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	filter
TAS1R1	80835	broad.mit.edu	37	1	6637114	6637114	+	Silent	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:6637114C>A	uc001ant.2	+	5	1578	c.1578C>A	c.(1576-1578)ACC>ACA	p.T526T	TAS1R1_uc001anu.2_Silent_p.T272T|TAS1R1_uc001anv.2_Silent_p.T272T|TAS1R1_uc001anw.2_Intron|ZBTB48_uc009vmc.1_5'Flank|ZBTB48_uc001anx.2_5'Flank|ZBTB48_uc009vmd.1_5'Flank	NM_138697	NP_619642	Q7RTX1	TS1R1_HUMAN	sweet taste receptor T1r isoform b	526	Extracellular (Potential).				sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;8.73e-34)|all_epithelial(116;9.26e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Breast(487;0.000353)|Renal(390;0.0007)|Colorectal(325;0.00104)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.29e-07)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|BRCA - Breast invasive adenocarcinoma(365;0.00108)|STAD - Stomach adenocarcinoma(132;0.0167)|READ - Rectum adenocarcinoma(331;0.0642)		GGGCTGGGACCTTCCTCAACA	0.617													4	19	---	---	---	---	PASS
PINK1	65018	broad.mit.edu	37	1	20975099	20975099	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:20975099G>C	uc001bdm.2	+	6	1319	c.1225G>C	c.(1225-1227)GGA>CGA	p.G409R	PINK1_uc001bdn.2_Missense_Mutation_p.G102R	NM_032409	NP_115785	Q9BXM7	PINK1_HUMAN	PTEN induced putative kinase 1 precursor	409	Protein kinase.|Cytoplasmic (Potential).		G -> V (in PARK6).		cell death|intracellular protein kinase cascade|mitochondrion degradation|peptidyl-serine phosphorylation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of release of cytochrome c from mitochondria|regulation of protein complex assembly|regulation of protein ubiquitination|response to stress	cytosol|integral to membrane|mitochondrial outer membrane	ATP binding|C3HC4-type RING finger domain binding|calcium-dependent protein kinase activity|magnesium ion binding|protein serine/threonine kinase activity|ubiquitin protein ligase binding			ovary(2)|central_nervous_system(1)	3		all_lung(284;2.72e-05)|Lung NSC(340;2.94e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000147)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.21e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000146)|Kidney(64;0.000182)|GBM - Glioblastoma multiforme(114;0.000497)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00308)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GGATCGGGGCGGAAACGGCTG	0.627													5	28	---	---	---	---	PASS
CATSPER4	378807	broad.mit.edu	37	1	26524860	26524860	+	Silent	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:26524860C>A	uc010oez.1	+	6	762	c.762C>A	c.(760-762)CTC>CTA	p.L254L	CATSPER4_uc010oey.1_Silent_p.L76L|CATSPER4_uc009vsf.2_RNA	NM_198137	NP_937770	Q7RTX7	CTSR4_HUMAN	cation channel, sperm associated 4	254					cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|voltage-gated ion channel activity			ovary(1)	1		all_cancers(24;2.05e-18)|Colorectal(325;0.000147)|Renal(390;0.00211)|all_lung(284;0.00218)|Lung NSC(340;0.00239)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0687)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;3.52e-26)|Colorectal(126;1.34e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000755)|BRCA - Breast invasive adenocarcinoma(304;0.000995)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00878)|READ - Rectum adenocarcinoma(331;0.0649)		TGTACACCCTCTTCATCTGCA	0.522													6	104	---	---	---	---	PASS
GRIK3	2899	broad.mit.edu	37	1	37356697	37356697	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:37356697C>A	uc001caz.2	-	2	251	c.116G>T	c.(115-117)GGA>GTA	p.G39V	GRIK3_uc001cba.1_Missense_Mutation_p.G39V	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	39	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	GAAGATTCCTCCTGTGAAAGA	0.502													5	89	---	---	---	---	PASS
RAVER2	55225	broad.mit.edu	37	1	65296547	65296547	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:65296547G>T	uc001dbs.1	+	12	1994	c.1916G>T	c.(1915-1917)CGA>CTA	p.R639L	RAVER2_uc001dbt.1_Missense_Mutation_p.R531L|RAVER2_uc010opb.1_Missense_Mutation_p.R364L	NM_018211	NP_060681	Q9HCJ3	RAVR2_HUMAN	ribonucleoprotein, PTB-binding 2	652						cytoplasm|nucleus	nucleotide binding|RNA binding			large_intestine(1)	1						AATGAAAAGCGAGGCTCATCA	0.358													4	106	---	---	---	---	PASS
COL24A1	255631	broad.mit.edu	37	1	86523649	86523649	+	Nonsense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:86523649C>A	uc001dlj.2	-	10	1858	c.1816G>T	c.(1816-1818)GGA>TGA	p.G606*	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Nonsense_Mutation_p.G606*	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	606	Collagen-like 2.				cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		CCTTCTGGTCCAGCTAAACCC	0.333													5	31	---	---	---	---	PASS
TARS2	80222	broad.mit.edu	37	1	150477118	150477118	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:150477118G>T	uc001euq.2	+	15	1736	c.1729G>T	c.(1729-1731)GCC>TCC	p.A577S	TARS2_uc001eur.2_Missense_Mutation_p.A495S|TARS2_uc009wlt.2_Missense_Mutation_p.A203S|TARS2_uc009wls.2_Missense_Mutation_p.A447S	NM_025150	NP_079426	Q9BW92	SYTM_HUMAN	threonyl-tRNA synthetase 2, mitochondrial	577					threonyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|threonine-tRNA ligase activity			ovary(1)	1	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.51e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)		L-Threonine(DB00156)	GCAGGCGGGTGCCCTGGAGCG	0.527													5	102	---	---	---	---	PASS
LCE1F	353137	broad.mit.edu	37	1	152748937	152748937	+	Silent	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:152748937C>A	uc010pdv.1	+	1	90	c.90C>A	c.(88-90)CCC>CCA	p.P30P		NM_178354	NP_848131	Q5T754	LCE1F_HUMAN	late cornified envelope 1F	30	Pro-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			cgaagtgccccccaaagtgtc	0.403													17	40	---	---	---	---	PASS
DENND4B	9909	broad.mit.edu	37	1	153914391	153914391	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:153914391G>T	uc001fdd.1	-	6	1410	c.1009C>A	c.(1009-1011)CTT>ATT	p.L337I		NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	337	DENN.									ovary(1)	1	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			TAGCGGTAAAGGAAGGTGAGG	0.667													5	28	---	---	---	---	PASS
NES	10763	broad.mit.edu	37	1	156640754	156640754	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:156640754C>A	uc001fpq.2	-	4	3359	c.3226G>T	c.(3226-3228)GAC>TAC	p.D1076Y		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	1076	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GAGGCTTGGTCACCCCCTGGG	0.692													5	17	---	---	---	---	PASS
CD1B	910	broad.mit.edu	37	1	158298754	158298754	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:158298754A>T	uc001frx.2	-	5	1045	c.937T>A	c.(937-939)TTG>ATG	p.L313M	CD1B_uc001frw.2_Missense_Mutation_p.L151M	NM_001764	NP_001755	P29016	CD1B_HUMAN	CD1B antigen precursor	313	Helical; (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to membrane|lysosomal membrane|plasma membrane	protein binding			ovary(2)	2	all_hematologic(112;0.0378)					AAAAGGAGCAAGGAAGGCACT	0.428													13	61	---	---	---	---	PASS
MNDA	4332	broad.mit.edu	37	1	158812030	158812030	+	Silent	SNP	G	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:158812030G>C	uc001fsz.1	+	2	287	c.87G>C	c.(85-87)CTG>CTC	p.L29L		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	29	DAPIN.				B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					AGTCCTTACTGGCCTATGATT	0.333													6	48	---	---	---	---	PASS
MNDA	4332	broad.mit.edu	37	1	158812031	158812031	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:158812031G>A	uc001fsz.1	+	2	288	c.88G>A	c.(88-90)GCC>ACC	p.A30T		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	30	DAPIN.				B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					GTCCTTACTGGCCTATGATTT	0.328													6	48	---	---	---	---	PASS
FCER1A	2205	broad.mit.edu	37	1	159275872	159275872	+	Silent	SNP	G	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:159275872G>A	uc001ftq.2	+	5	525	c.426G>A	c.(424-426)AAG>AAA	p.K142K		NM_002001	NP_001992	P12319	FCERA_HUMAN	Fc fragment of IgE, high affinity I, receptor	142	Ig-like 2.|Extracellular (Potential).					integral to plasma membrane				lung(2)|skin(2)|prostate(1)	5	all_hematologic(112;0.0429)				Benzylpenicilloyl Polylysine(DB00895)|Omalizumab(DB00043)	ATGTGTACAAGGTGATCTATT	0.502													13	54	---	---	---	---	PASS
GPR161	23432	broad.mit.edu	37	1	168056836	168056836	+	Silent	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:168056836C>A	uc001gfc.2	-	7	1625	c.1311G>T	c.(1309-1311)GTG>GTT	p.V437V	GPR161_uc001gfb.2_Silent_p.V305V|GPR161_uc010pll.1_Silent_p.V347V|GPR161_uc010plm.1_Silent_p.V323V|GPR161_uc009wvo.2_Silent_p.V454V|GPR161_uc001gfd.2_Silent_p.V437V|GPR161_uc010pln.1_Silent_p.V457V	NM_153832	NP_722561	Q8N6U8	GP161_HUMAN	G protein-coupled receptor 161 isoform 2	437	Cytoplasmic (Potential).				multicellular organismal development	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_hematologic(923;0.215)					TGATTTGTTCCACTTCATCCT	0.483													6	119	---	---	---	---	PASS
NCF2	4688	broad.mit.edu	37	1	183559390	183559390	+	Silent	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:183559390G>T	uc001gqj.3	-	1	350	c.75C>A	c.(73-75)GCC>GCA	p.A25A	NCF2_uc010pod.1_Silent_p.A25A|NCF2_uc010poe.1_Silent_p.A25A|NCF2_uc001gqk.3_Silent_p.A25A	NM_000433	NP_000424	P19878	NCF2_HUMAN	neutrophil cytosolic factor 2	25					cellular defense response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex|nucleolus	electron carrier activity|protein C-terminus binding			ovary(3)	3						AGGCATCCAGGGCTCCCTTCC	0.552													13	82	---	---	---	---	PASS
EDEM3	80267	broad.mit.edu	37	1	184695505	184695505	+	Missense_Mutation	SNP	T	C	C	rs142115161		TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:184695505T>C	uc010pok.1	-	7	892	c.631A>G	c.(631-633)ATC>GTC	p.I211V	EDEM3_uc010pol.1_RNA|EDEM3_uc010pom.1_Missense_Mutation_p.I211V|EDEM3_uc001gqy.2_Missense_Mutation_p.I134V	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like	211					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1						GGTTTTCTGATGCCAAACTTT	0.368													11	39	---	---	---	---	PASS
LHX9	56956	broad.mit.edu	37	1	197898339	197898339	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:197898339A>T	uc001guk.1	+	5	1581	c.1144A>T	c.(1144-1146)AGC>TGC	p.S382C	LHX9_uc001gui.1_Missense_Mutation_p.S373C|LHX9_uc001guj.1_Intron	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1	382					motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						TAACATGGACAGCCACGAATC	0.428													7	75	---	---	---	---	PASS
PTPRC	5788	broad.mit.edu	37	1	198668711	198668711	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:198668711C>G	uc001gur.1	+	5	491	c.311C>G	c.(310-312)ACG>AGG	p.T104R	PTPRC_uc001gus.1_Missense_Mutation_p.T104R|PTPRC_uc001gut.1_Intron|PTPRC_uc009wze.1_Missense_Mutation_p.T40R|PTPRC_uc009wzf.1_Missense_Mutation_p.T40R|PTPRC_uc010ppg.1_Missense_Mutation_p.T40R|PTPRC_uc001guu.1_Missense_Mutation_p.T147R|PTPRC_uc001guv.1_RNA|PTPRC_uc001guw.1_RNA	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	104	Extracellular (Potential).				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						TCAGTACAGACGCCTCACCTT	0.502											OREG0014061	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	96	---	---	---	---	PASS
PPP1R15B	84919	broad.mit.edu	37	1	204375323	204375323	+	Missense_Mutation	SNP	T	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:204375323T>C	uc001hav.3	-	2	2444	c.2039A>G	c.(2038-2040)GAA>GGA	p.E680G		NM_032833	NP_116222	Q5SWA1	PR15B_HUMAN	protein phosphatase 1, regulatory subunit 15B	680					regulation of translation					ovary(1)|pancreas(1)	2	all_cancers(21;0.0032)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.179)|all_epithelial(62;0.193)|Prostate(682;0.227)		all cancers(3;1.14e-29)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.139)			AATAGCATCTTCTGTTTCTTG	0.388													6	58	---	---	---	---	PASS
ACBD3	64746	broad.mit.edu	37	1	226334402	226334402	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:226334402G>T	uc001hpy.2	-	8	1543	c.1496C>A	c.(1495-1497)CCA>CAA	p.P499Q		NM_022735	NP_073572	Q9H3P7	GCP60_HUMAN	acyl-Coenzyme A binding domain containing 3	499	GOLD.				steroid biosynthetic process|transport	Golgi membrane|integral to membrane|mitochondrion	fatty-acyl-CoA binding|protein binding				0	Breast(184;0.158)			GBM - Glioblastoma multiforme(131;0.121)		TCCTCTCCCTGGATATTGATG	0.443													5	97	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237755079	237755079	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:237755079C>T	uc001hyl.1	+	32	4321	c.4201C>T	c.(4201-4203)CAT>TAT	p.H1401Y		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1401	Cytoplasmic (By similarity).|B30.2/SPRY 3.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CAGCACAAGCCATTCTGCAAG	0.388													6	30	---	---	---	---	PASS
MAP1LC3C	440738	broad.mit.edu	37	1	242161882	242161882	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:242161882G>A	uc001hzk.2	-	3	230	c.155C>T	c.(154-156)CCG>CTG	p.P52L		NM_001004343	NP_001004343	Q9BXW4	MLP3C_HUMAN	microtubule-associated protein 1 light chain 3	52					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|endomembrane system|microtubule	protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(106;0.0188)			TTTGTCCAGCGGGGGCAGGAA	0.582											OREG0014354	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	42	---	---	---	---	PASS
OR2W5	441932	broad.mit.edu	37	1	247655381	247655381	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:247655381G>T	uc001icz.1	+	1	952	c.952G>T	c.(952-954)GGA>TGA	p.G318*		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	318					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			CTCAACGAGGGGAACACTCTA	0.498													9	36	---	---	---	---	PASS
OR6F1	343169	broad.mit.edu	37	1	247875729	247875729	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:247875729G>C	uc001idj.1	-	1	329	c.329C>G	c.(328-330)ACA>AGA	p.T110R		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			GAAGTACTCTGTGCAGCCTAA	0.502													4	60	---	---	---	---	PASS
OR2T33	391195	broad.mit.edu	37	1	248436338	248436338	+	Missense_Mutation	SNP	G	C	C	rs147622928		TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:248436338G>C	uc010pzi.1	-	1	779	c.779C>G	c.(778-780)CCC>CGC	p.P260R		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	260	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			ATGGGATTTGGGTCTCATATA	0.478													14	77	---	---	---	---	PASS
OR2T1	26696	broad.mit.edu	37	1	248569858	248569858	+	Missense_Mutation	SNP	G	T	T	rs141385938	by1000genomes	TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:248569858G>T	uc010pzm.1	+	1	563	c.563G>T	c.(562-564)CGC>CTC	p.R188L		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	188	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTCATGAGCCGCCGGGTCTGT	0.542													11	51	---	---	---	---	PASS
OTOF	9381	broad.mit.edu	37	2	26699098	26699098	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:26699098G>T	uc002rhk.2	-	23	2891	c.2764C>A	c.(2764-2766)CGC>AGC	p.R922S	OTOF_uc010yla.1_5'Flank|OTOF_uc002rhh.2_Missense_Mutation_p.R175S|OTOF_uc002rhi.2_Missense_Mutation_p.R232S|OTOF_uc002rhj.2_Missense_Mutation_p.R175S	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	922	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AACTCCTTGCGCTGTTTGCTG	0.677													3	26	---	---	---	---	PASS
BIRC6	57448	broad.mit.edu	37	2	32726824	32726824	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:32726824G>T	uc010ezu.2	+	47	9210	c.9076G>T	c.(9076-9078)GGG>TGG	p.G3026W		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	3026					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					CTTTCATGGTGGGTTGGATGC	0.333													18	48	---	---	---	---	PASS
THADA	63892	broad.mit.edu	37	2	43732780	43732780	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:43732780A>T	uc002rsw.3	-	24	3954	c.3602T>A	c.(3601-3603)ATA>AAA	p.I1201K	THADA_uc010far.2_Missense_Mutation_p.I470K|THADA_uc002rsx.3_Missense_Mutation_p.I1201K|THADA_uc002rsy.3_RNA|THADA_uc010fas.1_RNA|THADA_uc002rsz.2_Missense_Mutation_p.I910K|THADA_uc010fat.1_Missense_Mutation_p.I348K|THADA_uc002rta.2_Missense_Mutation_p.I911K	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	1201							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				TGTACTCTGTATGTCATCTGT	0.328													3	9	---	---	---	---	PASS
CTNNA2	1496	broad.mit.edu	37	2	80620402	80620402	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:80620402G>T	uc010ysh.1	+	7	1128	c.1123G>T	c.(1123-1125)GAT>TAT	p.D375Y	CTNNA2_uc010yse.1_Missense_Mutation_p.D375Y|CTNNA2_uc010ysf.1_Missense_Mutation_p.D375Y|CTNNA2_uc010ysg.1_Missense_Mutation_p.D375Y|CTNNA2_uc010ysi.1_Missense_Mutation_p.D7Y	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	375					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GAAAACAAGAGATCTAAGGAG	0.333													7	79	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	2	90121879	90121879	+	RNA	SNP	A	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:90121879A>T	uc010fhm.2	+	16		c.1748A>T								Parts of antibodies, mostly variable regions.																		TCCATCTGCCATGTCTGCATC	0.448													13	263	---	---	---	---	PASS
MFSD9	84804	broad.mit.edu	37	2	103343376	103343376	+	Missense_Mutation	SNP	T	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:103343376T>C	uc002tcb.2	-	4	423	c.355A>G	c.(355-357)AGT>GGT	p.S119G	MFSD9_uc010fja.2_RNA	NM_032718	NP_116107	Q8NBP5	MFSD9_HUMAN	major facilitator superfamily domain containing	119	Helical; (Potential).				transmembrane transport	integral to membrane|plasma membrane	transporter activity			ovary(2)|breast(2)	4						CCCAGAGCACTGAGTAGAATG	0.483													7	85	---	---	---	---	PASS
ST6GAL2	84620	broad.mit.edu	37	2	107459731	107459731	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:107459731C>A	uc002tdq.2	-	2	822	c.703G>T	c.(703-705)GGG>TGG	p.G235W	ST6GAL2_uc002tdr.2_Missense_Mutation_p.G235W|ST6GAL2_uc002tds.3_Missense_Mutation_p.G235W	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	235	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			pancreas(6)|ovary(4)|skin(1)	11						AAGCGCACCCCGTGCTTGTTG	0.677													5	6	---	---	---	---	PASS
R3HDM1	23518	broad.mit.edu	37	2	136432940	136432940	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:136432940G>T	uc002tuo.2	+	19	2456	c.2086G>T	c.(2086-2088)GGA>TGA	p.G696*	R3HDM1_uc010fni.2_Nonsense_Mutation_p.G695*|R3HDM1_uc002tup.2_Nonsense_Mutation_p.G641*|R3HDM1_uc010zbh.1_Nonsense_Mutation_p.G444*	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	696							nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		AAACTACCAAGGAATAGTTGG	0.413													5	68	---	---	---	---	PASS
UBXN4	23190	broad.mit.edu	37	2	136537802	136537802	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:136537802G>T	uc002tur.2	+	12	1546	c.1235G>T	c.(1234-1236)TGG>TTG	p.W412L	UBXN4_uc002tus.2_Missense_Mutation_p.W178L|UBXN4_uc002tut.2_Missense_Mutation_p.W48L	NM_014607	NP_055422	Q92575	UBXN4_HUMAN	UBX domain containing 2	412	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|nuclear envelope	protein binding			skin(2)	2						GGAGACATTTGGACCTTGTTG	0.413													5	64	---	---	---	---	PASS
IFIH1	64135	broad.mit.edu	37	2	163174569	163174569	+	Silent	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:163174569G>T	uc002uce.2	-	1	471	c.249C>A	c.(247-249)CTC>CTA	p.L83L	IFIH1_uc002ucf.2_Silent_p.L83L	NM_022168	NP_071451	Q9BYX4	IFIH1_HUMAN	interferon induced with helicase C domain 1	83	CARD 1.				detection of virus|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|regulation of apoptosis	cytosol|nucleus	ATP binding|DNA binding|double-stranded RNA binding|helicase activity|protein binding|ribonucleoprotein binding|zinc ion binding			ovary(1)	1						CGGTTCTCCGGAGGGCCTCCA	0.592													5	50	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179583529	179583529	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:179583529G>T	uc010zfg.1	-	81	20890	c.20666C>A	c.(20665-20667)ACA>AAA	p.T6889K	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.T3550K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7816							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)			CTCCAGTTCTGTGACAAAATC	0.478													9	72	---	---	---	---	PASS
TRAK2	66008	broad.mit.edu	37	2	202245669	202245669	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:202245669G>T	uc002uyb.3	-	16	2788	c.2342C>A	c.(2341-2343)CCA>CAA	p.P781Q		NM_015049	NP_055864	O60296	TRAK2_HUMAN	trafficking protein, kinesin binding 2	781				Missing (in Ref. 2).		early endosome|plasma membrane	GABA receptor binding				0						TGAGTGAGATGGTGAATTTGG	0.522													6	94	---	---	---	---	PASS
ALS2	57679	broad.mit.edu	37	2	202590178	202590178	+	Splice_Site	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:202590178C>A	uc002uyo.2	-	20	3605	c.3249_splice	c.e20-1	p.G1083_splice	ALS2_uc002uyp.3_Splice_Site_p.G1083_splice|ALS2_uc010ftl.2_Splice_Site	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1						cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						TTCTCCATACCTGCCATGAAA	0.363													5	83	---	---	---	---	PASS
DYTN	391475	broad.mit.edu	37	2	207527889	207527889	+	Silent	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:207527889C>T	uc002vbr.1	-	11	1488	c.1371G>A	c.(1369-1371)GAG>GAA	p.E457E		NM_001093730	NP_001087199	A2CJ06	DYTN_HUMAN	dystrotelin	457						plasma membrane	zinc ion binding			ovary(1)|central_nervous_system(1)	2				LUSC - Lung squamous cell carcinoma(261;0.082)|Epithelial(149;0.129)|Lung(261;0.153)		GCAAAGTGGTCTCTGGTGATT	0.488													5	57	---	---	---	---	PASS
C2orf67	151050	broad.mit.edu	37	2	211018789	211018789	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:211018789C>A	uc002vds.2	-	2	726	c.518G>T	c.(517-519)TGG>TTG	p.W173L	C2orf67_uc002vdt.2_Missense_Mutation_p.W173L|C2orf67_uc002vdw.2_Missense_Mutation_p.W173L|C2orf67_uc002vdy.1_Missense_Mutation_p.W173L|C2orf67_uc002vdv.2_Missense_Mutation_p.W173L|C2orf67_uc002vdx.1_Missense_Mutation_p.W173L	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	173										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		CTCTTGATACCATTTACAGTT	0.338													6	64	---	---	---	---	PASS
UGT1A1	54658	broad.mit.edu	37	2	234669706	234669706	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:234669706G>C	uc002vvb.2	+	1	788	c.773G>C	c.(772-774)AGT>ACT	p.S258T	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Intron|UGT1A4_uc002vux.2_Intron|UGT1A3_uc010znb.1_Intron|UGT1A3_uc002vuy.2_Intron|UGT1A9_uc002vva.2_Intron|UGT1A1_uc010znc.1_Missense_Mutation_p.S258T	NM_000463	NP_000454	P22309	UD11_HUMAN	UDP glycosyltransferase 1 family, polypeptide A1	258					bilirubin conjugation|digestion|estrogen metabolic process|flavone metabolic process|heme catabolic process	endoplasmic reticulum membrane|microsome	enzyme binding|enzyme inhibitor activity|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|retinoic acid binding|steroid binding			central_nervous_system(1)|skin(1)	2		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;4.1e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000435)|Lung(119;0.00211)|LUSC - Lung squamous cell carcinoma(224;0.0054)	Abacavir(DB01048)|Adenine(DB00173)|Diclofenac(DB00586)|Estradiol(DB00783)|Ezetimibe(DB00973)|Irinotecan(DB00762)|Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|Propofol(DB00818)|Rifampin(DB01045)|Troglitazone(DB00197)	CTGTTTAGAAGTGACTTTGTG	0.468													4	68	---	---	---	---	PASS
MLPH	79083	broad.mit.edu	37	2	238419719	238419719	+	Silent	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr2:238419719C>A	uc002vwt.2	+	4	647	c.420C>A	c.(418-420)TCC>TCA	p.S140S	MLPH_uc002vws.2_Silent_p.S140S|MLPH_uc010fyt.1_Silent_p.S140S|MLPH_uc002vwu.2_Silent_p.S140S|MLPH_uc002vwv.2_Silent_p.S140S|MLPH_uc002vww.2_Silent_p.S116S	NM_024101	NP_077006	Q9BV36	MELPH_HUMAN	melanophilin isoform 1	140							metal ion binding			ovary(1)	1		Breast(86;0.000381)|Renal(207;0.000966)|Ovarian(221;0.0695)|all_hematologic(139;0.095)|all_lung(227;0.17)|Melanoma(123;0.203)		Epithelial(121;1.17e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.02e-10)|Kidney(56;4.23e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.15e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000439)|Lung(119;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0316)		TCATCCGGTCCCTCCACGGGC	0.522													7	177	---	---	---	---	PASS
CNTN4	152330	broad.mit.edu	37	3	2787299	2787299	+	Silent	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:2787299C>A	uc003bpc.2	+	5	497	c.276C>A	c.(274-276)ACC>ACA	p.T92T	CNTN4_uc003bpb.1_5'UTR|CNTN4_uc003bpd.1_Silent_p.T92T	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	92	Ig-like C2-type 1.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding	p.K92N(1)		large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		CCAATAAAACCCAAGATGCTG	0.413													5	68	---	---	---	---	PASS
IMPG2	50939	broad.mit.edu	37	3	100964871	100964871	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:100964871C>G	uc003duq.1	-	12	1521	c.1318G>C	c.(1318-1320)GGT>CGT	p.G440R	IMPG2_uc011bhe.1_Missense_Mutation_p.G303R	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	440	Extracellular (Potential).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						GAGGGAGGACCAGAGCTGAAA	0.493													8	43	---	---	---	---	PASS
DZIP3	9666	broad.mit.edu	37	3	108394691	108394691	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:108394691G>A	uc003dxd.2	+	25	3174	c.2752G>A	c.(2752-2754)GAT>AAT	p.D918N	DZIP3_uc003dxf.1_Missense_Mutation_p.D918N|DZIP3_uc011bhm.1_Missense_Mutation_p.D369N	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	918	Potential.				protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CATTGTGGCAGATGTTAGAAA	0.363													6	16	---	---	---	---	PASS
DPPA4	55211	broad.mit.edu	37	3	109049388	109049388	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:109049388G>A	uc003dxq.3	-	5	717	c.662C>T	c.(661-663)TCT>TTT	p.S221F	DPPA4_uc011bho.1_Intron|DPPA4_uc011bhp.1_Missense_Mutation_p.S221F	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	221						nucleus	protein binding			upper_aerodigestive_tract(1)	1						CTCTTGTGGAGATTCCACTGC	0.473													4	36	---	---	---	---	PASS
FAM162A	26355	broad.mit.edu	37	3	122128637	122128637	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:122128637C>A	uc003eez.2	+	5	514	c.424C>A	c.(424-426)CGT>AGT	p.R142S		NM_014367	NP_055182	Q96A26	F162A_HUMAN	growth and transformation-dependent protein	142						integral to membrane				ovary(1)	1						AAAGAAAGCTCGTCTGAAAGA	0.433													5	107	---	---	---	---	PASS
EPHB1	2047	broad.mit.edu	37	3	134851685	134851685	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:134851685G>A	uc003eqt.2	+	5	1311	c.1091G>A	c.(1090-1092)CGG>CAG	p.R364Q	EPHB1_uc010htz.1_RNA|EPHB1_uc011bly.1_3'UTR|EPHB1_uc003equ.2_5'UTR	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	364	Extracellular (Potential).|Fibronectin type-III 1.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding	p.R364L(2)		lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						AAAAAGTGCCGGGCAGACCGC	0.602													4	35	---	---	---	---	PASS
P2RY13	53829	broad.mit.edu	37	3	151046127	151046127	+	Silent	SNP	A	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:151046127A>G	uc003eyv.2	-	2	738	c.717T>C	c.(715-717)TAT>TAC	p.Y239Y	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_176894	NP_795713	Q9BPV8	P2Y13_HUMAN	purinergic receptor P2Y, G-protein coupled, 13	239	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(3)|lung(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0189)|Lung(72;0.0278)			TGGACTTTCTATAAGAATCAT	0.318													5	60	---	---	---	---	PASS
SLITRK3	22865	broad.mit.edu	37	3	164905718	164905718	+	Silent	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:164905718G>T	uc003fej.3	-	2	3345	c.2901C>A	c.(2899-2901)CTC>CTA	p.L967L	SLITRK3_uc003fek.2_Silent_p.L967L	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	967	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						CCAGGACTTCGAGGTAATCCG	0.388										HNSCC(40;0.11)			5	145	---	---	---	---	PASS
SLITRK3	22865	broad.mit.edu	37	3	164907242	164907242	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:164907242C>G	uc003fej.3	-	2	1821	c.1377G>C	c.(1375-1377)AAG>AAC	p.K459N	SLITRK3_uc003fek.2_Missense_Mutation_p.K459N	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	459	LRR 9.|Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						GGAAGAGGCTCTTTAAGTTGG	0.433										HNSCC(40;0.11)			4	49	---	---	---	---	PASS
FNDC3B	64778	broad.mit.edu	37	3	172052809	172052809	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:172052809G>T	uc003fhy.2	+	15	1889	c.1717G>T	c.(1717-1719)GGA>TGA	p.G573*	FNDC3B_uc003fhz.3_Nonsense_Mutation_p.G573*|FNDC3B_uc003fia.2_Nonsense_Mutation_p.G504*	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	573	Fibronectin type-III 4.					endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		TGACAGGCCTGGACCTCCTAC	0.453													7	199	---	---	---	---	PASS
PIK3CA	5290	broad.mit.edu	37	3	178921477	178921477	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:178921477G>T	uc003fjk.2	+	5	1116	c.959G>T	c.(958-960)GGA>GTA	p.G320V		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	320					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TATATGAATGGAGAAACATCT	0.358		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			5	83	---	---	---	---	PASS
MFN1	55669	broad.mit.edu	37	3	179069752	179069752	+	Silent	SNP	A	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:179069752A>T	uc003fjs.2	+	3	303	c.177A>T	c.(175-177)GGA>GGT	p.G59G	MFN1_uc010hxb.2_RNA|MFN1_uc003fjt.2_Silent_p.G87G	NM_033540	NP_284941	Q8IWA4	MFN1_HUMAN	mitofusin 1	59	Cytoplasmic (Potential).				mitochondrial fusion	integral to membrane|mitochondrial outer membrane	GTP binding|GTPase activity			ovary(2)|large_intestine(1)	3	all_cancers(143;1.67e-16)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.00225)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			AAATGCAAGGATATAAAGACA	0.353													35	111	---	---	---	---	PASS
PCDH7	5099	broad.mit.edu	37	4	31144376	31144376	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr4:31144376G>T	uc011bxx.1	+	3	4657	c.3649G>T	c.(3649-3651)GAG>TAG	p.E1217*	PCDH7_uc011bxw.1_Nonsense_Mutation_p.E1170*	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	Error:Variant_position_missing_in_O60245_after_alignment					homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						CAGCAAAAATGAGGAAGCCAA	0.463													6	128	---	---	---	---	PASS
CEP135	9662	broad.mit.edu	37	4	56832003	56832003	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr4:56832003A>T	uc003hbi.2	+	8	1256	c.1022A>T	c.(1021-1023)GAT>GTT	p.D341V	CEP135_uc003hbj.2_Missense_Mutation_p.D47V|CEP135_uc010igz.1_Missense_Mutation_p.D171V	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	341	Potential.				centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					GAGACTGCTGATAAAGAGCTT	0.363													9	25	---	---	---	---	PASS
AP1AR	55435	broad.mit.edu	37	4	113189328	113189328	+	Silent	SNP	A	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr4:113189328A>G	uc003iaj.3	+	10	1025	c.672A>G	c.(670-672)GAA>GAG	p.E224E	AP1AR_uc003iak.3_Silent_p.E191E	NM_018569	NP_061039	Q63HQ0	AP1AR_HUMAN	adaptor-related protein complex 1 associated	224					protein transport	early endosome|Golgi apparatus|late endosome|transport vesicle					0						CAATGAGAGAACGTTCCAAAA	0.363													4	35	---	---	---	---	PASS
GUCY1A3	2982	broad.mit.edu	37	4	156632319	156632319	+	Silent	SNP	G	T	T	rs1049509		TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr4:156632319G>T	uc003iov.2	+	7	1538	c.1002G>T	c.(1000-1002)ACG>ACT	p.T334T	GUCY1A3_uc003iou.2_Silent_p.T334T|GUCY1A3_uc010iqc.2_Silent_p.T334T|GUCY1A3_uc003iow.2_Silent_p.T334T|GUCY1A3_uc010iqd.2_Silent_p.T333T|GUCY1A3_uc003iox.2_Silent_p.T334T|GUCY1A3_uc003ioz.2_Silent_p.T99T|GUCY1A3_uc003ioy.2_Silent_p.T334T|GUCY1A3_uc010iqe.2_Silent_p.T99T|GUCY1A3_uc003ipa.2_Intron|GUCY1A3_uc003ipb.2_Silent_p.T334T	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	334					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		TCAACCAGACGTTTAGCGGGA	0.388													11	62	---	---	---	---	PASS
WDR17	116966	broad.mit.edu	37	4	177094441	177094441	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr4:177094441A>T	uc003iuj.2	+	27	3541	c.3385A>T	c.(3385-3387)ACT>TCT	p.T1129S	WDR17_uc003iuk.2_Missense_Mutation_p.T1105S|WDR17_uc003ium.3_Missense_Mutation_p.T1090S|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Missense_Mutation_p.T340S	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	1129										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		CTCAGACTGGACTTTGGATAC	0.318													4	23	---	---	---	---	PASS
ODZ3	55714	broad.mit.edu	37	4	183603016	183603016	+	Silent	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr4:183603016G>T	uc003ivd.1	+	10	1921	c.1884G>T	c.(1882-1884)GGG>GGT	p.G628G	ODZ3_uc003ive.1_Silent_p.G34G	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	628	EGF-like 4.|Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		GTATCCACGGGGAATGTCACT	0.448													5	26	---	---	---	---	PASS
ODZ3	55714	broad.mit.edu	37	4	183675766	183675766	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr4:183675766C>A	uc003ivd.1	+	21	4283	c.4246C>A	c.(4246-4248)CTG>ATG	p.L1416M	ODZ3_uc003ive.1_Missense_Mutation_p.L829M	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1416	Extracellular (Potential).|NHL 4.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CAGTGGGGTCCTGTACATTAC	0.502													4	35	---	---	---	---	PASS
ACSL1	2180	broad.mit.edu	37	4	185687866	185687866	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr4:185687866G>T	uc003iww.2	-	13	1467	c.1173C>A	c.(1171-1173)GAC>GAA	p.D391E	ACSL1_uc011ckm.1_Missense_Mutation_p.D220E|ACSL1_uc003iwt.1_Missense_Mutation_p.D391E|ACSL1_uc003iwu.1_Missense_Mutation_p.D391E|ACSL1_uc011ckn.1_Missense_Mutation_p.D357E|ACSL1_uc003iws.1_5'UTR	NM_001995	NP_001986	P33121	ACSL1_HUMAN	acyl-CoA synthetase long-chain family member 1	391	Cytoplasmic (Potential).				digestion|fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|regulation of fatty acid oxidation|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity			ovary(2)	2		all_lung(41;7.57e-14)|Lung NSC(41;1.81e-13)|Colorectal(36;0.00172)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0315)|all_neural(102;0.107)|Medulloblastoma(177;0.146)		all cancers(43;1.33e-28)|Epithelial(43;5.3e-25)|OV - Ovarian serous cystadenocarcinoma(60;4.88e-11)|Colorectal(24;3.59e-06)|STAD - Stomach adenocarcinoma(60;2.72e-05)|GBM - Glioblastoma multiforme(59;2.83e-05)|BRCA - Breast invasive adenocarcinoma(30;7.66e-05)|COAD - Colon adenocarcinoma(29;0.000538)|LUSC - Lung squamous cell carcinoma(40;0.008)|READ - Rectum adenocarcinoma(43;0.0419)	Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TGGAGGCAAAGTCCAAGAGCC	0.423													4	76	---	---	---	---	PASS
UFSP2	55325	broad.mit.edu	37	4	186343691	186343691	+	Silent	SNP	G	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr4:186343691G>C	uc003ixo.2	-	2	147	c.30C>G	c.(28-30)CTC>CTG	p.L10L	UFSP2_uc003ixq.2_5'UTR|UFSP2_uc003ixp.2_RNA	NM_018359	NP_060829	Q9NUQ7	UFSP2_HUMAN	UFM1-specific peptidase 2	10						endoplasmic reticulum|nucleus	small conjugating protein-specific protease activity				0		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;0.00109)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;3.4e-25)|Epithelial(43;2.23e-22)|OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;8.1e-05)|GBM - Glioblastoma multiforme(59;0.000148)|STAD - Stomach adenocarcinoma(60;0.000782)|LUSC - Lung squamous cell carcinoma(40;0.00939)|COAD - Colon adenocarcinoma(29;0.0108)|READ - Rectum adenocarcinoma(43;0.166)		TTATTCTGAAGAGTATATCCA	0.294													4	32	---	---	---	---	PASS
ADAMTS16	170690	broad.mit.edu	37	5	5240017	5240017	+	Silent	SNP	C	G	G	rs72647759		TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:5240017C>G	uc003jdl.2	+	16	2640	c.2502C>G	c.(2500-2502)ACC>ACG	p.T834T	ADAMTS16_uc003jdk.1_Silent_p.T834T	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	834	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CTGGACCAACCAACGAGACAC	0.507													18	104	---	---	---	---	PASS
CDH10	1008	broad.mit.edu	37	5	24537668	24537668	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:24537668C>A	uc003jgr.1	-	3	679	c.347G>T	c.(346-348)CGA>CTA	p.R116L	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	116	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CCTATCAATTCGCCTTGTGGC	0.398										HNSCC(23;0.051)			4	87	---	---	---	---	PASS
MIR1274A	100302199	broad.mit.edu	37	5	41475802	41475802	+	RNA	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:41475802C>A	hsa-mir-1274a|MI0006410	+			c.69C>A			PLCXD3_uc003jmm.1_Intron																	0						ttgagaccatcactacgacag	0.060													13	124	---	---	---	---	PASS
SEC24A	10802	broad.mit.edu	37	5	133996855	133996855	+	Silent	SNP	A	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:133996855A>G	uc003kzs.2	+	2	432	c.144A>G	c.(142-144)CAA>CAG	p.Q48Q	SEC24A_uc011cxu.1_5'UTR	NM_021982	NP_068817	O95486	SC24A_HUMAN	SEC24 related gene family, member A	48					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CAGTGAGCCAAGGATACAATT	0.418													42	246	---	---	---	---	PASS
PCDHA5	56143	broad.mit.edu	37	5	140202419	140202419	+	Silent	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:140202419C>A	uc003lhl.2	+	1	1059	c.1059C>A	c.(1057-1059)ACC>ACA	p.T353T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Silent_p.T353T|PCDHA5_uc003lhj.1_Silent_p.T353T	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	353	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCATAACCACCCTTTTCCTGC	0.498													5	59	---	---	---	---	PASS
PCDHA13	56136	broad.mit.edu	37	5	140262130	140262130	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:140262130G>T	uc003lif.2	+	1	277	c.277G>T	c.(277-279)GAG>TAG	p.E93*	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Nonsense_Mutation_p.E93*|PCDHA13_uc003lid.2_Nonsense_Mutation_p.E93*	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	93	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GATCGACCGCGAGGAGCTGTG	0.587													5	140	---	---	---	---	PASS
PCDHAC2	56134	broad.mit.edu	37	5	140347837	140347837	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:140347837C>A	uc003lii.2	+	1	1726	c.1486C>A	c.(1486-1488)CCA>ACA	p.P496T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Missense_Mutation_p.P496T	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	496	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCCACAGACCCAGATGAAAA	0.502													16	77	---	---	---	---	PASS
PCDHB16	57717	broad.mit.edu	37	5	140564189	140564189	+	Silent	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:140564189G>T	uc003liv.2	+	1	3210	c.2055G>T	c.(2053-2055)TCG>TCT	p.S685S	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	685	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGGCCAACTCGCTCACTGTCT	0.692													4	39	---	---	---	---	PASS
PCDHB16	57717	broad.mit.edu	37	5	140564195	140564195	+	Silent	SNP	T	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:140564195T>C	uc003liv.2	+	1	3216	c.2061T>C	c.(2059-2061)ACT>ACC	p.T687T	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	687	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACTCGCTCACTGTCTACCTGG	0.692													6	49	---	---	---	---	PASS
GRPEL2	134266	broad.mit.edu	37	5	148730657	148730657	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:148730657G>T	uc003lqj.2	+	4	616	c.490G>T	c.(490-492)GAG>TAG	p.E164*	GRPEL2_uc011dca.1_3'UTR	NM_152407	NP_689620	Q8TAA5	GRPE2_HUMAN	GrpE-like 2, mitochondrial precursor	164					protein folding	mitochondrial matrix	adenyl-nucleotide exchange factor activity|chaperone binding|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCATGGCCTGGAGAAACTGAC	0.517													7	151	---	---	---	---	PASS
PCYOX1L	78991	broad.mit.edu	37	5	148747746	148747746	+	Silent	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:148747746C>T	uc003lqk.2	+	6	1076	c.1014C>T	c.(1012-1014)CAC>CAT	p.H338H	PCYOX1L_uc003lql.2_Silent_p.H321H|PCYOX1L_uc010jgz.2_Silent_p.H262H|PCYOX1L_uc003lqm.2_Silent_p.H220H|PCYOX1L_uc003lqn.2_Silent_p.H248H	NM_024028	NP_076933	Q8NBM8	PCYXL_HUMAN	prenylcysteine oxidase 1 like precursor	338				H -> P (in Ref. 7; BAC03391).	prenylcysteine catabolic process	extracellular region	oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTTGGTCCACGGCTACCTCA	0.552											OREG0016912	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	123	---	---	---	---	PASS
PDGFRB	5159	broad.mit.edu	37	5	149511557	149511557	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:149511557G>T	uc003lro.2	-	8	1697	c.1228C>A	c.(1228-1230)CAG>AAG	p.Q410K	PDGFRB_uc010jhd.2_Missense_Mutation_p.Q249K	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	410	Extracellular (Potential).				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	ATCTGTAGCTGGAAGGAGAGC	0.423			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								4	25	---	---	---	---	PASS
FABP6	2172	broad.mit.edu	37	5	159640821	159640821	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr5:159640821G>C	uc003lxx.1	+	3	276	c.130G>C	c.(130-132)GGA>CGA	p.G44R	FABP6_uc003lxz.1_Missense_Mutation_p.G44R	NM_001130958	NP_001124430	P51161	FABP6_HUMAN	gastrotropin isoform 1	Error:Variant_position_missing_in_P51161_after_alignment					bile acid and bile salt transport|bile acid metabolic process|negative regulation of cell proliferation	cytosol	transporter activity				0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GACACATAAAGGAAAGGTATG	0.478													9	42	---	---	---	---	PASS
OR2J3	442186	broad.mit.edu	37	6	29080293	29080293	+	Missense_Mutation	SNP	T	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:29080293T>G	uc011dll.1	+	1	626	c.626T>G	c.(625-627)TTT>TGT	p.F209C		NM_001005216	NP_001005216	O76001	OR2J3_HUMAN	olfactory receptor, family 2, subfamily J,	209	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGCTCCATATTTGTTCTCATA	0.448													5	60	---	---	---	---	PASS
MAS1L	116511	broad.mit.edu	37	6	29454983	29454983	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:29454983C>A	uc011dlq.1	-	1	697	c.697G>T	c.(697-699)GCT>TCT	p.A233S		NM_052967	NP_443199	P35410	MAS1L_HUMAN	MAS1 oncogene-like	233	Helical; Name=5; (Potential).					cytoplasm|integral to membrane|nucleus|plasma membrane	G-protein coupled receptor activity			ovary(7)|lung(2)	9						GAAAGGATAGCATGGAAGAGC	0.443													5	47	---	---	---	---	PASS
LY6G5B	58496	broad.mit.edu	37	6	31638749	31638749	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:31638749G>T	uc003nvt.1	+	1	22	c.22G>T	c.(22-24)GGT>TGT	p.G8C	CSNK2B_uc003nvs.1_Intron	NM_021221	NP_067044	Q8NDX9	LY65B_HUMAN	lymphocyte antigen 6 complex G5B precursor	8						extracellular region					0						TATGCTTGTAGGTGTGCTGGT	0.572													6	149	---	---	---	---	PASS
COL11A2	1302	broad.mit.edu	37	6	33146896	33146896	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:33146896C>A	uc003ocx.1	-	16	1793	c.1565G>T	c.(1564-1566)AGA>ATA	p.R522I	COL11A2_uc010jul.1_5'Flank|COL11A2_uc003ocy.1_Missense_Mutation_p.R436I|COL11A2_uc003ocz.1_Missense_Mutation_p.R415I	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	522	Triple-helical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						CTGAGGTCCTCTGGGGCCCTG	0.652													4	16	---	---	---	---	PASS
PKHD1	5314	broad.mit.edu	37	6	51890462	51890462	+	Silent	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:51890462G>T	uc003pah.1	-	32	4422	c.4146C>A	c.(4144-4146)CTC>CTA	p.L1382L	PKHD1_uc003pai.2_Silent_p.L1382L	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1382	IPT/TIG 8; atypical.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CAAATTGCTGGAGCACCACAG	0.512													16	66	---	---	---	---	PASS
FAM83B	222584	broad.mit.edu	37	6	54735295	54735295	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:54735295A>T	uc003pck.2	+	2	367	c.251A>T	c.(250-252)GAT>GTT	p.D84V		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	84										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					GATTCCTGTGATGATACCTTA	0.433													5	91	---	---	---	---	PASS
PHF3	23469	broad.mit.edu	37	6	64404570	64404570	+	Silent	SNP	C	A	A	rs139681301		TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:64404570C>A	uc003pep.1	+	5	2622	c.2596C>A	c.(2596-2598)CGG>AGG	p.R866R	PHF3_uc010kaf.1_Silent_p.R866R|PHF3_uc003pem.2_Silent_p.R819R|PHF3_uc010kag.1_Silent_p.R778R|PHF3_uc010kah.1_Silent_p.R680R|PHF3_uc003pen.2_Silent_p.R778R|PHF3_uc011dxs.1_Silent_p.R135R	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	866					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			AGTTTTACCTCGGAGATCCTC	0.403													5	188	---	---	---	---	PASS
CD109	135228	broad.mit.edu	37	6	74477846	74477846	+	Silent	SNP	A	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:74477846A>G	uc003php.2	+	14	1991	c.1566A>G	c.(1564-1566)GAA>GAG	p.E522E	CD109_uc010kaz.2_Silent_p.E522E|CD109_uc003phq.2_Silent_p.E522E|CD109_uc010kba.2_Silent_p.E445E	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	522						anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						TAACACCAGAAAATTCTTGGA	0.338													5	54	---	---	---	---	PASS
SAMD3	154075	broad.mit.edu	37	6	130505284	130505284	+	Missense_Mutation	SNP	C	A	A	rs41285308	byFrequency	TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:130505284C>A	uc003qbv.2	-	8	944	c.618G>T	c.(616-618)CAG>CAT	p.Q206H	SAMD3_uc003qbx.2_Missense_Mutation_p.Q206H|SAMD3_uc003qbw.2_Missense_Mutation_p.Q206H|SAMD3_uc010kfg.1_Missense_Mutation_p.Q206H|SAMD3_uc003qby.2_Missense_Mutation_p.Q206H|SAMD3_uc003qbz.1_Missense_Mutation_p.Q165H	NM_001017373	NP_001017373	Q8N6K7	SAMD3_HUMAN	sterile alpha motif domain containing 3 isoform	206										ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)		AAGGGTGGGCCTGCAGCAGGG	0.473													10	29	---	---	---	---	PASS
ENPP3	5169	broad.mit.edu	37	6	132014691	132014691	+	Nonsense_Mutation	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:132014691C>T	uc003qcu.3	+	16	1686	c.1339C>T	c.(1339-1341)CGA>TGA	p.R447*	ENPP3_uc010kfq.2_RNA|ENPP3_uc003qcv.2_Nonsense_Mutation_p.R447*	NM_005021	NP_005012	O14638	ENPP3_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	447	Extracellular (Potential).|Phosphodiesterase.				immune response|nucleoside triphosphate catabolic process|phosphate metabolic process	extracellular region|integral to plasma membrane|perinuclear region of cytoplasm	metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity			ovary(3)|skin(1)	4	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0252)|OV - Ovarian serous cystadenocarcinoma(155;0.0511)		TTTGCCAAAGCGACTGCACTA	0.393													10	80	---	---	---	---	PASS
SLC35D3	340146	broad.mit.edu	37	6	137245645	137245645	+	Silent	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:137245645C>T	uc003qhe.2	+	2	1227	c.1062C>T	c.(1060-1062)GGC>GGT	p.G354G		NM_001008783	NP_001008783	Q5M8T2	S35D3_HUMAN	solute carrier family 35, member D3	354					carbohydrate transport	integral to membrane				ovary(1)|central_nervous_system(1)	2	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000136)|OV - Ovarian serous cystadenocarcinoma(155;0.00365)		CAGCAGGTGGCCCCGCTCAGG	0.652													6	11	---	---	---	---	PASS
RAB32	10981	broad.mit.edu	37	6	146870640	146870640	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:146870640G>T	uc003qln.1	+	2	471	c.291G>T	c.(289-291)AAG>AAT	p.K97N		NM_006834	NP_006825	Q13637	RAB32_HUMAN	RAB32, member RAS oncogene family	97					protein transport|small GTPase mediated signal transduction	mitochondrion	GTP binding				0		Ovarian(120;0.142)		OV - Ovarian serous cystadenocarcinoma(155;2.68e-09)|GBM - Glioblastoma multiforme(68;0.00608)		TATACTACAAGGAAGCTGTTG	0.358													5	51	---	---	---	---	PASS
PDE10A	10846	broad.mit.edu	37	6	165756886	165756886	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:165756886C>A	uc003qun.2	-	20	2302	c.2061G>T	c.(2059-2061)TGG>TGT	p.W687C	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Missense_Mutation_p.W617C|PDE10A_uc003quo.2_Missense_Mutation_p.W697C	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	687					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	ATACCTCAGCCCAGAATTCTG	0.368													7	49	---	---	---	---	PASS
MLLT4	4301	broad.mit.edu	37	6	168347398	168347398	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr6:168347398C>T	uc003qwd.2	+	26	3488	c.3346C>T	c.(3346-3348)CGT>TGT	p.R1116C	MLLT4_uc003qwb.1_Missense_Mutation_p.R1101C|MLLT4_uc003qwc.1_Missense_Mutation_p.R1117C|MLLT4_uc003qwg.1_Missense_Mutation_p.R426C	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1117					adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		TTCAGATCGTCGTGGCTCAGG	0.393			T	MLL	AL								9	57	---	---	---	---	PASS
GRM3	2913	broad.mit.edu	37	7	86493636	86493636	+	Silent	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr7:86493636C>A	uc003uid.2	+	6	3704	c.2605C>A	c.(2605-2607)CGG>AGG	p.R869R	GRM3_uc010lef.2_Missense_Mutation_p.A511E|GRM3_uc010leg.2_Silent_p.R741R|GRM3_uc010leh.2_Silent_p.R461R	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	869	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	GTGCAATGGGCGGGAAGTCCT	0.433													33	89	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	7	100551669	100551669	+	RNA	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr7:100551669C>A	uc003uxk.1	+	1		c.920C>A			uc003uxl.1_Silent_p.A40A					Homo sapiens MUC3B mRNA for intestinal mucin, partial cds.																		TGACGTCAGCCACTGGGACCC	0.483													86	301	---	---	---	---	PASS
MUC17	140453	broad.mit.edu	37	7	100686777	100686777	+	Missense_Mutation	SNP	C	A	A	rs138142210	byFrequency	TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr7:100686777C>A	uc003uxp.1	+	3	12133	c.12080C>A	c.(12079-12081)ACG>AAG	p.T4027K	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	4027	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TCTGCATCAACGCTTTCTGCA	0.537													29	99	---	---	---	---	PASS
CADPS2	93664	broad.mit.edu	37	7	122303469	122303469	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr7:122303469C>A	uc010lkp.2	-	3	771	c.608G>T	c.(607-609)TGG>TTG	p.W203L	CADPS2_uc010lkq.2_Missense_Mutation_p.W203L	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	203					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						TTTGGCTATCCATGAGCTCAA	0.413													5	62	---	---	---	---	PASS
RNF133	168433	broad.mit.edu	37	7	122338498	122338498	+	Nonsense_Mutation	SNP	T	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr7:122338498T>A	uc003vkj.1	-	1	711	c.475A>T	c.(475-477)AAA>TAA	p.K159*	CADPS2_uc010lkp.2_Intron|CADPS2_uc010lkq.2_Intron	NM_139175	NP_631914	Q8WVZ7	RN133_HUMAN	ring finger protein 133	159	PA.					endoplasmic reticulum membrane|integral to membrane	ligase activity|zinc ion binding			skin(1)	1						TCCGTGCCTTTTAAGTTACCA	0.423													14	73	---	---	---	---	PASS
PLXNA4	91584	broad.mit.edu	37	7	132193312	132193312	+	Silent	SNP	G	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr7:132193312G>C	uc003vra.3	-	2	370	c.141C>G	c.(139-141)CCC>CCG	p.P47P	PLXNA4_uc003vrc.2_Silent_p.P47P|PLXNA4_uc003vrb.2_Silent_p.P47P	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	47	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						AACCCTCGGCGGGCTCTCCTC	0.587													9	26	---	---	---	---	PASS
EXOC4	60412	broad.mit.edu	37	7	133314881	133314881	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr7:133314881C>A	uc003vrk.2	+	10	1536	c.1501C>A	c.(1501-1503)CAC>AAC	p.H501N	EXOC4_uc011kpo.1_Missense_Mutation_p.H400N|EXOC4_uc003vrl.2_Missense_Mutation_p.H111N|EXOC4_uc011kpp.1_Missense_Mutation_p.H33N	NM_021807	NP_068579	Q96A65	EXOC4_HUMAN	SEC8 protein isoform a	501					vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)				CGTCATATTCCACCCATTACT	0.383													5	77	---	---	---	---	PASS
OR2A12	346525	broad.mit.edu	37	7	143793122	143793122	+	Silent	SNP	A	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr7:143793122A>C	uc011kty.1	+	1	922	c.922A>C	c.(922-924)AGA>CGA	p.R308R		NM_001004135	NP_001004135	Q8NGT7	O2A12_HUMAN	olfactory receptor, family 2, subfamily A,	308	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	Melanoma(164;0.0783)					TTGGAAACAGAGATCAATGTG	0.423													6	135	---	---	---	---	PASS
CUL1	8454	broad.mit.edu	37	7	148495745	148495745	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr7:148495745G>T	uc010lpg.2	+	20	2638	c.2112G>T	c.(2110-2112)GAG>GAT	p.E704D	CUL1_uc003wey.2_Missense_Mutation_p.E704D|CUL1_uc003wez.2_Missense_Mutation_p.E594D|CUL1_uc003wfa.2_Missense_Mutation_p.E365D	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	704					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			AAAACATCGAGGAAGACCGCA	0.483													7	179	---	---	---	---	PASS
UBE3C	9690	broad.mit.edu	37	7	156974359	156974359	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr7:156974359G>T	uc010lqs.2	+	7	1076	c.764G>T	c.(763-765)GGT>GTT	p.G255V	UBE3C_uc003wnf.2_Missense_Mutation_p.G212V|UBE3C_uc003wng.2_Missense_Mutation_p.G255V	NM_014671	NP_055486	Q15386	UBE3C_HUMAN	ubiquitin protein ligase E3C	255					protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(2)|large_intestine(1)	5		all_hematologic(28;0.0185)|all_epithelial(9;0.0664)	OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)		TGTCCGGAAGGTGCGAGGTGA	0.338													8	75	---	---	---	---	PASS
SNTG1	54212	broad.mit.edu	37	8	51449319	51449319	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr8:51449319C>A	uc010lxy.1	+	12	1002	c.631C>A	c.(631-633)CTA>ATA	p.L211I	SNTG1_uc003xqs.1_Missense_Mutation_p.L211I|SNTG1_uc010lxz.1_Missense_Mutation_p.L211I|SNTG1_uc011ldl.1_RNA	NM_018967	NP_061840	Q9NSN8	SNTG1_HUMAN	syntrophin, gamma 1	211					cell communication	cytoplasm|cytoskeleton|nucleus|ruffle membrane|syntrophin complex	actin binding|protein C-terminus binding			ovary(5)	5		all_cancers(86;0.00754)|all_epithelial(80;9.76e-05)|Lung NSC(129;0.000865)|all_lung(136;0.00249)|Colorectal(162;0.22)				ACTGATCCCTCTACTTCATTC	0.483													6	148	---	---	---	---	PASS
CPA6	57094	broad.mit.edu	37	8	68423884	68423884	+	Silent	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr8:68423884G>T	uc003xxq.3	-	4	580	c.324C>A	c.(322-324)CTC>CTA	p.L108L	CPA6_uc003xxr.3_5'UTR|CPA6_uc003xxs.2_Silent_p.L108L	NM_020361	NP_065094	Q8N4T0	CBPA6_HUMAN	carboxypeptidase A6 isoform 1 precursor	108					proteolysis	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2			Epithelial(68;0.04)|OV - Ovarian serous cystadenocarcinoma(28;0.0593)|all cancers(69;0.136)			GATCTTCTATGAGGACCCTGA	0.383													6	125	---	---	---	---	PASS
PREX2	80243	broad.mit.edu	37	8	69009359	69009359	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr8:69009359G>T	uc003xxv.1	+	22	2503	c.2476G>T	c.(2476-2478)GAC>TAC	p.D826Y	PREX2_uc003xxu.1_Missense_Mutation_p.D826Y|PREX2_uc011lez.1_Missense_Mutation_p.D761Y	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	826					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						GTATGAGTACGACAGCACAGC	0.458													12	78	---	---	---	---	PASS
SLCO5A1	81796	broad.mit.edu	37	8	70744099	70744099	+	Silent	SNP	C	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr8:70744099C>G	uc003xyl.2	-	2	1517	c.810G>C	c.(808-810)GCG>GCC	p.A270A	SLCO5A1_uc010lzb.2_Silent_p.A270A|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_Silent_p.A270A|SLCO5A1_uc010lzc.2_Silent_p.A270A	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	270	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			TGAGAATCTGCGCGCAAATGA	0.502													10	66	---	---	---	---	PASS
FBXO43	286151	broad.mit.edu	37	8	101153374	101153374	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr8:101153374C>A	uc003yjd.2	-	2	1821	c.1108G>T	c.(1108-1110)GAC>TAC	p.D370Y	FBXO43_uc003yje.2_Missense_Mutation_p.D336Y|FBXO43_uc010mbp.1_Missense_Mutation_p.D370Y	NM_001029860	NP_001025031	Q4G163	FBX43_HUMAN	F-box protein 43 isoform b	370					meiosis		zinc ion binding			kidney(1)|skin(1)	2	all_cancers(14;0.000139)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000274)|all_lung(17;0.000798)		Epithelial(11;1.17e-09)|all cancers(13;1.34e-07)|OV - Ovarian serous cystadenocarcinoma(57;3.82e-05)|STAD - Stomach adenocarcinoma(118;0.0957)			CTTATGGTGTCCCCAACTTTG	0.463													20	64	---	---	---	---	PASS
PKHD1L1	93035	broad.mit.edu	37	8	110453071	110453071	+	Silent	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr8:110453071C>T	uc003yne.2	+	33	4193	c.4089C>T	c.(4087-4089)ACC>ACT	p.T1363T		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1363	Extracellular (Potential).|IPT/TIG 7.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CTGAGAATACCGTGCTGTTAG	0.383										HNSCC(38;0.096)			12	129	---	---	---	---	PASS
ZFAT	57623	broad.mit.edu	37	8	135621002	135621002	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr8:135621002G>A	uc003yup.2	-	5	930	c.755C>T	c.(754-756)ACA>ATA	p.T252I	ZFAT_uc003yun.2_Missense_Mutation_p.T240I|ZFAT_uc003yuo.2_Missense_Mutation_p.T240I|ZFAT_uc010meh.2_Missense_Mutation_p.T240I|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.T240I|ZFAT_uc010mej.2_Missense_Mutation_p.T190I|ZFAT_uc003yur.2_Missense_Mutation_p.T240I	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	252					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			CTCATAAGGTGTCTGCTGAAT	0.512													8	105	---	---	---	---	PASS
DENND3	22898	broad.mit.edu	37	8	142178277	142178277	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr8:142178277G>T	uc003yvy.2	+	13	1966	c.1688G>T	c.(1687-1689)CGA>CTA	p.R563L	DENND3_uc010mep.2_Missense_Mutation_p.R524L|DENND3_uc003yvz.1_Missense_Mutation_p.R247L	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	563										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			TTGTACCTCCGAGGGCTCGTT	0.532													4	84	---	---	---	---	PASS
ELAVL2	1993	broad.mit.edu	37	9	23701384	23701384	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr9:23701384G>C	uc003zpu.2	-	5	981	c.706C>G	c.(706-708)CGT>GGT	p.R236G	ELAVL2_uc003zps.2_Missense_Mutation_p.R236G|ELAVL2_uc003zpt.2_Missense_Mutation_p.R236G|ELAVL2_uc003zpv.2_Missense_Mutation_p.R236G|ELAVL2_uc003zpw.2_Missense_Mutation_p.R236G	NM_004432	NP_004423	Q12926	ELAV2_HUMAN	ELAV (embryonic lethal, abnormal vision,	236					regulation of transcription, DNA-dependent		mRNA 3'-UTR binding|nucleotide binding|protein binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(1;2.18e-156)|Lung(42;2.15e-28)|LUSC - Lung squamous cell carcinoma(38;1.02e-19)		TACCTAAAACGCTGTGCCTGC	0.458													30	182	---	---	---	---	PASS
PRUNE2	158471	broad.mit.edu	37	9	79323950	79323950	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr9:79323950G>C	uc010mpk.2	-	8	3364	c.3240C>G	c.(3238-3240)GAC>GAG	p.D1080E		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	1080					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						TGCTGGGGTCGTCGTAACTGG	0.512													18	89	---	---	---	---	PASS
HEMGN	55363	broad.mit.edu	37	9	100693232	100693232	+	Nonsense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr9:100693232C>A	uc004axy.2	-	3	553	c.445G>T	c.(445-447)GAG>TAG	p.E149*	HEMGN_uc004axz.2_Nonsense_Mutation_p.E149*	NM_197978	NP_932095	Q9BXL5	HEMGN_HUMAN	hemogen	149					cell differentiation|multicellular organismal development					ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				TCTTGGTACTCAGAAAAATTC	0.378													5	93	---	---	---	---	PASS
CEP110	11064	broad.mit.edu	37	9	123875857	123875857	+	Silent	SNP	A	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr9:123875857A>T	uc004bkx.1	+	8	1231	c.1200A>T	c.(1198-1200)ACA>ACT	p.T400T	CEP110_uc004bkw.2_Silent_p.T400T|CEP110_uc004bky.1_Silent_p.T4T	NM_007018	NP_008949	Q7Z7A1	CNTRL_HUMAN	centrosomal protein 110kDa	400					cell division|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding				0						TGTTTGCCACAGAGAGTTATA	0.378													13	92	---	---	---	---	PASS
CEL	1056	broad.mit.edu	37	9	135941993	135941993	+	Silent	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr9:135941993C>T	uc010naa.1	+	5	640	c.624C>T	c.(622-624)CCC>CCT	p.P208P		NM_001807	NP_001798	P19835	CEL_HUMAN	carboxyl ester lipase precursor	205					cholesterol catabolic process|fatty acid catabolic process|intestinal cholesterol absorption|intestinal lipid catabolic process|pancreatic juice secretion|protein esterification	cytosol|extracellular space	acylglycerol lipase activity|carboxylesterase activity|heparin binding|sterol esterase activity|triglyceride lipase activity			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.03e-40)|Epithelial(140;3.58e-37)|GBM - Glioblastoma multiforme(294;0.00164)|READ - Rectum adenocarcinoma(205;0.196)		GGGGGGACCCCAACAACATCA	0.642													12	65	---	---	---	---	PASS
LYZL2	119180	broad.mit.edu	37	10	30915048	30915048	+	Missense_Mutation	SNP	T	A	A	rs143775752	byFrequency	TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:30915048T>A	uc001ivk.2	-	3	435	c.422A>T	c.(421-423)CAC>CTC	p.H141L		NM_183058	NP_898881	Q7Z4W2	LYZL2_HUMAN	lysozyme-like 2	95					cell wall macromolecule catabolic process	extracellular region	lysozyme activity				0		Prostate(175;0.151)				GCAGGCGACGTGGCAGTGGTT	0.557													6	75	---	---	---	---	PASS
ZEB1	6935	broad.mit.edu	37	10	31791294	31791294	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:31791294A>T	uc001ivs.3	+	4	401	c.338A>T	c.(337-339)GAG>GTG	p.E113V	ZEB1_uc001ivr.3_5'UTR|ZEB1_uc010qee.1_5'UTR|ZEB1_uc010qef.1_5'UTR|ZEB1_uc009xlh.1_RNA|ZEB1_uc009xli.1_RNA|ZEB1_uc009xlj.1_Intron|ZEB1_uc010qeg.1_Intron|ZEB1_uc009xlk.1_5'UTR|ZEB1_uc001ivt.3_5'UTR|ZEB1_uc001ivu.3_Missense_Mutation_p.E114V|ZEB1_uc001ivv.3_Missense_Mutation_p.E93V|ZEB1_uc010qeh.1_Missense_Mutation_p.E46V|ZEB1_uc009xll.2_RNA|ZEB1_uc009xlm.1_RNA|ZEB1_uc009xln.1_RNA|ZEB1_uc009xlo.1_Missense_Mutation_p.E96V|ZEB1_uc009xlp.2_Missense_Mutation_p.E97V	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	113					cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				GATGAATGCGAGTCAGATGCA	0.338													5	26	---	---	---	---	PASS
TMEM72	643236	broad.mit.edu	37	10	45430487	45430487	+	Missense_Mutation	SNP	G	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:45430487G>A	uc001jbn.2	+	5	930	c.733G>A	c.(733-735)GAG>AAG	p.E245K	uc001jbk.1_Intron|uc001jbl.2_Intron|TMEM72_uc009xmm.1_Missense_Mutation_p.E127K	NM_001123376	NP_001116848	A0PK05	TMM72_HUMAN	transmembrane protein 72	245						integral to membrane					0						TGGGGACAGTGAGCCAGAGGA	0.602													15	56	---	---	---	---	PASS
FRMPD2	143162	broad.mit.edu	37	10	49457087	49457087	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:49457087C>A	uc001jgi.2	-	3	393	c.286G>T	c.(286-288)GAT>TAT	p.D96Y	FRMPD2_uc001jgh.2_Missense_Mutation_p.D87Y|FRMPD2_uc001jgj.2_Missense_Mutation_p.D96Y	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	96	KIND.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		GGCTGCTCATCCTCACTCTGT	0.567													5	39	---	---	---	---	PASS
SLC18A3	6572	broad.mit.edu	37	10	50820303	50820303	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:50820303G>T	uc001jhw.2	+	1	1957	c.1517G>T	c.(1516-1518)GGC>GTC	p.G506V	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank|CHAT_uc010qgs.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	506	Cytoplasmic (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						CCTGTGTCTGGCCAGGACGGC	0.652													5	29	---	---	---	---	PASS
A1CF	29974	broad.mit.edu	37	10	52595861	52595861	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:52595861C>A	uc001jjj.2	-	6	765	c.577G>T	c.(577-579)GCC>TCC	p.A193S	A1CF_uc010qhn.1_Missense_Mutation_p.A201S|A1CF_uc001jji.2_Missense_Mutation_p.A193S|A1CF_uc001jjh.2_Missense_Mutation_p.A201S|A1CF_uc010qho.1_Missense_Mutation_p.A201S|A1CF_uc009xov.2_Missense_Mutation_p.A193S	NM_138932	NP_620310	Q9NQ94	A1CF_HUMAN	apobec-1 complementation factor isoform 2	193	RRM 2.				cytidine to uridine editing|mRNA modification|mRNA processing|protein stabilization	apolipoprotein B mRNA editing enzyme complex|endoplasmic reticulum|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding			central_nervous_system(1)	1						CTCGCCATGGCAGCTGCTCGA	0.498													5	63	---	---	---	---	PASS
RUFY2	55680	broad.mit.edu	37	10	70161474	70161474	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:70161474A>T	uc001job.2	-	3	631	c.304T>A	c.(304-306)TAC>AAC	p.Y102N	RUFY2_uc001jnz.1_RNA|RUFY2_uc001joc.2_Missense_Mutation_p.Y67N|RUFY2_uc010qiw.1_Missense_Mutation_p.Y9N|RUFY2_uc001jod.1_Missense_Mutation_p.Y67N|RUFY2_uc009xpv.1_5'UTR|RUFY2_uc001joe.1_Missense_Mutation_p.Y67N	NM_017987	NP_060457	Q8WXA3	RUFY2_HUMAN	RUN and FYVE domain-containing 2 isoform a	116	RUN.					nucleus	metal ion binding			ovary(1)	1						GTTTTGTTGTAACTCAAAAAT	0.373													6	41	---	---	---	---	PASS
CBARA1	10367	broad.mit.edu	37	10	74267937	74267937	+	Missense_Mutation	SNP	T	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:74267937T>C	uc001jtb.1	-	7	767	c.634A>G	c.(634-636)ATT>GTT	p.I212V	CBARA1_uc010qjw.1_5'UTR|CBARA1_uc010qjx.1_Intron|CBARA1_uc009xqo.1_RNA	NM_006077	NP_006068	Q9BPX6	MICU1_HUMAN	calcium binding atopy-related autoantigen 1	210					calcium ion import|defense response|elevation of mitochondrial calcium ion concentration	integral to membrane|mitochondrial inner membrane	calcium ion binding|protein binding			ovary(1)	1						GTGAGGAAAATGTAGTCTGAA	0.328													3	9	---	---	---	---	PASS
RPP30	10556	broad.mit.edu	37	10	92631758	92631758	+	Silent	SNP	A	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:92631758A>T	uc009xtx.2	+	1	50	c.15A>T	c.(13-15)GCA>GCT	p.A5A	RPP30_uc001khd.2_Silent_p.A5A|RPP30_uc010qnj.1_Silent_p.A5A	NM_006413	NP_006404	P78346	RPP30_HUMAN	ribonuclease P/MRP 30kDa subunit isoform b	5					tRNA processing	nucleolar ribonuclease P complex	protein binding|ribonuclease P activity				0						CGGTGTTTGCAGATTTGGACC	0.652													8	114	---	---	---	---	PASS
SORCS1	114815	broad.mit.edu	37	10	108432656	108432656	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:108432656C>G	uc001kym.2	-	15	2036	c.2028G>C	c.(2026-2028)GAG>GAC	p.E676D	SORCS1_uc001kyl.2_Missense_Mutation_p.E676D|SORCS1_uc009xxs.2_Missense_Mutation_p.E676D|SORCS1_uc001kyn.1_Missense_Mutation_p.E676D|SORCS1_uc001kyo.2_Missense_Mutation_p.E676D	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	676	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		GTCTGTAGTCCTCTTCGGCAC	0.507													4	30	---	---	---	---	PASS
C10orf137	26098	broad.mit.edu	37	10	127418024	127418024	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:127418024A>G	uc001liq.1	+	8	1285	c.992A>G	c.(991-993)TAC>TGC	p.Y331C	C10orf137_uc001lin.2_Missense_Mutation_p.Y297C|C10orf137_uc001lio.1_Missense_Mutation_p.Y297C|C10orf137_uc001lip.1_Missense_Mutation_p.T30A	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	331					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				GGAGGCAGATACCCAGCAGTC	0.398													5	62	---	---	---	---	PASS
JAKMIP3	282973	broad.mit.edu	37	10	133978215	133978215	+	Silent	SNP	A	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr10:133978215A>G	uc001lkx.3	+	20	2460	c.2460A>G	c.(2458-2460)AGA>AGG	p.R820R	JAKMIP3_uc009yba.1_Silent_p.R257R	NM_001105521	NP_001098991			Janus kinase and microtubule interacting protein											breast(1)	1		all_cancers(35;5.63e-09)|all_epithelial(44;9.25e-07)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|Colorectal(31;0.0721)|all_neural(114;0.0726)|Breast(234;0.0949)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;0.000104)|Epithelial(32;0.000142)|all cancers(32;0.000185)|BRCA - Breast invasive adenocarcinoma(275;0.224)		CTCAGAAGAGACAAATAAAGG	0.418													11	74	---	---	---	---	PASS
OR52E6	390078	broad.mit.edu	37	11	5862634	5862634	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:5862634A>T	uc010qzq.1	-	1	494	c.494T>A	c.(493-495)CTC>CAC	p.L165H	TRIM5_uc001mbq.1_Intron	NM_001005167	NP_001005167	Q96RD3	O52E6_HUMAN	olfactory receptor, family 52, subfamily E,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.55e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAACCTTAAGAGGAGAAACAC	0.493													25	128	---	---	---	---	PASS
FAM160A2	84067	broad.mit.edu	37	11	6245017	6245017	+	Silent	SNP	T	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:6245017T>A	uc001mcl.3	-	3	959	c.600A>T	c.(598-600)CCA>CCT	p.P200P	FAM160A2_uc001mck.3_Silent_p.P200P|FAM160A2_uc001mcm.2_Silent_p.P200P	NM_001098794	NP_001092264	Q8N612	F16A2_HUMAN	hypothetical protein LOC84067 isoform 2	200					early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|protein transport	FHF complex	protein binding			skin(2)	2						GCTCAGGAGGTGGCTGCAGGA	0.602													14	74	---	---	---	---	PASS
WEE1	7465	broad.mit.edu	37	11	9608129	9608129	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:9608129C>A	uc001mhs.2	+	9	1857	c.1604C>A	c.(1603-1605)CCA>CAA	p.P535Q	WEE1_uc001mht.2_Missense_Mutation_p.P321Q	NM_003390	NP_003381	P30291	WEE1_HUMAN	WEE1 tyrosine kinase isoform 1	535	Protein kinase.				blood coagulation|cell cycle checkpoint|cell division|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitosis|S phase of mitotic cell cycle	nucleoplasm	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	5				all cancers(16;4.59e-09)|Epithelial(150;3.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0484)		CCTCGGATACCACAAGTGCTT	0.413													5	83	---	---	---	---	PASS
SERGEF	26297	broad.mit.edu	37	11	18014479	18014479	+	Silent	SNP	T	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:18014479T>G	uc001mnm.2	-	7	764	c.684A>C	c.(682-684)ACA>ACC	p.T228T	SERGEF_uc009yhd.2_RNA|SERGEF_uc001mnn.2_Silent_p.T228T|SERGEF_uc010rcz.1_Silent_p.T114T|SERGEF_uc001mno.1_Silent_p.T114T	NM_012139	NP_036271	Q9UGK8	SRGEF_HUMAN	deafness locus associated putative guanine	228	RCC1 4.				negative regulation of protein secretion|signal transduction	cytoplasm|nucleus	protein binding|Ran guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1						GGTACCTACCTGTTAATGAAG	0.338													8	38	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	11	30928154	30928154	+	RNA	SNP	C	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:30928154C>G	uc001mss.1	-	8		c.1140G>C			uc009yjk.1_Missense_Mutation_p.C794S|uc009yjj.1_RNA					Homo sapiens mRNA for KIAA1493 protein, partial cds.																		GCCTGAAATACAGAGGAATGG	0.463													7	22	---	---	---	---	PASS
C11orf41	25758	broad.mit.edu	37	11	33565038	33565038	+	Silent	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:33565038C>T	uc001mup.3	+	1	1162	c.1038C>T	c.(1036-1038)GGC>GGT	p.G346G	C11orf41_uc001mun.1_Silent_p.G346G	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	346						integral to membrane				ovary(2)	2						CATCTCTTGGCTTTTCCAGCA	0.537											OREG0020868	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	113	---	---	---	---	PASS
SPRYD5	84767	broad.mit.edu	37	11	55655543	55655543	+	Silent	SNP	T	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:55655543T>A	uc010rip.1	+	4	635	c.543T>A	c.(541-543)GCT>GCA	p.A181A	SPRYD5_uc010riq.1_Silent_p.A38A	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	181						intracellular	zinc ion binding				0		all_epithelial(135;0.226)				CAATCAGAGCTGAATATCAGA	0.393													5	28	---	---	---	---	PASS
OR5T1	390155	broad.mit.edu	37	11	56043875	56043875	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:56043875G>T	uc001nio.1	+	1	761	c.761G>T	c.(760-762)GGA>GTA	p.G254V		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	254	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					TCTACATGTGGAGCTCACCTA	0.438													12	140	---	---	---	---	PASS
OR5M10	390167	broad.mit.edu	37	11	56344723	56344723	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:56344723G>C	uc001niz.1	-	1	475	c.475C>G	c.(475-477)CAG>GAG	p.Q159E		NM_001004741	NP_001004741	Q6IEU7	OR5MA_HUMAN	olfactory receptor, family 5, subfamily M,	159	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGCAGTGTCTGAGAGAGCCCA	0.468													4	149	---	---	---	---	PASS
FAM111B	374393	broad.mit.edu	37	11	58892347	58892347	+	Silent	SNP	A	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:58892347A>G	uc001nnl.2	+	4	1020	c.777A>G	c.(775-777)GTA>GTG	p.V259V	FAM111B_uc001nnm.2_Silent_p.V229V|FAM111B_uc010rko.1_Silent_p.V229V	NM_198947	NP_945185	Q6SJ93	F111B_HUMAN	hypothetical protein LOC374393 isoform a	259							catalytic activity			ovary(2)	2						TGGATGAAGTATCTGGAAAAG	0.338													7	46	---	---	---	---	PASS
PPFIA1	8500	broad.mit.edu	37	11	70118486	70118486	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:70118486G>T	uc001opo.2	+	2	406	c.208G>T	c.(208-210)GAG>TAG	p.E70*	PPFIA1_uc001opn.1_Nonsense_Mutation_p.E70*|PPFIA1_uc001opp.2_RNA	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	70	Potential.				cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			GAAGTTACACGAGGTTGGTCA	0.458													5	99	---	---	---	---	PASS
C11orf30	56946	broad.mit.edu	37	11	76171008	76171008	+	Silent	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:76171008G>T	uc001oxl.2	+	6	593	c.450G>T	c.(448-450)ACG>ACT	p.T150T	C11orf30_uc001oxk.2_3'UTR|C11orf30_uc009yuj.1_Silent_p.T165T|C11orf30_uc010rsa.1_Intron|C11orf30_uc001oxm.2_Silent_p.T151T|C11orf30_uc010rsb.1_Silent_p.T165T|C11orf30_uc010rsc.1_Silent_p.T165T|C11orf30_uc001oxn.2_Silent_p.T151T|C11orf30_uc010rsd.1_Silent_p.T164T	NM_020193	NP_064578	Q7Z589	EMSY_HUMAN	EMSY protein	150	Interaction with BRCA2.				chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6						CAAGTACCACGTCAACCCCAA	0.443													6	106	---	---	---	---	PASS
C11orf82	220042	broad.mit.edu	37	11	82644903	82644903	+	Silent	SNP	T	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:82644903T>C	uc001ozt.2	+	6	2767	c.2523T>C	c.(2521-2523)GGT>GGC	p.G841G	C11orf82_uc010rsr.1_Silent_p.G540G|C11orf82_uc010rss.1_Silent_p.G540G|C11orf82_uc009yvd.2_Intron	NM_145018	NP_659455	Q8IXT1	NOXIN_HUMAN	nitric oxide-inducible gene protein	841					apoptosis|cell cycle arrest	cytoplasm|nucleus				ovary(2)	2						TTGTATCTGGTGTTTCACAAC	0.403													6	54	---	---	---	---	PASS
CHORDC1	26973	broad.mit.edu	37	11	89935578	89935578	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:89935578C>G	uc001pdg.2	-	11	1404	c.994G>C	c.(994-996)GAT>CAT	p.D332H	CHORDC1_uc009yvz.2_Missense_Mutation_p.D313H	NM_012124	NP_036256	Q9UHD1	CHRD1_HUMAN	cysteine and histidine-rich domain-containing	332					chaperone-mediated protein folding|regulation of response to stress|response to stress		Hsp90 protein binding|identical protein binding				0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.00915)				CCCACTCAATCTGTTGTGGCA	0.398													4	28	---	---	---	---	PASS
FAT3	120114	broad.mit.edu	37	11	92495063	92495063	+	Silent	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:92495063C>A	uc001pdj.3	+	4	3728	c.3711C>A	c.(3709-3711)ACC>ACA	p.T1237T		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1237	Cadherin 11.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AACAGTCAACCATTTGGGTGG	0.438										TCGA Ovarian(4;0.039)			7	170	---	---	---	---	PASS
FAT3	120114	broad.mit.edu	37	11	92534954	92534954	+	Silent	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:92534954G>T	uc001pdj.3	+	9	8792	c.8775G>T	c.(8773-8775)GCG>GCT	p.A2925A		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2925	Cadherin 27.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CAGTCTTCGCGCAGGAAGTGT	0.567										TCGA Ovarian(4;0.039)			4	79	---	---	---	---	PASS
GRAMD1B	57476	broad.mit.edu	37	11	123477373	123477373	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:123477373G>T	uc001pyx.2	+	10	1280	c.951G>T	c.(949-951)AAG>AAT	p.K317N	GRAMD1B_uc001pyw.2_Missense_Mutation_p.K324N|GRAMD1B_uc010rzw.1_Missense_Mutation_p.K277N|GRAMD1B_uc010rzx.1_Missense_Mutation_p.K277N|GRAMD1B_uc009zbe.1_Missense_Mutation_p.K313N|GRAMD1B_uc001pyy.2_5'Flank	NM_020716	NP_065767	Q3KR37	GRM1B_HUMAN	GRAM domain containing 1B	317						integral to membrane				ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.32e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0394)		CCCTGGAAAAGGAGCTCGCCA	0.562													4	17	---	---	---	---	PASS
TMEM225	338661	broad.mit.edu	37	11	123754822	123754822	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:123754822C>T	uc001pzi.2	-	3	631	c.423G>A	c.(421-423)ATG>ATA	p.M141I		NM_001013743	NP_001013765	Q6GV28	TM225_HUMAN	transmembrane protein 225	141	Helical; (Potential).					integral to membrane				upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	3						AAGCAGTATACATGATCCAGG	0.448													6	70	---	---	---	---	PASS
OR10G4	390264	broad.mit.edu	37	11	123887173	123887173	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr11:123887173G>T	uc010sac.1	+	1	892	c.892G>T	c.(892-894)GTG>TTG	p.V298L		NM_001004462	NP_001004462	Q8NGN3	O10G4_HUMAN	olfactory receptor, family 10, subfamily G,	298	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		GAAGAAAGCTGTGTTGAAACT	0.393													10	52	---	---	---	---	PASS
GALNT8	26290	broad.mit.edu	37	12	4874599	4874599	+	Missense_Mutation	SNP	G	T	T	rs144271473	by1000genomes	TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:4874599G>T	uc001qne.1	+	10	1740	c.1648G>T	c.(1648-1650)GCC>TCC	p.A550S		NM_017417	NP_059113	Q9NY28	GALT8_HUMAN	polypeptide N-acetylgalactosaminyltransferase 8	550	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(1)|skin(1)	4						GATTGCAGAGGCCAGTGCTAG	0.458													6	41	---	---	---	---	PASS
CD163	9332	broad.mit.edu	37	12	7647710	7647710	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:7647710C>T	uc001qsz.3	-	6	1515	c.1387G>A	c.(1387-1389)GAT>AAT	p.D463N	CD163_uc001qta.3_Missense_Mutation_p.D463N|CD163_uc009zfw.2_Missense_Mutation_p.D463N	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	463	SRCR 4.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						TCATAGTGATCACAGGTAAGT	0.398													16	98	---	---	---	---	PASS
CMAS	55907	broad.mit.edu	37	12	22218072	22218072	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:22218072G>T	uc001rfm.2	+	8	1211	c.1132G>T	c.(1132-1134)GAA>TAA	p.E378*	CMAS_uc001rfn.2_RNA	NM_018686	NP_061156	Q8NFW8	NEUA_HUMAN	cytidine monophospho-N-acetylneuraminic acid	378					lipopolysaccharide biosynthetic process	nucleus	N-acylneuraminate cytidylyltransferase activity			ovary(1)|pancreas(1)|skin(1)	3						AGTGTCTGATGAAGAGTGCTT	0.423													16	113	---	---	---	---	PASS
C12orf40	283461	broad.mit.edu	37	12	40114794	40114794	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:40114794C>A	uc001rmc.2	+	13	1867	c.1700C>A	c.(1699-1701)CCA>CAA	p.P567Q	C12orf40_uc009zjv.1_Intron	NM_001031748	NP_001026918	Q86WS4	CL040_HUMAN	hypothetical protein LOC283461	567										ovary(6)	6						GATCAGTTTCCACAGTTGCAG	0.388													6	61	---	---	---	---	PASS
GXYLT1	283464	broad.mit.edu	37	12	42512879	42512879	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:42512879C>G	uc001rms.3	-	3	634	c.409G>C	c.(409-411)GCT>CCT	p.A137P	GXYLT1_uc001rmt.3_Missense_Mutation_p.A106P	NM_173601	NP_775872	Q4G148	GXLT1_HUMAN	glycosyltransferase 8 domain containing 3	137	Lumenal (Potential).				O-glycan processing	integral to membrane	UDP-xylosyltransferase activity				0						AAAATGATAGCTGACTTCAAC	0.373													4	66	---	---	---	---	PASS
BIN2	51411	broad.mit.edu	37	12	51696919	51696919	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:51696919C>A	uc001ryg.2	-	3	221	c.169G>T	c.(169-171)GGC>TGC	p.G57C	BIN2_uc009zlz.2_Missense_Mutation_p.G57C|BIN2_uc001ryh.2_Translation_Start_Site|BIN2_uc010sng.1_Missense_Mutation_p.G31C	NM_016293	NP_057377	Q9UBW5	BIN2_HUMAN	bridging integrator 2	57	BAR.					cytoplasm	protein binding			ovary(1)	1						AGCTTGTGGCCTTCTGCCTGA	0.418													5	44	---	---	---	---	PASS
ACVR1B	91	broad.mit.edu	37	12	52380615	52380615	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:52380615G>C	uc001rzn.2	+	7	1192	c.1150G>C	c.(1150-1152)GAA>CAA	p.E384Q	ACVR1B_uc001rzl.2_Missense_Mutation_p.E384Q|ACVR1B_uc001rzm.2_Missense_Mutation_p.E384Q|ACVR1B_uc010snn.1_Missense_Mutation_p.E425Q	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	384	Protein kinase.|Cytoplasmic (Potential).				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding			pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	CATGGCCCCTGAAGTACTTGA	0.393													10	67	---	---	---	---	PASS
KRT6B	3854	broad.mit.edu	37	12	52841120	52841120	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:52841120A>T	uc001sak.2	-	9	1597	c.1549T>A	c.(1549-1551)TAT>AAT	p.Y517N		NM_005555	NP_005546	P04259	K2C6B_HUMAN	keratin 6B	517	Tail.				ectoderm development	keratin filament	structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.083)		CCACTGCCATAGGAGTAGCTG	0.632													5	35	---	---	---	---	PASS
HOXC5	3222	broad.mit.edu	37	12	54428081	54428081	+	Silent	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:54428081C>A	uc001sew.2	+	2	549	c.474C>A	c.(472-474)TCC>TCA	p.S158S	HOXC5_uc001set.2_RNA|HOXC4_uc001seu.2_Intron	NM_018953	NP_061826	Q00444	HXC5_HUMAN	homeobox C5	158	Homeobox.				regulation of transcription from RNA polymerase II promoter	cell junction|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GCAAGCGGTCCCGAACCAGTT	0.597													7	116	---	---	---	---	PASS
NCKAP1L	3071	broad.mit.edu	37	12	54925091	54925091	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:54925091C>A	uc001sgc.3	+	23	2633	c.2554C>A	c.(2554-2556)CTG>ATG	p.L852M	NCKAP1L_uc010sox.1_Missense_Mutation_p.L394M|NCKAP1L_uc010soy.1_Missense_Mutation_p.L802M	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	852					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						CATGAAGTTCCTGAGTGAAAA	0.512													6	146	---	---	---	---	PASS
TPH2	121278	broad.mit.edu	37	12	72425388	72425388	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:72425388T>A	uc009zrw.1	+	11	1527	c.1386T>A	c.(1384-1386)AGT>AGA	p.S462R	TPH2_uc001swy.2_Missense_Mutation_p.S372R	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	462					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	ACACCAGAAGTATTGAAAATG	0.408													14	57	---	---	---	---	PASS
C12orf26	84190	broad.mit.edu	37	12	82780723	82780723	+	Missense_Mutation	SNP	G	T	T	rs149436881		TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:82780723G>T	uc001szq.2	+	2	422	c.401G>T	c.(400-402)CGA>CTA	p.R134L		NM_032230	NP_115606	Q8N6Q8	CL026_HUMAN	hypothetical protein LOC84190	134											0						GTAGCCCTTCGAGGAAATCAA	0.373													4	80	---	---	---	---	PASS
NT5DC3	51559	broad.mit.edu	37	12	104179133	104179133	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:104179133C>A	uc010swe.1	-	12	1350	c.1309G>T	c.(1309-1311)GGC>TGC	p.G437C		NM_001031701	NP_001026871	Q86UY8	NT5D3_HUMAN	5'-nucleotidase domain containing 3	437							hydrolase activity|metal ion binding			ovary(2)|skin(1)	3						TCCAATAAGCCAGTCAAGGTC	0.408													11	89	---	---	---	---	PASS
ALDH1L2	160428	broad.mit.edu	37	12	105420472	105420472	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:105420472G>T	uc001tlc.2	-	22	2694	c.2567C>A	c.(2566-2568)GCC>GAC	p.A856D	ALDH1L2_uc009zuo.2_Missense_Mutation_p.A311D|ALDH1L2_uc009zup.2_RNA	NM_001034173	NP_001029345	Q3SY69	AL1L2_HUMAN	aldehyde dehydrogenase 1 family, member L2	856	Aldehyde dehydrogenase.				10-formyltetrahydrofolate catabolic process|biosynthetic process	mitochondrion	acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity|phosphopantetheine binding			skin(1)	1						AACCCCTGAGGCCAAACCATA	0.373													5	89	---	---	---	---	PASS
NAA25	80018	broad.mit.edu	37	12	112481017	112481017	+	Splice_Site	SNP	T	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:112481017T>A	uc001ttm.2	-	19	2271	c.2251_splice	c.e19-1	p.Y751_splice	NAA25_uc001ttn.3_Splice_Site|NAA25_uc009zvz.1_Splice_Site_p.Y723_splice|NAA25_uc009zwa.1_Splice_Site_p.Y751_splice	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20							cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						GAAAGGATACTGGAAAAAAGG	0.358													9	61	---	---	---	---	PASS
VSIG10	54621	broad.mit.edu	37	12	118533522	118533522	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:118533522G>T	uc001tws.2	-	2	511	c.177C>A	c.(175-177)AAC>AAA	p.N59K		NM_019086	NP_061959	Q8N0Z9	VSI10_HUMAN	V-set and immunoglobulin domain containing 10	59	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane					0						GCTCCGAGTTGTTCCGGTACC	0.557													3	32	---	---	---	---	PASS
C12orf43	64897	broad.mit.edu	37	12	121448635	121448635	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:121448635C>A	uc001tzh.1	-	3	306	c.283G>T	c.(283-285)GAC>TAC	p.D95Y	C12orf43_uc009zxa.1_Missense_Mutation_p.D126Y|C12orf43_uc010szo.1_Missense_Mutation_p.D53Y|C12orf43_uc010szp.1_Missense_Mutation_p.D95Y|C12orf43_uc001tzi.1_Missense_Mutation_p.D95Y	NM_022895	NP_075046	Q96C57	CL043_HUMAN	hypothetical protein LOC64897	95											0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					GTTTACCTGTCCAGCAGGGCT	0.393													5	42	---	---	---	---	PASS
C12orf43	64897	broad.mit.edu	37	12	121448636	121448636	+	Silent	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr12:121448636C>A	uc001tzh.1	-	3	305	c.282G>T	c.(280-282)CTG>CTT	p.L94L	C12orf43_uc009zxa.1_Silent_p.L125L|C12orf43_uc010szo.1_Silent_p.L52L|C12orf43_uc010szp.1_Silent_p.L94L|C12orf43_uc001tzi.1_Silent_p.L94L	NM_022895	NP_075046	Q96C57	CL043_HUMAN	hypothetical protein LOC64897	94											0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					TTTACCTGTCCAGCAGGGCTC	0.398													6	41	---	---	---	---	PASS
NBEA	26960	broad.mit.edu	37	13	35770415	35770415	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr13:35770415C>A	uc001uvb.2	+	31	5548	c.5342C>A	c.(5341-5343)CCT>CAT	p.P1781H	NBEA_uc010abi.2_Missense_Mutation_p.P437H	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	1781						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		GCTATTCTTCCTATGCAGTTT	0.368													5	59	---	---	---	---	PASS
PSMC6	5706	broad.mit.edu	37	14	53185722	53185722	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr14:53185722C>T	uc010tqx.1	+	10	785	c.785C>T	c.(784-786)TCA>TTA	p.S262L	PSMC6_uc001wzy.2_5'Flank	NM_002806	NP_002797	P62333	PRS10_HUMAN	proteasome 26S ATPase subunit 6	248					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding, bridging			lung(1)	1	Breast(41;0.176)					GAGGGTACTTCAGCTGACAGA	0.348													5	71	---	---	---	---	PASS
PLEK2	26499	broad.mit.edu	37	14	67854081	67854081	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr14:67854081C>T	uc001xjh.1	-	9	1079	c.1027G>A	c.(1027-1029)GCC>ACC	p.A343T		NM_016445	NP_057529	Q9NYT0	PLEK2_HUMAN	pleckstrin 2	343	PH 2.				actin cytoskeleton organization|intracellular signal transduction	cytoplasm|cytoskeleton|lamellipodium membrane				ovary(1)|pancreas(1)	2				all cancers(60;0.000728)|OV - Ovarian serous cystadenocarcinoma(108;0.00593)|BRCA - Breast invasive adenocarcinoma(234;0.00953)		ATCCACTCGGCTCGCTCAGCC	0.488													5	79	---	---	---	---	PASS
RBM25	58517	broad.mit.edu	37	14	73577735	73577735	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr14:73577735G>T	uc001xno.2	+	15	2097	c.1889G>T	c.(1888-1890)AGT>ATT	p.S630I	RBM25_uc010ttu.1_Missense_Mutation_p.S630I|RBM25_uc001xnp.2_Missense_Mutation_p.S425I	NM_021239	NP_067062	P49756	RBM25_HUMAN	RNA binding motif protein 25	630	Necessary for nuclear speckle localization.				apoptosis|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|RNA splicing	cytoplasm|nuclear speck	mRNA binding|nucleotide binding|protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00362)|OV - Ovarian serous cystadenocarcinoma(108;0.0688)		TCCTCTGCCAGTGGCAATGCA	0.483													4	30	---	---	---	---	PASS
YLPM1	56252	broad.mit.edu	37	14	75269258	75269258	+	Splice_Site	SNP	G	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr14:75269258G>A	uc001xqj.3	+	6	4525	c.4401_splice	c.e6-1	p.R1467_splice	YLPM1_uc001xql.3_Splice_Site	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		TTTGTTTGCAGGGAACAGAAA	0.358													4	67	---	---	---	---	PASS
KIAA1737	85457	broad.mit.edu	37	14	77579782	77579782	+	Silent	SNP	C	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr14:77579782C>G	uc001xtd.2	+	4	500	c.321C>G	c.(319-321)TCC>TCG	p.S107S	KIAA1737_uc001xtc.1_Silent_p.S9S	NM_033426	NP_219494	Q9C0C6	K1737_HUMAN	KIAA1737 protein	107	Poly-Ser.										0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0284)		GCAGCTCATCCCAGCTCCAGT	0.517													5	55	---	---	---	---	PASS
DLK1	8788	broad.mit.edu	37	14	101200491	101200491	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr14:101200491C>T	uc001yhs.3	+	5	563	c.410C>T	c.(409-411)CCC>CTC	p.P137L	DLK1_uc001yhu.3_Missense_Mutation_p.P137L	NM_003836	NP_003827	P80370	DLK1_HUMAN	delta-like 1 homolog precursor	137	Extracellular (Potential).|EGF-like 4.				multicellular organismal development	extracellular space|integral to membrane|soluble fraction				ovary(2)|breast(1)|skin(1)	4		Melanoma(154;0.155)				TGCAGCTCCCCCTGCCAGCAC	0.647													4	24	---	---	---	---	PASS
MIR493	574450	broad.mit.edu	37	14	101335439	101335439	+	RNA	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr14:101335439G>T	hsa-mir-493|MI0003132	+			c.43G>T																				0						tcattcattcgtttgcacatt	0.428													8	55	---	---	---	---	PASS
RTL1	388015	broad.mit.edu	37	14	101348215	101348215	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr14:101348215C>T	uc010txj.1	-	1	2970	c.2911G>A	c.(2911-2913)GTC>ATC	p.V971I	MIR433_hsa-mir-433|MI0001723_5'Flank|uc001yig.3_5'Flank|MIR127_hsa-mir-127|MI0000472_5'Flank|MIR432_hsa-mir-432|MI0003133_5'Flank|uc010txk.1_5'Flank|MIR136_hsa-mir-136|MI0000475_5'Flank	NM_001134888	NP_001128360	A6NKG5	RTL1_HUMAN	retrotransposon-like 1	971										pancreas(1)	1						AAGAAGAAGACCCAATGCCCG	0.557													14	120	---	---	---	---	PASS
AKT1	207	broad.mit.edu	37	14	105246551	105246551	+	Missense_Mutation	SNP	C	T	T	rs34409589		TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr14:105246551C>T	uc001ypk.2	-	3	603	c.49G>A	c.(49-51)GAG>AAG	p.E17K	INF2_uc010tyi.1_Intron|AKT1_uc001ypl.2_Missense_Mutation_p.E17K|AKT1_uc010axa.2_Missense_Mutation_p.E17K|AKT1_uc001ypm.2_Missense_Mutation_p.E17K|AKT1_uc001ypn.2_Missense_Mutation_p.E17K|AKT1_uc010tyk.1_5'Flank	NM_005163	NP_005154	P31749	AKT1_HUMAN	AKT1 kinase	17	PH.		E -> K (in breast cancer; also detected in colorectal and ovarian cancer; somatic mutation; alters the PH domain conformation; results in activation of the protein; alters the subcellular location of the protein to the plasma membrane).	E->K: Increase in basal ubiquitination, phosphorylation at T-308 and important increase in membrane recruitment. Decrease in ubiquitination, phosphorylation at T-308 as well as impaired association with the membrane; when associated with R-8.	activation of pro-apoptotic gene products|activation-induced cell death of T cells|endocrine pancreas development|G-protein coupled receptor protein signaling pathway|glucose metabolic process|glycogen biosynthetic process|induction of apoptosis by intracellular signals|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|mRNA metabolic process|negative regulation of fatty acid beta-oxidation|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|nitric oxide biosynthetic process|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of blood vessel endothelial cell migration|positive regulation of cell growth|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of establishment of protein localization in plasma membrane|positive regulation of fat cell differentiation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|positive regulation of nitric oxide biosynthetic process|positive regulation of nitric-oxide synthase activity|positive regulation of peptidyl-serine phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|protein autophosphorylation|protein import into nucleus, translocation|regulation of neuron projection development|regulation of translation|response to fluid shear stress|response to heat|response to UV-A|T cell costimulation	cytosol|nucleoplasm|plasma membrane	enzyme binding|identical protein binding|nitric-oxide synthase regulator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|protein serine/threonine kinase activity	p.E17K(126)		breast(86)|urinary_tract(12)|thyroid(10)|lung(7)|endometrium(5)|large_intestine(4)|skin(4)|prostate(3)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|NS(1)	134		all_cancers(154;3.77e-06)|all_lung(585;3.24e-07)|all_epithelial(191;3.45e-05)|all_neural(303;0.0459)|Melanoma(154;0.155)	all cancers(16;0.000486)|OV - Ovarian serous cystadenocarcinoma(23;0.00647)|Epithelial(46;0.0153)|GBM - Glioblastoma multiforme(11;0.116)	all cancers(159;0.0107)|OV - Ovarian serous cystadenocarcinoma(161;0.0132)|Epithelial(152;0.243)	Adenosine triphosphate(DB00171)|Arsenic trioxide(DB01169)	TTGATGTACTCCCCTACAGAC	0.612	E17K(KU1919_URINARY_TRACT)	1	Mis		breast|colorectal|ovarian|NSCLC								4	21	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106641592	106641592	+	RNA	SNP	C	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr14:106641592C>G	uc010tyt.1	-	1021		c.24409G>C								Parts of antibodies, mostly variable regions.												0						GCCGTGTCGTCAGATCTCAGG	0.532													6	188	---	---	---	---	PASS
OR4M2	390538	broad.mit.edu	37	15	22368589	22368589	+	Missense_Mutation	SNP	A	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:22368589A>C	uc010tzu.1	+	1	14	c.14A>C	c.(13-15)AAT>ACT	p.N5T	LOC727924_uc001yua.2_RNA|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	5	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		GAAACTGCAAATTACACCAAG	0.328													5	132	---	---	---	---	PASS
OR4N4	283694	broad.mit.edu	37	15	22382889	22382889	+	Missense_Mutation	SNP	A	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:22382889A>T	uc001yuc.1	+	7	1398	c.417A>T	c.(415-417)AGA>AGT	p.R139S	LOC727924_uc001yub.1_Intron|OR4N4_uc010tzv.1_Missense_Mutation_p.R139S	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	139	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		TGAACCCTAGAGCCTGCTATG	0.542													6	81	---	---	---	---	PASS
GABRB3	2562	broad.mit.edu	37	15	26866631	26866631	+	Silent	SNP	G	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:26866631G>C	uc001zaz.2	-	4	433	c.291C>G	c.(289-291)CTC>CTG	p.L97L	GABRB3_uc010uae.1_Silent_p.L12L|GABRB3_uc001zba.2_Silent_p.L97L|GABRB3_uc001zbb.2_Silent_p.L153L|GABRB3_uc001zbc.2_RNA	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	97	Extracellular (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	CAGAATAGGCGAGCCTTTTAT	0.428													3	32	---	---	---	---	PASS
OCA2	4948	broad.mit.edu	37	15	28235745	28235745	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:28235745C>A	uc001zbh.3	-	10	1203	c.1093G>T	c.(1093-1095)GCA>TCA	p.A365S	OCA2_uc010ayv.2_Intron	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	365	Helical; (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		GCCAGTGCTGCCAGTGCTGCA	0.537									Oculocutaneous_Albinism				11	110	---	---	---	---	PASS
C15orf55	256646	broad.mit.edu	37	15	34648683	34648683	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:34648683T>A	uc001zif.2	+	7	2545	c.2390T>A	c.(2389-2391)CTA>CAA	p.L797Q	C15orf55_uc010ucc.1_Missense_Mutation_p.L825Q|C15orf55_uc010ucd.1_Missense_Mutation_p.L815Q	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	797						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		GCAGCTGCCCTAGAAAAGAGA	0.542			T	BRD3|BRD4	lethal midline carcinoma								9	43	---	---	---	---	PASS
PLA2G4D	283748	broad.mit.edu	37	15	42378498	42378498	+	Silent	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:42378498C>T	uc001zox.2	-	4	395	c.300G>A	c.(298-300)GAG>GAA	p.E100E		NM_178034	NP_828848	Q86XP0	PA24D_HUMAN	phospholipase A2, group IVD	100	C2.				phospholipid catabolic process	cytoplasmic vesicle membrane|cytosol	metal ion binding|phospholipase A2 activity			large_intestine(1)|skin(1)	2		all_cancers(109;6.37e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.019)|Ovarian(310;0.143)|Colorectal(260;0.245)		OV - Ovarian serous cystadenocarcinoma(18;4.9e-17)|GBM - Glioblastoma multiforme(94;1.02e-06)		AGATGTCATCCTCCGTGACTG	0.512													10	40	---	---	---	---	PASS
ANKDD1A	348094	broad.mit.edu	37	15	65219162	65219162	+	Silent	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:65219162C>A	uc002aoa.2	+	6	563	c.534C>A	c.(532-534)CTC>CTA	p.L178L	ANKDD1A_uc002anx.1_Silent_p.L174L|ANKDD1A_uc002any.2_Silent_p.L87L|ANKDD1A_uc002anz.2_Silent_p.L87L|ANKDD1A_uc002aob.2_Intron|ANKDD1A_uc002aoc.2_RNA|ANKDD1A_uc010bha.2_Silent_p.L87L	NM_182703	NP_874362	Q495B1	AKD1A_HUMAN	ankyrin repeat and death domain containing 1A	178	ANK 5.				signal transduction					ovary(1)	1						TGGACTTCCTCGTGGGCTCTG	0.612													4	60	---	---	---	---	PASS
TSPAN3	10099	broad.mit.edu	37	15	77348510	77348510	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:77348510G>C	uc002bcj.2	-	2	368	c.151C>G	c.(151-153)CTC>GTC	p.L51V	TSPAN3_uc002bck.2_Missense_Mutation_p.L51V|TSPAN3_uc010ump.1_Intron|TSPAN3_uc010bkx.2_Intron	NM_005724	NP_005715	O60637	TSN3_HUMAN	transmembrane 4 superfamily member 8 isoform 1	51	Helical; (Potential).					integral to membrane					0				all cancers(203;1.14e-19)		GCAGGGATGAGCGTGTACACA	0.478													7	123	---	---	---	---	PASS
TSPAN3	10099	broad.mit.edu	37	15	77348511	77348511	+	Silent	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:77348511C>A	uc002bcj.2	-	2	367	c.150G>T	c.(148-150)ACG>ACT	p.T50T	TSPAN3_uc002bck.2_Silent_p.T50T|TSPAN3_uc010ump.1_Intron|TSPAN3_uc010bkx.2_Intron	NM_005724	NP_005715	O60637	TSN3_HUMAN	transmembrane 4 superfamily member 8 isoform 1	50	Extracellular (Potential).					integral to membrane					0				all cancers(203;1.14e-19)		CAGGGATGAGCGTGTACACAT	0.473													7	123	---	---	---	---	PASS
SLC28A1	9154	broad.mit.edu	37	15	85438170	85438170	+	Splice_Site	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:85438170G>T	uc002blg.2	+	6	480	c.278_splice	c.e6-1	p.G93_splice	SLC28A1_uc010upd.1_Splice_Site_p.G15_splice|SLC28A1_uc010bnb.2_Splice_Site_p.G93_splice|SLC28A1_uc010upe.1_Splice_Site_p.G93_splice|SLC28A1_uc010upf.1_Splice_Site_p.G93_splice|SLC28A1_uc010upg.1_Splice_Site_p.G93_splice|SLC28A1_uc002blf.2_Splice_Site_p.G93_splice	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1						nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			TCATCCCCCAGGGCTCTCTGC	0.647													18	41	---	---	---	---	PASS
PAQR4	124222	broad.mit.edu	37	16	3021766	3021766	+	Silent	SNP	G	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:3021766G>A	uc002csj.3	+	3	973	c.639G>A	c.(637-639)GCG>GCA	p.A213A	PAQR4_uc002csk.3_Silent_p.A174A|PAQR4_uc002csl.3_Silent_p.A139A|PAQR4_uc010uwm.1_Silent_p.A144A	NM_152341	NP_689554	Q8N4S7	PAQR4_HUMAN	progestin and adipoQ receptor family member IV	213						integral to membrane	receptor activity				0						ACGCACTGGCGCTGCTTGGGG	0.657													5	29	---	---	---	---	PASS
CREBBP	1387	broad.mit.edu	37	16	3832794	3832794	+	Silent	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:3832794G>T	uc002cvv.2	-	6	1668	c.1464C>A	c.(1462-1464)CTC>CTA	p.L488L	CREBBP_uc002cvw.2_Silent_p.L450L	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	488					cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		AGGGGAGTCCGAGAGCAGCAT	0.557			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				4	51	---	---	---	---	PASS
GP2	2813	broad.mit.edu	37	16	20329643	20329643	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:20329643C>A	uc002dgv.2	-	8	1209	c.1126G>T	c.(1126-1128)GTT>TTT	p.V376F	GP2_uc002dgw.2_Missense_Mutation_p.V373F|GP2_uc002dgx.2_Missense_Mutation_p.V229F|GP2_uc002dgy.2_Missense_Mutation_p.V226F	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	376	ZP.					anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						ACGGACTCAACAGACAGTTCA	0.527													23	128	---	---	---	---	PASS
ACSM1	116285	broad.mit.edu	37	16	20682918	20682918	+	Silent	SNP	G	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:20682918G>A	uc002dhm.1	-	4	755	c.687C>T	c.(685-687)ACC>ACT	p.T229T	ACSM1_uc002dhn.1_RNA|ACSM1_uc010bwg.1_Silent_p.T229T	NM_052956	NP_443188	Q08AH1	ACSM1_HUMAN	acyl-CoA synthetase medium-chain family member	229	ATP (By similarity).				benzoate metabolic process|butyrate metabolic process|energy derivation by oxidation of organic compounds|fatty acid oxidation|xenobiotic metabolic process	mitochondrial matrix	acyl-CoA ligase activity|ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			central_nervous_system(1)|skin(1)	2						GGAAGCCTGTGGTCCCACTGG	0.532													9	47	---	---	---	---	PASS
KIAA0556	23247	broad.mit.edu	37	16	27789275	27789275	+	Missense_Mutation	SNP	A	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:27789275A>C	uc002dow.2	+	27	4810	c.4786A>C	c.(4786-4788)AGC>CGC	p.S1596R	KIAA0556_uc010vco.1_Missense_Mutation_p.S98R	NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	1596										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						ACGGAAGCAGAGCGTTGTTGA	0.512													8	66	---	---	---	---	PASS
MYLK3	91807	broad.mit.edu	37	16	46782053	46782053	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:46782053C>A	uc002eei.3	-	1	169	c.53G>T	c.(52-54)GGC>GTC	p.G18V	MYLK3_uc010vge.1_Intron	NM_182493	NP_872299	Q32MK0	MYLK3_HUMAN	myosin light chain kinase 3	18					cardiac myofibril assembly|cellular response to interleukin-1|positive regulation of sarcomere organization|regulation of vascular permeability involved in acute inflammatory response|sarcomere organization|sarcomerogenesis	cytosol	ATP binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			stomach(2)|skin(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	7		all_cancers(37;0.00023)|all_epithelial(9;0.000543)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				GCAGGTCTTGCCCAACCCTGG	0.562													11	38	---	---	---	---	PASS
DPEP3	64180	broad.mit.edu	37	16	68010022	68010022	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:68010022G>T	uc002evc.3	-	9	1373	c.1279C>A	c.(1279-1281)CTG>ATG	p.L427M	DPEP3_uc010cex.2_Missense_Mutation_p.L426M	NM_022357	NP_071752	Q9H4B8	DPEP3_HUMAN	dipeptidase 3 isoform a	402					meiosis	anchored to membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity			breast(3)	3		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0117)|Epithelial(162;0.0481)|all cancers(182;0.236)		AAGACCCGCAGCAGGTTTCCA	0.562													29	187	---	---	---	---	PASS
ADAT1	23536	broad.mit.edu	37	16	75634194	75634194	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:75634194G>T	uc002feo.1	-	11	1531	c.1429C>A	c.(1429-1431)CAG>AAG	p.Q477K	ADAT1_uc002fep.1_Missense_Mutation_p.Q328K	NM_012091	NP_036223	Q9BUB4	ADAT1_HUMAN	adenosine deaminase, tRNA-specific 1	477	A to I editase.				tRNA processing		metal ion binding|RNA binding|tRNA-specific adenosine deaminase activity			ovary(1)|skin(1)	2						CAGGCTTCCTGGTAAGAGGAC	0.512													5	70	---	---	---	---	PASS
TUSC5	286753	broad.mit.edu	37	17	1183600	1183600	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:1183600G>C	uc002fsi.1	+	1	644	c.305G>C	c.(304-306)AGA>ACA	p.R102T		NM_172367	NP_758955	Q8IXB3	TUSC5_HUMAN	LOST1	102					response to biotic stimulus	integral to membrane				skin(2)	2				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		GAAGCCCCCAGAGATTACCTC	0.627													6	31	---	---	---	---	PASS
SERPINF2	5345	broad.mit.edu	37	17	1657687	1657687	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:1657687G>T	uc002ftk.1	+	10	1412	c.1335G>T	c.(1333-1335)AAG>AAT	p.K445N	SERPINF2_uc010vqr.1_Missense_Mutation_p.K381N	NM_000934	NP_000925	P08697	A2AP_HUMAN	alpha-2-antiplasmin isoform a precursor	445					acute-phase response|fibrinolysis|platelet activation|platelet degranulation|regulation of proteolysis	extracellular space|platelet alpha granule lumen	protease binding|serine-type endopeptidase inhibitor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)	Streptokinase(DB00086)	GGGAGCTCAAGGAACAGCAGG	0.607													6	69	---	---	---	---	PASS
TP53	7157	broad.mit.edu	37	17	7578271	7578271	+	Missense_Mutation	SNP	T	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:7578271T>C	uc002gim.2	-	6	772	c.578A>G	c.(577-579)CAT>CGT	p.H193R	TP53_uc002gig.1_Missense_Mutation_p.H193R|TP53_uc002gih.2_Missense_Mutation_p.H193R|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H61R|TP53_uc010cng.1_Missense_Mutation_p.H61R|TP53_uc002gii.1_Missense_Mutation_p.H61R|TP53_uc010cnh.1_Missense_Mutation_p.H193R|TP53_uc010cni.1_Missense_Mutation_p.H193R|TP53_uc002gij.2_Missense_Mutation_p.H193R|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.H100R|TP53_uc002gio.2_Missense_Mutation_p.H61R|TP53_uc010vug.1_Missense_Mutation_p.H154R	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	193	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		H -> D (in sporadic cancers; somatic mutation).|H -> Q (in sporadic cancers; somatic mutation).|H -> Y (in sporadic cancers; somatic mutation).|QH -> HN (in a sporadic cancer; somatic mutation).|H -> N (in sporadic cancers; somatic mutation).|QH -> HY (in a sporadic cancer; somatic mutation).|H -> L (in sporadic cancers; somatic mutation).|H -> P (in sporadic cancers; somatic mutation).|H -> R (in LFS; germline mutation and 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.H193R(67)|p.H193L(31)|p.H193Y(26)|p.H193P(12)|p.0?(7)|p.H193D(7)|p.H193N(4)|p.A189_V197delAPPQHLIRV(4)|p.H193fs*16(3)|p.H193H(2)|p.P191fs*53(2)|p.K164_P219del(1)|p.P191fs*15(1)|p.P191fs*6(1)|p.H100L(1)|p.H61L(1)|p.H193_I195delHLI(1)|p.H193_I195>AP(1)|p.A189fs*53(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)		TCGGATAAGATGCTGAGGAGG	0.562		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)			5	16	---	---	---	---	PASS
MYH13	8735	broad.mit.edu	37	17	10216043	10216043	+	Nonsense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:10216043C>A	uc002gmk.1	-	31	4303	c.4213G>T	c.(4213-4215)GAG>TAG	p.E1405*		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1405	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						GTGTTCTCCTCTGCTTCCTGG	0.517													7	21	---	---	---	---	PASS
MYH2	4620	broad.mit.edu	37	17	10443358	10443358	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:10443358G>T	uc010coi.2	-	12	1162	c.1034C>A	c.(1033-1035)ACT>AAT	p.T345N	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.T345N|MYH2_uc010coj.2_Missense_Mutation_p.T345N	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	345	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TTCTTCATTAGTAAAGCCCAA	0.418													16	79	---	---	---	---	PASS
TEKT3	64518	broad.mit.edu	37	17	15207316	15207316	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:15207316C>G	uc002gon.2	-	9	1597	c.1410G>C	c.(1408-1410)CAG>CAC	p.Q470H		NM_031898	NP_114104	Q9BXF9	TEKT3_HUMAN	tektin 3	470					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0877)		TGCATTTTTCCTGGTCGATGT	0.562													8	34	---	---	---	---	PASS
ATAD5	79915	broad.mit.edu	37	17	29162429	29162429	+	Nonsense_Mutation	SNP	A	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:29162429A>T	uc002hfs.1	+	2	1676	c.1330A>T	c.(1330-1332)AAA>TAA	p.K444*	ATAD5_uc002hft.1_Nonsense_Mutation_p.K341*	NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	444					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				TGATAATTCTAAAAAAATCAT	0.294													9	27	---	---	---	---	PASS
FZD2	2535	broad.mit.edu	37	17	42636019	42636019	+	Silent	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:42636019C>T	uc002igx.1	+	1	1095	c.963C>T	c.(961-963)GGC>GGT	p.G321G		NM_001466	NP_001457	Q14332	FZD2_HUMAN	frizzled 2 precursor	321	Extracellular (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)		TGGTGCAGGGCACCAAGAAGG	0.617													14	30	---	---	---	---	PASS
HOXB2	3212	broad.mit.edu	37	17	46622226	46622226	+	Silent	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:46622226C>A	uc002inm.2	-	1	168	c.48G>T	c.(46-48)CCG>CCT	p.P16P		NM_002145	NP_002136	P14652	HXB2_HUMAN	homeobox B2	16					blood circulation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CGGCGAGCGACGGCTGGCTGT	0.527													11	32	---	---	---	---	PASS
BPTF	2186	broad.mit.edu	37	17	65871037	65871037	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:65871037G>C	uc002jgf.2	+	4	1826	c.1765G>C	c.(1765-1767)GAT>CAT	p.D589H	BPTF_uc002jge.2_Missense_Mutation_p.D589H|BPTF_uc010wqm.1_Missense_Mutation_p.D589H	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			TGACTCTAAAGATGCTGAGAA	0.388													5	184	---	---	---	---	PASS
TNRC6C	57690	broad.mit.edu	37	17	76099517	76099517	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:76099517C>T	uc002jud.2	+	20	5195	c.4595C>T	c.(4594-4596)ACA>ATA	p.T1532I	TNRC6C_uc002juf.2_Missense_Mutation_p.T1568I	NM_018996	NP_061869	Q9HCJ0	TNR6C_HUMAN	trinucleotide repeat containing 6C isoform 2	1532	Sufficient for translational repression when tethered to a target mRNA.				gene silencing by RNA|regulation of translation		nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			ACACTGCGGACATTGTGTTTG	0.473													10	34	---	---	---	---	PASS
ARHGAP28	79822	broad.mit.edu	37	18	6873571	6873571	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr18:6873571G>T	uc010wzi.1	+	7	825	c.587G>T	c.(586-588)CGA>CTA	p.R196L	ARHGAP28_uc002knc.2_Missense_Mutation_p.R321L|ARHGAP28_uc002knd.2_Missense_Mutation_p.R214L|ARHGAP28_uc002kne.2_Missense_Mutation_p.R214L|ARHGAP28_uc002knf.2_Missense_Mutation_p.R205L			B4DXL2	B4DXL2_HUMAN	SubName: Full=Putative uncharacterized protein ARHGAP28;	196					signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)				GTAAAAGGACGAGGTAACTAA	0.358													6	94	---	---	---	---	PASS
PPP4R1	9989	broad.mit.edu	37	18	9557344	9557344	+	Nonsense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr18:9557344C>A	uc002koe.1	-	15	2183	c.2065G>T	c.(2065-2067)GAG>TAG	p.E689*	PPP4R1_uc002kof.2_Nonsense_Mutation_p.E106*|PPP4R1_uc010wzo.1_Nonsense_Mutation_p.E535*|PPP4R1_uc002kod.1_Nonsense_Mutation_p.E672*	NM_001042388	NP_001035847	Q8TF05	PP4R1_HUMAN	protein phosphatase 4, regulatory subunit 1	689					protein phosphorylation|signal transduction	protein phosphatase 4 complex	protein binding|protein phosphatase type 4 regulator activity			skin(1)	1						ACTGCAAGCTCGTGGATGGAG	0.398													4	118	---	---	---	---	PASS
ASXL3	80816	broad.mit.edu	37	18	31323945	31323945	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr18:31323945G>T	uc010dmg.1	+	12	4188	c.4133G>T	c.(4132-4134)GGG>GTG	p.G1378V	ASXL3_uc002kxq.2_Missense_Mutation_p.G1085V	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1378					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						GCCATACCTGGGAGTGAAGAA	0.502											OREG0024911	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	103	---	---	---	---	PASS
GALNT1	2589	broad.mit.edu	37	18	33283583	33283583	+	Silent	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr18:33283583C>T	uc010dmu.2	+	11	1562	c.1509C>T	c.(1507-1509)AAC>AAT	p.N503N	GALNT1_uc002kyz.3_Silent_p.N443N|GALNT1_uc002kzb.2_Silent_p.N503N	NM_020474	NP_065207	Q10472	GALT1_HUMAN	polypeptide N-acetylgalactosaminyltransferase 1	503	Lumenal (Potential).|Ricin B-type lectin.				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2						TAAAAGGCAACCAACTCTGGG	0.373													7	70	---	---	---	---	PASS
C18orf32	497661	broad.mit.edu	37	18	47010053	47010053	+	Silent	SNP	T	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr18:47010053T>C	uc002ldk.1	-	2	278	c.66A>G	c.(64-66)CCA>CCG	p.P22P	C18orf32_uc002ldl.2_Silent_p.P22P|C18orf32_uc002ldm.1_Missense_Mutation_p.H199R	NM_001035005	NP_001030177	Q8TCD1	CR032_HUMAN	hypothetical protein LOC497661	22					positive regulation of I-kappaB kinase/NF-kappaB cascade		signal transducer activity				0						GGTATATATATGGCTCCAGGA	0.398													10	83	---	---	---	---	PASS
SERPINB4	6318	broad.mit.edu	37	18	61328424	61328424	+	Silent	SNP	G	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr18:61328424G>A	uc002ljg.2	-	1	53	c.27C>T	c.(25-27)ACC>ACT	p.T9T	SERPINB3_uc002lji.2_Silent_p.T9T|SERPINB3_uc010dqa.2_Silent_p.T9T|SERPINB3_uc010dqb.2_Silent_p.T9T|SERPINB3_uc010dqc.2_Silent_p.T9T			P48594	SPB4_HUMAN	SubName: Full=Squamous cell carcinoma antigen 2;	9					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						ACATGAACTTGGTGTTGGCTT	0.413													14	115	---	---	---	---	PASS
MYO1F	4542	broad.mit.edu	37	19	8609217	8609217	+	Nonsense_Mutation	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:8609217C>T	uc002mkg.2	-	14	1602	c.1488G>A	c.(1486-1488)TGG>TGA	p.W496*		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	496	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						AGCCGGCGCTCCAGCTGTTGA	0.677													4	15	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9074998	9074998	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:9074998G>T	uc002mkp.2	-	3	12652	c.12448C>A	c.(12448-12450)CCT>ACT	p.P4150T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4152	Thr-rich.|Extracellular (Potential).|Ser-rich.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ACAGAGGGAGGGCTTGGCTGT	0.502													13	74	---	---	---	---	PASS
ZNF442	79973	broad.mit.edu	37	19	12460784	12460784	+	Missense_Mutation	SNP	T	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:12460784T>G	uc002mtr.1	-	6	2226	c.1615A>C	c.(1615-1617)ACT>CCT	p.T539P	ZNF442_uc010xmk.1_Missense_Mutation_p.T470P	NM_030824	NP_110451	Q9H7R0	ZN442_HUMAN	zinc finger protein 442	539					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(2)|breast(1)|kidney(1)	4						TTCTCTCCAGTGTGAATCCTT	0.383													9	59	---	---	---	---	PASS
PDE4C	5143	broad.mit.edu	37	19	18321932	18321932	+	Missense_Mutation	SNP	T	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:18321932T>C	uc010xqc.1	-	15	2426	c.1946A>G	c.(1945-1947)GAG>GGG	p.E649G	PDE4C_uc002nik.3_Missense_Mutation_p.E649G|PDE4C_uc002nil.3_Missense_Mutation_p.E649G|PDE4C_uc002nif.3_Missense_Mutation_p.E418G|PDE4C_uc002nig.3_Missense_Mutation_p.E364G|PDE4C_uc002nih.3_Missense_Mutation_p.E419G|PDE4C_uc010ebk.2_Missense_Mutation_p.E543G|PDE4C_uc002nii.3_Missense_Mutation_p.E617G|PDE4C_uc010ebl.2_Missense_Mutation_p.E363G	NM_001098819	NP_001092289	Q08493	PDE4C_HUMAN	phosphodiesterase 4C isoform PDE4C-2	649					signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|skin(2)|central_nervous_system(1)	5					Dyphylline(DB00651)	CCCGTCCCGCTCGGGGTTGGT	0.443													8	56	---	---	---	---	PASS
SFRS14	10147	broad.mit.edu	37	19	19135671	19135671	+	Nonsense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:19135671C>A	uc002nkx.2	-	3	1632	c.1486G>T	c.(1486-1488)GAG>TAG	p.E496*	SFRS14_uc002nkz.1_Nonsense_Mutation_p.E510*|SFRS14_uc002nla.1_Nonsense_Mutation_p.E496*|SFRS14_uc002nlb.2_Nonsense_Mutation_p.E496*|SFRS14_uc010xqk.1_Nonsense_Mutation_p.E265*	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	496					mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			AAGATTTTCTCCTGCCGGAAA	0.507													7	148	---	---	---	---	PASS
ZNF91	7644	broad.mit.edu	37	19	23544724	23544724	+	Missense_Mutation	SNP	T	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:23544724T>C	uc002nre.2	-	4	1170	c.1057A>G	c.(1057-1059)AAA>GAA	p.K353E	ZNF91_uc010xrj.1_Missense_Mutation_p.K321E	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	353	C2H2-type 8.					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)				CCACATTCTTTACATTTGTAG	0.373													3	55	---	---	---	---	PASS
MAP4K1	11184	broad.mit.edu	37	19	39088220	39088220	+	Silent	SNP	G	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:39088220G>A	uc002oix.1	-	23	1792	c.1684C>T	c.(1684-1686)CTG>TTG	p.L562L	MAP4K1_uc002oiw.1_Silent_p.L149L|MAP4K1_uc002oiy.1_Silent_p.L562L|MAP4K1_uc010xug.1_Silent_p.T203T	NM_007181	NP_009112	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase	562	CNH.				activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			TGAGAATACAGGTGGGGGGTC	0.552													6	24	---	---	---	---	PASS
GRIK5	2901	broad.mit.edu	37	19	42566697	42566697	+	Nonsense_Mutation	SNP	G	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:42566697G>A	uc002osj.1	-	4	486	c.451C>T	c.(451-453)CGA>TGA	p.R151*	GRIK5_uc010eib.1_Nonsense_Mutation_p.R70*	NM_002088	NP_002079	Q16478	GRIK5_HUMAN	glutamate receptor KA2 precursor	151	Extracellular (Potential).					cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity				0		Prostate(69;0.059)			L-Glutamic Acid(DB00142)	TTGAGGATTCGGGAGACCGCC	0.577													10	45	---	---	---	---	PASS
PSG3	5671	broad.mit.edu	37	19	43243198	43243198	+	Silent	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:43243198G>T	uc002oue.2	-	2	240	c.108C>A	c.(106-108)GTC>GTA	p.V36V	PSG3_uc002ouf.2_RNA|PSG1_uc002oug.1_Intron|PSG3_uc010eil.2_Silent_p.V58V	NM_021016	NP_066296	Q16557	PSG3_HUMAN	pregnancy specific beta-1-glycoprotein 3	36	Ig-like V-type.				defense response|female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				CTTCAATCGTGACTTGGGCAG	0.463													10	65	---	---	---	---	PASS
HIF3A	64344	broad.mit.edu	37	19	46842856	46842856	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:46842856G>T	uc002peh.2	+	15	2016	c.1987G>T	c.(1987-1989)GCA>TCA	p.A663S	HIF3A_uc002pek.2_Missense_Mutation_p.A607S|HIF3A_uc010xxy.1_Missense_Mutation_p.A594S|HIF3A_uc002pel.2_Missense_Mutation_p.A661S	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	663					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		CCAGCCAAGGGCAGGCTCAGC	0.622													8	32	---	---	---	---	PASS
ELSPBP1	64100	broad.mit.edu	37	19	48525518	48525518	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:48525518G>T	uc002pht.2	+	6	761	c.606G>T	c.(604-606)AAG>AAT	p.K202N		NM_022142	NP_071425	Q96BH3	ESPB1_HUMAN	epididymal sperm binding protein 1 precursor	202	Fibronectin type-II 4.				single fertilization	extracellular region					0		all_cancers(25;8.7e-09)|all_lung(116;1.15e-06)|all_epithelial(76;1.17e-06)|Lung NSC(112;2.56e-06)|all_neural(266;0.0138)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;0.000253)|all cancers(93;0.00129)|Epithelial(262;0.0314)|GBM - Glioblastoma multiforme(486;0.0606)		AAGGATCAAAGGAGAACCTTG	0.458													5	76	---	---	---	---	PASS
SIGLEC7	27036	broad.mit.edu	37	19	51645698	51645698	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:51645698G>T	uc002pvv.1	+	1	141	c.72G>T	c.(70-72)AAG>AAT	p.K24N	SIGLEC7_uc002pvw.1_Missense_Mutation_p.K24N|SIGLEC7_uc010eoq.1_RNA|SIGLEC7_uc010eor.1_Missense_Mutation_p.K24N	NM_014385	NP_055200	Q9Y286	SIGL7_HUMAN	sialic acid binding Ig-like lectin 7 isoform 1	24	Extracellular (Potential).				cell adhesion	integral to plasma membrane	receptor activity|sugar binding			large_intestine(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000836)|OV - Ovarian serous cystadenocarcinoma(262;0.00297)		GTAACCGGAAGGATTACTCGC	0.512													6	22	---	---	---	---	PASS
LILRA2	11027	broad.mit.edu	37	19	55087509	55087509	+	Nonsense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:55087509C>A	uc002qgg.3	+	6	1277	c.1188C>A	c.(1186-1188)TAC>TAA	p.Y396*	LILRA2_uc010ern.2_Nonsense_Mutation_p.Y396*|LILRA2_uc002qgf.2_Nonsense_Mutation_p.Y396*|LILRA2_uc010yfe.1_Nonsense_Mutation_p.Y396*|LILRA2_uc010yff.1_Nonsense_Mutation_p.Y384*|LILRA2_uc010ero.2_Nonsense_Mutation_p.Y384*|LILRA2_uc010yfg.1_Intron	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	396	Ig-like C2-type 4.|Extracellular (Potential).				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		ACAGATGCTACAGCTCACTCA	0.602													14	99	---	---	---	---	PASS
NLRP7	199713	broad.mit.edu	37	19	55435122	55435122	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:55435122C>A	uc002qih.3	-	10	3005	c.2929G>T	c.(2929-2931)GAC>TAC	p.D977Y	NLRP7_uc002qig.3_Missense_Mutation_p.D1006Y|NLRP7_uc002qii.3_Missense_Mutation_p.D1034Y|NLRP7_uc010esk.2_3'UTR|NLRP7_uc010esl.2_Missense_Mutation_p.D1062Y	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	977							ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		CAAAAAAAGTCACAGCACGGA	0.473													13	67	---	---	---	---	PASS
NLRP4	147945	broad.mit.edu	37	19	56382329	56382329	+	Missense_Mutation	SNP	T	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:56382329T>A	uc002qmd.3	+	7	2913	c.2491T>A	c.(2491-2493)TTG>ATG	p.L831M	NLRP4_uc002qmf.2_Missense_Mutation_p.L756M|NLRP4_uc010etf.2_Missense_Mutation_p.L606M	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	831	LRR 5.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		CTGCGAGGCCTTGAAACATCC	0.493													11	78	---	---	---	---	PASS
NLRP13	126204	broad.mit.edu	37	19	56423244	56423244	+	Nonsense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:56423244C>A	uc010ygg.1	-	5	1964	c.1939G>T	c.(1939-1941)GAG>TAG	p.E647*		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	647							ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		AAGTCTTCCTCCTGGGACTCG	0.423													5	70	---	---	---	---	PASS
ZNF274	10782	broad.mit.edu	37	19	58723027	58723027	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:58723027G>C	uc002qrq.1	+	9	1413	c.954G>C	c.(952-954)GAG>GAC	p.E318D	ZNF274_uc002qrr.1_Missense_Mutation_p.E286D|ZNF274_uc002qrs.1_Missense_Mutation_p.E213D|ZNF274_uc010eum.1_Missense_Mutation_p.E77D	NM_133502	NP_598009	Q96GC6	ZN274_HUMAN	zinc finger protein 274 isoform c	318	KRAB 2.				viral reproduction	centrosome|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.215)		TGATGCTGGAGACCTTTGGGC	0.632													4	57	---	---	---	---	PASS
SLC27A5	10998	broad.mit.edu	37	19	59010941	59010941	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr19:59010941C>A	uc002qtc.2	-	7	1695	c.1585G>T	c.(1585-1587)GTT>TTT	p.V529F	SLC27A5_uc002qtb.2_5'Flank	NM_012254	NP_036386	Q9Y2P5	S27A5_HUMAN	solute carrier family 27 (fatty acid	529	Cytoplasmic (Probable).				bile acid and bile salt transport|bile acid biosynthetic process|very long-chain fatty acid metabolic process	endoplasmic reticulum membrane|integral to membrane	ATP binding|cholate-CoA ligase activity|long-chain fatty acid-CoA ligase activity				0		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.181)		TTGTAGTAAACGTCGCCCGAT	0.647													7	46	---	---	---	---	PASS
SEC23B	10483	broad.mit.edu	37	20	18516382	18516382	+	Missense_Mutation	SNP	A	G	G	rs150210442		TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr20:18516382A>G	uc002wqz.1	+	12	1843	c.1400A>G	c.(1399-1401)AAT>AGT	p.N467S	SEC23B_uc002wra.1_Missense_Mutation_p.N467S|SEC23B_uc002wrb.1_Missense_Mutation_p.N467S|SEC23B_uc010zsb.1_Missense_Mutation_p.N449S|SEC23B_uc002wrc.1_Missense_Mutation_p.N467S	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	467					ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						GAAGTTGTCAATCAGGTGAGT	0.438													9	37	---	---	---	---	PASS
CST8	10047	broad.mit.edu	37	20	23472308	23472308	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr20:23472308C>G	uc002wth.1	+	2	361	c.4C>G	c.(4-6)CCC>GCC	p.P2A		NM_005492	NP_005483	O60676	CST8_HUMAN	cystatin 8 precursor	2						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					AGGGACCATGCCCAGGTGCCG	0.612													14	66	---	---	---	---	PASS
ENTPD6	955	broad.mit.edu	37	20	25187731	25187731	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr20:25187731G>T	uc002wuj.2	+	3	254	c.74G>T	c.(73-75)TGG>TTG	p.W25L	ENTPD6_uc010zsy.1_Missense_Mutation_p.W25L|ENTPD6_uc010gdj.1_5'UTR|ENTPD6_uc010zsz.1_Intron|ENTPD6_uc002wum.2_Missense_Mutation_p.W8L|ENTPD6_uc010zta.1_Missense_Mutation_p.W25L|ENTPD6_uc002wun.2_Missense_Mutation_p.W25L|ENTPD6_uc002wuk.2_Missense_Mutation_p.W24L|ENTPD6_uc002wul.2_Missense_Mutation_p.W24L|ENTPD6_uc010ztb.1_5'UTR|ENTPD6_uc010ztc.1_5'UTR|ENTPD6_uc002wuo.2_Intron|ENTPD6_uc010ztd.1_5'Flank	NM_001247	NP_001238	O75354	ENTP6_HUMAN	ectonucleoside triphosphate diphosphohydrolase 6	25	Cytoplasmic (Potential).					Golgi membrane|integral to membrane	nucleoside-diphosphatase activity				0						CACGGTCCTTGGCAAACAAGG	0.607													5	45	---	---	---	---	PASS
SNAI1	6615	broad.mit.edu	37	20	48600466	48600466	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr20:48600466C>G	uc002xuz.2	+	2	258	c.188C>G	c.(187-189)TCT>TGT	p.S63C		NM_005985	NP_005976	O95863	SNAI1_HUMAN	snail 1 homolog	63					epithelial to mesenchymal transition|mesoderm formation|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	kinase binding|zinc ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			ATCTGGGACTCTGTCCTGGCG	0.652													8	33	---	---	---	---	PASS
DIDO1	11083	broad.mit.edu	37	20	61541126	61541126	+	Missense_Mutation	SNP	T	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr20:61541126T>G	uc002ydr.1	-	4	1350	c.1086A>C	c.(1084-1086)GAA>GAC	p.E362D	DIDO1_uc002yds.1_Missense_Mutation_p.E362D|DIDO1_uc002ydt.1_Missense_Mutation_p.E362D|DIDO1_uc002ydu.1_Missense_Mutation_p.E362D|DIDO1_uc002ydv.1_Missense_Mutation_p.E362D|DIDO1_uc002ydw.1_Missense_Mutation_p.E362D|DIDO1_uc002ydx.1_Missense_Mutation_p.E362D|DIDO1_uc011aao.1_Missense_Mutation_p.E362D	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	362					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					TCCCTTGGTCTTCGCTAGACT	0.458													23	154	---	---	---	---	PASS
RNF160	26046	broad.mit.edu	37	21	30304833	30304833	+	Silent	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr21:30304833G>T	uc002ymr.2	-	28	5180	c.5167C>A	c.(5167-5169)CGG>AGG	p.R1723R		NM_015565	NP_056380	O94822	LTN1_HUMAN	zinc finger protein 294	1677							ligase activity|zinc ion binding				0						ATCCAGTTCCGCCACTGCTGA	0.378													5	172	---	---	---	---	PASS
SLC37A1	54020	broad.mit.edu	37	21	43959738	43959738	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr21:43959738G>T	uc002zbi.2	+	7	879	c.467G>T	c.(466-468)GGA>GTA	p.G156V	SLC37A1_uc002zbj.2_Missense_Mutation_p.G156V	NM_018964	NP_061837	P57057	GLPT_HUMAN	solute carrier family 37 member 1	156					carbohydrate transport|transmembrane transport	integral to membrane					0						CACAGTTTCGGATTCTACGTG	0.522													6	51	---	---	---	---	PASS
KRTAP10-7	386675	broad.mit.edu	37	21	46021203	46021203	+	Missense_Mutation	SNP	C	T	T	rs672479		TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr21:46021203C>T	uc002zfn.3	+	2	692	c.667C>T	c.(667-669)CCT>TCT	p.P223S	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198689	NP_941962	P60409	KR107_HUMAN	keratin associated protein 10-7	228	30 X 5 AA repeats of C-C-X(3).					keratin filament					0						CACCTCCTCCCCCTGCCAGCA	0.652													8	84	---	---	---	---	PASS
MYO18B	84700	broad.mit.edu	37	22	26423089	26423089	+	Silent	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr22:26423089G>T	uc003abz.1	+	43	7399	c.7149G>T	c.(7147-7149)CGG>CGT	p.R2383R	MYO18B_uc003aca.1_Silent_p.R2264R|MYO18B_uc010guy.1_Silent_p.R2265R|MYO18B_uc010guz.1_Silent_p.R2263R|MYO18B_uc011aka.1_Silent_p.R1537R|MYO18B_uc011akb.1_Silent_p.R1896R|MYO18B_uc010gva.1_Silent_p.R366R|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2383						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						TGCGTCCTCGGAGGCGGTGTC	0.602													15	57	---	---	---	---	PASS
SEC14L2	23541	broad.mit.edu	37	22	30818328	30818328	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr22:30818328G>T	uc003ahr.2	+	12	1317	c.1144G>T	c.(1144-1146)GAG>TAG	p.E382*	SEC14L2_uc011akx.1_Nonsense_Mutation_p.E328*|SEC14L2_uc003ahs.2_Nonsense_Mutation_p.E308*|SEC14L2_uc011aky.1_Nonsense_Mutation_p.E299*|SEC14L2_uc003aht.2_RNA|SEC14L2_uc003ahu.3_Intron|SEC14L2_uc010gvv.2_RNA|SEC14L2_uc010gvw.1_Intron|MTP18_uc010gvx.1_Intron|MTP18_uc003ahv.1_Intron|MTP18_uc010gvy.1_Intron	NM_012429	NP_036561	O76054	S14L2_HUMAN	SEC14-like 2 isoform 1	382	GOLD.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	phospholipid binding|transporter activity|vitamin E binding				0					Vitamin E(DB00163)	TTTCACTGTGGAGGTCCTGCT	0.522													6	59	---	---	---	---	PASS
FAM47C	442444	broad.mit.edu	37	X	37027657	37027657	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:37027657C>G	uc004ddl.1	+	1	1188	c.1174C>G	c.(1174-1176)CCA>GCA	p.P392A		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	392										ovary(3)	3						TCCTCTCCGCCCAGAGACCCC	0.612													3	15	---	---	---	---	PASS
CACNA1F	778	broad.mit.edu	37	X	49067838	49067838	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:49067838C>A	uc004dnb.2	-	36	4299	c.4237G>T	c.(4237-4239)GGT>TGT	p.G1413C	CACNA1F_uc010nip.2_Missense_Mutation_p.G1402C	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	1413	Phenylalkylamine binding (By similarity).|Extracellular (Potential).|IV.|Dihydropyridine binding (By similarity).				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	AAATTGCTACCACAGGTAAAC	0.537													4	31	---	---	---	---	PASS
HEPH	9843	broad.mit.edu	37	X	65392409	65392409	+	Missense_Mutation	SNP	C	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:65392409C>G	uc011moz.1	+	3	449	c.389C>G	c.(388-390)CCT>CGT	p.P130R	HEPH_uc004dwn.2_Missense_Mutation_p.P130R|HEPH_uc004dwo.2_5'UTR|HEPH_uc010nkr.2_Missense_Mutation_p.P130R|HEPH_uc011mpa.1_Missense_Mutation_p.P130R	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	127	Extracellular (Potential).|Plastocyanin-like 1.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						ACCATCCACCCTCATGGTGTC	0.493													5	31	---	---	---	---	PASS
HEPH	9843	broad.mit.edu	37	X	65427122	65427122	+	Missense_Mutation	SNP	A	G	G			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:65427122A>G	uc011moz.1	+	14	2446	c.2386A>G	c.(2386-2388)ACA>GCA	p.T796A	HEPH_uc004dwn.2_Missense_Mutation_p.T796A|HEPH_uc004dwo.2_Missense_Mutation_p.T526A|HEPH_uc010nkr.2_Missense_Mutation_p.T604A|HEPH_uc011mpa.1_Missense_Mutation_p.T796A|HEPH_uc010nks.2_Missense_Mutation_p.T85A	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	793	Extracellular (Potential).|Plastocyanin-like 5.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						CACTGATGGTACATTCAGGAT	0.468													5	15	---	---	---	---	PASS
HEPH	9843	broad.mit.edu	37	X	65427158	65427158	+	Nonsense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:65427158G>T	uc011moz.1	+	14	2482	c.2422G>T	c.(2422-2424)GAA>TAA	p.E808*	HEPH_uc004dwn.2_Nonsense_Mutation_p.E808*|HEPH_uc004dwo.2_Nonsense_Mutation_p.E538*|HEPH_uc010nkr.2_Nonsense_Mutation_p.E616*|HEPH_uc011mpa.1_Nonsense_Mutation_p.E808*|HEPH_uc010nks.2_Nonsense_Mutation_p.E97*	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	805	Extracellular (Potential).|Plastocyanin-like 5.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						TGGACCAGAAGAACACTTGGG	0.493													4	17	---	---	---	---	PASS
CYLC1	1538	broad.mit.edu	37	X	83128462	83128462	+	Missense_Mutation	SNP	T	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:83128462T>C	uc004eei.1	+	4	767	c.746T>C	c.(745-747)ATG>ACG	p.M249T	CYLC1_uc004eeh.1_Missense_Mutation_p.M248T	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	249					cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						GATTTCCTCATGTTAGTGGGA	0.313													4	15	---	---	---	---	PASS
CHRDL1	91851	broad.mit.edu	37	X	109924818	109924818	+	Missense_Mutation	SNP	G	C	C			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:109924818G>C	uc004eou.3	-	10	1397	c.1048C>G	c.(1048-1050)CCT>GCT	p.P350A	CHRDL1_uc004eov.2_Missense_Mutation_p.P339A|CHRDL1_uc004eow.2_Missense_Mutation_p.P348A|CHRDL1_uc010nps.2_Missense_Mutation_p.P349A|CHRDL1_uc004eot.2_Missense_Mutation_p.P269A|CHRDL1_uc011mss.1_Missense_Mutation_p.P264A	NM_001143981	NP_001137453	Q9BU40	CRDL1_HUMAN	chordin-like 1 isoform 1 precursor	342					BMP signaling pathway|cell differentiation|nervous system development|ossification	extracellular region					0						TCATACACAGGCATCGTTTCT	0.453													6	43	---	---	---	---	PASS
ARHGAP36	158763	broad.mit.edu	37	X	130218636	130218636	+	Missense_Mutation	SNP	C	A	A			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:130218636C>A	uc004evz.2	+	6	1130	c.785C>A	c.(784-786)TCC>TAC	p.S262Y	ARHGAP36_uc004ewa.2_Missense_Mutation_p.S250Y|ARHGAP36_uc004ewb.2_Missense_Mutation_p.S231Y|ARHGAP36_uc004ewc.2_Missense_Mutation_p.S126Y	NM_144967	NP_659404	Q6ZRI8	RHG36_HUMAN	hypothetical protein LOC158763 precursor	262	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)	3						CTTGAATACTCCGTGCAGCGA	0.473													8	45	---	---	---	---	PASS
IGSF1	3547	broad.mit.edu	37	X	130417031	130417031	+	Missense_Mutation	SNP	C	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:130417031C>T	uc004ewd.2	-	6	1113	c.875G>A	c.(874-876)GGA>GAA	p.G292E	IGSF1_uc004ewe.3_Missense_Mutation_p.G281E|IGSF1_uc004ewf.2_Missense_Mutation_p.G272E	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	292	Ig-like C2-type 3.|Extracellular (Potential).				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						GAGGTAATGTCCAGTATCTTG	0.398													4	31	---	---	---	---	PASS
F9	2158	broad.mit.edu	37	X	138623348	138623348	+	Missense_Mutation	SNP	G	T	T			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chrX:138623348G>T	uc004fas.1	+	4	420	c.391G>T	c.(391-393)GAT>TAT	p.D131Y	F9_uc004fat.1_Intron	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein	131	EGF-like 2.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)	CTGTGAATTAGGTAAGTAACT	0.338													4	21	---	---	---	---	PASS
LOC284632	284632	broad.mit.edu	37	1	24537536	24537536	+	RNA	DEL	T	-	-			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr1:24537536delT	uc010oei.1	+	3		c.1202delT				NR_027087				Homo sapiens hypothetical protein LOC284632, mRNA (cDNA clone IMAGE:4826835).												0						ACCCTCTTTCTTAACCAGACA	0.458													4	2	---	---	---	---	
LOC100128164	100128164	broad.mit.edu	37	3	169664945	169664946	+	RNA	DEL	GT	-	-			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr3:169664945_169664946delGT	uc011bpp.1	-	2		c.2857_2858delAC				NR_027622				Homo sapiens cDNA FLJ41016 fis, clone UTERU2018784.												0						AGGTATATTCgtgtgtgtgtgt	0.168													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	62538522	62538523	+	RNA	INS	-	GA	GA	rs3055695		TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr15:62538522_62538523insGA	uc002ain.1	-	5		c.694_695insTC			uc002ajj.1_3'UTR|uc002ajn.2_5'Flank|uc002ajo.2_5'Flank|uc002ajq.2_5'Flank|uc002ajr.1_5'Flank|uc010uhp.1_5'Flank|uc002ajt.2_5'Flank|uc002ajw.2_5'Flank|uc010uhq.1_5'Flank|uc002ajx.2_5'Flank|uc002ajy.2_5'Flank					Homo sapiens cDNA FLJ38723 fis, clone KIDNE2010137, weakly similar to GOLGIN-95.																		GGGGGCTCCGGGTAGGGGTTCA	0.609													4	3	---	---	---	---	
PRR25	388199	broad.mit.edu	37	16	863772	863772	+	Frame_Shift_Del	DEL	G	-	-			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:863772delG	uc010uut.1	+	3	1120	c.1120delG	c.(1120-1122)GGGfs	p.G374fs		NM_001013638	NP_001013660	Q96S07	PRR25_HUMAN	proline rich 25	374										large_intestine(1)	1						GCGGATCCCCGGGGCCGCGCG	0.796													4	2	---	---	---	---	
LOC652276	652276	broad.mit.edu	37	16	2660756	2660756	+	RNA	DEL	A	-	-			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:2660756delA	uc002cqx.2	+	2		c.638delA			LOC652276_uc002cqy.3_RNA					Homo sapiens cDNA FLJ39075 fis, clone NT2RP7016911.												0						GCTGTCTTACAAAAAAAAAAA	0.294													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	25078519	25078519	+	RNA	DEL	C	-	-			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr16:25078519delC	uc002dnh.1	+	1		c.161delC			uc002dni.1_5'Flank|uc010vch.1_5'Flank|uc002dnj.2_5'Flank					Homo sapiens cDNA FLJ36063 fis, clone TESTI2018975.																		TCCTCTCTTGCCGCGCGCCGA	0.652													4	2	---	---	---	---	
ITGA2B	3674	broad.mit.edu	37	17	42463236	42463236	+	Frame_Shift_Del	DEL	G	-	-			TCGA-46-3767-01A-01D-0983-08	TCGA-46-3767-10A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	db4ea3ec-e926-4e75-a97b-a527c101b3b9	f2af4deb-a3cb-4ed4-a800-1530842ff69e	g.chr17:42463236delG	uc002igt.1	-	3	396	c.364delC	c.(364-366)CAAfs	p.Q122fs		NM_000419	NP_000410	P08514	ITA2B_HUMAN	integrin alpha 2b preproprotein	122	Extracellular (Potential).|FG-GAP 2.				axon guidance|integrin-mediated signaling pathway|platelet activation|platelet degranulation	integrin complex|platelet alpha granule membrane	identical protein binding|receptor activity			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.191)	Tirofiban(DB00775)	CCCAGTCCTTGGCGGGCCTTG	0.642													4	2	---	---	---	---	
