.edu	37	1	156563293	156563293	+	Silent	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:156563293C>T	uc001fph.2	+	5	649	c.610C>T	c.(610-612)CTG>TTG	p.L204L	APOA1BP_uc001fpg.2_Silent_p.L204L|APOA1BP_uc001fpi.2_Missense_Mutation_p.P185L|APOA1BP_uc001fpj.2_Silent_p.L121L|APOA1BP_uc001fpk.2_Silent_p.L101L|APOA1BP_uc010php.1_Silent_p.L101L	NM_144772	NP_658985	Q8NCW5	AIBP_HUMAN	apolipoprotein A-I binding protein precursor	204	YjeF N-terminal.					extracellular region	protein binding			central_nervous_system(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CCACAGCATCCTGAGTGTCCT	0.572000													13	75					0	0	1	0	0	
FAM20B	9917	broad.mit.edu	37	1	179033214	179033214	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:179033214C>T	uc001gmc.2	+	5	1020	c.727C>T	c.(727-729)CGA>TGA	p.R243*		NM_014864	NP_055679	O75063	XYLK_HUMAN	hypothetical protein LOC9917 precursor	243	Lumenal (Potential).					Golgi membrane|integral to membrane	ATP binding|kinase activity|phosphotransferase activity, alcohol group as acceptor			ovary(3)	3						CAGGACTTACCGAGAAGGCAA	0.522000													42	60					0	0	1	0	0	
CENPF	1063	broad.mit.edu	37	1	214818634	214818634	+	Silent	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:214818634C>T	uc001hkm.2	+	13	5895	c.5721C>T	c.(5719-5721)ATC>ATT	p.I1907I		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	2003	Potential.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		TGAGTAGGATCAGATCGGAGA	0.418000													6	114					0	0	1	0	0	
URB2	9816	broad.mit.edu	37	1	229771163	229771163	+	Missense_Mutation	SNP	C	T	T	rs114879838	by1000genomes	TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:229771163C>T	uc001hts.1	+	4	939	c.803C>T	c.(802-804)ACG>ATG	p.T268M	URB2_uc009xfd.1_Missense_Mutation_p.T268M	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	268						nucleolus				central_nervous_system(2)|ovary(1)	3						GATGTGAAGACGGGAGCCATG	0.547000													40	51					0	0	1	0	0	
NID1	4811	broad.mit.edu	37	1	236175230	236175230	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:236175230C>T	uc001hxo.2	-	12	2620	c.2518G>A	c.(2518-2520)GTG>ATG	p.V840M	NID1_uc009xgd.2_Intron|NID1_uc009xgc.2_Translation_Start_Site	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	840	EGF-like 5; calcium-binding (Potential).				cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	CCTCCGGGCACGCAACGGAAG	0.582000													9	119					0	0	1	0	0	
FMN2	56776	broad.mit.edu	37	1	240371421	240371421	+	Silent	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:240371421C>T	uc010pyd.1	+	5	3534	c.3309C>T	c.(3307-3309)CCC>CCT	p.P1103P	FMN2_uc010pye.1_Silent_p.P1107P	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1103	Pro-rich.|FH1.				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)			CCCCTCTACCCGGAGTGGGCA	0.736000													3	39					0	0	1	0	0	
EXO1	9156	broad.mit.edu	37	1	242021853	242021853	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr1:242021853C>T	uc001hzh.2	+	8	1129	c.589C>T	c.(589-591)CAA>TAA	p.Q197*	EXO1_uc001hzi.2_Nonsense_Mutation_p.Q197*|EXO1_uc001hzj.2_Nonsense_Mutation_p.Q197*|EXO1_uc009xgq.2_Nonsense_Mutation_p.Q197*	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	197	I-domain.|Interaction with MSH3.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			TGAAATTGATCAAGCTCGGCT	0.398000								Direct_reversal_of_damage|Editing_and_processing_nucleases					14	146					0	0	1	0	0	
RBP3	5949	broad.mit.edu	37	10	48388253	48388253	+	Silent	SNP	G	A	A	rs142862418		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr10:48388253G>A	uc001jez.2	-	1	2739	c.2625C>T	c.(2623-2625)GGC>GGT	p.G875G		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	875	4 X approximate tandem repeats.|3.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	CAGAGAGTGCGCCTCCGGCCG	0.652000													16	26					0	0	1	0	0	
Unknown	0	broad.mit.edu	37	10	48968566	48968566	+	RNA	SNP	A	G	G			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr10:48968566A>G	uc001jgc.1	+	3		c.1234A>G								full-length cDNA clone CS0DI009YC01 of Placenta Cot 25-normalized of Homo sapiens (human).																		ACAGGATAACAAACTGGAAAA	0.284000													6	11					0	0	1	0	0	
CTNNA3	29119	broad.mit.edu	37	10	68940162	68940162	+	Silent	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr10:68940162C>T	uc009xpn.1	-	7	1083	c.960G>A	c.(958-960)ACG>ACA	p.T320T	CTNNA3_uc001jmw.2_Silent_p.T320T|CTNNA3_uc001jmx.3_Silent_p.T320T|CTNNA3_uc009xpo.1_Silent_p.T180T|CTNNA3_uc001jna.2_Silent_p.T332T	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	320					cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						GTAAGTCCCTCGTACATGAAG	0.502000													11	64					0	0	1	0	0	
MUC5B	727897	broad.mit.edu	37	11	1271245	1271245	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:1271245A>C	uc009ycr.1	+	51	14680	c.14554A>C	c.(14554-14556)ACG>CCG	p.T4852P	MUC5B_uc001ltb.2_Missense_Mutation_p.T4382P	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4379	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CACCAGTTCCACGTCCACCCC	0.657000													23	107					0	0	1	0	0	
OR52K1	390036	broad.mit.edu	37	11	4511022	4511022	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:4511022A>T	uc001lza.1	+	1	892	c.892A>T	c.(892-894)ACC>TCC	p.T298S		NM_001005171	NP_001005171	Q8NGK4	O52K1_HUMAN	olfactory receptor, family 52, subfamily K,	298	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.76e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0836)|LUSC - Lung squamous cell carcinoma(625;0.192)		TGGAGTCAAGACCAAGCAGAT	0.448000													27	126					0	0	1	0	0	
OR56B1	387748	broad.mit.edu	37	11	5758490	5758490	+	Missense_Mutation	SNP	C	A	A	rs144847345		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:5758490C>A	uc001mbt.1	+	1	744	c.744C>A	c.(742-744)AGC>AGA	p.S248R	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001005180	NP_001005180	Q8NGI3	O56B1_HUMAN	olfactory receptor, family 56, subfamily B,	248	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.086)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.184)		AGGCCCTGAGCACTTGTAGTT	0.408000													19	146					7.21436e-19	7.81059e-19	1	1	0	
MRGPRX2	117194	broad.mit.edu	37	11	19077528	19077528	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:19077528C>T	uc001mph.2	-	2	510	c.422G>A	c.(421-423)CGC>CAC	p.R141H		NM_054030	NP_473371	Q96LB1	MRGX2_HUMAN	MAS-related GPR, member X2	141	Cytoplasmic (Potential).				sensory perception of pain|sleep	plasma membrane	G-protein coupled receptor activity|neuropeptide binding			ovary(1)	1						GTGTCTGGGGCGGCGGCAGCG	0.602000													9	60					0	0	1	0	0	
RAG1	5896	broad.mit.edu	37	11	36597806	36597806	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:36597806C>G	uc001mwu.3	+	2	3076	c.2952C>G	c.(2950-2952)TGC>TGG	p.C984W	RAG1_uc001mwt.2_Intron	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	984					histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				AGTCCAAATGCTATGAGATGG	0.453000									Familial_Hemophagocytic_Lymphohistiocytosis				9	103					0	0	1	0	0	
OR5B2	390190	broad.mit.edu	37	11	58189993	58189993	+	Missense_Mutation	SNP	C	T	T	rs140238243		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:58189993C>T	uc010rkg.1	-	1	742	c.742G>A	c.(742-744)GTC>ATC	p.V248I		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	248	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.V248I(1)		ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				CCATAGAAGACGGAGACTGCA	0.468000													6	38					0	0	1	0	0	
LPXN	9404	broad.mit.edu	37	11	58318648	58318648	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:58318648C>A	uc001nmw.2	-	5	521	c.376G>T	c.(376-378)GCC>TCC	p.A126S	LPXN_uc009ymp.2_5'UTR|LPXN_uc010rkj.1_Missense_Mutation_p.A131S|LPXN_uc010rkk.1_Missense_Mutation_p.A106S|LPXN_uc010rkl.1_RNA	NM_004811	NP_004802	O60711	LPXN_HUMAN	leupaxin isoform 2	126					cell adhesion|protein complex assembly|signal transduction	cytoplasm	zinc ion binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				TCCAGGGAGGCCTTGTGATCC	0.537000													9	27					2.17888e-05	2.22994e-05	1	1	0	
RASGRP2	10235	broad.mit.edu	37	11	64503430	64503430	+	Missense_Mutation	SNP	G	A	A	rs139499587		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:64503430G>A	uc009ypu.2	-	10	1345	c.1118C>T	c.(1117-1119)ACG>ATG	p.T373M	RASGRP2_uc001oat.2_Missense_Mutation_p.T275M|RASGRP2_uc001oau.2_Missense_Mutation_p.T228M|RASGRP2_uc009ypv.2_Missense_Mutation_p.T373M|RASGRP2_uc009ypw.2_Missense_Mutation_p.T373M	NM_001098671	NP_001092141	Q7LDG7	GRP2_HUMAN	RAS guanyl releasing protein 2	373	Ras-GEF.				platelet activation|Ras protein signal transduction|regulation of cell growth|regulation of small GTPase mediated signal transduction	cell junction|cytosol|ruffle membrane|synapse|synaptosome	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity				0						CTCATCCTCCGTCTGATACTG	0.627000													4	39					0	0	1	0	0	
MALAT1	378938	broad.mit.edu	37	11	65269751	65269751	+	RNA	SNP	T	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:65269751T>A	uc010roh.1	+	1		c.4519T>A			uc001ody.2_RNA|MALAT1_uc001odz.2_RNA	NR_002819				Homo sapiens clone alpha1 mRNA sequence.												0						TCTTTTGGAATTTTTTTCAGG	0.378000													3	16					0	0	1	0	0	
GRIA4	2893	broad.mit.edu	37	11	105795326	105795326	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:105795326G>A	uc001pix.2	+	12	2124	c.1678G>A	c.(1678-1680)GTG>ATG	p.V560M	GRIA4_uc001piw.2_Missense_Mutation_p.V560M	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	560	Helical; (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	TGGTGTCAGCGTGGTCTTATT	0.473000													13	45					0	0	1	0	0	
SRPR	6734	broad.mit.edu	37	11	126137202	126137202	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr11:126137202C>T	uc001qdh.2	-	4	445	c.394G>A	c.(394-396)GCT>ACT	p.A132T	SRPR_uc010sbm.1_Missense_Mutation_p.A104T|FOXRED1_uc001qdi.2_5'Flank|FOXRED1_uc010sbn.1_5'Flank|FOXRED1_uc010sbo.1_5'Flank|FOXRED1_uc010sbp.1_5'Flank|FOXRED1_uc010sbq.1_5'Flank|FOXRED1_uc001qdj.2_5'Flank|FOXRED1_uc010sbr.1_5'Flank	NM_003139	NP_003130	P08240	SRPR_HUMAN	signal recognition particle receptor	132					SRP-dependent cotranslational protein targeting to membrane	integral to membrane|signal recognition particle receptor complex	GTP binding|GTPase activity|receptor activity|signal recognition particle binding				0	all_hematologic(175;0.145)			BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0736)		GTAGTGGGAGCACGGATCTTA	0.438000													7	98					0	0	1	0	0	
CCND2	894	broad.mit.edu	37	12	4388038	4388038	+	Missense_Mutation	SNP	C	T	T	rs143681287		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr12:4388038C>T	uc001qmo.2	+	3	829	c.524C>T	c.(523-525)TCT>TTT	p.S175F		NM_001759	NP_001750	P30279	CCND2_HUMAN	cyclin D2	175					cell division|positive regulation of cyclin-dependent protein kinase activity|positive regulation of protein phosphorylation	cyclin-dependent protein kinase holoenzyme complex|cytoplasm|membrane|nucleus	protein kinase binding			haematopoietic_and_lymphoid_tissue(1)|breast(1)|kidney(1)	3			all cancers(3;4.15e-10)|GBM - Glioblastoma multiforme(3;6.34e-05)|Colorectal(7;0.00245)|OV - Ovarian serous cystadenocarcinoma(31;0.00301)|COAD - Colon adenocarcinoma(12;0.0264)|STAD - Stomach adenocarcinoma(119;0.206)			GAGAAGCTGTCTCTGATCCGC	0.572000			T	IGL@	NHL,CLL								4	30					0	0	1	0	0	
KRT72	140807	broad.mit.edu	37	12	52981611	52981611	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr12:52981611C>T	uc001sar.2	-	7	1200	c.1114G>A	c.(1114-1116)GCC>ACC	p.A372T	KRT72_uc001saq.2_Missense_Mutation_p.A372T|KRT72_uc010sns.1_Missense_Mutation_p.A330T|KRT72_uc010snt.1_Missense_Mutation_p.A184T	NM_001146225	NP_001139697	Q14CN4	K2C72_HUMAN	keratin 72 isoform 1	372	Coil 2.|Rod.					keratin filament	structural molecule activity			ovary(5)|pancreas(1)	6				BRCA - Breast invasive adenocarcinoma(357;0.195)		TCAGCGTCGGCGATGGCCGTC	0.622000													3	30					0	0	1	0	0	
OR6C2	341416	broad.mit.edu	37	12	55846401	55846401	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr12:55846401A>G	uc001sgz.1	+	1	404	c.404A>G	c.(403-405)AAC>AGC	p.N135S		NM_054105	NP_473446	Q9NZP2	OR6C2_HUMAN	olfactory receptor, family 6, subfamily C,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						GTCATCATGAACAACAGGGTG	0.458000													11	103					0	0	1	0	0	
E2F7	144455	broad.mit.edu	37	12	77449854	77449854	+	Silent	SNP	T	C	C			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr12:77449854T>C	uc001sym.3	-	3	386	c.150A>G	c.(148-150)GAA>GAG	p.E50E	E2F7_uc001syn.2_Silent_p.E50E	NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	50					cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						AATCAATTGGTTCATTTTTTA	0.363000													17	61					0	0	1	0	0	
PLBD2	196463	broad.mit.edu	37	12	113821937	113821937	+	Nonsense_Mutation	SNP	A	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr12:113821937A>T	uc001tve.2	+	7	1020	c.985A>T	c.(985-987)AAG>TAG	p.K329*	PLBD2_uc001tvf.2_Nonsense_Mutation_p.K329*	NM_173542	NP_775813	Q8NHP8	PLBL2_HUMAN	phospholipase B domain containing 2 isoform 1	329					lipid catabolic process	lysosomal lumen	hydrolase activity				0						CATTGGCAACAAGAACCCAGC	0.612000													10	30					0	0	1	0	0	
STARD13	90627	broad.mit.edu	37	13	33741704	33741704	+	Silent	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr13:33741704G>A	uc001uuw.2	-	2	351	c.225C>T	c.(223-225)TAC>TAT	p.Y75Y	STARD13_uc001uuu.2_Silent_p.Y67Y|STARD13_uc001uuv.2_Translation_Start_Site|STARD13_uc001uux.2_Silent_p.Y40Y|STARD13_uc010tec.1_RNA|STARD13_uc010abh.1_Silent_p.Y60Y	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	75	SAM.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		ATAACTGAGCGTATTGCGGGA	0.473000													5	77					0	0	1	0	0	
FAM10A4	145165	broad.mit.edu	37	13	50746754	50746754	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr13:50746754C>T	uc001vej.2	+	1	601	c.530C>T	c.(529-531)TCA>TTA	p.S177L	DLEU1_uc010adl.1_Intron|DLEU1_uc001vee.1_Intron|DLEU1_uc010adm.1_Intron|DLEU1_uc010adn.1_Intron|DLEU1_uc001vef.1_Intron|DLEU1_uc001veg.1_Intron|DLEU1_uc010tgn.1_Intron|DLEU1_uc001vei.1_Intron|DLEU1_uc010ado.1_Intron|DLEU1_uc010adp.1_Intron	NR_002183				SubName: Full=ST13 protein;												0						AATCCTGATTCAGCTCAGCCT	0.483000													21	181					0	0	1	0	0	
SLITRK6	84189	broad.mit.edu	37	13	86368299	86368299	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr13:86368299A>G	uc001vll.1	-	2	2804	c.2345T>C	c.(2344-2346)CTC>CCC	p.L782P	SLITRK6_uc010afe.1_Missense_Mutation_p.L235P	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	782	Cytoplasmic (Potential).					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		ATCAGGCTGGAGCTGAGCAAT	0.423000													9	152					0	0	1	0	0	
RTN1	6252	broad.mit.edu	37	14	60063484	60063484	+	Silent	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr14:60063484G>A	uc001xen.1	-	9	2519	c.2310C>T	c.(2308-2310)GGC>GGT	p.G770G	RTN1_uc001xem.1_Silent_p.G350G|RTN1_uc001xek.1_Silent_p.G202G|RTN1_uc001xel.1_RNA|RTN1_uc010apl.1_Silent_p.G187G	NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	770	Reticulon.				neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		GCCTCTTAGCGCCTGGGATTT	0.393000													8	107					0	0	1	0	0	
TTLL5	23093	broad.mit.edu	37	14	76149995	76149995	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr14:76149995C>G	uc001xrx.2	+	5	572	c.367C>G	c.(367-369)CCC>GCC	p.P123A	TTLL5_uc001xrw.1_Missense_Mutation_p.P123A|TTLL5_uc010ask.1_Missense_Mutation_p.P123A|TTLL5_uc001xrv.2_Missense_Mutation_p.P123A	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	123	TTL.				protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		TAATCACTTTCCCAGGTAATG	0.423000													38	36					0	0	1	0	0	
CATSPERB	79820	broad.mit.edu	37	14	92195816	92195816	+	Missense_Mutation	SNP	G	A	A	rs142347440	byFrequency	TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr14:92195816G>A	uc001xzs.1	-	2	148	c.8C>T	c.(7-9)TCG>TTG	p.S3L		NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	3					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				TATAAGTGGCGATTCCATCTG	0.264000													3	23					0	0	1	0	0	
CCPG1	9236	broad.mit.edu	37	15	55742448	55742448	+	Translation_Start_Site	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr15:55742448C>T	uc002acy.2	-	5	1010	c.-407G>A	c.(-409--405)TCGTG>TCATG		DYX1C1_uc010ugh.1_RNA|DYX1C1_uc010ugi.1_RNA|DYX1C1_uc002adb.2_Missense_Mutation_p.R252H|DYX1C1_uc002adc.2_Missense_Mutation_p.R252H|DYX1C1_uc002add.2_Missense_Mutation_p.R252H	NM_020739	NP_065790	Q9ULG6	CCPG1_HUMAN	cell cycle progression 1 isoform 2						cell cycle	integral to membrane				ovary(1)	1				all cancers(107;0.0354)		TTGTGATTCACGAAGAGCTGT	0.343000													14	45					0	0	1	0	0	
SGK269	79834	broad.mit.edu	37	15	77472426	77472426	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr15:77472426T>C	uc002bcm.2	-	3	2151	c.1843A>G	c.(1843-1845)ACT>GCT	p.T615A	SGK269_uc002bcn.2_Missense_Mutation_p.T615A	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	615					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		CGAGCATAAGTTGGCTCGTCA	0.348000													39	84					0	0	1	0	0	
AXIN1	8312	broad.mit.edu	37	16	354351	354351	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr16:354351G>A	uc002cgp.1	-	5	1384	c.1207C>T	c.(1207-1209)CGG>TGG	p.R403W	AXIN1_uc002cgq.1_Missense_Mutation_p.R403W	NM_003502	NP_003493	O15169	AXIN1_HUMAN	axin 1 isoform a	403	Interaction with GSK3B (By similarity).				activation of JUN kinase activity|activation of protein kinase activity|apoptosis|axial mesoderm formation|canonical Wnt receptor signaling pathway involved in neural plate anterior/posterior pattern formation|cellular protein complex assembly|cellular response to organic cyclic compound|cytoplasmic microtubule organization|determination of left/right symmetry|dorsal/ventral axis specification|embryonic eye morphogenesis|embryonic skeletal joint morphogenesis|forebrain anterior/posterior pattern formation|muscle cell development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|olfactory placode formation|optic placode formation|positive regulation of JNK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity|regulation of catenin import into nucleus|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway involved in somitogenesis	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|cell cortex|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|cytosol|lateral plasma membrane|nucleus|perinuclear region of cytoplasm|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|I-SMAD binding|p53 binding|protein complex scaffold|protein homodimerization activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			breast(1)|liver(1)	2		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)				TCGGCCTCCCGCGTGCGCTGC	0.687000													4	58					0	0	1	0	0	
TELO2	9894	broad.mit.edu	37	16	1552705	1552705	+	Silent	SNP	A	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr16:1552705A>T	uc002cly.2	+	14	2004	c.1713A>T	c.(1711-1713)GGA>GGT	p.G571G		NM_016111	NP_057195	Q9Y4R8	TELO2_HUMAN	TEL2, telomere maintenance 2, homolog	571						chromosome, telomeric region|cytoplasm|membrane|nucleus	protein binding				0		Hepatocellular(780;0.219)				GTGTGGTGGGATTTGCAGGGC	0.672000													35	161					0	0	1	0	0	
CIITA	4261	broad.mit.edu	37	16	11001727	11001727	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr16:11001727T>A	uc002dai.3	+	11	2511	c.2378T>A	c.(2377-2379)CTG>CAG	p.L793Q	CIITA_uc002daj.3_Missense_Mutation_p.L794Q|CIITA_uc002dak.3_Intron|CIITA_uc002dag.2_Missense_Mutation_p.L793Q|CIITA_uc002dah.2_Missense_Mutation_p.L745Q|CIITA_uc010bup.1_Intron	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	793					interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						GCGAGGTACCTGAAGCGGCTG	0.692000			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								13	71					0	0	1	0	0	
GPT2	84706	broad.mit.edu	37	16	46960947	46960947	+	Silent	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr16:46960947C>T	uc002eel.2	+	11	1573	c.1479C>T	c.(1477-1479)TTC>TTT	p.F493F	GPT2_uc002eem.2_Silent_p.F393F|GPT2_uc002een.2_Silent_p.F136F	NM_133443	NP_597700	Q8TD30	ALAT2_HUMAN	glutamic pyruvate transaminase 2 isoform 1	493					2-oxoglutarate metabolic process|cellular amino acid biosynthetic process|L-alanine metabolic process	mitochondrial matrix	L-alanine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)|skin(1)	2		all_cancers(37;0.0276)|all_epithelial(9;0.0498)|all_lung(18;0.0522)			L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	CTTACCACTTCAGGTATGACT	0.552000													14	61					0	0	1	0	0	
PLCG2	5336	broad.mit.edu	37	16	81944245	81944245	+	Silent	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr16:81944245C>T	uc002fgt.2	+	18	2006	c.1854C>T	c.(1852-1854)CGC>CGT	p.R618R	PLCG2_uc010chg.1_Silent_p.R618R	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	618	SH2 1.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						AGCACTACCGCGAGACGCACC	0.627000													17	262					0	0	1	0	0	
TOM1L2	146691	broad.mit.edu	37	17	17787971	17787971	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr17:17787971A>C	uc002grz.3	-	5	635	c.478T>G	c.(478-480)TCT>GCT	p.S160A	TOM1L2_uc002gry.3_Missense_Mutation_p.S110A|TOM1L2_uc010vwy.1_Missense_Mutation_p.S160A|TOM1L2_uc010cpr.2_Intron|TOM1L2_uc010vwz.1_Intron|TOM1L2_uc010vxa.1_Intron|TOM1L2_uc010vxb.1_Missense_Mutation_p.S110A	NM_001082968	NP_001076437	Q6ZVM7	TM1L2_HUMAN	target of myb1-like 2 isoform 3	160					intracellular protein transport	intracellular					0	all_neural(463;0.228)					TGTATGGGAGACAGAGCGTCC	0.542000													8	97					0	0	1	0	0	
MYO15A	51168	broad.mit.edu	37	17	18023036	18023036	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr17:18023036G>A	uc010vxh.1	+	2	1260	c.922G>A	c.(922-924)GGC>AGC	p.G308S		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	308	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity	p.G308D(1)		skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CTACGGCTACGGCTACGACGA	0.617000													10	73					0	0	1	0	0	
KCNJ12	3768	broad.mit.edu	37	17	21318662	21318662	+	Missense_Mutation	SNP	C	T	T	rs143653481	byFrequency	TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr17:21318662C>T	uc002gyv.1	+	3	713	c.8C>T	c.(7-9)GCG>GTG	p.A3V		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	3	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	GGGATGACCGCGGCCAGCCGG	0.692000										Prostate(3;0.18)			4	41					0	0	1	0	0	
FZD2	2535	broad.mit.edu	37	17	42636454	42636454	+	Silent	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr17:42636454C>T	uc002igx.1	+	1	1530	c.1398C>T	c.(1396-1398)TCC>TCT	p.S466S		NM_001466	NP_001457	Q14332	FZD2_HUMAN	frizzled 2 precursor	466	Helical; Name=6; (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|positive regulation of cGMP metabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		GCGTCTTCTCCGTGCTCTACA	0.627000													17	36					0	0	1	0	0	
C17orf104	284071	broad.mit.edu	37	17	42744852	42744852	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr17:42744852T>G	uc010czv.2	+	5	1573	c.1573T>G	c.(1573-1575)TTA>GTA	p.L525V	C17orf104_uc002igy.1_Missense_Mutation_p.L359V|C17orf104_uc002igz.3_Missense_Mutation_p.L359V|C17orf104_uc010wja.1_RNA|C17orf104_uc002iha.2_Missense_Mutation_p.L359V	NM_001145080	NP_001138552	A2RUB1	CQ104_HUMAN	hypothetical protein LOC284071	525										central_nervous_system(1)	1						ATCCACAAACTTAACCCCAAA	0.338000													4	29					0	0	1	0	0	
MARCH10	162333	broad.mit.edu	37	17	60813998	60813998	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr17:60813998G>T	uc010ddr.2	-	6	1469	c.1231C>A	c.(1231-1233)CAA>AAA	p.Q411K	MARCH10_uc002jag.3_Missense_Mutation_p.Q411K|MARCH10_uc010dds.2_Missense_Mutation_p.Q449K|MARCH10_uc002jah.2_Missense_Mutation_p.Q410K|uc002jaj.1_RNA|uc002jak.2_RNA	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	411							ligase activity|zinc ion binding				0						CCAACCTCTTGTCTGGGCTCG	0.478000													11	77					7.03913e-09	7.31846e-09	1	1	0	
KCNJ2	3759	broad.mit.edu	37	17	68172062	68172062	+	Silent	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr17:68172062C>T	uc010dfg.2	+	2	1283	c.882C>T	c.(880-882)ATC>ATT	p.I294I	KCNJ2_uc002jir.2_Silent_p.I294I	NM_000891	NP_000882	P63252	IRK2_HUMAN	potassium inwardly-rectifying channel J2	294	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity|protein binding				0	Breast(10;1.64e-08)					ACTTTGAAATCGTGGTCATAC	0.453000													13	61					0	0	1	0	0	
EPB41L3	23136	broad.mit.edu	37	18	5397408	5397408	+	Silent	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr18:5397408C>T	uc002kmt.1	-	18	2576	c.2490G>A	c.(2488-2490)ACG>ACA	p.T830T	EPB41L3_uc010wzh.1_Silent_p.T661T|EPB41L3_uc002kmu.1_Silent_p.T608T|EPB41L3_uc010dkq.1_Silent_p.T499T|EPB41L3_uc002kms.1_Silent_p.T65T|EPB41L3_uc010wze.1_Silent_p.T135T|EPB41L3_uc010wzf.1_Silent_p.T127T|EPB41L3_uc010wzg.1_Silent_p.T102T|EPB41L3_uc010dkr.2_Silent_p.T222T	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	830	Spectrin--actin-binding (Potential).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						CACTGGACTCCGTCTTGGTTT	0.537000													13	92					0	0	1	0	0	
ANKRD12	23253	broad.mit.edu	37	18	9258528	9258528	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr18:9258528A>G	uc002knv.2	+	9	5520	c.5263A>G	c.(5263-5265)ACA>GCA	p.T1755A	ANKRD12_uc002knw.2_Missense_Mutation_p.T1732A|ANKRD12_uc002knx.2_Missense_Mutation_p.T1732A|ANKRD12_uc010dkx.1_Missense_Mutation_p.T1462A	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	1755						nucleus				ovary(2)|central_nervous_system(1)	3						TGCTAGCTGTACACTATTATC	0.368000													6	59					0	0	1	0	0	
KLHL14	57565	broad.mit.edu	37	18	30350466	30350466	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr18:30350466T>A	uc002kxm.1	-	2	477	c.89A>T	c.(88-90)CAG>CTG	p.Q30L		NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	30						cytosol|endoplasmic reticulum membrane				ovary(1)	1						GCAAAACAGCTGCTTCCTCCA	0.632000													17	46					0	0	1	0	0	
CDH20	28316	broad.mit.edu	37	18	59166663	59166663	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr18:59166663A>C	uc010dps.1	+	2	503	c.491A>C	c.(490-492)AAG>ACG	p.K164T	CDH20_uc002lif.2_Missense_Mutation_p.K158T	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	164	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				AATGAGCCCAAGTTCCTGGAC	0.498000													11	32					0	0	1	0	0	
OR1M1	125963	broad.mit.edu	37	19	9204308	9204308	+	Silent	SNP	T	C	C			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr19:9204308T>C	uc010xkj.1	+	1	388	c.388T>C	c.(388-390)TTG>CTG	p.L130L		NM_001004456	NP_001004456	Q8NGA1	OR1M1_HUMAN	olfactory receptor, family 1, subfamily M,	130	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3						CTGCCACCCATTGCACTACGC	0.547000													20	92					0	0	1	0	0	
DDX39	10212	broad.mit.edu	37	19	14522340	14522340	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr19:14522340G>A	uc010xnp.1	-	4	452	c.407C>T	c.(406-408)TCC>TTC	p.S136F	DDX39_uc002myo.2_Missense_Mutation_p.S136F|DDX39_uc010dzl.2_RNA|DDX39_uc010dzm.1_Missense_Mutation_p.S136F	NM_005804	NP_005795	O00148	DX39A_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 39	136	Helicase ATP-binding.				mRNA export from nucleus|nuclear mRNA splicing, via spliceosome	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding				0						CATGTACTTGGAAAAGCGCTC	0.587000													16	66					0	0	1	0	0	
ZNF91	7644	broad.mit.edu	37	19	23542926	23542926	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr19:23542926G>T	uc002nre.2	-	4	2968	c.2855C>A	c.(2854-2856)ACC>AAC	p.T952N	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Missense_Mutation_p.T920N	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	952	C2H2-type 29.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				TGTAGTAAGGGTTGAGGATTG	0.393000													5	72					0.00116845	0.00118656	1	1	0	
EIF2B4	8890	broad.mit.edu	37	2	27587343	27587343	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr2:27587343A>G	uc002rkb.2	-	13	1639	c.1496T>C	c.(1495-1497)CTG>CCG	p.L499P	EIF2B4_uc002rjz.2_Missense_Mutation_p.L519P|EIF2B4_uc002rka.2_Missense_Mutation_p.L484P|EIF2B4_uc002rkc.2_Missense_Mutation_p.L498P|EIF2B4_uc002rkd.2_Missense_Mutation_p.L293P|EIF2B4_uc002rke.2_Missense_Mutation_p.L468P	NM_001034116	NP_001029288	Q9UI10	EI2BD_HUMAN	eukaryotic translation initiation factor 2B,	499					myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	translation initiation factor activity|translation initiation factor binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CGTGATCACCAGATCCACAAG	0.517000													26	61					0	0	1	0	0	
Unknown	0	broad.mit.edu	37	2	89156979	89156979	+	RNA	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr2:89156979C>T	uc010ytr.1	-	243		c.9946G>A			uc002sti.1_RNA|uc002stj.1_RNA					Parts of antibodies, mostly variable regions.																		CTTTGCTCAGCGTCAGGGTGC	0.567000													9	57					0	0	1	0	0	
SNRNP200	23020	broad.mit.edu	37	2	96967313	96967313	+	Silent	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr2:96967313G>A	uc002svu.2	-	4	609	c.523C>T	c.(523-525)CTG>TTG	p.L175L		NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	175						catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						TTTTTGCCCAGGTTCACTAGC	0.438000													153	96					0	0	1	0	0	
POTEF	728378	broad.mit.edu	37	2	130877735	130877735	+	Silent	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr2:130877735G>A	uc010fmh.2	-	3	754	c.354C>T	c.(352-354)GGC>GGT	p.G118G		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	118						cell cortex	ATP binding			skin(3)|ovary(2)	5						CTCCCCAAGCGCCCACCTTGC	0.587000													10	100					0	0	1	0	0	
TMEM163	81615	broad.mit.edu	37	2	135309655	135309655	+	Silent	SNP	G	A	A	rs145798414		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr2:135309655G>A	uc002ttx.2	-	3	396	c.330C>T	c.(328-330)TCC>TCT	p.S110S	TMEM163_uc002tty.2_RNA	NM_030923	NP_112185	Q8TC26	TM163_HUMAN	transmembrane protein 163	110						integral to membrane					0				BRCA - Breast invasive adenocarcinoma(221;0.154)		ACCTCATAACGGAGACAGCTA	0.338000													5	48					0	0	1	0	0	
DFNB59	494513	broad.mit.edu	37	2	179325944	179325944	+	Silent	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr2:179325944G>A	uc002umi.3	+	7	1358	c.1002G>A	c.(1000-1002)AAG>AAA	p.K334K	DFNB59_uc002umj.3_Silent_p.K334K	NM_001042702	NP_001036167	Q0ZLH3	PJVK_HUMAN	deafness, autosomal recessive 59	334					sensory perception of sound						0			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.0159)|all cancers(119;0.0564)			ATGGTCAGAAGTATGTGAGAC	0.408000													56	130					0	0	1	0	0	
TTN	7273	broad.mit.edu	37	2	179593239	179593239	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr2:179593239A>C	uc010zfg.1	-	63	15906	c.15682T>G	c.(15682-15684)TTA>GTA	p.L5228V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.L1889V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6155							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)			AGCACTCTTAAGTAGGCATCA	0.418000													3	28					0	0	1	0	0	
ERBB4	2066	broad.mit.edu	37	2	212576825	212576825	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr2:212576825G>T	uc002veg.1	-	9	1172	c.1074C>A	c.(1072-1074)AAC>AAA	p.N358K	ERBB4_uc002veh.1_Missense_Mutation_p.N358K|ERBB4_uc010zji.1_Missense_Mutation_p.N358K|ERBB4_uc010zjj.1_Missense_Mutation_p.N358K|ERBB4_uc010fut.1_Missense_Mutation_p.N358K	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	358	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		TCTTGGTACAGTTTATGAATT	0.363000										TSP Lung(8;0.080)			7	55					1.06961e-07	1.1033e-07	1	1	0	
IRS1	3667	broad.mit.edu	37	2	227663060	227663060	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr2:227663060C>T	uc002voh.3	-	1	447	c.395G>A	c.(394-396)GGT>GAT	p.G132D		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	132	Poly-Gly.|Mediates interaction with PHIP (By similarity).				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		GCTGCCCCCACCACCTCCCGC	0.672000											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	65	26					0	0	1	0	0	
RALGAPB	57148	broad.mit.edu	37	20	37203564	37203564	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr20:37203564A>G	uc002xiw.2	+	30	4696	c.4439A>G	c.(4438-4440)TAT>TGT	p.Y1480C	RALGAPB_uc002xix.2_Missense_Mutation_p.Y1477C|RALGAPB_uc002xiy.1_Missense_Mutation_p.I949V|RALGAPB_uc002xiz.2_Missense_Mutation_p.Y1259C	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	1480					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						CCAGAGTTTTATACTTCACTT	0.468000													78	82					0	0	1	0	0	
NCOA3	8202	broad.mit.edu	37	20	46254163	46254163	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr20:46254163G>A	uc002xtk.2	+	5	500	c.295G>A	c.(295-297)GAT>AAT	p.D99N	NCOA3_uc010ght.1_Missense_Mutation_p.D99N|NCOA3_uc002xtl.2_Missense_Mutation_p.D99N|NCOA3_uc002xtm.2_Missense_Mutation_p.D99N|NCOA3_uc002xtn.2_Missense_Mutation_p.D99N|NCOA3_uc010zyc.1_5'Flank	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	99					androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						TCAAAAAGCCGATGTATCTTC	0.363000													10	102					0	0	1	0	0	
ZNFX1	57169	broad.mit.edu	37	20	47881369	47881369	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr20:47881369G>A	uc002xui.2	-	5	2282	c.2035C>T	c.(2035-2037)CGG>TGG	p.R679W		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	679							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			CCACCCACCCGCACAATGCTG	0.547000													26	168					0	0	1	0	0	
EEF1A2	1917	broad.mit.edu	37	20	62126332	62126332	+	Silent	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr20:62126332G>A	uc002yfd.1	-	3	548	c.447C>T	c.(445-447)ATC>ATT	p.I149I	EEF1A2_uc002yfe.1_Silent_p.I149I|EEF1A2_uc010gkg.1_Silent_p.I149I	NM_001958	NP_001949	Q05639	EF1A2_HUMAN	eukaryotic translation elongation factor 1 alpha	149						nucleus	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0	all_cancers(38;9.45e-12)		BRCA - Breast invasive adenocarcinoma(10;1.22e-05)			TCACGCCCACGATGAGCTGCT	0.617000													13	162					0	0	1	0	0	
TCN2	6948	broad.mit.edu	37	22	31022488	31022488	+	Silent	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr22:31022488C>T	uc003aip.1	+	9	1422	c.1264C>T	c.(1264-1266)CTG>TTG	p.L422L	TCN2_uc003aiq.1_Silent_p.L418L|TCN2_uc003air.1_Silent_p.L395L	NM_000355	NP_000346	P20062	TCO2_HUMAN	transcobalamin II precursor	422					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular space	cobalamin binding			central_nervous_system(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	AACCATTGAGCTGAGGCTGGT	0.567000													5	66					0	0	1	0	0	
TRIOBP	11078	broad.mit.edu	37	22	38120006	38120006	+	Silent	SNP	T	C	C			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr22:38120006T>C	uc003atr.2	+	7	1714	c.1443T>C	c.(1441-1443)TGT>TGC	p.C481C	TRIOBP_uc003atu.2_Silent_p.C309C|TRIOBP_uc003atq.1_Silent_p.C481C|TRIOBP_uc003ats.1_Silent_p.C309C	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	481					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					GAACATCCTGTGCCCAGCGGG	0.592000													5	115					0	0	1	0	0	
PDZRN3	23024	broad.mit.edu	37	3	73432887	73432887	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr3:73432887G>A	uc003dpl.1	-	10	2926	c.2830C>T	c.(2830-2832)CGG>TGG	p.R944W	PDZRN3_uc011bgh.1_Missense_Mutation_p.R601W|PDZRN3_uc010hoe.1_Missense_Mutation_p.R642W|PDZRN3_uc011bgf.1_Missense_Mutation_p.R661W|PDZRN3_uc011bgg.1_Missense_Mutation_p.R664W	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	944							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		GCGCGCTCCCGCAGCAGGCGG	0.677000													12	36					0	0	1	0	0	
PHLDB2	90102	broad.mit.edu	37	3	111667811	111667811	+	Silent	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr3:111667811G>A	uc010hqa.2	+	10	2931	c.2520G>A	c.(2518-2520)CCG>CCA	p.P840P	PHLDB2_uc003dyc.2_Silent_p.P824P|PHLDB2_uc003dyd.2_Silent_p.P797P|PHLDB2_uc003dyg.2_Silent_p.P840P|PHLDB2_uc003dyh.2_Silent_p.P797P|PHLDB2_uc003dyi.2_Intron	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	840						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						TTAATGAGCCGTGTGGCAATT	0.473000													5	50					0	0	1	0	0	
KTELC1	56983	broad.mit.edu	37	3	119209420	119209420	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr3:119209420G>A	uc003ecm.2	+	9	904	c.820G>A	c.(820-822)GTA>ATA	p.V274I	KTELC1_uc011biz.1_RNA|KTELC1_uc011bja.1_Missense_Mutation_p.V115I	NM_152305	NP_689518	Q8NBL1	PGLT1_HUMAN	KTEL (Lys-Tyr-Glu-Leu) containing 1 precursor	274						endoplasmic reticulum lumen	UDP-glucosyltransferase activity				0				GBM - Glioblastoma multiforme(114;0.233)		TTTTCGAGGCGTAGCTGCAAG	0.418000													27	63					0	0	1	0	0	
DNAJC13	23317	broad.mit.edu	37	3	132172210	132172210	+	Silent	SNP	A	C	C			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr3:132172210A>C	uc003eor.2	+	7	671	c.606A>C	c.(604-606)ATA>ATC	p.I202I	DNAJC13_uc010htq.1_Silent_p.I202I|DNAJC13_uc003eos.1_5'Flank	NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	202							heat shock protein binding			ovary(1)|breast(1)	2						GTAACTACATAGGTATTTCAT	0.353000													3	36					0	0	1	0	0	
STX18	53407	broad.mit.edu	37	4	4543685	4543685	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr4:4543685C>T	uc003gic.2	-	1	91	c.7G>A	c.(7-9)GTG>ATG	p.V3M	uc003gid.2_5'Flank	NM_016930	NP_058626	Q9P2W9	STX18_HUMAN	syntaxin 18	3	Cytoplasmic (Potential).				ER to Golgi vesicle-mediated transport|intracellular protein transport	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	SNAP receptor activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.0534)		GTGATGTCCACCGCCATAGCG	0.711000													3	14					0	0	1	0	0	
SH3TC1	54436	broad.mit.edu	37	4	8229026	8229026	+	Silent	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr4:8229026C>T	uc003gkv.3	+	12	1706	c.1605C>T	c.(1603-1605)GAC>GAT	p.D535D	SH3TC1_uc003gkw.3_Silent_p.D459D|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_5'Flank	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	535							binding			large_intestine(2)|pancreas(1)	3						GCTTCAGCGACGAGGAGGAGC	0.687000													6	9					0	0	1	0	0	
LOC401127	401127	broad.mit.edu	37	4	39482848	39482848	+	RNA	SNP	A	G	G	rs11937734	by1000genomes	TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr4:39482848A>G	uc011byn.1	+	1		c.974A>G			LOC401127_uc011byo.1_RNA	NR_026854				Homo sapiens WD repeat domain 5 pseudogene (LOC401127), non-coding RNA.												0						ACTGGCCACAAGAACGAGAAA	0.502000													4	58					0	0	1	0	0	
AFM	173	broad.mit.edu	37	4	74367522	74367522	+	Silent	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr4:74367522G>A	uc003hhb.2	+	13	1696	c.1665G>A	c.(1663-1665)GTG>GTA	p.V555V		NM_001133	NP_001124	P43652	AFAM_HUMAN	afamin precursor	555	Albumin 3.				vitamin transport		vitamin E binding			ovary(2)|central_nervous_system(1)	3	Breast(15;0.00102)		Epithelial(6;5.69e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|all cancers(17;0.000555)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TCAACTTAGTGAAGCTGAAGC	0.388000													3	11					0	0	1	0	0	
BMP3	651	broad.mit.edu	37	4	81967172	81967172	+	Silent	SNP	T	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr4:81967172T>A	uc003hmg.3	+	2	917	c.597T>A	c.(595-597)TCT>TCA	p.S199S		NM_001201	NP_001192	P12645	BMP3_HUMAN	bone morphogenetic protein 3 preproprotein	199					cartilage development|cell differentiation|cell-cell signaling|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(4)|central_nervous_system(1)	5						CCTGGCTGTCTAAAGATATCA	0.453000													10	115					0	0	1	0	0	
NPR3	4883	broad.mit.edu	37	5	32724837	32724837	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr5:32724837G>A	uc003jhv.2	+	2	1021	c.803G>A	c.(802-804)CGG>CAG	p.R268Q	NPR3_uc010iuo.2_Missense_Mutation_p.R52Q|NPR3_uc011cnz.1_Missense_Mutation_p.R52Q|NPR3_uc003jhu.2_Missense_Mutation_p.R268Q	NM_000908	NP_000899	P17342	ANPRC_HUMAN	natriuretic peptide receptor C/guanylate cyclase	268	Extracellular (Potential).				osteoclast proliferation|positive regulation of urine volume|regulation of blood pressure|regulation of osteoblast proliferation|skeletal system development	integral to membrane	hormone binding|natriuretic peptide receptor activity			ovary(1)|central_nervous_system(1)	2					Nesiritide(DB04899)	GACACCATCCGGAGCATCATG	0.502000													11	34					0	0	1	0	0	
ERBB2IP	55914	broad.mit.edu	37	5	65349645	65349645	+	Silent	SNP	T	C	C			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr5:65349645T>C	uc003juk.1	+	21	2807	c.2499T>C	c.(2497-2499)CCT>CCC	p.P833P	ERBB2IP_uc003jui.1_Silent_p.P833P|ERBB2IP_uc003juj.1_Silent_p.P833P|ERBB2IP_uc011cqx.1_Silent_p.P833P|ERBB2IP_uc011cqy.1_Silent_p.P833P|ERBB2IP_uc011cqz.1_Intron|ERBB2IP_uc010iwx.1_Silent_p.P829P|ERBB2IP_uc003jul.1_Silent_p.P829P	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	833					basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		CCCAGTCTCCTAATAGGACTG	0.408000													8	37					0	0	1	0	0	
PDLIM4	8572	broad.mit.edu	37	5	131607859	131607859	+	Silent	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr5:131607859G>A	uc003kwn.2	+	7	1007	c.930G>A	c.(928-930)GTG>GTA	p.V310V	uc003kwm.3_Intron|PDLIM4_uc003kwp.2_3'UTR|PDLIM4_uc003kwo.2_Silent_p.V418V	NM_003687	NP_003678	P50479	PDLI4_HUMAN	PDZ and LIM domain 4 isoform 1	310	LIM zinc-binding.						protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AGGCGCGCGTGAAGCCGCCCG	0.617000													8	42					0	0	1	0	0	
APBB3	10307	broad.mit.edu	37	5	139938226	139938226	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr5:139938226C>T	uc003lgd.1	-	12	1779	c.1420G>A	c.(1420-1422)GTC>ATC	p.V474I	SRA1_uc003lfz.2_5'Flank|SRA1_uc010jfm.2_5'Flank|SRA1_uc003lga.2_5'Flank|APBB3_uc003lgb.1_Missense_Mutation_p.V246I|APBB3_uc003lgc.1_Missense_Mutation_p.V246I|APBB3_uc003lge.1_Missense_Mutation_p.V467I|APBB3_uc003lgf.1_RNA|APBB3_uc010jfp.1_RNA|APBB3_uc011czi.1_Missense_Mutation_p.V246I	NM_133172	NP_573418	O95704	APBB3_HUMAN	amyloid beta precursor protein-binding, family	469						actin cytoskeleton|cytoplasm				ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAAGAGAAGACACCCCGCTTT	0.602000													17	100					0	0	1	0	0	
PCDHB2	56133	broad.mit.edu	37	5	140475721	140475721	+	Silent	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr5:140475721C>T	uc003lil.2	+	1	1485	c.1347C>T	c.(1345-1347)AAC>AAT	p.N449N	PCDHB2_uc003lim.1_Silent_p.N110N	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	449	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCAATGACAACGCCCCCGCCT	0.597000													9	193					0	0	1	0	0	
SOX30	11063	broad.mit.edu	37	5	157073806	157073806	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr5:157073806C>T	uc003lxb.1	-	3	1568	c.1226G>A	c.(1225-1227)CGT>CAT	p.R409H	SOX30_uc003lxc.1_Missense_Mutation_p.R409H|SOX30_uc011dds.1_Missense_Mutation_p.R104H	NM_178424	NP_848511	O94993	SOX30_HUMAN	SRY (sex determining region Y)-box 30 isoform a	409					regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|response to corticosteroid stimulus|transcription, DNA-dependent	nucleus|nucleus	sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)|central_nervous_system(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CTTCCCTGGACGAGGCTGATA	0.348000													6	81					0	0	1	0	0	
CCDC99	54908	broad.mit.edu	37	5	169021405	169021405	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr5:169021405G>A	uc003mae.3	+	6	968	c.689G>A	c.(688-690)CGT>CAT	p.R230H	CCDC99_uc010jjj.2_Missense_Mutation_p.R159H|CCDC99_uc011deq.1_Missense_Mutation_p.R47H|CCDC99_uc010jjk.2_Intron	NM_017785	NP_060255	Q96EA4	SPDLY_HUMAN	coiled-coil domain containing 99	230	Potential.				cell division|establishment of mitotic spindle orientation|mitotic metaphase plate congression|mitotic prometaphase|protein localization to kinetochore	condensed chromosome outer kinetochore|cytosol|microtubule organizing center|nucleus|spindle pole	kinetochore binding|protein binding			ovary(1)|liver(1)	2	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TAGAAAGCTCGTGTAGCAAAT	0.358000													6	70					0	0	1	0	0	
ADAMTS2	9509	broad.mit.edu	37	5	178548684	178548684	+	Silent	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr5:178548684C>T	uc003mjw.2	-	21	3156	c.3156G>A	c.(3154-3156)TCG>TCA	p.S1052S		NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1052					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)		TCCGGATGGGCGAGTCGGGGT	0.627000													68	257					0	0	1	0	0	
DSP	1832	broad.mit.edu	37	6	7586000	7586000	+	Silent	SNP	C	G	G			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr6:7586000C>G	uc003mxp.1	+	24	8784	c.8505C>G	c.(8503-8505)TCC>TCG	p.S2835S	DSP_uc003mxq.1_Silent_p.S2236S	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	2835	6 X 4 AA tandem repeats of G-S-R-[SR].|Globular 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		gatctcgctccggatctcgct	0.393000													22	54					0	0	1	0	0	
SLC44A4	80736	broad.mit.edu	37	6	31839132	31839132	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr6:31839132C>A	uc010jti.2	-	9	726	c.660G>T	c.(658-660)AAG>AAT	p.K220N	SLC44A4_uc011dol.1_Missense_Mutation_p.K144N|SLC44A4_uc011dom.1_Missense_Mutation_p.K178N	NM_025257	NP_079533	Q53GD3	CTL4_HUMAN	choline transporter-like protein 4	220	Extracellular (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4					Choline(DB00122)	CTTCAAAGATCTTAACACTGA	0.522000													23	46					7.26314e-15	7.73554e-15	1	1	0	
DST	667	broad.mit.edu	37	6	56392430	56392430	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr6:56392430G>A	uc003pdf.2	-	62	11454	c.11426C>T	c.(11425-11427)GCG>GTG	p.A3809V	DST_uc003pcz.3_Missense_Mutation_p.A3631V|DST_uc011dxj.1_Missense_Mutation_p.A3660V|DST_uc011dxk.1_Missense_Mutation_p.A3671V|DST_uc003pcy.3_Missense_Mutation_p.A3305V	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	5717					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			AAGCTGCAGCGCCTGTTCCAG	0.448000													7	21					0	0	1	0	0	
BVES	11149	broad.mit.edu	37	6	105573419	105573419	+	Missense_Mutation	SNP	C	T	T	rs148128379		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr6:105573419C>T	uc003pqw.2	-	4	543	c.386G>A	c.(385-387)CGG>CAG	p.R129Q	BVES_uc003pqx.2_Missense_Mutation_p.R129Q|BVES_uc003pqy.2_Missense_Mutation_p.R129Q	NM_147147	NP_671488	Q8NE79	POPD1_HUMAN	blood vessel epicardial substance isoform 5	129	Cytoplasmic (Potential).				epithelial cell-cell adhesion|muscle organ development|positive regulation of locomotion|positive regulation of receptor recycling|regulation of Cdc42 GTPase activity|regulation of cell shape|regulation of Rac GTPase activity|substrate adhesion-dependent cell spreading|vesicle-mediated transport	integral to membrane|lateral plasma membrane|tight junction	structural molecule activity				0		all_cancers(87;2.83e-05)|Acute lymphoblastic leukemia(125;1.95e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0101)|Colorectal(196;0.204)|Lung NSC(302;0.238)				AAACAATCGCCGGTACATGCC	0.443000													11	75					0	0	1	0	0	
DDO	8528	broad.mit.edu	37	6	110729555	110729555	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr6:110729555C>G	uc003puc.2	-	3	351	c.347G>C	c.(346-348)GGT>GCT	p.G116A	C6orf186_uc003pub.2_5'UTR|DDO_uc003pud.2_Missense_Mutation_p.G116A	NM_003649	NP_003640	Q99489	OXDD_HUMAN	D-aspartate oxidase isoform a	88					aspartate catabolic process	peroxisome	binding|D-amino-acid oxidase activity|D-aspartate oxidase activity			ovary(2)|breast(1)	3		all_cancers(87;3.47e-21)|all_epithelial(87;9.03e-20)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_lung(197;2.98e-05)|Lung NSC(302;3.25e-05)|Colorectal(196;3.46e-05)|Ovarian(999;0.00327)		all cancers(137;2.54e-48)|Epithelial(106;3.11e-44)|OV - Ovarian serous cystadenocarcinoma(136;2.08e-24)|BRCA - Breast invasive adenocarcinoma(108;0.000141)|GBM - Glioblastoma multiforme(226;0.00046)		CAAATGAACACCAGCATCTCC	0.378000													6	56					0	0	1	0	0	
CARD11	84433	broad.mit.edu	37	7	2977628	2977628	+	Silent	SNP	C	T	T	rs145169161		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr7:2977628C>T	uc003smv.2	-	8	1460	c.1056G>A	c.(1054-1056)TCG>TCA	p.S352S		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	352	Potential.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		TTCCCAGGGTCGAGCACTTGA	0.552000			Mis		DLBCL								28	156					0	0	1	0	0	
LEP	3952	broad.mit.edu	37	7	127894645	127894645	+	Silent	SNP	G	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr7:127894645G>T	uc003vml.2	+	3	390	c.333G>T	c.(331-333)CTG>CTT	p.L111L	LEP_uc003vmm.2_Silent_p.L110L	NM_000230	NP_000221	P41159	LEP_HUMAN	leptin precursor	111					adult feeding behavior|energy reserve metabolic process|negative regulation of appetite|placenta development|positive regulation of developmental growth	extracellular space					0						TTCACGTGCTGGCCTTCTCTA	0.572000													14	85					1.05317e-09	1.10372e-09	1	1	0	
AMAC1L2	83650	broad.mit.edu	37	8	11188977	11188977	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr8:11188977C>A	uc003wtp.1	+	1	483	c.362C>A	c.(361-363)GCA>GAA	p.A121E		NM_054028	NP_473369	Q96KT7	AMCL2_HUMAN	acyl-malonyl condensing enzyme	121	DUF6 1.|Helical; (Potential).					integral to membrane					0			STAD - Stomach adenocarcinoma(15;0.00676)	COAD - Colon adenocarcinoma(149;0.0563)		GCCTACAGTGCAGTTCAGGTG	0.612000													31	167					6.00712e-18	6.45027e-18	1	1	0	
DOK2	9046	broad.mit.edu	37	8	21767234	21767234	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr8:21767234T>A	uc003wzy.1	-	5	920	c.827A>T	c.(826-828)GAC>GTC	p.D276V	DOK2_uc003wzx.1_Missense_Mutation_p.D276V|DOK2_uc003wzz.1_Missense_Mutation_p.D122V|DOK2_uc010lth.1_Missense_Mutation_p.D122V	NM_003974	NP_003965	O60496	DOK2_HUMAN	docking protein 2	276	Pro-rich.				blood coagulation|leukocyte migration	cytosol	identical protein binding|insulin receptor binding				0				Colorectal(74;0.0145)|COAD - Colon adenocarcinoma(73;0.0608)		CGGCAGTGAGTCATGCGGCCG	0.692000													26	45					0	0	1	0	0	
TOX	9760	broad.mit.edu	37	8	59764183	59764183	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr8:59764183C>A	uc003xtw.1	-	4	814	c.593G>T	c.(592-594)AGC>ATC	p.S198I		NM_014729	NP_055544	O94900	TOX_HUMAN	thymus high mobility group box protein TOX	198						nucleus	DNA binding			kidney(2)|lung(1)|skin(1)	4		all_cancers(86;0.165)|Myeloproliferative disorder(644;0.00452)|all_lung(136;0.036)|Lung NSC(129;0.0464)|all_epithelial(80;0.0607)				GGGAACATTGCTTCCTCCCAT	0.498000													23	33					1.50039e-11	1.58509e-11	1	1	0	
SULF1	23213	broad.mit.edu	37	8	70515533	70515533	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr8:70515533G>T	uc010lza.1	+	11	1885	c.1168G>T	c.(1168-1170)GAC>TAC	p.D390Y	SULF1_uc003xyd.2_Missense_Mutation_p.D390Y|SULF1_uc003xye.2_Missense_Mutation_p.D390Y|SULF1_uc003xyf.2_Missense_Mutation_p.D390Y|SULF1_uc003xyg.2_Missense_Mutation_p.D390Y|SULF1_uc003xyh.1_RNA	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	390					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			CAAACTTCTGGACCCAGAAAA	0.552000													9	96					0.00448238	0.00451686	1	1	0	
DECR1	1666	broad.mit.edu	37	8	91063919	91063919	+	Silent	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr8:91063919C>T	uc003yek.1	+	9	1041	c.900C>T	c.(898-900)GAC>GAT	p.D300D	DECR1_uc011lgc.1_Silent_p.D291D|DECR1_uc011lgd.1_RNA	NM_001359	NP_001350	Q16698	DECR_HUMAN	2,4-dienoyl CoA reductase 1 precursor	300					fatty acid beta-oxidation|protein homotetramerization	mitochondrial matrix|nucleus|plasma membrane	2,4-dienoyl-CoA reductase (NADPH) activity|NADPH binding|oxidoreductase activity, acting on NADH or NADPH				0			BRCA - Breast invasive adenocarcinoma(11;0.00953)			TTAAATTTGACGGTGGAGAGG	0.343000													10	16					0	0	1	0	0	
KANK1	23189	broad.mit.edu	37	9	732477	732477	+	Silent	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr9:732477G>A	uc003zgl.1	+	10	3754	c.3105G>A	c.(3103-3105)GAG>GAA	p.E1035E	KANK1_uc003zgm.2_3'UTR|KANK1_uc003zgn.1_Silent_p.E1035E|KANK1_uc003zgs.1_Silent_p.E877E|KANK1_uc010mgx.1_5'UTR|KANK1_uc010mgy.1_5'UTR|KANK1_uc003zgt.1_5'Flank	NM_015158	NP_055973	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1 isoform a	1035					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)		TTGAAGAAGAGGAGGAGGAGG	0.468000													5	97					0	0	1	0	0	
Unknown	0	broad.mit.edu	37	9	68728848	68728848	+	RNA	SNP	A	C	C			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr9:68728848A>C	uc004aez.1	+	3		c.689A>C			uc004afa.1_RNA|uc010mnp.1_RNA					Homo sapiens cDNA, FLJ18209.																		aagaagaaaaagagcaaagat	0.204000													4	18					0	0	1	0	0	
PRUNE2	158471	broad.mit.edu	37	9	79441533	79441533	+	Silent	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr9:79441533G>A	uc010mpk.2	-	5	748	c.624C>T	c.(622-624)ATC>ATT	p.I208I	PRUNE2_uc004akn.2_Silent_p.I208I	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	208					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						GGACGTTGATGATGTCCTCTC	0.498000													27	92					0	0	1	0	0	
PRPF4	9128	broad.mit.edu	37	9	116041256	116041256	+	Silent	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr9:116041256C>T	uc004bgx.2	+	3	290	c.240C>T	c.(238-240)AGC>AGT	p.S80S	PRPF4_uc004bgy.2_Silent_p.S79S	NM_004697	NP_004688	O43172	PRP4_HUMAN	PRP4 pre-mRNA processing factor 4 homolog	80				HISERQAEVLAEFERRKRARQINVST -> ISASDRQKYWL SLREGSEPGRSMFPP (in Ref. 3; AAC02261).		Cajal body|nuclear speck|spliceosomal complex|U4/U6 snRNP	protein binding			ovary(2)|pancreas(1)	3						AGCATATCAGCGAGCGACAGG	0.413000													12	63					0	0	1	0	0	
CRAT	1384	broad.mit.edu	37	9	131857760	131857760	+	Silent	SNP	G	A	A	rs2296770		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr9:131857760G>A	uc004bxh.2	-	14	2079	c.1797C>T	c.(1795-1797)AAC>AAT	p.N599N	CRAT_uc004bxg.2_Silent_p.N578N|CRAT_uc004bxk.3_Silent_p.N578N	NM_000755	NP_000746	P43155	CACP_HUMAN	carnitine acetyltransferase precursor	599					energy derivation by oxidation of organic compounds|fatty acid beta-oxidation using acyl-CoA oxidase|transport	endoplasmic reticulum|mitochondrial inner membrane|peroxisomal matrix	carnitine O-acetyltransferase activity			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)	L-Carnitine(DB00583)	GGCGGGCGGCGTTGGTCTCCG	0.667000													3	39					0	0	1	0	0	
NELF	26012	broad.mit.edu	37	9	140343924	140343924	+	Silent	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr9:140343924C>T	uc004cna.2	-	16	1747	c.1515G>A	c.(1513-1515)ACG>ACA	p.T505T	C9orf167_uc011mew.1_Intron|NELF_uc011mex.1_Silent_p.T302T|NELF_uc010nci.2_Silent_p.T249T|NELF_uc011mey.1_RNA|NELF_uc011mez.1_Silent_p.T482T|NELF_uc004cmz.2_Silent_p.T503T|NELF_uc004cnc.2_Silent_p.T480T|NELF_uc004cnb.2_Silent_p.T475T	NM_001130969	NP_001124441	Q6X4W1	NELF_HUMAN	nasal embryonic LHRH factor isoform a	505						nucleus|plasma membrane					0	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000222)|Epithelial(140;0.000888)		AGTCAAAGTACGTCTCGATCA	0.667000													6	48					0	0	1	0	0	
SHOX	6473	broad.mit.edu	37	X	601735	601735	+	Silent	SNP	C	T	T	rs138998412		TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chrX:601735C>T	uc004cph.1	+	5	1237	c.546C>T	c.(544-546)GGC>GGT	p.G182G	SHOX_uc004cpi.2_Silent_p.G182G	NM_000451	NP_000442	O15266	SHOX_HUMAN	short stature homeobox isoform SHOXa	182					skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TGGACACAGGCGTCATCTTGG	0.597000													9	31					0	0	1	0	0	
SHROOM2	357	broad.mit.edu	37	X	9862716	9862716	+	Silent	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chrX:9862716C>T	uc004csu.1	+	4	858	c.768C>T	c.(766-768)GGC>GGT	p.G256G		NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	256					apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				AGGCCGCAGGCGACCCTCAGG	0.672000													3	22					0	0	1	0	0	
XK	7504	broad.mit.edu	37	X	37586943	37586943	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chrX:37586943A>G	uc004ddq.2	+	3	645	c.563A>G	c.(562-564)AAC>AGC	p.N188S		NM_021083	NP_066569	P51811	XK_HUMAN	membrane transport protein XK	188	Helical; (Potential).				amino acid transport	integral to membrane	protein binding|transporter activity				0		all_lung(315;0.175)				TTGCGCTGCAACATCCTAGCC	0.473000													6	47					0	0	1	0	0	
RPS6KA6	27330	broad.mit.edu	37	X	83362033	83362033	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chrX:83362033G>A	uc004eej.1	-	14	1204	c.1127C>T	c.(1126-1128)CCA>CTA	p.P376L	RPS6KA6_uc011mqt.1_Missense_Mutation_p.P376L|RPS6KA6_uc011mqu.1_Missense_Mutation_p.P273L	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	376	AGC-kinase C-terminal.				axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						TGCACTGGCTGGCAAACCGGG	0.333000													16	24					0	0	1	0	0	
DCAF12L2	340578	broad.mit.edu	37	X	125299308	125299308	+	Silent	SNP	G	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chrX:125299308G>A	uc004euk.1	-	1	627	c.600C>T	c.(598-600)GTC>GTT	p.V200V		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	200	WD 2.									lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						TCAGCCAGGCGACTGCGAAGA	0.652000													10	46					0	0	1	0	0	
GPR112	139378	broad.mit.edu	37	X	135426978	135426978	+	Silent	SNP	T	C	C			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chrX:135426978T>C	uc004ezu.1	+	6	1404	c.1113T>C	c.(1111-1113)TCT>TCC	p.S371S	GPR112_uc010nsb.1_Silent_p.S166S|GPR112_uc010nsc.1_Silent_p.S138S	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	371	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					CTACACCTTCTAATTTCCTAT	0.358000													28	33					0	0	1	0	0	
MAGEA10	4109	broad.mit.edu	37	X	151303075	151303075	+	Nonsense_Mutation	SNP	T	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chrX:151303075T>A	uc004ffk.2	-	5	1426	c.1018A>T	c.(1018-1020)AGA>TGA	p.R340*	MAGEA10_uc004ffl.2_Nonsense_Mutation_p.R340*	NM_001011543	NP_001011543	P43363	MAGAA_HUMAN	melanoma antigen family A, 10	340											0	Acute lymphoblastic leukemia(192;6.56e-05)					TCCTGGGCTCTCTCTTCCTCA	0.473000													49	120					0	0	1	0	0	
GABRQ	55879	broad.mit.edu	37	X	151820033	151820033	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chrX:151820033C>T	uc004ffp.1	+	8	966	c.946C>T	c.(946-948)CGG>TGG	p.R316W		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	316						cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CTCACATCTGCGGGATAAGCT	0.458000													54	63					0	0	1	0	0	
TP53	7157	broad.mit.edu	37	17	7578266	7578267	+	Frame_Shift_Ins	INS	-	A	A			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr17:7578266_7578267insA	uc002gim.2	-	6	776_777	c.582_583insT	c.(580-585)CTTATCfs	p.L194fs	TP53_uc002gig.1_Frame_Shift_Ins_p.L194fs|TP53_uc002gih.2_Frame_Shift_Ins_p.L194fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Ins_p.L62fs|TP53_uc010cng.1_Frame_Shift_Ins_p.L62fs|TP53_uc002gii.1_Frame_Shift_Ins_p.L62fs|TP53_uc010cnh.1_Frame_Shift_Ins_p.L194fs|TP53_uc010cni.1_Frame_Shift_Ins_p.L194fs|TP53_uc002gij.2_Frame_Shift_Ins_p.L194fs|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Frame_Shift_Ins_p.L101fs|TP53_uc002gio.2_Frame_Shift_Ins_p.L62fs|TP53_uc010vug.1_Frame_Shift_Ins_p.L155fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	194_195	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		I -> F (in sporadic cancers; somatic mutation).|I -> L (in a sporadic cancer; somatic mutation).|I -> S (in sporadic cancers; somatic mutation).|I -> T (in sporadic cancers; somatic mutation).|I -> V (in a sporadic cancer; somatic mutation).|I -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|I -> N (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.L194R(31)|p.L194F(16)|p.I195F(16)|p.L194P(8)|p.0?(7)|p.L194H(5)|p.L194L(4)|p.A189_V197delAPPQHLIRV(4)|p.L194fs*15(2)|p.K164_P219del(1)|p.L194V(1)|p.P191fs*6(1)|p.H193_I195delHLI(1)|p.I195fs*12(1)|p.I195L(1)|p.I195fs*50(1)|p.L194fs*14(1)|p.L194fs*52(1)|p.?(1)|p.I195fs*14(1)|p.I195_G199delIRVEG(1)|p.L194I(1)|p.I195fs*52(1)|p.H193_I195>AP(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TCCACTCGGATAAGATGCTGAG	0.554		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			30	34	---	---	---	---						.
RRP1	8568	broad.mit.edu	37	21	45223595	45223595	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-A4J8-01A-11D-A25D-08	TCGA-BR-A4J8-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	40a23613-19f9-4e3d-a90b-bc147f910427	2905bcb7-677a-4df3-bdf6-e134ef64213b	g.chr21:45223595delT	uc002zds.2	+	13	1419	c.1326delT	c.(1324-1326)AGTfs	p.S442fs	RRP1_uc010gpk.1_Frame_Shift_Del_p.S292fs|RRP1_uc010gpl.1_Frame_Shift_Del_p.S340fs|RRP1_uc010gpm.1_Frame_Shift_Del_p.S309fs	NM_003683	NP_003674	P56182	RRP1_HUMAN	ribosomal RNA processing 1 homolog	442					rRNA processing	nucleolus|preribosome, small subunit precursor					0				COAD - Colon adenocarcinoma(84;0.00753)|Colorectal(79;0.0157)|STAD - Stomach adenocarcinoma(101;0.171)		CCCTGACCAGTGCCCGAGCAA	0.682													2	4	---	---	---	---						.
