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
PER3	8863	broad.mit.edu	37	1	7845624	7845624	+	Silent	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:7845624C>G	uc001aoo.2	+	2	427	c.252C>G	c.(250-252)CTC>CTG	p.L84L	PER3_uc009vmg.1_Silent_p.L84L|PER3_uc009vmh.1_Silent_p.L84L|PER3_uc001aop.2_Silent_p.L84L|PER3_uc010nzw.1_5'UTR|PER3_uc001aon.2_Silent_p.L84L	NM_016831	NP_058515	P56645	PER3_HUMAN	period 3	84					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			ovary(1)|pancreas(1)|skin(1)	3	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		ACTATGCTCTCCGCTGTGTCC	0.473													13	60	---	---	---	---	PASS
CLSTN1	22883	broad.mit.edu	37	1	9811556	9811556	+	Silent	SNP	G	A	A	rs140241620		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:9811556G>A	uc001aqh.2	-	5	1383	c.624C>T	c.(622-624)GAC>GAT	p.D208D	CLSTN1_uc001aqi.2_Silent_p.D198D|CLSTN1_uc010oag.1_Silent_p.D208D	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	208	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		TAAAGGGCACGTCTGGAGTGA	0.532													16	116	---	---	---	---	PASS
MTHFR	4524	broad.mit.edu	37	1	11863045	11863045	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:11863045C>G	uc001atc.1	-	2	313	c.129G>C	c.(127-129)GAG>GAC	p.E43D	MTHFR_uc001atb.1_Missense_Mutation_p.E66D|MTHFR_uc001atd.1_RNA|MTHFR_uc009vnd.1_RNA	NM_005957	NP_005948	P42898	MTHR_HUMAN	5,10-methylenetetrahydrofolate reductase	43					blood circulation|folic acid metabolic process	cytosol	methylenetetrahydrofolate reductase (NADPH) activity|protein binding				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.66e-06)|COAD - Colon adenocarcinoma(227;0.000261)|BRCA - Breast invasive adenocarcinoma(304;0.000304)|Kidney(185;0.000777)|KIRC - Kidney renal clear cell carcinoma(229;0.00261)|STAD - Stomach adenocarcinoma(313;0.0073)|READ - Rectum adenocarcinoma(331;0.0649)	Benazepril(DB00542)|Cyanocobalamin(DB00115)|Folic Acid(DB00158)|L-Methionine(DB00134)|Menadione(DB00170)|Methotrexate(DB00563)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|Raltitrexed(DB00293)|Riboflavin(DB00140)|S-Adenosylmethionine(DB00118)|Tetrahydrofolic acid(DB00116)	CCCGGAGTCTCTCATGCCGCT	0.587													13	52	---	---	---	---	PASS
AADACL3	126767	broad.mit.edu	37	1	12785627	12785627	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:12785627G>A	uc009vnn.1	+	4	950	c.717G>A	c.(715-717)GAG>GAA	p.E239E	AADACL3_uc001aug.1_Silent_p.E169E	NM_001103170	NP_001096640	Q5VUY0	ADCL3_HUMAN	arylacetamide deacetylase-like 3 isoform 1	239							hydrolase activity				0	Ovarian(185;0.249)	Lung NSC(185;8.27e-05)|all_lung(284;9.47e-05)|Renal(390;0.000147)|Colorectal(325;0.000583)|Breast(348;0.000596)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.00217)|KIRC - Kidney renal clear cell carcinoma(229;0.00579)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		GGTTTAAGGAGAGGGGTTACC	0.502													41	165	---	---	---	---	PASS
RNF186	54546	broad.mit.edu	37	1	20141334	20141334	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:20141334C>G	uc001bcr.2	-	1	438	c.261G>C	c.(259-261)AAG>AAC	p.K87N		NM_019062	NP_061935	Q9NXI6	RN186_HUMAN	ring finger protein 186	87						integral to membrane	zinc ion binding				0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00459)|Lung NSC(340;0.00475)|Breast(348;0.00526)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|COAD - Colon adenocarcinoma(152;1.07e-05)|BRCA - Breast invasive adenocarcinoma(304;7.77e-05)|Kidney(64;0.000162)|GBM - Glioblastoma multiforme(114;0.00036)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		CGGCGGTGACCTTGCGGCACA	0.672													18	82	---	---	---	---	PASS
EPHB2	2048	broad.mit.edu	37	1	23111401	23111401	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:23111401G>A	uc009vqj.1	+	3	788	c.643G>A	c.(643-645)GAG>AAG	p.E215K	EPHB2_uc001bge.2_Missense_Mutation_p.E215K|EPHB2_uc001bgf.2_Missense_Mutation_p.E215K|EPHB2_uc010odu.1_Missense_Mutation_p.E215K	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	215	Extracellular (Potential).|Cys-rich.				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		GTCGGGGGCTGAGAGCACATC	0.627									Hereditary_Prostate_Cancer				21	56	---	---	---	---	PASS
MED18	54797	broad.mit.edu	37	1	28661072	28661072	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:28661072G>T	uc001bpt.3	+	3	463	c.218G>T	c.(217-219)CGA>CTA	p.R73L	MED18_uc009vtg.2_Missense_Mutation_p.R73L	NM_017638	NP_060108	Q9BUE0	MED18_HUMAN	mediator complex subunit 18	73					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex	identical protein binding				0		Colorectal(325;0.000147)|Lung NSC(340;0.000818)|all_lung(284;0.000996)|Renal(390;0.00357)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0557)|Ovarian(437;0.113)		OV - Ovarian serous cystadenocarcinoma(117;2.36e-22)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0141)|READ - Rectum adenocarcinoma(331;0.0649)		CTCAGGGCCCGACGCTCTATG	0.572													97	329	---	---	---	---	PASS
TINAGL1	64129	broad.mit.edu	37	1	32050834	32050834	+	Nonsense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:32050834C>T	uc001bta.2	+	8	1066	c.940C>T	c.(940-942)CGA>TGA	p.R314*	TINAGL1_uc001bsz.2_Nonsense_Mutation_p.R169*|TINAGL1_uc010ogj.1_Nonsense_Mutation_p.R283*|TINAGL1_uc010ogk.1_Nonsense_Mutation_p.R314*	NM_022164	NP_071447	Q9GZM7	TINAL_HUMAN	tubulointerstitial nephritis antigen-like 1	314					endosome transport|immune response|proteolysis	extracellular region	cysteine-type endopeptidase activity|extracellular matrix structural constituent|polysaccharide binding|scavenger receptor activity				0		Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		STAD - Stomach adenocarcinoma(196;0.0526)|READ - Rectum adenocarcinoma(331;0.145)		GATGCACAGCCGAGCCATGGG	0.617													60	78	---	---	---	---	PASS
ZC3H12A	80149	broad.mit.edu	37	1	37948776	37948776	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:37948776G>A	uc001cbb.3	+	6	1514	c.1364G>A	c.(1363-1365)GGA>GAA	p.G455E	ZC3H12A_uc001cbc.1_Missense_Mutation_p.G250E	NM_025079	NP_079355	Q5D1E8	ZC12A_HUMAN	zinc finger CCCH-type containing 12A	455					angiogenesis|apoptosis|cell differentiation	cytoplasm|nucleus|plasma membrane	endonuclease activity|metal ion binding			ovary(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GGGGTTCGAGGAGGAGGCCCT	0.647													26	43	---	---	---	---	PASS
RLF	6018	broad.mit.edu	37	1	40661370	40661370	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:40661370G>A	uc001cfc.3	+	4	572	c.541G>A	c.(541-543)GAA>AAA	p.E181K		NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	181					chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			TGTTACCAAGGAAGGGGTGTG	0.378													46	59	---	---	---	---	PASS
PPCS	79717	broad.mit.edu	37	1	42925442	42925442	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:42925442G>C	uc001chl.2	+	3	845	c.781G>C	c.(781-783)GAG>CAG	p.E261Q	PPCS_uc001chk.2_Missense_Mutation_p.E88Q	NM_024664	NP_078940	Q9HAB8	PPCS_HUMAN	phosphopantothenoylcysteine synthetase isoform	261					coenzyme biosynthetic process|pantothenate metabolic process	cytosol	phosphopantothenate--cysteine ligase activity				0	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				TAATATCCTTGAGTCACGACA	0.403													88	165	---	---	---	---	PASS
DMBX1	127343	broad.mit.edu	37	1	46972718	46972718	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:46972718C>A	uc001cpx.2	+	1	51	c.36C>A	c.(34-36)CAC>CAA	p.H12Q	DMBX1_uc001cpw.2_Missense_Mutation_p.H12Q	NM_147192	NP_671725	Q8NFW5	DMBX1_HUMAN	diencephalon/mesencephalon homeobox 1 isoform b	12	Interacts with OXT2 and is required for repressor activity (By similarity).				brain development|developmental growth|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					ACTCACTGCACGCCATGAACT	0.622													18	103	---	---	---	---	PASS
ZYG11B	79699	broad.mit.edu	37	1	53279333	53279333	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:53279333C>T	uc001cuj.2	+	11	2016	c.1821C>T	c.(1819-1821)GCC>GCT	p.A607A	ZYG11B_uc009vzg.2_RNA|ZYG11B_uc010onj.1_Silent_p.A528A|ZYG11B_uc009vzh.2_Silent_p.A29A	NM_024646	NP_078922	Q9C0D3	ZY11B_HUMAN	zyg-11 homolog B	607							protein binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						GAATTATTGCCCATTTAATAT	0.408													27	165	---	---	---	---	PASS
TMEM48	55706	broad.mit.edu	37	1	54262595	54262595	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:54262595G>A	uc001cvs.2	-	12	1686	c.1445C>T	c.(1444-1446)CCA>CTA	p.P482L	TMEM48_uc010onu.1_Missense_Mutation_p.P442L|TMEM48_uc001cvt.2_Missense_Mutation_p.P359L|TMEM48_uc009vzk.2_RNA|TMEM48_uc010onv.1_Missense_Mutation_p.P147L	NM_018087	NP_060557	Q9BTX1	NDC1_HUMAN	transmembrane protein 48	482	Cytoplasmic (Potential).				mRNA transport|nuclear pore complex assembly|nuclear pore distribution|protein transport|transmembrane transport	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore			ovary(1)|pancreas(1)	2						CCACAATCTTGGCCCCCTTCT	0.408													83	96	---	---	---	---	PASS
LEPR	3953	broad.mit.edu	37	1	66064402	66064402	+	Silent	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:66064402G>T	uc001dci.2	+	8	1111	c.909G>T	c.(907-909)TCG>TCT	p.S303S	LEPR_uc001dcg.2_Silent_p.S303S|LEPR_uc001dch.2_Silent_p.S303S|LEPR_uc009waq.2_Intron|LEPR_uc001dcj.2_Silent_p.S303S|LEPR_uc001dck.2_Silent_p.S303S	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	303	Extracellular (Potential).|Fibronectin type-III 1.				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity	p.S303L(1)		skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		CTGGGTCTTCGTATGAGGTTC	0.418													57	64	---	---	---	---	PASS
LEPR	3953	broad.mit.edu	37	1	66102258	66102258	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:66102258T>A	uc001dci.2	+	20	3260	c.3058T>A	c.(3058-3060)TTG>ATG	p.L1020M	LEPR_uc009waq.2_3'UTR	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	1020	Cytoplasmic (Potential).				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		AAATTCTCCGTTGAAGGATTC	0.413													46	171	---	---	---	---	PASS
IL23R	149233	broad.mit.edu	37	1	67724363	67724363	+	Missense_Mutation	SNP	A	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:67724363A>C	uc001ddo.2	+	11	1527	c.1442A>C	c.(1441-1443)AAC>ACC	p.N481T	IL23R_uc009waz.2_Missense_Mutation_p.N278T|IL23R_uc010opi.1_RNA|IL23R_uc010opj.1_Missense_Mutation_p.N79T|IL23R_uc010opk.1_3'UTR|IL23R_uc010opl.1_Missense_Mutation_p.N63T|IL23R_uc010opm.1_RNA|IL23R_uc001ddq.2_Missense_Mutation_p.N227T|IL23R_uc010opn.1_Missense_Mutation_p.N326T|IL23R_uc001ddr.2_RNA|IL23R_uc010ops.1_Missense_Mutation_p.N278T|IL23R_uc010opt.1_Missense_Mutation_p.N122T|IL23R_uc010opu.1_Missense_Mutation_p.N177T|IL23R_uc010opv.1_Missense_Mutation_p.N239T|IL23R_uc010opw.1_Missense_Mutation_p.N116T|IL23R_uc010opx.1_Missense_Mutation_p.N122T|IL23R_uc010opy.1_Missense_Mutation_p.N248T|IL23R_uc010opz.1_Missense_Mutation_p.N122T|IL23R_uc010oqa.1_Missense_Mutation_p.N122T|IL23R_uc010oqb.1_Missense_Mutation_p.N310T|IL23R_uc010oqc.1_Missense_Mutation_p.N197T|IL23R_uc010oqd.1_Missense_Mutation_p.N116T|IL23R_uc010oqe.1_Missense_Mutation_p.N79T|IL23R_uc010oqf.1_Missense_Mutation_p.N79T|IL23R_uc010oqg.1_Missense_Mutation_p.N79T|IL23R_uc010oqh.1_Missense_Mutation_p.N122T|IL23R_uc001dds.2_Missense_Mutation_p.N226T|IL23R_uc001ddt.2_Missense_Mutation_p.N79T	NM_144701	NP_653302	Q5VWK5	IL23R_HUMAN	interleukin 23 receptor precursor	481	Cytoplasmic (Potential).			N -> D (in Ref. 2; AAY18347).	inflammatory response|negative regulation of interleukin-10 production|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of interleukin-12 production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|response to interferon-gamma|response to lipopolysaccharide	interleukin-23 receptor complex	receptor activity				0						CCTGATCTCAACACTGGATAT	0.393													61	81	---	---	---	---	PASS
C1orf173	127254	broad.mit.edu	37	1	75036970	75036970	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:75036970C>T	uc001dgg.2	-	14	4643	c.4424G>A	c.(4423-4425)CGA>CAA	p.R1475Q		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1475	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TAATCCTAATCGGAATTTTTC	0.562													90	162	---	---	---	---	PASS
C1orf173	127254	broad.mit.edu	37	1	75102088	75102088	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:75102088A>G	uc001dgg.2	-	6	698	c.479T>C	c.(478-480)ATG>ACG	p.M160T	C1orf173_uc001dgi.3_5'Flank	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	160										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TGGAGGCTGCATATTTCCTGG	0.403													62	289	---	---	---	---	PASS
CCDC18	343099	broad.mit.edu	37	1	93712473	93712473	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:93712473G>A	uc001dpq.2	+	23	3682	c.3514G>A	c.(3514-3516)GAG>AAG	p.E1172K	CCDC18_uc009wdl.1_Missense_Mutation_p.E689K	NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41	1053	Potential.									ovary(2)|breast(2)|pancreas(1)	5		all_lung(203;0.00196)|Lung NSC(277;0.00903)|Melanoma(281;0.099)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00166)|GBM - Glioblastoma multiforme(16;0.00551)|Epithelial(280;0.0967)		AGGTACTCTGGAGAAATCAGA	0.239													33	58	---	---	---	---	PASS
ABCA4	24	broad.mit.edu	37	1	94466451	94466451	+	Silent	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:94466451C>A	uc001dqh.2	-	47	6524	c.6420G>T	c.(6418-6420)CTG>CTT	p.L2140L		NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	2140	ABC transporter 2.|Cytoplasmic.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		CCATGATGGCCAGCCGGGTAC	0.582													26	112	---	---	---	---	PASS
COL11A1	1301	broad.mit.edu	37	1	103356059	103356059	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:103356059C>A	uc001dul.2	-	58	4622	c.4304G>T	c.(4303-4305)GGA>GTA	p.G1435V	COL11A1_uc001duk.2_Missense_Mutation_p.G631V|COL11A1_uc001dum.2_Missense_Mutation_p.G1447V|COL11A1_uc001dun.2_Missense_Mutation_p.G1396V|COL11A1_uc009weh.2_Missense_Mutation_p.G1319V	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1435	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		GCCAGGAGGTCCCTAAATAAT	0.333													11	13	---	---	---	---	PASS
AMY2B	280	broad.mit.edu	37	1	104122003	104122003	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:104122003A>G	uc001duq.2	+	12	2033	c.1417A>G	c.(1417-1419)ATT>GTT	p.I473V	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.I473V|AMY2B_uc001dus.1_Intron	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	473					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		TGGAGATAAAATTAATGGCAA	0.343													119	495	---	---	---	---	PASS
SPAG17	200162	broad.mit.edu	37	1	118550726	118550726	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:118550726A>T	uc001ehk.2	-	31	4596	c.4528T>A	c.(4528-4530)TGC>AGC	p.C1510S		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1510						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		GTGGCACAGCAGCTACTGTCC	0.512													16	97	---	---	---	---	PASS
RBM8A	9939	broad.mit.edu	37	1	145508257	145508257	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:145508257G>C	uc001ent.1	+	3	207	c.178G>C	c.(178-180)GAT>CAT	p.D60H	NBPF10_uc001emp.3_Intron|RBM8A_uc001enu.1_Missense_Mutation_p.D59H|RBM8A_uc001enw.1_5'Flank	NM_005105	NP_005096	Q9Y5S9	RBM8A_HUMAN	RNA binding motif protein 8A	60					mRNA 3'-end processing|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translation|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|exon-exon junction complex|nuclear speck	mRNA binding|nucleotide binding|protein binding				0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CGTGGAGCAGGATGGCGATGA	0.493													76	52	---	---	---	---	PASS
FLG2	388698	broad.mit.edu	37	1	152327971	152327971	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:152327971C>T	uc001ezw.3	-	3	2364	c.2291G>A	c.(2290-2292)AGA>AAA	p.R764K	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	764	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGACCTGATCTAGACTCATG	0.507													423	349	---	---	---	---	PASS
OR6Y1	391112	broad.mit.edu	37	1	158517648	158517648	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:158517648C>T	uc010pil.1	-	1	248	c.248G>A	c.(247-249)AGC>AAC	p.S83N		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	83	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					CATCTTGGGGCTGATGACTGT	0.458													118	68	---	---	---	---	PASS
IGSF8	93185	broad.mit.edu	37	1	160064721	160064721	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:160064721C>A	uc001fva.2	-	2	425	c.380G>T	c.(379-381)TGC>TTC	p.C127F	IGSF8_uc001fuz.2_Missense_Mutation_p.C127F|IGSF8_uc009wtf.2_Missense_Mutation_p.C127F	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	127	Ig-like C2-type 1.|Extracellular (Potential).				cell proliferation|cellular component movement|nervous system development|single fertilization|skeletal muscle tissue development	integral to membrane	protein binding				0	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			GGGGGTGTGGCACTCATAAAT	0.652													56	37	---	---	---	---	PASS
ATP1A2	477	broad.mit.edu	37	1	160093179	160093179	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:160093179C>T	uc001fvc.2	+	4	486	c.354C>T	c.(352-354)GCC>GCT	p.A118A	ATP1A2_uc001fvb.2_Silent_p.A118A|ATP1A2_uc010piz.1_5'Flank	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	118	Extracellular (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			TCCAGGCTGCCATGGAGGATG	0.612													196	96	---	---	---	---	PASS
SLC19A2	10560	broad.mit.edu	37	1	169437891	169437891	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:169437891G>T	uc001gge.3	-	4	1418	c.1214C>A	c.(1213-1215)ACG>AAG	p.T405K	SLC19A2_uc001ggf.3_Missense_Mutation_p.T204K	NM_006996	NP_008927	O60779	S19A2_HUMAN	solute carrier family 19, member 2	405	Helical; (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|folic acid transporter activity|reduced folate carrier activity|thiamine uptake transmembrane transporter activity				0	all_hematologic(923;0.208)					CGTTGCTATCGTGATGAGTAA	0.363													81	45	---	---	---	---	PASS
EDEM3	80267	broad.mit.edu	37	1	184690515	184690515	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:184690515C>T	uc010pok.1	-	9	1120	c.859G>A	c.(859-861)GGA>AGA	p.G287R	EDEM3_uc010pol.1_RNA|EDEM3_uc010pom.1_Missense_Mutation_p.G287R|EDEM3_uc001gqy.2_Missense_Mutation_p.G210R	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like	287					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						GCTCCAACTCCACTATCTATG	0.279													48	47	---	---	---	---	PASS
ASPM	259266	broad.mit.edu	37	1	197070287	197070287	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:197070287G>C	uc001gtu.2	-	18	8351	c.8094C>G	c.(8092-8094)TTC>TTG	p.F2698L	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Missense_Mutation_p.F546L	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	2698	IQ 30.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						GCATTCGATAGAATGACTGAA	0.348													81	38	---	---	---	---	PASS
CDK18	5129	broad.mit.edu	37	1	205496951	205496951	+	Silent	SNP	C	T	T	rs139419406	byFrequency	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:205496951C>T	uc001hcr.2	+	9	1068	c.849C>T	c.(847-849)CTC>CTT	p.L283L	CDK18_uc001hcp.2_Silent_p.L253L|CDK18_uc001hcq.2_Silent_p.L253L|CDK18_uc010prj.1_Silent_p.L164L|CDK18_uc001hcs.2_Silent_p.L164L|CDK18_uc009xbm.1_Silent_p.L178L|CDK18_uc001hct.2_5'Flank	NM_212503	NP_997668	Q07002	CDK18_HUMAN	PCTAIRE protein kinase 3 isoform a	251	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|protein binding|signal transducer activity			stomach(2)	2						TCCGGGGCCTCGCCTACTGTC	0.622													16	153	---	---	---	---	PASS
CTSE	1510	broad.mit.edu	37	1	206331026	206331026	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:206331026C>T	uc001hdu.2	+	9	1150	c.1032C>T	c.(1030-1032)TTC>TTT	p.F344F	CTSE_uc001hdv.2_Missense_Mutation_p.S297L|CTSE_uc010prs.1_Missense_Mutation_p.S222L	NM_001910	NP_001901	P14091	CATE_HUMAN	cathepsin E isoform a preproprotein	349					antigen processing and presentation of exogenous peptide antigen via MHC class II|digestion|proteolysis	endosome	aspartic-type endopeptidase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(75;0.0754)			CACAGGACTTCGTGGATGGAA	0.557													307	160	---	---	---	---	PASS
USH2A	7399	broad.mit.edu	37	1	216498934	216498934	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:216498934G>C	uc001hku.1	-	6	1243	c.856C>G	c.(856-858)CTG>GTG	p.L286V	USH2A_uc001hkv.2_Missense_Mutation_p.L286V	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	286	Laminin N-terminal.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AAGACTTCCAGAATCTCTCTG	0.498										HNSCC(13;0.011)			37	33	---	---	---	---	PASS
HHIPL2	79802	broad.mit.edu	37	1	222717104	222717104	+	Missense_Mutation	SNP	C	T	T	rs147794680		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:222717104C>T	uc001hnh.1	-	2	807	c.749G>A	c.(748-750)CGC>CAC	p.R250H		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	250					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		TTGCTCCAGGCGACTCCCATC	0.582													16	116	---	---	---	---	PASS
OBSCN	84033	broad.mit.edu	37	1	228468283	228468283	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:228468283C>T	uc009xez.1	+	30	8027	c.7983C>T	c.(7981-7983)CGC>CGT	p.R2661R	OBSCN_uc001hsn.2_Silent_p.R2661R|OBSCN_uc001hsp.1_Silent_p.R360R|OBSCN_uc001hsq.1_5'UTR	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	2661	Ig-like 26.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CAGAGGAGCGCGGCACCCTGG	0.642													15	69	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237787170	237787170	+	Nonsense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:237787170G>T	uc001hyl.1	+	39	6142	c.6022G>T	c.(6022-6024)GGA>TGA	p.G2008*		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2008	Cytoplasmic (By similarity).|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)			GACACATTGTGGTAAGGTCTT	0.308													74	41	---	---	---	---	PASS
OR2M4	26245	broad.mit.edu	37	1	248403015	248403015	+	Missense_Mutation	SNP	C	T	T	rs41303133	byFrequency	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:248403015C>T	uc010pzh.1	+	1	785	c.785C>T	c.(784-786)CCA>CTA	p.P262L		NM_017504	NP_059974	Q96R27	OR2M4_HUMAN	olfactory receptor, family 2, subfamily M,	262	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(2)	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)			TACATGAGACCAGCTTCTAAA	0.522													87	48	---	---	---	---	PASS
OR2G6	391211	broad.mit.edu	37	1	248685215	248685215	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr1:248685215A>G	uc001ien.1	+	1	268	c.268A>G	c.(268-270)AAA>GAA	p.K90E		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	90	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TAAGAAAGACAAAACCATGAG	0.517													15	171	---	---	---	---	PASS
TPO	7173	broad.mit.edu	37	2	1488494	1488494	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:1488494G>A	uc002qww.2	+	9	1556	c.1465G>A	c.(1465-1467)GCC>ACC	p.A489T	TPO_uc010ewj.2_RNA|TPO_uc002qwu.2_Missense_Mutation_p.A489T|TPO_uc002qwr.2_Missense_Mutation_p.A489T|TPO_uc002qwx.2_Missense_Mutation_p.A489T|TPO_uc010yio.1_Missense_Mutation_p.A316T|TPO_uc010yip.1_Missense_Mutation_p.A489T|TPO_uc002qwy.1_5'UTR|TPO_uc002qwz.2_RNA	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	489	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	CTCCACAGCCGCCTTCCGCTT	0.662													11	75	---	---	---	---	PASS
GREB1	9687	broad.mit.edu	37	2	11758655	11758655	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:11758655G>A	uc002rbk.1	+	22	3954	c.3654G>A	c.(3652-3654)TCG>TCA	p.S1218S	GREB1_uc002rbp.1_Silent_p.S216S	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1218	Ser-rich.					integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		TCACCTCGTCGTGCTCCCAGC	0.701													6	18	---	---	---	---	PASS
WDR35	57539	broad.mit.edu	37	2	20132098	20132098	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:20132098T>C	uc002rdi.2	-	24	2910	c.2802A>G	c.(2800-2802)ATA>ATG	p.I934M	WDR35_uc002rdj.2_Missense_Mutation_p.I923M|WDR35_uc010ext.2_Intron|WDR35_uc002rdh.2_Intron	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	934										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GATAGAGTTCTATGGCATCAA	0.328													22	120	---	---	---	---	PASS
CAD	790	broad.mit.edu	37	2	27447965	27447965	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:27447965G>T	uc002rji.2	+	11	1636	c.1474G>T	c.(1474-1476)GGG>TGG	p.G492W	CAD_uc010eyw.2_Missense_Mutation_p.G492W	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	492	CPSase (Carbamoyl-phosphate synthase).|CPSase A.				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	GACCAAGGCCGGGGTGCTGGC	0.592													3	82	---	---	---	---	PASS
GCKR	2646	broad.mit.edu	37	2	27741665	27741665	+	Missense_Mutation	SNP	G	T	T	rs141361209	by1000genomes	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:27741665G>T	uc002rky.2	+	17	1499	c.1433G>T	c.(1432-1434)CGT>CTT	p.R478L	GCKR_uc010ezd.2_Missense_Mutation_p.R476L|GCKR_uc010ylu.1_Missense_Mutation_p.R288L	NM_001486	NP_001477	Q14397	GCKR_HUMAN	glucokinase regulatory protein	478	SIS 2.				carbohydrate metabolic process|glucose transport|negative regulation of glucokinase activity|positive regulation of gene expression|protein import into nucleus, translocation|regulation of glucose transport|response to fructose stimulus|transmembrane transport|triglyceride homeostasis|urate metabolic process	cytosol|nucleoplasm	fructose-6-phosphate binding|protein binding			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)					AAGTTCCAGCGTGAGCTAAGC	0.473													41	184	---	---	---	---	PASS
BIRC6	57448	broad.mit.edu	37	2	32820187	32820187	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:32820187G>T	uc010ezu.2	+	68	13722	c.13588G>T	c.(13588-13590)GCT>TCT	p.A4530S		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4530					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)					AAAATATGTGGCTGTTATGAA	0.303													11	21	---	---	---	---	PASS
THADA	63892	broad.mit.edu	37	2	43768330	43768330	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:43768330C>G	uc002rsw.3	-	21	3584	c.3232G>C	c.(3232-3234)GAA>CAA	p.E1078Q	THADA_uc010far.2_Missense_Mutation_p.E347Q|THADA_uc002rsx.3_Missense_Mutation_p.E1078Q|THADA_uc002rsy.3_RNA|THADA_uc010fas.1_RNA|THADA_uc002rsz.2_Missense_Mutation_p.E787Q|THADA_uc010fat.1_Missense_Mutation_p.E225Q|THADA_uc002rta.2_Missense_Mutation_p.E788Q	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	1078							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				TCAGAAGATTCTGGCACAGGC	0.418													43	132	---	---	---	---	PASS
C1D	10438	broad.mit.edu	37	2	68270067	68270067	+	Nonsense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:68270067G>T	uc002sea.3	-	5	462	c.380C>A	c.(379-381)TCG>TAG	p.S127*	C1D_uc002seb.2_Nonsense_Mutation_p.S127*|C1D_uc002sec.2_Nonsense_Mutation_p.S127*|C1D_uc010fdc.2_Nonsense_Mutation_p.S127*	NM_173177	NP_775269	Q13901	C1D_HUMAN	nuclear DNA-binding protein	127	Interaction with NCOR1 and NCOR2 (By similarity).				apoptosis|maturation of 5.8S rRNA|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear exosome (RNase complex)|nucleolus	DNA binding|RNA binding				0						TGCATTTTTCGATTTTGGTTC	0.328													12	40	---	---	---	---	PASS
C2orf78	388960	broad.mit.edu	37	2	74043430	74043430	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:74043430C>T	uc002sjr.1	+	3	2201	c.2080C>T	c.(2080-2082)CTA>TTA	p.L694L		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	694										ovary(2)	2						GGCCCAGAAACTAGATGGTAG	0.502													48	68	---	---	---	---	PASS
AUP1	550	broad.mit.edu	37	2	74756577	74756577	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:74756577C>T	uc010yry.1	-	2	318	c.100G>A	c.(100-102)GTC>ATC	p.V34I	AUP1_uc002sme.2_5'Flank|AUP1_uc002smf.2_Missense_Mutation_p.V34I|AUP1_uc002smg.2_RNA|AUP1_uc002smh.2_5'UTR|AUP1_uc010yrx.1_Silent_p.Q64Q|HTRA2_uc002smi.1_5'UTR|HTRA2_uc002smj.1_5'UTR|HTRA2_uc002smk.1_5'UTR|HTRA2_uc002sml.1_5'UTR|HTRA2_uc002smm.1_5'Flank|HTRA2_uc002smn.1_5'Flank|HTRA2_uc010ffl.2_5'Flank			Q9Y679	AUP1_HUMAN	SubName: Full=cDNA FLJ58836, highly similar to Ancient ubiquitous protein 1;	34	Helical; Signal-anchor for type III membrane protein; (Potential).					endoplasmic reticulum membrane|integral to membrane|nucleus	protein binding				0						CAGAACCCGACTGGCGCGTAG	0.677													3	4	---	---	---	---	PASS
C2orf65	130951	broad.mit.edu	37	2	74789483	74789483	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:74789483G>C	uc002smy.2	-	8	1259	c.1142C>G	c.(1141-1143)GCC>GGC	p.A381G	C2orf65_uc010ysa.1_Missense_Mutation_p.A381G|C2orf65_uc010ffp.2_Intron|C2orf65_uc002smx.2_Missense_Mutation_p.A137G	NM_138804	NP_620159	Q8TC57	CB065_HUMAN	hypothetical protein LOC130951	381					chromatin assembly|female gamete generation|RNA processing|spermatogenesis	integral to membrane				ovary(1)|pancreas(1)	2						GAAGGTGCTGGCAGGAATTCT	0.557													49	135	---	---	---	---	PASS
REG1B	5968	broad.mit.edu	37	2	79313628	79313628	+	Silent	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:79313628G>T	uc002sny.2	-	4	298	c.186C>A	c.(184-186)CTC>CTA	p.L62L	REG1B_uc010ffv.1_Silent_p.L62L|REG1B_uc010ffw.2_3'UTR	NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	62	C-type lectin.				cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						TCTGGCAATAGAGCTGTTGGA	0.498													24	106	---	---	---	---	PASS
LRRTM1	347730	broad.mit.edu	37	2	80529460	80529460	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:80529460G>A	uc002sok.1	-	2	1755	c.1485C>T	c.(1483-1485)AAC>AAT	p.N495N	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	495	Cytoplasmic (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						CCTCAATGTGGTTCGGTTTGT	0.542										HNSCC(69;0.2)			12	38	---	---	---	---	PASS
LRRTM1	347730	broad.mit.edu	37	2	80529904	80529904	+	Nonsense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:80529904G>T	uc002sok.1	-	2	1311	c.1041C>A	c.(1039-1041)TAC>TAA	p.Y347*	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	347	LRRCT.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						CGCCCTGTGCGTACTCCGGGC	0.672										HNSCC(69;0.2)			8	15	---	---	---	---	PASS
LRRTM1	347730	broad.mit.edu	37	2	80530704	80530704	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:80530704G>A	uc002sok.1	-	2	511	c.241C>T	c.(241-243)CGC>TGC	p.R81C	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	81	Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						TGGCCGGCGCGCAGCTCCGAG	0.642										HNSCC(69;0.2)			17	85	---	---	---	---	PASS
IL1RL1	9173	broad.mit.edu	37	2	102955449	102955449	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:102955449C>G	uc002tbu.1	+	3	485	c.214C>G	c.(214-216)CTG>GTG	p.L72V	IL1RL1_uc010ywa.1_5'UTR|IL18R1_uc002tbw.3_Intron|IL1RL1_uc002tbv.2_Missense_Mutation_p.L72V	NM_016232	NP_057316	Q01638	ILRL1_HUMAN	interleukin 1 receptor-like 1 isoform 1	72	Extracellular (Potential).|Ig-like C2-type 1.				innate immune response	integral to membrane	interleukin-1 receptor activity|receptor signaling protein activity			skin(2)|ovary(1)|central_nervous_system(1)	4						AGGCCAACTTCTGAAGTTTCT	0.433													204	206	---	---	---	---	PASS
KYNU	8942	broad.mit.edu	37	2	143642976	143642976	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:143642976C>A	uc002tvl.2	+	2	170	c.40C>A	c.(40-42)CAG>AAG	p.Q14K	KYNU_uc002tvk.2_Missense_Mutation_p.Q14K|KYNU_uc010fnm.2_Missense_Mutation_p.Q14K	NM_003937	NP_003928	Q16719	KYNU_HUMAN	kynureninase (L-kynurenine hydrolase) isoform a	14					anthranilate metabolic process|NAD biosynthetic process|quinolinate biosynthetic process|response to interferon-gamma|response to vitamin B6	cytosol|mitochondrion|soluble fraction	kynureninase activity|protein homodimerization activity			skin(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.072)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)	TGACACAGTGCAGCGCATTGC	0.458													12	55	---	---	---	---	PASS
GALNT13	114805	broad.mit.edu	37	2	155115534	155115534	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:155115534G>T	uc002tyr.3	+	8	1425	c.858G>T	c.(856-858)AGG>AGT	p.R286S	GALNT13_uc002tyt.3_Missense_Mutation_p.R286S|GALNT13_uc010foc.1_Missense_Mutation_p.R105S|GALNT13_uc010fod.2_Missense_Mutation_p.R39S	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	286	Catalytic subdomain B.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						TTTCAACTAGGACCCCTACTA	0.348													23	39	---	---	---	---	PASS
KCNJ3	3760	broad.mit.edu	37	2	155566273	155566273	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:155566273C>A	uc002tyv.1	+	2	1056	c.861C>A	c.(859-861)AGC>AGA	p.S287R	KCNJ3_uc010zce.1_Intron	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	287	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	CCCAGCGAAGCATGCAAACTG	0.428													18	112	---	---	---	---	PASS
CYTIP	9595	broad.mit.edu	37	2	158272468	158272468	+	Missense_Mutation	SNP	C	A	A	rs34234589	byFrequency	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:158272468C>A	uc002tzj.1	-	8	873	c.801G>T	c.(799-801)GAG>GAT	p.E267D	CYTIP_uc010zcl.1_Missense_Mutation_p.E161D	NM_004288	NP_004279	O60759	CYTIP_HUMAN	cytohesin 1 interacting protein	267	Ser-rich.				regulation of cell adhesion	cell cortex|early endosome	protein binding			ovary(1)|kidney(1)|skin(1)	3						TGCTGGAGTCCTCAGACACAC	0.527													25	132	---	---	---	---	PASS
KCNH7	90134	broad.mit.edu	37	2	163279922	163279922	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:163279922G>C	uc002uch.1	-	9	2290	c.2078C>G	c.(2077-2079)CCC>CGC	p.P693R	KCNH7_uc002uci.2_Missense_Mutation_p.P686R	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	693	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	CAGAGGGTTGGGGATTTGGTG	0.438													37	258	---	---	---	---	PASS
XIRP2	129446	broad.mit.edu	37	2	168105946	168105946	+	Missense_Mutation	SNP	T	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:168105946T>G	uc002udx.2	+	8	8062	c.8044T>G	c.(8044-8046)TGT>GGT	p.C2682G	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.C2507G|XIRP2_uc010fpq.2_Missense_Mutation_p.C2460G|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Missense_Mutation_p.C28G	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2507					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TCACCAAGAATGTAGTACCCA	0.363													24	162	---	---	---	---	PASS
B3GALT1	8708	broad.mit.edu	37	2	168726198	168726198	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:168726198C>T	uc002udz.1	+	2	1000	c.649C>T	c.(649-651)CGC>TGC	p.R217C		NM_020981	NP_066191	Q9Y5Z6	B3GT1_HUMAN	UDP-Gal:betaGlcNAc beta	217	Lumenal (Potential).				lipid glycosylation|protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4						TCGGGATGTCCGCAGTAAGTG	0.453													43	74	---	---	---	---	PASS
LRP2	4036	broad.mit.edu	37	2	170019060	170019060	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:170019060T>C	uc002ues.2	-	63	12022	c.11809A>G	c.(11809-11811)AAT>GAT	p.N3937D		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3937	LDL-receptor class A 36.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CAATGCCCATTGCCACACTTA	0.378													89	87	---	---	---	---	PASS
LRP2	4036	broad.mit.edu	37	2	170063381	170063381	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:170063381G>A	uc002ues.2	-	39	7062	c.6849C>T	c.(6847-6849)ATC>ATT	p.I2283I		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2283	LDL-receptor class B 23.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CAAAAACAGTGATGCCATAAG	0.398													100	93	---	---	---	---	PASS
KIAA1715	80856	broad.mit.edu	37	2	176794922	176794922	+	Missense_Mutation	SNP	A	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:176794922A>C	uc002ukc.1	-	13	1253	c.1060T>G	c.(1060-1062)TTA>GTA	p.L354V	KIAA1715_uc010zer.1_Missense_Mutation_p.L385V|KIAA1715_uc010fqw.1_Missense_Mutation_p.L420V|KIAA1715_uc010zes.1_Missense_Mutation_p.L356V|KIAA1715_uc002ukd.1_Missense_Mutation_p.L231V|KIAA1715_uc010zet.1_RNA	NM_030650	NP_085153	Q9C0E8	LNP_HUMAN	Lunapark	354	Cytoplasmic (Potential).					integral to membrane	protein binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0793)			TCGTGTTCTAAAGATTCTGAA	0.303													30	136	---	---	---	---	PASS
HOXD8	3234	broad.mit.edu	37	2	176996059	176996059	+	Nonsense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:176996059C>T	uc002uko.2	+	2	1210	c.592C>T	c.(592-594)CGA>TGA	p.R198*	uc002ukl.1_5'Flank|uc002ukm.1_5'Flank|HOXD8_uc002ukn.2_Nonsense_Mutation_p.R14*|HOXD8_uc002ukp.2_Nonsense_Mutation_p.R197*	NM_019558	NP_062458	P13378	HXD8_HUMAN	homeobox D8	198	Homeobox.				anterior/posterior axis specification, embryo	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.195)	Colorectal(32;0.0224)|READ - Rectum adenocarcinoma(9;0.0556)		TCCTGGTAGACGAAGAGGAAG	0.408													36	161	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179599491	179599491	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:179599491A>G	uc010zfg.1	-	48	11652	c.11428T>C	c.(11428-11430)TGT>CGT	p.C3810R	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.C471R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4737							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)			ACTGCTTCACATGAGTAACTC	0.378													100	132	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179634798	179634798	+	Missense_Mutation	SNP	A	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:179634798A>C	uc010zfg.1	-	36	8854	c.8630T>G	c.(8629-8631)CTG>CGG	p.L2877R	TTN_uc010zfh.1_Missense_Mutation_p.L2831R|TTN_uc010zfi.1_Missense_Mutation_p.L2831R|TTN_uc010zfj.1_Missense_Mutation_p.L2831R|TTN_uc002unb.2_Missense_Mutation_p.L2877R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2877							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)			CTCCACAAACAGTTTTGCTTT	0.443													111	150	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179659273	179659273	+	Silent	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:179659273T>C	uc010zfg.1	-	8	1475	c.1251A>G	c.(1249-1251)AAA>AAG	p.K417K	TTN_uc010zfh.1_Silent_p.K417K|TTN_uc010zfi.1_Silent_p.K417K|TTN_uc010zfj.1_Silent_p.K417K|TTN_uc002unb.2_Silent_p.K417K|TTN_uc010frg.1_Silent_p.K91K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	417							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)			CAGCATCTTGTTTCACCTAGA	0.428													30	157	---	---	---	---	PASS
ZNF804A	91752	broad.mit.edu	37	2	185801309	185801309	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:185801309C>A	uc002uph.2	+	4	1780	c.1186C>A	c.(1186-1188)CCC>ACC	p.P396T		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	396						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TAAAAATGGTCCCGAGACATT	0.383													65	74	---	---	---	---	PASS
ZSWIM2	151112	broad.mit.edu	37	2	187693061	187693061	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:187693061C>T	uc002upu.1	-	9	1592	c.1552G>A	c.(1552-1554)GTT>ATT	p.V518I		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	518					apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			TTCTTATGAACAATAGGAGGA	0.383													16	59	---	---	---	---	PASS
HECW2	57520	broad.mit.edu	37	2	197183429	197183429	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:197183429C>A	uc002utm.1	-	9	2368	c.2185G>T	c.(2185-2187)GAC>TAC	p.D729Y	HECW2_uc002utl.1_Missense_Mutation_p.D373Y	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	729					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						TCCTCCTGGTCAGGTACAGTG	0.647													39	39	---	---	---	---	PASS
FZD7	8324	broad.mit.edu	37	2	202900096	202900096	+	Silent	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:202900096G>T	uc002uyw.1	+	1	787	c.726G>T	c.(724-726)CTG>CTT	p.L242L		NM_003507	NP_003498	O75084	FZD7_HUMAN	frizzled 7 precursor	242	Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|mesenchymal to epithelial transition|negative regulation of cell-substrate adhesion|negative regulation of ectodermal cell fate specification|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent|regulation of catenin import into nucleus|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			skin(2)|ovary(1)|breast(1)	4						CCAACGGCCTGATGTACTTTA	0.667											OREG0015146	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	92	---	---	---	---	PASS
EEF1B2	1933	broad.mit.edu	37	2	207027298	207027298	+	Silent	SNP	C	T	T	rs2359156		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:207027298C>T	uc002vbf.1	+	6	641	c.483C>T	c.(481-483)TGC>TGT	p.C161C	EEF1B2_uc002vbg.1_Silent_p.C161C|EEF1B2_uc002vbh.1_Silent_p.C161C	NM_001037663	NP_001032752	P24534	EF1B_HUMAN	eukaryotic translation elongation factor 1 beta	161						cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0						TAGAGGAGTGCGTCAGAAGCA	0.408													18	272	---	---	---	---	PASS
ZDBF2	57683	broad.mit.edu	37	2	207169471	207169471	+	Silent	SNP	T	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:207169471T>A	uc002vbp.2	+	5	469	c.219T>A	c.(217-219)ACT>ACA	p.T73T		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	73							nucleic acid binding|zinc ion binding			ovary(3)	3						ATGTGAATACTGGGTCATCGT	0.388													70	53	---	---	---	---	PASS
PIKFYVE	200576	broad.mit.edu	37	2	209191056	209191056	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:209191056A>G	uc002vcz.2	+	20	3679	c.3521A>G	c.(3520-3522)AAG>AGG	p.K1174R	PIKFYVE_uc010fun.1_Missense_Mutation_p.K855R|PIKFYVE_uc002vcy.1_Missense_Mutation_p.K1118R	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	1174					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						GCTCATTCAAAGGATGCATCA	0.473													32	41	---	---	---	---	PASS
CPS1	1373	broad.mit.edu	37	2	211342491	211342491	+	Splice_Site	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:211342491G>A	uc010fur.2	+	1	82	c.3_splice	c.e1+1	p.M1_splice	LANCL1_uc010zjh.1_5'Flank|LANCL1_uc002ved.2_5'Flank|LANCL1_uc010fuq.2_5'Flank	NM_001122633	NP_001116105	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform a						carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		GAGGCCCATGGTGAGTCTTAA	0.378													12	44	---	---	---	---	PASS
SPAG16	79582	broad.mit.edu	37	2	214878777	214878777	+	Silent	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:214878777C>A	uc002veq.2	+	13	1595	c.1503C>A	c.(1501-1503)ACC>ACA	p.T501T	SPAG16_uc010fuz.1_Silent_p.T352T|SPAG16_uc002ver.2_Silent_p.T447T|SPAG16_uc010zjk.1_Silent_p.T407T	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	501	WD 4.				cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		CAGACAAGACCCTGTCTATAT	0.383													35	160	---	---	---	---	PASS
ABCA12	26154	broad.mit.edu	37	2	215813366	215813366	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:215813366T>C	uc002vew.2	-	47	7278	c.7058A>G	c.(7057-7059)TAT>TGT	p.Y2353C	ABCA12_uc002vev.2_Missense_Mutation_p.Y2035C|ABCA12_uc010zjn.1_Missense_Mutation_p.Y1280C	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	2353	ABC transporter 2.				cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		GGCATAGAAATACAAATGTTC	0.378													3	85	---	---	---	---	PASS
CHRND	1144	broad.mit.edu	37	2	233390967	233390967	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:233390967G>A	uc002vsw.2	+	1	46	c.42G>A	c.(40-42)CTG>CTA	p.L14L	CHRND_uc010zmg.1_Silent_p.L14L|CHRND_uc010fyc.2_5'UTR|CHRND_uc010zmh.1_5'UTR	NM_000751	NP_000742	Q07001	ACHD_HUMAN	nicotinic acetylcholine receptor delta	14					muscle contraction|musculoskeletal movement|neuromuscular process|skeletal muscle tissue growth|synaptic transmission	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)|breast(1)|skin(1)	3		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.89e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00078)|Lung(119;0.00579)|LUSC - Lung squamous cell carcinoma(224;0.00754)		TGGCTGCCCTGGCGGTGTGTG	0.652													17	31	---	---	---	---	PASS
LRRFIP1	9208	broad.mit.edu	37	2	238661985	238661985	+	Nonsense_Mutation	SNP	A	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:238661985A>T	uc002vxe.2	+	8	809	c.517A>T	c.(517-519)AAG>TAG	p.K173*	LRRFIP1_uc002vxc.2_Nonsense_Mutation_p.K301*|LRRFIP1_uc010znm.1_Nonsense_Mutation_p.K117*|LRRFIP1_uc002vxd.2_Nonsense_Mutation_p.K149*|LRRFIP1_uc002vxf.2_Nonsense_Mutation_p.K117*	NM_001137552	NP_001131024	Q32MZ4	LRRF1_HUMAN	leucine rich repeat (in FLII) interacting	173	Potential.				negative regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|cytoskeleton|nucleus	DNA binding|double-stranded RNA binding|protein binding			breast(3)	3		Breast(86;0.00257)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;9.75e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.01e-10)|Kidney(56;4.85e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.31e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000151)|Lung(119;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0325)|COAD - Colon adenocarcinoma(134;0.228)		GAAATATAAGAAGGCTATGGT	0.353													24	134	---	---	---	---	PASS
MTERFD2	130916	broad.mit.edu	37	2	242035676	242035676	+	Nonsense_Mutation	SNP	T	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:242035676T>A	uc002wan.1	-	3	1463	c.970A>T	c.(970-972)AGA>TGA	p.R324*	MTERFD2_uc010zoj.1_Nonsense_Mutation_p.R107*	NM_182501	NP_872307	Q7Z6M4	MTER2_HUMAN	MTERF domain containing 2	295										ovary(1)	1		all_cancers(19;4.67e-31)|all_epithelial(40;8.67e-13)|Breast(86;0.000141)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;2.47e-32)|all cancers(36;1.79e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-14)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;2.81e-06)|Lung(119;0.000509)|LUSC - Lung squamous cell carcinoma(224;0.00442)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0886)		TCTGAAACTCTGAGAATGTCC	0.502													63	151	---	---	---	---	PASS
ANO7	50636	broad.mit.edu	37	2	242128059	242128059	+	Silent	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:242128059C>G	uc002wax.2	+	1	136	c.33C>G	c.(31-33)CTC>CTG	p.L11L	ANO7_uc002waw.2_Silent_p.L11L	NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	11	Cytoplasmic (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3						GGGCGGGGCTCCAAGGGCCAC	0.687													15	25	---	---	---	---	PASS
HDLBP	3069	broad.mit.edu	37	2	242192406	242192406	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:242192406G>A	uc002waz.2	-	11	1566	c.1338C>T	c.(1336-1338)TTC>TTT	p.F446F	HDLBP_uc002wba.2_Silent_p.F446F|HDLBP_uc002wbb.2_Silent_p.F398F	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	446	KH 5.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		GGTGCCTGTGGAACTTGTGGT	0.577													24	141	---	---	---	---	PASS
CNTN4	152330	broad.mit.edu	37	3	3095514	3095514	+	Silent	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:3095514A>G	uc003bpc.2	+	23	3056	c.2835A>G	c.(2833-2835)CAA>CAG	p.Q945Q	CNTN4_uc003bpe.2_Silent_p.Q617Q|CNTN4_uc003bpf.2_Silent_p.Q616Q|CNTN4_uc003bpg.2_Silent_p.Q201Q	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	945	Fibronectin type-III 4.				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			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)		GGAACAGACAAAGCAGCACAT	0.408													25	44	---	---	---	---	PASS
JAGN1	84522	broad.mit.edu	37	3	9934715	9934715	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:9934715C>A	uc003btt.3	+	2	342	c.206C>A	c.(205-207)GCC>GAC	p.A69D	CIDEC_uc003bto.2_Intron	NM_032492	NP_115881	Q8N5M9	JAGN1_HUMAN	jagunal homolog 1	69	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(1)	1	Medulloblastoma(99;0.227)					GATCAGGTGGCCATGCCCTAT	0.512													16	69	---	---	---	---	PASS
WNT7A	7476	broad.mit.edu	37	3	13916528	13916528	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:13916528C>T	uc003bye.1	-	2	519	c.214G>A	c.(214-216)GAG>AAG	p.E72K		NM_004625	NP_004616	O00755	WNT7A_HUMAN	wingless-type MMTV integration site family,	72			E -> K (in LPHAS).		activation of JUN kinase activity|anterior/posterior pattern formation|canonical Wnt receptor signaling pathway|cell proliferation in forebrain|cellular response to transforming growth factor beta stimulus|central nervous system vasculogenesis|cerebellar granule cell differentiation|dorsal/ventral pattern formation|embryonic axis specification|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic leg morphogenesis|lens fiber cell development|negative regulation of neurogenesis|palate development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of JNK cascade|positive regulation of synaptogenesis|positive regulation of transcription from RNA polymerase II promoter|regulation of axon diameter|satellite cell activation|satellite cell maintenance involved in skeletal muscle regeneration|sex differentiation|uterus development|Wnt receptor signaling pathway involved in wound healing, spreading of epidermal cells|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled binding|receptor agonist activity|signal transducer activity			ovary(2)|breast(1)	3						AACTGACACTCGTCCAGGCCC	0.597													30	55	---	---	---	---	PASS
KIF15	56992	broad.mit.edu	37	3	44839159	44839159	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:44839159C>T	uc003cnx.3	+	9	1115	c.966C>T	c.(964-966)TTC>TTT	p.F322F	KIF15_uc010hiq.2_Silent_p.F225F|KIF15_uc003cny.1_5'Flank	NM_020242	NP_064627	Q9NS87	KIF15_HUMAN	kinesin family member 15	322					blood coagulation|cell proliferation|microtubule-based movement|mitosis	centrosome|cytosol|microtubule|plus-end kinesin complex|spindle	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0099)|KIRC - Kidney renal clear cell carcinoma(197;0.0564)|Kidney(197;0.0707)		AACTTACCTTCTTACTACGGG	0.463													107	111	---	---	---	---	PASS
LTF	4057	broad.mit.edu	37	3	46491504	46491504	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:46491504C>T	uc003cpq.2	-	8	935	c.897G>A	c.(895-897)AAG>AAA	p.K299K	LTF_uc003fzr.2_Silent_p.K255K|LTF_uc010hjh.2_Silent_p.K299K|LTF_uc003cpr.2_Silent_p.K286K	NM_002343	NP_002334	P02788	TRFL_HUMAN	lactotransferrin precursor	299	Transferrin-like 1.				cellular iron ion homeostasis|defense response to bacterium|humoral immune response|iron ion transport	extracellular region|stored secretory granule	ferric iron binding|heparin binding|protein binding|serine-type endopeptidase activity			central_nervous_system(2)|ovary(1)|lung(1)	4				all cancers(1;7.55e-14)|GBM - Glioblastoma multiforme(1;2.1e-09)|Epithelial(1;9.25e-07)|Colorectal(1;3.81e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00129)|COAD - Colon adenocarcinoma(1;0.00308)|KIRC - Kidney renal clear cell carcinoma(197;0.0205)|Kidney(197;0.0242)|OV - Ovarian serous cystadenocarcinoma(275;0.089)	Pefloxacin(DB00487)	GTGACTTGTCCTTTCCAAACT	0.418													20	72	---	---	---	---	PASS
KIF9	64147	broad.mit.edu	37	3	47289509	47289509	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:47289509A>T	uc010hjp.2	-	12	1731	c.1127T>A	c.(1126-1128)CTG>CAG	p.L376Q	KIF9_uc003cqx.2_Missense_Mutation_p.L376Q|KIF9_uc003cqy.2_Missense_Mutation_p.L376Q|KIF9_uc011bat.1_RNA|KIF9_uc011bau.1_RNA	NM_001134878	NP_001128350	Q9HAQ2	KIF9_HUMAN	kinesin family member 9 isoform 2	376	Potential.				blood coagulation|microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000284)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		GCCTCTTACCAGGCTGTCATG	0.582													105	107	---	---	---	---	PASS
COL7A1	1294	broad.mit.edu	37	3	48604105	48604105	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:48604105C>T	uc003ctz.2	-	111	8293	c.8292G>A	c.(8290-8292)GAG>GAA	p.E2764E	UCN2_uc003cty.1_5'Flank	NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	2764	Triple-helical region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GCTCCCCTCTCTCGCCAGGAG	0.622													93	87	---	---	---	---	PASS
SEMA3B	7869	broad.mit.edu	37	3	50313140	50313140	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:50313140G>A	uc003cyu.2	+	18	1952	c.1710G>A	c.(1708-1710)TCG>TCA	p.S570S	SEMA3B_uc003cyt.2_Silent_p.S569S|SEMA3B_uc003cyv.2_Silent_p.S457S|SEMA3B_uc003cyw.2_Silent_p.S293S|SEMA3B_uc010hli.2_Silent_p.S462S|SEMA3B_uc003cyx.2_Silent_p.S456S|SEMA3B_uc003cyy.2_Silent_p.S227S|SEMA3B_uc011bdo.1_Silent_p.S227S	NM_004636	NP_004627	Q13214	SEM3B_HUMAN	semaphorin 3B isoform 1 precursor	570					axon guidance|cell-cell signaling	endoplasmic reticulum|extracellular region|membrane	receptor activity			lung(2)|central_nervous_system(2)|kidney(1)|skin(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		CCCAAGACTCGTCTCGTCCCG	0.657													15	33	---	---	---	---	PASS
SEMA3G	56920	broad.mit.edu	37	3	52476800	52476800	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:52476800G>C	uc003dea.1	-	2	239	c.239C>G	c.(238-240)TCT>TGT	p.S80C		NM_020163	NP_064548	Q9NS98	SEM3G_HUMAN	semaphorin sem2 precursor	80	Sema.				multicellular organismal development	extracellular region|membrane	receptor activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;1.69e-05)|Kidney(197;0.00173)|KIRC - Kidney renal clear cell carcinoma(197;0.00196)|OV - Ovarian serous cystadenocarcinoma(275;0.0333)		CAGCCGCAGAGAGTAGAGGGC	0.632													13	8	---	---	---	---	PASS
FRMD4B	23150	broad.mit.edu	37	3	69435102	69435102	+	Silent	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:69435102C>A	uc003dnv.2	-	1	329	c.39G>T	c.(37-39)CTG>CTT	p.L13L	FRMD4B_uc003dnw.2_Intron|FRMD4B_uc003dny.2_Silent_p.L13L	NM_015123	NP_055938	Q9Y2L6	FRM4B_HUMAN	FERM domain containing 4B	13						cytoplasm|cytoskeleton	binding			ovary(3)|central_nervous_system(1)	4		Lung NSC(201;0.0138)|Prostate(884;0.11)		BRCA - Breast invasive adenocarcinoma(55;0.000201)|Epithelial(33;0.00141)|LUSC - Lung squamous cell carcinoma(21;0.00999)|Lung(16;0.0182)		TGCCGCTGAACAGCAGGTCCT	0.657													5	2	---	---	---	---	PASS
OR5H14	403273	broad.mit.edu	37	3	97868308	97868308	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:97868308C>A	uc003dsg.1	+	1	79	c.79C>A	c.(79-81)CTG>ATG	p.L27M		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	27	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GAAAATACCCCTGTTCCTGGC	0.418													114	453	---	---	---	---	PASS
COL8A1	1295	broad.mit.edu	37	3	99514435	99514435	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:99514435C>A	uc003dtg.1	+	5	1935	c.1690C>A	c.(1690-1692)CCT>ACT	p.P564T	COL8A1_uc003dth.1_Missense_Mutation_p.P564T|COL8A1_uc003dti.1_Missense_Mutation_p.P565T	NM_001850	NP_001841	P27658	CO8A1_HUMAN	alpha 1 type VIII collagen precursor	564	Triple-helical region (COL1).				angiogenesis|cell adhesion	basement membrane|collagen type VIII					0						acccccaggccctccaggacc	0.488													67	42	---	---	---	---	PASS
FAM55C	91775	broad.mit.edu	37	3	101535666	101535666	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:101535666G>T	uc003dvn.2	+	7	1587	c.950G>T	c.(949-951)GGC>GTC	p.G317V	FAM55C_uc010hpn.2_Missense_Mutation_p.G317V	NM_145037	NP_659474	Q969Y0	FA55C_HUMAN	hypothetical protein LOC91775 precursor	317						extracellular region				ovary(1)|pancreas(1)|skin(1)	3						CTATCTCAAGGCTCAGGAACT	0.358													19	229	---	---	---	---	PASS
PHLDB2	90102	broad.mit.edu	37	3	111632246	111632246	+	Silent	SNP	C	T	T	rs112434778		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:111632246C>T	uc010hqa.2	+	3	1827	c.1416C>T	c.(1414-1416)ACC>ACT	p.T472T	PHLDB2_uc003dyc.2_Silent_p.T499T|PHLDB2_uc003dyd.2_Silent_p.T472T|PHLDB2_uc003dyg.2_Silent_p.T472T|PHLDB2_uc003dyh.2_Silent_p.T472T|PHLDB2_uc003dyi.2_Silent_p.T58T|PHLDB2_uc003dyf.3_Silent_p.T472T	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	472						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						CTGGGACCACCGTGGAAGATG	0.522													90	335	---	---	---	---	PASS
SIDT1	54847	broad.mit.edu	37	3	113320481	113320481	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:113320481C>T	uc003eak.2	+	11	1743	c.1092C>T	c.(1090-1092)CCC>CCT	p.P364P	SIDT1_uc011bif.1_RNA|SIDT1_uc003eaj.1_Silent_p.P364P|SIDT1_uc011big.1_Silent_p.P117P|SIDT1_uc011bih.1_5'Flank	NM_017699	NP_060169	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1 precursor	364	Cytoplasmic (Potential).					integral to membrane				ovary(3)|pancreas(1)|skin(1)	5						CCAGCACACCCGAAGGGAGCA	0.413													21	130	---	---	---	---	PASS
ATP6V1A	523	broad.mit.edu	37	3	113524219	113524219	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:113524219G>C	uc003eao.2	+	14	1674	c.1608G>C	c.(1606-1608)AAG>AAC	p.K536N	ATP6V1A_uc011bik.1_Missense_Mutation_p.K503N	NM_001690	NP_001681	P38606	VATA_HUMAN	ATPase, H+ transporting, lysosomal V1 subunit A	536					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|integral to plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(2)|skin(1)	3						CATTCTACAAGACAGTAGGGA	0.358													49	224	---	---	---	---	PASS
ZDHHC23	254887	broad.mit.edu	37	3	113672693	113672693	+	Missense_Mutation	SNP	T	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:113672693T>G	uc003eau.2	+	3	607	c.308T>G	c.(307-309)CTT>CGT	p.L103R	ZDHHC23_uc003eav.2_Missense_Mutation_p.L97R	NM_173570	NP_775841	Q8IYP9	ZDH23_HUMAN	zinc finger, DHHC domain containing 23	103	Helical; (Potential).					integral to membrane	acyltransferase activity|zinc ion binding			ovary(2)	2						CCTGTCTTCCTTCATGTGGCT	0.512													8	751	---	---	---	---	PASS
C3orf30	152405	broad.mit.edu	37	3	118865502	118865502	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:118865502A>G	uc003ecb.1	+	1	506	c.466A>G	c.(466-468)AGA>GGA	p.R156G	IGSF11_uc003eby.2_5'Flank|IGSF11_uc003ebz.2_5'Flank|IGSF11_uc010hqs.2_5'Flank|C3orf30_uc011biw.1_Missense_Mutation_p.R156G	NM_152539	NP_689752	Q96M34	CC030_HUMAN	hypothetical protein LOC152405	156										ovary(2)	2				GBM - Glioblastoma multiforme(114;0.222)		CCAGGCTGAGAGAAGAACTTC	0.502													38	136	---	---	---	---	PASS
MCM2	4171	broad.mit.edu	37	3	127327752	127327752	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:127327752C>T	uc003ejp.2	+	8	1371	c.1314C>T	c.(1312-1314)GTC>GTT	p.V438V	MCM2_uc011bkm.1_Silent_p.V308V|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Silent_p.V322V	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	438					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						TTGCCACTGTCATCCTAGCCA	0.527													55	312	---	---	---	---	PASS
ACAD9	28976	broad.mit.edu	37	3	128612406	128612406	+	Nonsense_Mutation	SNP	C	T	T	rs148694290		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:128612406C>T	uc003ela.3	+	3	455	c.253C>T	c.(253-255)CGA>TGA	p.R85*	ACAD9_uc010hsw.1_5'UTR|ACAD9_uc011bks.1_5'UTR|ACAD9_uc003elb.2_5'UTR	NM_014049	NP_054768	Q9H845	ACAD9_HUMAN	acyl-Coenzyme A dehydrogenase family, member 9	85						mitochondrion	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding			ovary(2)|central_nervous_system(1)	3						AGTGGACTCCCGAAAAATTGA	0.358													4	121	---	---	---	---	PASS
ZIC4	84107	broad.mit.edu	37	3	147114007	147114007	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:147114007A>G	uc003ewd.1	-	3	593	c.320T>C	c.(319-321)CTC>CCC	p.L107P	ZIC4_uc003ewc.1_Missense_Mutation_p.L37P|ZIC4_uc011bno.1_Missense_Mutation_p.L157P	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	107						nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						GGGCGCAGCGAGGTTCACCGT	0.711													37	41	---	---	---	---	PASS
ZIC1	7545	broad.mit.edu	37	3	147128194	147128194	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:147128194G>T	uc003ewe.2	+	1	1014	c.295G>T	c.(295-297)GAC>TAC	p.D99Y		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	99					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CTCCACGCGGGACTTTCTGTT	0.701													6	50	---	---	---	---	PASS
AGTR1	185	broad.mit.edu	37	3	148459455	148459455	+	Missense_Mutation	SNP	T	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:148459455T>G	uc003ewg.2	+	4	1079	c.633T>G	c.(631-633)ATT>ATG	p.I211M	AGTR1_uc003ewh.2_Missense_Mutation_p.I211M|AGTR1_uc003ewi.2_Missense_Mutation_p.I211M|AGTR1_uc003ewj.2_Missense_Mutation_p.I211M|AGTR1_uc003ewk.2_Missense_Mutation_p.I211M	NM_031850	NP_114038	P30556	AGTR1_HUMAN	angiotensin II receptor, type 1	211	Helical; Name=5; (Potential).				calcium-mediated signaling|cell chemotaxis|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|kidney development|low-density lipoprotein particle remodeling|positive regulation of cellular protein metabolic process|positive regulation of cholesterol esterification|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of phospholipase A2 activity|positive regulation of reactive oxygen species metabolic process|regulation of cell growth|regulation of cell proliferation|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|Rho protein signal transduction		acetyltransferase activator activity|angiotensin type I receptor activity|angiotensin type II receptor activity|bradykinin receptor binding|protein heterodimerization activity				0			LUSC - Lung squamous cell carcinoma(72;0.127)|Lung(72;0.152)		Candesartan(DB00796)|Eprosartan(DB00876)|Forasartan(DB01342)|Irbesartan(DB01029)|Losartan(DB00678)|Olmesartan(DB00275)|Saprisartan(DB01347)|Spironolactone(DB00421)|Tasosartan(DB01349)|Telmisartan(DB00966)|Valsartan(DB00177)	TTCTGATCATTCTTACAAGTT	0.368													31	170	---	---	---	---	PASS
GPR87	53836	broad.mit.edu	37	3	151012946	151012946	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:151012946G>A	uc003eyt.2	-	3	449	c.88C>T	c.(88-90)CCA>TCA	p.P30S	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_023915	NP_076404	Q9BY21	GPR87_HUMAN	G protein-coupled receptor 87	30	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TTCTTTCCTGGCCCGTCGCTC	0.483													33	353	---	---	---	---	PASS
MME	4311	broad.mit.edu	37	3	154864963	154864963	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:154864963C>G	uc010hvr.1	+	15	1658	c.1447C>G	c.(1447-1449)CCT>GCT	p.P483A	MME_uc003fab.1_Missense_Mutation_p.P483A|MME_uc003fac.1_Missense_Mutation_p.P483A|MME_uc003fad.1_Missense_Mutation_p.P483A|MME_uc003fae.1_Missense_Mutation_p.P483A	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	483	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	GATCGGCTATCCTGATGACAT	0.328													16	256	---	---	---	---	PASS
PLCH1	23007	broad.mit.edu	37	3	155200211	155200211	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:155200211C>T	uc011bok.1	-	23	3905	c.3628G>A	c.(3628-3630)GCT>ACT	p.A1210T	PLCH1_uc011boj.1_3'UTR|PLCH1_uc011bol.1_Missense_Mutation_p.A1172T	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1210					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			ACTGTGAGAGCCTGATTGTTG	0.448													48	170	---	---	---	---	PASS
SLITRK3	22865	broad.mit.edu	37	3	164906409	164906409	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:164906409C>A	uc003fej.3	-	2	2654	c.2210G>T	c.(2209-2211)GGT>GTT	p.G737V	SLITRK3_uc003fek.2_Missense_Mutation_p.G737V	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	737	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						ATACACATGACCCACGGGAGG	0.453										HNSCC(40;0.11)			29	210	---	---	---	---	PASS
SLITRK3	22865	broad.mit.edu	37	3	164906410	164906410	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:164906410C>T	uc003fej.3	-	2	2653	c.2209G>A	c.(2209-2211)GGT>AGT	p.G737S	SLITRK3_uc003fek.2_Missense_Mutation_p.G737S	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	737	Cytoplasmic (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						TACACATGACCCACGGGAGGG	0.458										HNSCC(40;0.11)			28	206	---	---	---	---	PASS
BCHE	590	broad.mit.edu	37	3	165547936	165547936	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:165547936C>G	uc003fem.3	-	2	1046	c.886G>C	c.(886-888)GAT>CAT	p.D296H	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	296					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	TCTTGGGGATCTTTATTTCTA	0.393													42	268	---	---	---	---	PASS
WDR49	151790	broad.mit.edu	37	3	167248946	167248946	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:167248946C>A	uc003fev.1	-	9	1425	c.1119G>T	c.(1117-1119)ATG>ATT	p.M373I	WDR49_uc003feu.1_Missense_Mutation_p.M198I|WDR49_uc011bpd.1_Missense_Mutation_p.M437I|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	373	WD 6.									large_intestine(1)|ovary(1)|skin(1)	3						AGCAAAGTCTCATAACAGCAT	0.418													49	294	---	---	---	---	PASS
PIK3CA	5290	broad.mit.edu	37	3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	rs104886003		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		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	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		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)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			38	107	---	---	---	---	PASS
TTC14	151613	broad.mit.edu	37	3	180327770	180327770	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:180327770G>C	uc003fkk.2	+	12	1885	c.1753G>C	c.(1753-1755)GAA>CAA	p.E585Q	TTC14_uc003fkl.2_3'UTR|TTC14_uc003fkm.2_Missense_Mutation_p.E585Q	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	585							RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			ATCTTCACTTGAAATACCGGA	0.383													23	872	---	---	---	---	PASS
FXR1	8087	broad.mit.edu	37	3	180630511	180630511	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:180630511G>T	uc003fkq.2	+	1	60	c.38G>T	c.(37-39)GGG>GTG	p.G13V	FXR1_uc003fkp.2_5'UTR|FXR1_uc003fkr.2_Missense_Mutation_p.G13V|FXR1_uc011bqj.1_5'UTR|FXR1_uc003fks.2_5'UTR|FXR1_uc011bqk.1_Missense_Mutation_p.G13V|FXR1_uc011bql.1_5'Flank	NM_005087	NP_005078	P51114	FXR1_HUMAN	fragile X mental retardation-related protein 1	13					apoptosis|cell differentiation|muscle organ development	nucleolus|polysome				breast(1)	1	all_cancers(143;6.07e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.4e-22)			GGCTCTAACGGGGCTTTCTAC	0.522											OREG0015934	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	70	352	---	---	---	---	PASS
MCCC1	56922	broad.mit.edu	37	3	182789018	182789018	+	Missense_Mutation	SNP	C	G	G	rs149268368	by1000genomes	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:182789018C>G	uc003fle.2	-	6	756	c.619G>C	c.(619-621)GTC>CTC	p.V207L	MCCC1_uc010hxi.2_RNA|MCCC1_uc011bqo.1_RNA|MCCC1_uc003flf.2_Missense_Mutation_p.V90L|MCCC1_uc003flg.2_Missense_Mutation_p.V98L|MCCC1_uc011bqp.1_Missense_Mutation_p.V160L|MCCC1_uc011bqq.1_Missense_Mutation_p.V98L	NM_020166	NP_064551	Q96RQ3	MCCA_HUMAN	methylcrotonoyl-Coenzyme A carboxylase 1 (alpha)	207	Biotin carboxylation.|ATP-grasp.				biotin metabolic process|leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.84e-14)|Ovarian(172;0.0355)		all cancers(12;1.8e-44)|Epithelial(37;3.23e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;5.07e-21)		Biotin(DB00121)	CCACCCCGGACGGCTTTAATC	0.443													58	237	---	---	---	---	PASS
MCF2L2	23101	broad.mit.edu	37	3	182948794	182948794	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:182948794C>A	uc003fli.1	-	16	1964	c.1874G>T	c.(1873-1875)CGT>CTT	p.R625L	MCF2L2_uc003flj.1_Missense_Mutation_p.R625L|MCF2L2_uc011bqr.1_RNA	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	625	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			AAGCAAGTCACGTATAATGCG	0.393													28	150	---	---	---	---	PASS
FETUB	26998	broad.mit.edu	37	3	186358324	186358324	+	Silent	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:186358324C>A	uc010hyq.2	+	2	336	c.75C>A	c.(73-75)GCC>GCA	p.A25A	FETUB_uc011brz.1_Intron|FETUB_uc003fqn.2_Silent_p.A25A|FETUB_uc003fqo.2_5'UTR|FETUB_uc010hyr.2_Silent_p.A25A|FETUB_uc010hys.2_5'UTR|FETUB_uc003fqp.3_Silent_p.A25A	NM_014375	NP_055190	Q9UGM5	FETUB_HUMAN	fetuin B precursor	25	Cystatin fetuin-B-type 1.					extracellular space	cysteine-type endopeptidase inhibitor activity			ovary(1)|lung(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0479)		CCCAGCTGGCCCTCAACCCCT	0.587													204	667	---	---	---	---	PASS
MASP1	5648	broad.mit.edu	37	3	186980461	186980461	+	Silent	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:186980461G>T	uc003frh.1	-	3	617	c.285C>A	c.(283-285)ACC>ACA	p.T95T	MASP1_uc003fri.2_Silent_p.T95T|MASP1_uc003frj.2_Silent_p.T64T|MASP1_uc003frk.1_Silent_p.T95T|MASP1_uc011bse.1_Silent_p.T69T	NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform	95	Interaction with FCN2.|Interaction with MBL2.|Homodimerization (By similarity).|CUB 1.				complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		CTGTGTCTGTGGTCTCCCTGC	0.542													20	97	---	---	---	---	PASS
RTP2	344892	broad.mit.edu	37	3	187419842	187419842	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:187419842G>C	uc003fro.1	-	1	504	c.75C>G	c.(73-75)GAC>GAG	p.D25E		NM_001004312	NP_001004312	Q5QGT7	RTP2_HUMAN	receptor transporting protein 2	25	Cytoplasmic (Potential).				protein insertion into membrane	cell surface|integral to membrane|plasma membrane	olfactory receptor binding				0	all_cancers(143;4.06e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0515)		GCTCCCAGCTGTCCGCTGGCT	0.577													146	603	---	---	---	---	PASS
LPP	4026	broad.mit.edu	37	3	188584118	188584118	+	Missense_Mutation	SNP	T	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:188584118T>G	uc003frs.1	+	9	1787	c.1541T>G	c.(1540-1542)TTC>TGC	p.F514C	LPP_uc011bsg.1_Missense_Mutation_p.F367C|LPP_uc011bsi.1_Missense_Mutation_p.F514C|LPP_uc011bsj.1_Missense_Mutation_p.F351C	NM_005578	NP_005569	Q93052	LPP_HUMAN	LIM domain containing preferred translocation	514	LIM zinc-binding 2.				cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)		GGGATCCCATTCACTGTGGAT	0.562			T	HMGA2|MLL|C12orf9	lipoma|leukemia								45	176	---	---	---	---	PASS
GP5	2814	broad.mit.edu	37	3	194118433	194118433	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:194118433C>T	uc003ftv.1	-	2	610	c.579G>A	c.(577-579)CAG>CAA	p.Q193Q		NM_004488	NP_004479	P40197	GPV_HUMAN	glycoprotein V (platelet) precursor	193	Extracellular (Potential).|LRR 5.				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane				skin(2)|breast(1)	3	all_cancers(143;6.64e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;7.38e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.06e-05)		CGAGCTTAGCCTGTGCTCCAA	0.567													57	333	---	---	---	---	PASS
GP5	2814	broad.mit.edu	37	3	194118476	194118476	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:194118476C>T	uc003ftv.1	-	2	567	c.536G>A	c.(535-537)GGA>GAA	p.G179E		NM_004488	NP_004479	P40197	GPV_HUMAN	glycoprotein V (platelet) precursor	179	Extracellular (Potential).|LRR 5.				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane				skin(2)|breast(1)	3	all_cancers(143;6.64e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;7.38e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.06e-05)		CAGGTTGTTTCCCGATAAATC	0.537													54	295	---	---	---	---	PASS
TNK2	10188	broad.mit.edu	37	3	195605216	195605216	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:195605216G>A	uc003fvu.1	-	9	1707	c.1164C>T	c.(1162-1164)GCC>GCT	p.A388A	TNK2_uc003fvs.1_Silent_p.A420A|TNK2_uc003fvt.1_Silent_p.A451A|TNK2_uc010hzw.1_RNA|TNK2_uc003fvv.1_Silent_p.A218A	NM_005781	NP_005772	Q07912	ACK1_HUMAN	tyrosine kinase, non-receptor, 2 isoform 1	388	SH3.			Missing (in Ref. 4; AAH08884).	positive regulation of peptidyl-tyrosine phosphorylation|protein ubiquitination|small GTPase mediated signal transduction	adherens junction|cytoplasmic vesicle membrane|endosome|nucleus	ATP binding|GTPase inhibitor activity|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			ovary(3)|central_nervous_system(3)|lung(2)|stomach(1)|skin(1)	10	all_cancers(143;6.48e-09)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;1.46e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.3e-19)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;0.000757)	Adenosine triphosphate(DB00171)	CTGTGGGCTGGGCCTGGAGGA	0.602													127	359	---	---	---	---	PASS
PIGG	54872	broad.mit.edu	37	4	494382	494382	+	Silent	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:494382C>A	uc003gak.3	+	2	488	c.352C>A	c.(352-354)CGA>AGA	p.R118R	PIGG_uc003gaj.3_Silent_p.R118R|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Silent_p.R118R|PIGG_uc003gal.3_Silent_p.R29R|ZNF721_uc003gag.2_5'Flank|ZNF721_uc010ibe.2_5'Flank|ZNF721_uc003gah.1_5'Flank|PIGG_uc003gai.2_RNA|PIGG_uc011buw.1_5'UTR|PIGG_uc003gam.2_Silent_p.R29R|PIGG_uc003gan.2_Silent_p.R29R	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	118	Lumenal (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						TACTATGCCTCGAATCAAGGT	0.408													3	80	---	---	---	---	PASS
SLIT2	9353	broad.mit.edu	37	4	20255601	20255601	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:20255601C>T	uc003gpr.1	+	1	367	c.163C>T	c.(163-165)CGC>TGC	p.R55C	SLIT2_uc003gps.1_Missense_Mutation_p.R55C	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	55	LRRNT.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						GAATATCCCCCGCAACACCGA	0.672													18	93	---	---	---	---	PASS
PDS5A	23244	broad.mit.edu	37	4	39875994	39875994	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:39875994C>G	uc003guv.3	-	20	2732	c.2192G>C	c.(2191-2193)GGT>GCT	p.G731A	PDS5A_uc010ifo.2_Missense_Mutation_p.G691A	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	731					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						GTGTGGAGTACCCCTCTTTGC	0.343													4	74	---	---	---	---	PASS
CHRNA9	55584	broad.mit.edu	37	4	40339267	40339267	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:40339267G>A	uc003gva.1	+	3	267	c.251G>A	c.(250-252)CGC>CAC	p.R84H		NM_017581	NP_060051	Q9UGM1	ACHA9_HUMAN	cholinergic receptor, nicotinic, alpha 9	84	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|synaptic transmission	cell junction|postsynaptic membrane	calcium channel activity|receptor activity			breast(3)|skin(3)|central_nervous_system(1)	7					Nicotine(DB00184)	TTGTGGATCCGCCAAATCTGG	0.483													16	32	---	---	---	---	PASS
KCTD8	386617	broad.mit.edu	37	4	44176896	44176896	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:44176896G>T	uc003gwu.2	-	2	1617	c.1333C>A	c.(1333-1335)CAG>AAG	p.Q445K		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	445						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						TTAAAATCCTGAATACACTTT	0.388										HNSCC(17;0.042)			147	122	---	---	---	---	PASS
KIT	3815	broad.mit.edu	37	4	55593614	55593614	+	Silent	SNP	T	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:55593614T>A	uc010igr.2	+	11	1767	c.1680T>A	c.(1678-1680)GTT>GTA	p.V560V	KIT_uc010igs.2_Silent_p.V556V|KIT_uc010igt.1_Silent_p.V9V	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	560	Cytoplasmic (Potential).		Missing (in GIST; somatic mutation).		male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity	p.V560D(113)|p.V560del(44)|p.W557_E561del(36)|p.V560G(23)|p.V560_L576del(22)|p.V560E(18)|p.K558_E562del(16)|p.V559_E561del(15)|p.K558_V560del(13)|p.K558_V560>N(12)|p.V559_G565del(11)|p.W557_V560>C(11)|p.K558_G565>R(11)|p.Q556_V560del(10)|p.V559_V560del(9)|p.K558_D572del(9)|p.V559_T574del(6)|p.W557_Q575del(6)|p.Q556_V560>H(6)|p.K558_I563del(5)|p.Q556_D572del(5)|p.K558_V560>I(5)|p.W557_V560>F(4)|p.V555_P573del(4)|p.V555_I571del(4)|p.W557_V560del(4)|p.M552_D572del(4)|p.V555_V560del(4)|p.V560_I571del(3)|p.Q556_D572>H(3)|p.Y553_T574>S(3)|p.V560_E561del(3)|p.E554_D572>A(3)|p.Q556_L576del(3)|p.W557_E562del(3)|p.V555_D572del(3)|p.Q556_T574del(3)|p.K558_E561del(3)|p.Y553_E561>LK(2)|p.M552_E561>K(2)|p.V559_D572del(2)|p.W557_P573>S(2)|p.W557_T574del(2)|p.P551_V569del(2)|p.V560_Y578del(2)|p.V560A(2)|p.Y553_E561del(2)|p.Q556_N564>R(2)|p.V555_E562del(2)|p.V555_Q575del(2)|p.W557_D572del(2)|p.W557_N564del(2)|p.V559_E562del(2)|p.K558_N564del(2)|p.W557_I571del(2)|p.K558_Y570>N(2)|p.V559_N566>D(2)|p.Q556_N564>H(2)|p.K558_Q575del(1)|p.V555_Y570del(1)|p.M552_T574>TESA(1)|p.Q556_D572>PS(1)|p.Q556_I563del(1)|p.W557_I563>FP(1)|p.M552_V560del(1)|p.K558_N564>R(1)|p.K558_E561>NP(1)|p.V559_P573>A(1)|p.K558_D572>N(1)|p.E554_N564>D(1)|p.V559_L576del(1)|p.P551_E561>Q(1)|p.Y553_P573del(1)|p.K550_V560>L(1)|p.V555_V560>H(1)|p.W557_T575>CP(1)|p.E554_Y570del(1)|p.E554_E561del(1)|p.Q556_N566>SNNLQLY(1)|p.E554_I571del(1)|p.V560_Y568del(1)|p.V555_V560>T(1)|p.V555_V560>V(1)|p.W557_E561>PS(1)|p.Q556_L576>H(1)|p.K558_G565>A(1)|p.Q556_P573del(1)|p.K558_L576>NV(1)|p.E554_E562del(1)|p.Q556_V560>TTF(1)|p.K558_V560>R(1)|p.W557_I563>T(1)|p.K558_T574>NRS(1)|p.V559_I571del(1)|p.E554_D572del(1)|p.W557_Y570del(1)|p.V560V(1)|p.P551_V569>L(1)|p.K558_P573del(1)|p.Q556_N564del(1)|p.E554_V560>K(1)|p.E554_V560>D(1)|p.V559_S590del(1)|p.V555_N566>D(1)|p.V559_N564del(1)|p.Q556_V560>HNLQLY(1)|p.K558_L576del(1)|p.Y553_L576>NCLHLYSSQ(1)|p.K558_V560>M(1)|p.E561del(1)|p.V555_I563del(1)|p.M552_Y570del(1)|p.K558_P573>R(1)|p.V555_G565del(1)|p.V560_N566del(1)|p.K558_G565del(1)|p.Q556_V560>F(1)|p.M552_I563del(1)|p.Q556_E561del(1)|p.V560_D572del(1)|p.V555_N564del(1)|p.Q556_E561>HH(1)|p.K550_Y568del(1)|p.E554_N564del(1)|p.V559_V569del(1)|p.Q556_E561>P(1)		soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	GGAAGGTTGTTGAGGAGATAA	0.388		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				24	122	---	---	---	---	PASS
WDFY3	23001	broad.mit.edu	37	4	85750301	85750301	+	Nonsense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:85750301G>C	uc003hpd.2	-	9	1220	c.812C>G	c.(811-813)TCA>TGA	p.S271*	WDFY3_uc003hpf.2_Nonsense_Mutation_p.S271*	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	271						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CAGGTCATCTGATTGCTGCAT	0.348													63	98	---	---	---	---	PASS
IBSP	3381	broad.mit.edu	37	4	88731824	88731824	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:88731824A>G	uc003hqx.3	+	6	411	c.313A>G	c.(313-315)ACC>GCC	p.T105A		NM_004967	NP_004958	P21815	SIAL_HUMAN	integrin-binding sialoprotein precursor	105	Asp/Glu-rich (acidic).				biomineral tissue development|cell adhesion|ossification						0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000333)|COAD - Colon adenocarcinoma(81;0.154)		GGCTGAGAATACCACACTTTC	0.413													28	150	---	---	---	---	PASS
HERC6	55008	broad.mit.edu	37	4	89363384	89363384	+	Splice_Site	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:89363384A>G	uc011cdi.1	+	23	3026	c.2843_splice	c.e23-2	p.F948_splice	HERC6_uc011cdj.1_Splice_Site_p.F912_splice|HERC6_uc011cdk.1_Splice_Site|HERC6_uc011cdl.1_Splice_Site	NM_017912	NP_060382	Q8IVU3	HERC6_HUMAN	hect domain and RLD 6 isoform 1						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytosol	ubiquitin-protein ligase activity			lung(3)|ovary(1)|kidney(1)	5		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000222)		ATTCCTTTCTAGTTTTCCTTA	0.294													11	14	---	---	---	---	PASS
HERC3	8916	broad.mit.edu	37	4	89591092	89591092	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:89591092G>A	uc003hrw.1	+	15	1881	c.1715G>A	c.(1714-1716)AGG>AAG	p.R572K	HERC3_uc011cdn.1_Missense_Mutation_p.R454K|HERC3_uc011cdo.1_Missense_Mutation_p.R16K	NM_014606	NP_055421	Q15034	HERC3_HUMAN	hect domain and RLD 3	572					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasmic membrane-bounded vesicle	ubiquitin-protein ligase activity			lung(2)|prostate(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(123;0.000319)		TATCTACTGAGGGGAAGAAAG	0.388													85	86	---	---	---	---	PASS
DAPP1	27071	broad.mit.edu	37	4	100774445	100774445	+	Silent	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:100774445G>C	uc003hvf.3	+	4	519	c.429G>C	c.(427-429)CGG>CGC	p.R143R	DAPP1_uc011cek.1_Intron|DAPP1_uc010ilh.2_Silent_p.R143R	NM_014395	NP_055210	Q9UN19	DAPP1_HUMAN	dual adaptor of phosphotyrosine and	143					signal transduction	cytoplasm|plasma membrane	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|protein tyrosine phosphatase activity				0				OV - Ovarian serous cystadenocarcinoma(123;7.04e-09)		AATCTGTCCGGGTTCACACAG	0.448													13	26	---	---	---	---	PASS
GSTCD	79807	broad.mit.edu	37	4	106647744	106647744	+	Silent	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:106647744C>A	uc003hxz.3	+	4	975	c.903C>A	c.(901-903)ATC>ATA	p.I301I	GSTCD_uc003hxx.2_Silent_p.I301I|GSTCD_uc003hxy.3_Silent_p.I214I|GSTCD_uc011cfb.1_5'UTR|GSTCD_uc010ils.1_Silent_p.I301I	NM_001031720	NP_001026890	Q8NEC7	GSTCD_HUMAN	glutathione S-transferase, C-terminal domain	301	GST C-terminal.					cytoplasm	rRNA methyltransferase activity			breast(1)|central_nervous_system(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.15e-07)|READ - Rectum adenocarcinoma(30;0.139)		AGGTAATTATCAGCAGGAAAT	0.264													5	12	---	---	---	---	PASS
ENPEP	2028	broad.mit.edu	37	4	111398008	111398008	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:111398008G>C	uc003iab.3	+	1	780	c.438G>C	c.(436-438)GAG>GAC	p.E146D		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	146	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	GGCTCCCGGAGCTGAAGAGGC	0.627													36	205	---	---	---	---	PASS
MIR1243	100302188	broad.mit.edu	37	4	114028085	114028085	+	RNA	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:114028085G>T	hsa-mir-1243|MI0006373	+			c.67G>T			ANK2_uc003ibd.3_Intron|ANK2_uc003ibe.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc003ibc.2_Intron|ANK2_uc011cgb.1_Intron																	0						ACTTTGCTTTGGTAATAAATC	0.338													16	62	---	---	---	---	PASS
ANK2	287	broad.mit.edu	37	4	114279820	114279820	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:114279820C>T	uc003ibe.3	+	38	10146	c.10046C>T	c.(10045-10047)CCT>CTT	p.P3349L	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Missense_Mutation_p.P651L|ANK2_uc011cgb.1_Missense_Mutation_p.P3364L	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3316					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TCCAAACTCCCTGTCAAAGTA	0.473													44	159	---	---	---	---	PASS
NDST4	64579	broad.mit.edu	37	4	115749013	115749013	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:115749013G>T	uc003ibu.2	-	14	3257	c.2578C>A	c.(2578-2580)CTG>ATG	p.L860M	NDST4_uc010imw.2_RNA	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	860	Lumenal (Potential).|Heparan sulfate N-sulfotransferase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		CACGATGGCAGAGGCTGTCCC	0.403													25	82	---	---	---	---	PASS
CCNA2	890	broad.mit.edu	37	4	122744726	122744726	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:122744726C>G	uc003iec.3	-	1	363	c.58G>C	c.(58-60)GCA>CCA	p.A20P		NM_001237	NP_001228	P20248	CCNA2_HUMAN	cyclin A	20					cell division|mitosis|mitotic cell cycle G2/M transition DNA damage checkpoint|Ras protein signal transduction|regulation of cyclin-dependent protein kinase activity	cytoplasm|nucleoplasm	protein kinase binding			ovary(1)	1						TGCTGCAATGCTAGCAGCGCC	0.697													4	17	---	---	---	---	PASS
RXFP1	59350	broad.mit.edu	37	4	159573058	159573058	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:159573058G>T	uc003ipz.2	+	18	2207	c.2125G>T	c.(2125-2127)GGT>TGT	p.G709C	RXFP1_uc011cja.1_Missense_Mutation_p.G604C|RXFP1_uc010iqo.2_Missense_Mutation_p.G661C|RXFP1_uc011cjb.1_Missense_Mutation_p.G607C|RXFP1_uc010iqk.2_Missense_Mutation_p.G577C|RXFP1_uc011cjc.1_Missense_Mutation_p.G628C|RXFP1_uc011cjd.1_Missense_Mutation_p.G628C|RXFP1_uc010iql.2_Missense_Mutation_p.G553C|RXFP1_uc011cje.1_Missense_Mutation_p.G736C|RXFP1_uc010iqm.2_Missense_Mutation_p.G676C|RXFP1_uc011cjf.1_Missense_Mutation_p.G578C|RXFP1_uc010iqn.2_Missense_Mutation_p.G654C	NM_021634	NP_067647	Q9HBX9	RXFP1_HUMAN	relaxin/insulin-like family peptide receptor 1	709	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|metal ion binding				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0219)		GGACAGCAAAGGTCAGAAAAC	0.418													22	138	---	---	---	---	PASS
NAF1	92345	broad.mit.edu	37	4	164050062	164050062	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:164050062C>T	uc003iqj.2	-	8	1666	c.1472G>A	c.(1471-1473)GGA>GAA	p.G491E	NAF1_uc010iqw.1_Intron	NM_138386	NP_612395	Q96HR8	NAF1_HUMAN	nuclear assembly factor 1 homolog isoform a	491					rRNA processing|snRNA pseudouridine synthesis	cytoplasm|nucleus|small nucleolar ribonucleoprotein complex	protein binding|snoRNA binding			ovary(2)	2	all_hematologic(180;0.166)	Prostate(90;0.109)				ATAGTAAGGTCCAAAATGAGA	0.254													8	45	---	---	---	---	PASS
KIAA1430	57587	broad.mit.edu	37	4	186085284	186085284	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:186085284C>A	uc003ixf.3	-	4	1517	c.1370G>T	c.(1369-1371)CGT>CTT	p.R457L		NM_020827	NP_065878	Q9P2B7	K1430_HUMAN	hypothetical protein LOC57587	457											0		all_lung(41;1.19e-13)|Lung NSC(41;3.16e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00872)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		all cancers(43;9.44e-26)|Epithelial(43;2.64e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.66e-11)|Colorectal(24;6.03e-05)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.000331)|COAD - Colon adenocarcinoma(29;0.000427)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00924)|READ - Rectum adenocarcinoma(43;0.165)		TTGTTCTGAACGTTTCATACC	0.403													24	74	---	---	---	---	PASS
ZFP42	132625	broad.mit.edu	37	4	188924142	188924142	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr4:188924142C>G	uc003izg.1	+	3	426	c.181C>G	c.(181-183)CAG>GAG	p.Q61E	ZFP42_uc003izh.1_Missense_Mutation_p.Q61E|ZFP42_uc003izi.1_Missense_Mutation_p.Q61E	NM_174900	NP_777560	Q96MM3	ZFP42_HUMAN	zinc finger protein 42	61					female gonad development|male gonad development|meiosis	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(14;6.2e-52)|all_epithelial(14;7.36e-37)|all_lung(41;2.29e-15)|Lung NSC(41;6.7e-15)|Breast(6;1.53e-05)|Melanoma(20;3.01e-05)|Hepatocellular(41;0.00335)|all_hematologic(60;0.014)|Renal(120;0.0183)|Prostate(90;0.0421)|Colorectal(36;0.227)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;4.21e-06)|GBM - Glioblastoma multiforme(59;8.93e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.157)		GCCTGGCCCTCAGGCTCTCGG	0.522													3	127	---	---	---	---	PASS
KIAA0947	23379	broad.mit.edu	37	5	5462573	5462573	+	Silent	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:5462573A>G	uc003jdm.3	+	13	3348	c.3126A>G	c.(3124-3126)CCA>CCG	p.P1042P		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1042										ovary(1)|central_nervous_system(1)	2						CCAGCACACCACAAAATGCTA	0.468													89	241	---	---	---	---	PASS
FASTKD3	79072	broad.mit.edu	37	5	7868063	7868063	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:7868063A>G	uc003jeb.2	-	2	271	c.134T>C	c.(133-135)TTG>TCG	p.L45S	FASTKD3_uc011cmp.1_Intron|FASTKD3_uc003jec.2_Intron|MTRR_uc010itn.1_5'Flank|MTRR_uc003jee.3_5'Flank|MTRR_uc003jed.2_5'Flank|MTRR_uc003jef.3_5'Flank|MTRR_uc003jeg.3_5'Flank|MTRR_uc010ito.2_5'Flank	NM_024091	NP_076996	Q14CZ7	FAKD3_HUMAN	FAST kinase domains 3	45					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|breast(1)|pancreas(1)	4						TCGTGAACACAACCAAGGGCA	0.423													27	169	---	---	---	---	PASS
MARCH6	10299	broad.mit.edu	37	5	10390501	10390501	+	Silent	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:10390501T>C	uc003jet.1	+	6	648	c.465T>C	c.(463-465)TGT>TGC	p.C155C	MARCH6_uc011cmu.1_Silent_p.C107C|MARCH6_uc003jeu.1_5'UTR|MARCH6_uc011cmv.1_Silent_p.C50C	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	155	Helical; (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						GCACACTGTGTGCATTCATCA	0.458													35	336	---	---	---	---	PASS
CDH10	1008	broad.mit.edu	37	5	24535829	24535829	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:24535829G>C	uc003jgr.1	-	4	961	c.629C>G	c.(628-630)TCT>TGT	p.S210C	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	210	Cadherin 2.|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)		AGGCTCCACAGAGAAATAGGG	0.438										HNSCC(23;0.051)			15	132	---	---	---	---	PASS
ZFR	51663	broad.mit.edu	37	5	32390503	32390503	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:32390503C>G	uc003jhr.1	-	12	2100	c.2020G>C	c.(2020-2022)GAA>CAA	p.E674Q	ZFR_uc011cny.1_5'Flank	NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	674					multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)		TGATGTTGTTCTTCCTCCATT	0.478													50	157	---	---	---	---	PASS
UGT3A1	133688	broad.mit.edu	37	5	35954348	35954348	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:35954348C>T	uc003jjv.1	-	7	1685	c.1528G>A	c.(1528-1530)GTG>ATG	p.V510M	UGT3A1_uc003jjw.1_RNA	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	510	Cytoplasmic (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CACCTGGCCACCACACCCAGC	0.582													21	47	---	---	---	---	PASS
LIFR	3977	broad.mit.edu	37	5	38496550	38496550	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:38496550C>T	uc010ive.1	-	13	2151	c.1819G>A	c.(1819-1821)GTA>ATA	p.V607I	LIFR_uc003jli.2_Missense_Mutation_p.V607I	NM_001127671	NP_001121143	P42702	LIFR_HUMAN	leukemia inhibitory factor receptor precursor	607	Extracellular (Potential).|Fibronectin type-III 4.				positive regulation of cell proliferation	extracellular region|integral to plasma membrane	ciliary neurotrophic factor receptor binding|growth factor binding|leukemia inhibitory factor receptor activity			ovary(3)|large_intestine(1)	4	all_lung(31;0.00021)					TTAGCCACTACGCTGATGATG	0.413			T	PLAG1	salivary adenoma								64	241	---	---	---	---	PASS
C7	730	broad.mit.edu	37	5	40945391	40945391	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:40945391G>T	uc003jmh.2	+	7	773	c.659G>T	c.(658-660)CGG>CTG	p.R220L	C7_uc011cpn.1_Intron	NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	220	MACPF.		R -> Q (in C7D).		complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				TCATCTAGTCGGAAGCGCTCC	0.313													13	38	---	---	---	---	PASS
C6	729	broad.mit.edu	37	5	41153960	41153960	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:41153960C>G	uc003jmk.2	-	15	2452	c.2242G>C	c.(2242-2244)GGG>CGG	p.G748R	C6_uc003jml.1_Missense_Mutation_p.G748R	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	748	C5b-binding domain.|Sushi 2.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				CAGGAATTCCCCTGGCATGTG	0.468													43	134	---	---	---	---	PASS
ITGA2	3673	broad.mit.edu	37	5	52340858	52340858	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:52340858A>T	uc003joy.2	+	4	466	c.323A>T	c.(322-324)GAG>GTG	p.E108V	ITGA2_uc011cqa.1_RNA|ITGA2_uc011cqb.1_RNA|ITGA2_uc011cqc.1_Missense_Mutation_p.E32V|ITGA2_uc011cqd.1_RNA|ITGA2_uc011cqe.1_RNA	NM_002203	NP_002194	P17301	ITA2_HUMAN	integrin alpha 2 precursor	108	Extracellular (Potential).|FG-GAP 2.				axon guidance|blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|organ morphogenesis	integrin complex	collagen binding|identical protein binding|receptor activity			lung(1)	1		Lung NSC(810;3.11e-05)|Breast(144;0.014)|Prostate(461;0.0181)				AATGTTACTGAGATGAAAACC	0.348													25	72	---	---	---	---	PASS
GPR98	84059	broad.mit.edu	37	5	90055301	90055301	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:90055301A>T	uc003kju.2	+	58	12112	c.12016A>T	c.(12016-12018)ATC>TTC	p.I4006F	GPR98_uc003kjt.2_Missense_Mutation_p.I1712F|GPR98_uc003kjv.2_Missense_Mutation_p.I1606F	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	4006	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TATTTCCTTGATCAGTGTTGC	0.328													4	19	---	---	---	---	PASS
ADAMTS19	171019	broad.mit.edu	37	5	129019847	129019847	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:129019847A>T	uc003kvb.1	+	18	2681	c.2681A>T	c.(2680-2682)CAC>CTC	p.H894L	ADAMTS19_uc010jdh.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	894	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		TATGGTCTTCACTATGAATAC	0.438													24	140	---	---	---	---	PASS
P4HA2	8974	broad.mit.edu	37	5	131531134	131531134	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:131531134C>G	uc003kwh.2	-	13	1975	c.1411G>C	c.(1411-1413)GAT>CAT	p.D471H	P4HA2_uc003kwg.2_Missense_Mutation_p.D469H|P4HA2_uc003kwi.2_Missense_Mutation_p.D469H|P4HA2_uc003kwk.2_Missense_Mutation_p.D469H|P4HA2_uc003kwl.2_Missense_Mutation_p.D471H|P4HA2_uc003kwj.2_Missense_Mutation_p.D469H	NM_004199	NP_004190	O15460	P4HA2_HUMAN	prolyl 4-hydroxylase, alpha II subunit isoform 1	471	Fe2OG dioxygenase.					endoplasmic reticulum lumen	electron carrier activity|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity|protein binding				0		all_cancers(142;0.103)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Proline(DB00172)|Succinic acid(DB00139)	GCCCCCAGATCAGGGAAGACG	0.493													8	75	---	---	---	---	PASS
SEPT8	23176	broad.mit.edu	37	5	132096546	132096546	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:132096546C>A	uc003kxr.2	-	9	1472	c.1234G>T	c.(1234-1236)GCC>TCC	p.A412S	SEPT8_uc003kxs.1_Missense_Mutation_p.A412S|SEPT8_uc003kxu.2_Missense_Mutation_p.A412S|SEPT8_uc011cxi.1_Missense_Mutation_p.A410S|SEPT8_uc003kxv.2_Missense_Mutation_p.A410S|SEPT8_uc003kxt.2_Missense_Mutation_p.A352S	NM_001098811	NP_001092281	Q92599	SEPT8_HUMAN	septin 8 isoform a	412	Potential.				cell cycle	septin complex	GTP binding|protein binding			ovary(2)	2		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GCGTGCAAGGCCTGCGACTGC	0.647													10	172	---	---	---	---	PASS
PCDHB8	56128	broad.mit.edu	37	5	140558302	140558302	+	Silent	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:140558302C>A	uc011dai.1	+	1	873	c.687C>A	c.(685-687)GTC>GTA	p.V229V	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	229	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTGCTCAGGTCTACATTGAAG	0.512													19	305	---	---	---	---	PASS
PCDHB12	56124	broad.mit.edu	37	5	140590088	140590088	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:140590088G>A	uc003liz.2	+	1	1798	c.1609G>A	c.(1609-1611)GGC>AGC	p.G537S	PCDHB12_uc011dak.1_Missense_Mutation_p.G200S	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	537	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CACAGACCACGGCTCCCCGGC	0.677													22	60	---	---	---	---	PASS
PCDHGA3	56112	broad.mit.edu	37	5	140724442	140724442	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:140724442T>C	uc003ljm.1	+	1	842	c.842T>C	c.(841-843)CTA>CCA	p.L281P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Missense_Mutation_p.L41P|PCDHGA3_uc011dap.1_Missense_Mutation_p.L281P	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	281	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTTATATTCTAGATAAAATG	0.448													4	53	---	---	---	---	PASS
PCDHGA4	56111	broad.mit.edu	37	5	140734863	140734863	+	Silent	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:140734863C>A	uc003ljq.1	+	1	96	c.96C>A	c.(94-96)CTC>CTA	p.L32L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Silent_p.L32L	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	32	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACAGATTCTCTACTCGGTGT	0.637													36	46	---	---	---	---	PASS
POU4F3	5459	broad.mit.edu	37	5	145719834	145719834	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:145719834G>A	uc003loa.2	+	2	933	c.844G>A	c.(844-846)GCG>ACG	p.A282T		NM_002700	NP_002691	Q15319	PO4F3_HUMAN	POU class 4 homeobox 3	282	Homeobox.				sensory perception of sound|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CACGTCCATCGCGGCGCCGGA	0.592													9	41	---	---	---	---	PASS
FAT2	2196	broad.mit.edu	37	5	150925891	150925891	+	Silent	SNP	G	A	A	rs148379892		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:150925891G>A	uc003lue.3	-	9	4810	c.4797C>T	c.(4795-4797)AGC>AGT	p.S1599S	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1599	Extracellular (Potential).|Cadherin 14.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGAAACCTTCGCTGTTCCCTG	0.458													10	51	---	---	---	---	PASS
FAT2	2196	broad.mit.edu	37	5	150929057	150929057	+	Nonsense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:150929057G>A	uc003lue.3	-	8	4601	c.4588C>T	c.(4588-4590)CAG>TAG	p.Q1530*	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1530	Extracellular (Potential).|Cadherin 13.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGTATTTCCTGGTCTCGGACC	0.498													18	36	---	---	---	---	PASS
EBF1	1879	broad.mit.edu	37	5	158141174	158141174	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:158141174C>A	uc010jip.2	-	12	1444	c.1142G>T	c.(1141-1143)AGG>ATG	p.R381M	EBF1_uc011ddw.1_Missense_Mutation_p.R249M|EBF1_uc011ddx.1_Missense_Mutation_p.R382M|EBF1_uc003lxl.3_Missense_Mutation_p.R350M	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	381					multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ATCCGCAGCCCTTTTGAGTAT	0.473			T	HMGA2	lipoma								23	209	---	---	---	---	PASS
CCNJL	79616	broad.mit.edu	37	5	159680579	159680579	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:159680579C>G	uc003lyb.1	-	7	1366	c.1114G>C	c.(1114-1116)GGG>CGG	p.G372R	CCNJL_uc011dee.1_Missense_Mutation_p.G324R|CCNJL_uc003lyc.1_RNA	NM_024565	NP_078841	Q8IV13	CCNJL_HUMAN	cyclin J-like	372						nucleus					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)			CCTGTACTCCCCGAGAGCAGG	0.632													16	66	---	---	---	---	PASS
GABRB2	2561	broad.mit.edu	37	5	160837994	160837994	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:160837994C>A	uc003lys.1	-	6	746	c.528G>T	c.(526-528)TTG>TTT	p.L176F	GABRB2_uc011deh.1_Missense_Mutation_p.L15F|GABRB2_uc003lyr.1_Missense_Mutation_p.L176F|GABRB2_uc003lyt.1_Missense_Mutation_p.L176F|GABRB2_uc010jiu.1_Missense_Mutation_p.L113F	NM_021911	NP_068711	P47870	GBRB2_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	176	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|GABA-A receptor activity				0	Renal(175;0.00259)	Medulloblastoma(196;0.021)|all_neural(177;0.0463)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	TCTCAATTTCCAAGGTGCAGT	0.478													10	110	---	---	---	---	PASS
FLT4	2324	broad.mit.edu	37	5	180043372	180043372	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:180043372C>T	uc003mma.3	-	23	3293	c.3214G>A	c.(3214-3216)GGC>AGC	p.G1072S	FLT4_uc003mlz.3_Missense_Mutation_p.G1072S	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	1072	Cytoplasmic (Potential).|Protein kinase.				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	CTCACACTGCCCTTGCGGACG	0.607									Congenital_Hereditary_Lymphedema				21	43	---	---	---	---	PASS
FLT4	2324	broad.mit.edu	37	5	180056733	180056733	+	Nonsense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:180056733G>C	uc003mma.3	-	6	858	c.779C>G	c.(778-780)TCA>TGA	p.S260*	FLT4_uc003mlz.3_Nonsense_Mutation_p.S260*|FLT4_uc003mmb.1_5'Flank|FLT4_uc011dgy.1_Nonsense_Mutation_p.S260*|FLT4_uc011dgz.1_Nonsense_Mutation_p.S260*|FLT4_uc011dha.1_3'UTR	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	260	Ig-like C2-type 3.|Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	GGTGACACCTGAGTTAAACTC	0.587									Congenital_Hereditary_Lymphedema				5	18	---	---	---	---	PASS
BTNL9	153579	broad.mit.edu	37	5	180474980	180474980	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr5:180474980G>A	uc003mmt.2	+	3	394	c.163G>A	c.(163-165)GTG>ATG	p.V55M	BTNL9_uc011dhi.1_Translation_Start_Site	NM_152547	NP_689760	Q6UXG8	BTNL9_HUMAN	butyrophilin-like 9 precursor	55	Extracellular (Potential).|Ig-like V-type.					integral to membrane				ovary(1)|central_nervous_system(1)	2	all_cancers(89;2.45e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CGGGGAGGAGGTGGAGTTCCC	0.557													20	37	---	---	---	---	PASS
HUS1B	135458	broad.mit.edu	37	6	656563	656563	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:656563C>A	uc003mtg.2	-	1	402	c.382G>T	c.(382-384)GTG>TTG	p.V128L	EXOC2_uc003mtd.2_Intron|EXOC2_uc003mte.2_Intron|EXOC2_uc011dho.1_Intron	NM_148959	NP_683762	Q8NHY5	HUS1B_HUMAN	HUS1 checkpoint protein B	128											0	Ovarian(93;0.0733)	Breast(5;0.00139)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.041)|BRCA - Breast invasive adenocarcinoma(62;0.0965)		TCGTGCACCACGCTGCGAGCG	0.741													6	30	---	---	---	---	PASS
PECI	10455	broad.mit.edu	37	6	4131009	4131009	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:4131009G>A	uc003mwf.2	-	3	341	c.304C>T	c.(304-306)CTG>TTG	p.L102L	PECI_uc003mwc.2_5'UTR|PECI_uc003mwd.2_Silent_p.L72L|PECI_uc003mwe.2_5'UTR|PECI_uc010jnr.1_RNA	NM_206836	NP_996667	O75521	ECI2_HUMAN	peroxisomal D3,D2-enoyl-CoA isomerase isoform 2	102	ACB.				fatty acid metabolic process	mitochondrion|peroxisomal matrix	dodecenoyl-CoA delta-isomerase activity|fatty-acyl-CoA binding				0	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				ACCTTGGGCAGGCTGCCAAGG	0.438													30	173	---	---	---	---	PASS
GMPR	2766	broad.mit.edu	37	6	16290709	16290709	+	Silent	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:16290709T>C	uc003nbs.2	+	8	828	c.714T>C	c.(712-714)TTT>TTC	p.F238F		NM_006877	NP_006868	P36959	GMPR1_HUMAN	guanosine monophosphate reductase	238					nucleotide metabolic process|purine base metabolic process|purine-containing compound salvage|response to cold	cytosol	GMP reductase activity|metal ion binding			ovary(1)	1	Breast(50;0.0427)|Ovarian(93;0.103)	all_hematologic(90;0.0895)				GAGCAGATTTTGTCATGCTGG	0.512													231	322	---	---	---	---	PASS
HIST1H2AM	8336	broad.mit.edu	37	6	27860915	27860915	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:27860915C>T	uc003nkb.1	-	1	49	c.13G>A	c.(13-15)GGC>AGC	p.G5S	HIST1H3J_uc003nka.2_5'Flank|HIST1H2BO_uc003nkc.1_5'Flank	NM_003514	NP_003505	P0C0S8	H2A1_HUMAN	histone cluster 1, H2am	5					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding			ovary(2)	2						CCCTGCTTGCCACGTCCAGAC	0.577													22	43	---	---	---	---	PASS
HIST1H2BO	8348	broad.mit.edu	37	6	27861469	27861469	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:27861469G>A	uc003nkc.1	+	1	267	c.229G>A	c.(229-231)GAG>AAG	p.E77K	HIST1H3J_uc003nka.2_5'Flank|HIST1H2AM_uc003nkb.1_5'Flank	NM_003527	NP_003518	P23527	H2B1O_HUMAN	histone cluster 1, H2bo	77					nucleosome assembly	nucleosome|nucleus	DNA binding				0						CATCGCTGGCGAGGCTTCCCG	0.617													63	102	---	---	---	---	PASS
ZKSCAN4	387032	broad.mit.edu	37	6	28213023	28213023	+	Silent	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:28213023A>G	uc003nks.1	-	5	1753	c.1509T>C	c.(1507-1509)ATT>ATC	p.I503I	ZKSCAN4_uc011dlb.1_Silent_p.I348I	NM_019110	NP_061983	Q969J2	ZKSC4_HUMAN	zinc finger with KRAB and SCAN domains 4	503	C2H2-type 6.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						TCTGATGTTCAATAAGACTTC	0.433													78	110	---	---	---	---	PASS
C6orf134	79969	broad.mit.edu	37	6	30610730	30610730	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:30610730G>A	uc003nqu.2	+	10	960	c.910G>A	c.(910-912)GCC>ACC	p.A304T	C6orf134_uc003nqr.3_Missense_Mutation_p.A304T|C6orf134_uc003rdc.2_Missense_Mutation_p.A304T|C6orf134_uc003nqs.3_Missense_Mutation_p.A281T|C6orf134_uc003rdd.2_Missense_Mutation_p.A281T|C6orf134_uc003nqt.2_Intron|C6orf134_uc011dmm.1_Missense_Mutation_p.A269T|C6orf134_uc003nqv.2_Missense_Mutation_p.A292T	NM_024909	NP_079185	Q5SQI0	ATAT_HUMAN	hypothetical protein LOC79969 isoform 2	304							tubulin N-acetyltransferase activity				0						ACACCCTACCGCCCGCCTTCT	0.622													29	208	---	---	---	---	PASS
TNXB	7148	broad.mit.edu	37	6	32023670	32023670	+	Nonsense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:32023670C>A	uc003nzl.2	-	24	8627	c.8425G>T	c.(8425-8427)GAG>TAG	p.E2809*		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2867	Fibronectin type-III 20.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CGCCGCCCCTCGTGGAGGCCG	0.637													12	49	---	---	---	---	PASS
ITPR3	3710	broad.mit.edu	37	6	33638469	33638469	+	Silent	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:33638469G>T	uc011drk.1	+	20	2682	c.2463G>T	c.(2461-2463)GCG>GCT	p.A821A		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	821	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						ACCTCAACGCGTCCCGAGATG	0.587													30	115	---	---	---	---	PASS
FANCE	2178	broad.mit.edu	37	6	35423605	35423605	+	Silent	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:35423605G>T	uc003oko.1	+	2	515	c.330G>T	c.(328-330)CCG>CCT	p.P110P	FANCE_uc010jvw.1_Silent_p.P110P	NM_021922	NP_068741	Q9HB96	FANCE_HUMAN	Fanconi anemia, complementation group E	110					DNA repair	nucleoplasm	protein binding			ovary(1)|lung(1)|skin(1)	3						CATCGCTGCCGGAAAGTGGGC	0.617			N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				19	63	---	---	---	---	PASS
DNAH8	1769	broad.mit.edu	37	6	38838312	38838312	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:38838312C>T	uc003ooe.1	+	47	6913	c.6313C>T	c.(6313-6315)CCA>TCA	p.P2105S		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GATTAACCATCCACCCTGGAA	0.388													35	46	---	---	---	---	PASS
DNAH8	1769	broad.mit.edu	37	6	38913256	38913256	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:38913256G>A	uc003ooe.1	+	78	11970	c.11370G>A	c.(11368-11370)CTG>CTA	p.L3790L	DNAH8_uc003oog.1_Silent_p.L239L|uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GAGCAGCTCTGGACCTGAAAG	0.448													52	105	---	---	---	---	PASS
KCNK16	83795	broad.mit.edu	37	6	39290233	39290233	+	Silent	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:39290233A>G	uc003ooq.2	-	1	98	c.84T>C	c.(82-84)GGT>GGC	p.G28G	KCNK16_uc003oor.3_Silent_p.G28G|KCNK16_uc010jwy.2_Silent_p.G28G|KCNK16_uc011dtz.1_Silent_p.G28G	NM_032115	NP_115491	Q96T55	KCNKG_HUMAN	potassium channel, subfamily K, member 16	28	Helical; (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(1)	3						AGATAGTGGCACCGAGCAGCA	0.637													6	23	---	---	---	---	PASS
TDRD6	221400	broad.mit.edu	37	6	46659204	46659204	+	Silent	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:46659204G>T	uc003oyj.2	+	1	3339	c.3339G>T	c.(3337-3339)GTG>GTT	p.V1113V	TDRD6_uc010jze.2_Silent_p.V1107V	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	1113					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			AAGTGGTGGTGTGGTTTCAGG	0.368													97	143	---	---	---	---	PASS
FBXO9	26268	broad.mit.edu	37	6	52945894	52945894	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:52945894C>T	uc003pbo.2	+	6	617	c.566C>T	c.(565-567)TCA>TTA	p.S189L	FBXO9_uc003pbk.2_Missense_Mutation_p.S145L|FBXO9_uc003pbl.2_Missense_Mutation_p.S179L|FBXO9_uc003pbm.2_Missense_Mutation_p.S69L|FBXO9_uc003pbn.2_Missense_Mutation_p.S69L	NM_012347	NP_036479	Q9UK97	FBX9_HUMAN	F-box only protein 9 isoform 1	189	F-box.					ubiquitin ligase complex	ubiquitin-protein ligase activity			pancreas(1)	1	Lung NSC(77;0.103)					ATTCACATATCAGGTGTGAAT	0.388													53	80	---	---	---	---	PASS
GFRAL	389400	broad.mit.edu	37	6	55216280	55216280	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:55216280G>T	uc003pcm.1	+	5	686	c.600G>T	c.(598-600)CAG>CAT	p.Q200H		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	200	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			CTTGTCAGCAGTCCAAAGAAG	0.438													42	199	---	---	---	---	PASS
PRIM2	5558	broad.mit.edu	37	6	57472429	57472429	+	Silent	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:57472429A>G	uc003pdx.2	+	13	1305	c.1218A>G	c.(1216-1218)GGA>GGG	p.G406G		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	406					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		TCTCTCCTGGAGGGATAAGCC	0.448													7	52	---	---	---	---	PASS
OOEP	441161	broad.mit.edu	37	6	74104640	74104640	+	Translation_Start_Site	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:74104640C>T	uc003pgv.3	-	1	177	c.-316G>A	c.(-318--314)CCGTG>CCATG		DDX43_uc011dyn.1_RNA|DDX43_uc003pgw.2_Silent_p.H4H	NM_001080507	NP_001073976	A6NGQ2	OOEP_HUMAN	oocyte expressed protein homolog							cytoplasm					0						TGTCCCACCACGGAGGAGCTC	0.632													21	98	---	---	---	---	PASS
SENP6	26054	broad.mit.edu	37	6	76388391	76388391	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:76388391C>T	uc003pid.3	+	15	2560	c.1941C>T	c.(1939-1941)TTC>TTT	p.F647F	SENP6_uc003pie.3_Silent_p.F640F|SENP6_uc010kbf.2_RNA|SENP6_uc003pic.2_Silent_p.F640F|SENP6_uc003pif.1_Silent_p.F538F	NM_015571	NP_056386	Q9GZR1	SENP6_HUMAN	SUMO1/sentrin specific peptidase 6 isoform 1	647					proteolysis	cytoplasm|nucleus	cysteine-type peptidase activity			breast(2)|urinary_tract(1)|ovary(1)|lung(1)|skin(1)	6		all_hematologic(105;0.189)				ACACCATCTTCATTGGCCCAG	0.299													167	111	---	---	---	---	PASS
SIM1	6492	broad.mit.edu	37	6	100838798	100838798	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:100838798G>T	uc003pqj.3	-	11	1947	c.1740C>A	c.(1738-1740)AAC>AAA	p.N580K	SIM1_uc010kcu.2_Missense_Mutation_p.N580K	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	580	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		GCTGTAATCTGTTCTCTTCTT	0.448													100	87	---	---	---	---	PASS
SIM1	6492	broad.mit.edu	37	6	100838801	100838801	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:100838801C>T	uc003pqj.3	-	11	1944	c.1737G>A	c.(1735-1737)GAG>GAA	p.E579E	SIM1_uc010kcu.2_Silent_p.E579E	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	579	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity	p.E579D(1)		ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		GTAATCTGTTCTCTTCTTCTT	0.448													30	161	---	---	---	---	PASS
GRIK2	2898	broad.mit.edu	37	6	102337543	102337543	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:102337543C>T	uc003pqp.3	+	11	1802	c.1553C>T	c.(1552-1554)GCT>GTT	p.A518V	GRIK2_uc003pqn.2_Missense_Mutation_p.A518V|GRIK2_uc003pqo.3_Missense_Mutation_p.A518V|GRIK2_uc010kcw.2_Missense_Mutation_p.A518V	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	518	Glutamate binding (By similarity).|Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	GCTCCACTGGCTATTACCTAT	0.353													39	175	---	---	---	---	PASS
SESN1	27244	broad.mit.edu	37	6	109321750	109321750	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:109321750C>T	uc003pst.3	-	4	588	c.496G>A	c.(496-498)GAA>AAA	p.E166K	SESN1_uc003psu.2_Missense_Mutation_p.E225K	NM_014454	NP_055269	Q9Y6P5	SESN1_HUMAN	sestrin 1	166					cell cycle arrest|negative regulation of cell proliferation|response to DNA damage stimulus	nucleus				ovary(1)	1		all_cancers(87;6.45e-05)|Acute lymphoblastic leukemia(125;3.55e-10)|all_hematologic(75;1.68e-07)|all_epithelial(87;0.0106)|Colorectal(196;0.0637)		Epithelial(106;0.0014)|BRCA - Breast invasive adenocarcinoma(108;0.00146)|all cancers(137;0.0031)|OV - Ovarian serous cystadenocarcinoma(136;0.0117)		TTGTTAAGTTCTCCTAAATTC	0.403													34	287	---	---	---	---	PASS
PPIL6	285755	broad.mit.edu	37	6	109757363	109757363	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:109757363T>C	uc003ptg.3	-	2	229	c.175A>G	c.(175-177)ATA>GTA	p.I59V	PPIL6_uc010kdo.2_Intron|PPIL6_uc010kdp.2_Missense_Mutation_p.I59V	NM_173672	NP_775943	Q8IXY8	PPIL6_HUMAN	peptidylprolyl isomerase-like 6 isoform 1	59					protein folding		peptidyl-prolyl cis-trans isomerase activity				0		all_cancers(87;1.1e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000144)|all_lung(197;0.0221)|Colorectal(196;0.0488)|Lung SC(18;0.0548)		Epithelial(106;0.00684)|BRCA - Breast invasive adenocarcinoma(108;0.00889)|all cancers(137;0.0106)|OV - Ovarian serous cystadenocarcinoma(136;0.0259)		GGAACTAATATAGGATCTTCA	0.328													411	122	---	---	---	---	PASS
RFX6	222546	broad.mit.edu	37	6	117248364	117248364	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:117248364C>T	uc003pxm.2	+	17	2123	c.2060C>T	c.(2059-2061)CCC>CTC	p.P687L		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	687					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						CCCATTTATCCCACTCTCCCT	0.522													30	245	---	---	---	---	PASS
CENPW	387103	broad.mit.edu	37	6	126661455	126661455	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:126661455G>C	uc003qao.2	+	1	203	c.36G>C	c.(34-36)CAG>CAC	p.Q12H	CENPW_uc003qap.3_RNA	NM_001012507	NP_001012525	Q5EE01	CENPW_HUMAN	hypothetical protein LOC387103	12						chromosome, centromeric region|nucleus	DNA binding				0						AGAGGAAGCAGATAAAGCGGA	0.532													82	59	---	---	---	---	PASS
ENPP1	5167	broad.mit.edu	37	6	132198239	132198239	+	Missense_Mutation	SNP	C	A	A	rs79079368	byFrequency	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:132198239C>A	uc011ecf.1	+	18	1851	c.1831C>A	c.(1831-1833)CTG>ATG	p.L611M	ENPP1_uc003qcy.2_Missense_Mutation_p.L241M	NM_006208	NP_006199	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	611	Extracellular (Potential).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|biomineral tissue development|cellular phosphate ion homeostasis|cellular response to insulin stimulus|generation of precursor metabolites and energy|immune response|inorganic diphosphate transport|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of protein autophosphorylation|nucleoside triphosphate catabolic process|phosphate metabolic process|sequestering of triglyceride|water-soluble vitamin metabolic process	basolateral plasma membrane|cell surface|extracellular space|integral to membrane	ATP binding|insulin receptor binding|metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|protein homodimerization activity|scavenger receptor activity			upper_aerodigestive_tract(2)|ovary(2)	4	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	AGTGCACCCCCTGGTACAGTG	0.463													16	117	---	---	---	---	PASS
AHI1	54806	broad.mit.edu	37	6	135769594	135769594	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:135769594T>C	uc003qgi.2	-	12	1844	c.1460A>G	c.(1459-1461)AAT>AGT	p.N487S	AHI1_uc003qgg.2_5'UTR|AHI1_uc003qgh.2_Missense_Mutation_p.N487S|AHI1_uc003qgj.2_Missense_Mutation_p.N487S|AHI1_uc003qgk.3_RNA|AHI1_uc003qgl.3_Missense_Mutation_p.N487S	NM_001134831	NP_001128303	Q8N157	AHI1_HUMAN	Abelson helper integration site 1 isoform a	487						adherens junction|cilium|microtubule basal body				ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.239)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00904)|OV - Ovarian serous cystadenocarcinoma(155;0.00991)		GATGTTTGCATTTCCATTGGC	0.348													24	200	---	---	---	---	PASS
MAP3K5	4217	broad.mit.edu	37	6	136934373	136934373	+	Missense_Mutation	SNP	C	T	T	rs114243010	by1000genomes	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:136934373C>T	uc003qhc.2	-	17	2661	c.2300G>A	c.(2299-2301)CGT>CAT	p.R767H	MAP3K5_uc011edj.1_Missense_Mutation_p.R14H|MAP3K5_uc011edk.1_Missense_Mutation_p.R612H	NM_005923	NP_005914	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase	767	Protein kinase.				activation of JUN kinase activity|activation of MAPKK activity|cellular response to hydrogen peroxide|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)|skin(2)|lung(1)	5	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)		CCATTTGGAACGAAGGAGAGC	0.318													17	185	---	---	---	---	PASS
RPS6KA2	6196	broad.mit.edu	37	6	166923830	166923830	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:166923830C>T	uc003qvb.1	-	4	533	c.314G>A	c.(313-315)AGA>AAA	p.R105K	RPS6KA2_uc011ego.1_Missense_Mutation_p.R16K|RPS6KA2_uc010kkl.1_Missense_Mutation_p.R16K|RPS6KA2_uc003qvc.1_Missense_Mutation_p.R113K|RPS6KA2_uc003qvd.1_Missense_Mutation_p.R130K|MIR1913_hsa-mir-1913|MI0008334_5'Flank	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	105	Protein kinase 1.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		CATCTTCGATCTCACTCGGTC	0.398													4	123	---	---	---	---	PASS
TTYH3	80727	broad.mit.edu	37	7	2686580	2686580	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:2686580C>T	uc003smp.2	+	2	404	c.217C>T	c.(217-219)CGC>TGC	p.R73C	TTYH3_uc010ksn.2_5'Flank|TTYH3_uc003smq.2_5'Flank	NM_025250	NP_079526	Q9C0H2	TTYH3_HUMAN	tweety 3	73	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;2.04e-14)		CTGCCGGCGGCGCAAGAGCGA	0.617													4	17	---	---	---	---	PASS
SDK1	221935	broad.mit.edu	37	7	4116674	4116674	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:4116674C>T	uc003smx.2	+	21	3194	c.3055C>T	c.(3055-3057)CTC>TTC	p.L1019F	SDK1_uc010kso.2_Missense_Mutation_p.L295F	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1019	Fibronectin type-III 4.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CGACTCTCGTCTCACGCACAC	0.572													5	48	---	---	---	---	PASS
HDAC9	9734	broad.mit.edu	37	7	18684299	18684299	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:18684299G>A	uc003suh.2	+	8	950	c.909G>A	c.(907-909)ATG>ATA	p.M303I	HDAC9_uc003sue.2_Missense_Mutation_p.M303I|HDAC9_uc011jyd.1_Missense_Mutation_p.M303I|HDAC9_uc003sui.2_Missense_Mutation_p.M306I|HDAC9_uc003suj.2_Missense_Mutation_p.M262I|HDAC9_uc011jya.1_Missense_Mutation_p.M300I|HDAC9_uc003sua.1_Missense_Mutation_p.M281I|HDAC9_uc011jyb.1_Missense_Mutation_p.M259I|HDAC9_uc003sud.1_Missense_Mutation_p.M303I|HDAC9_uc011jyc.1_Missense_Mutation_p.M262I|HDAC9_uc003suf.1_Missense_Mutation_p.M334I|HDAC9_uc010kud.1_Missense_Mutation_p.M306I|HDAC9_uc011jye.1_Missense_Mutation_p.M275I|HDAC9_uc011jyf.1_Missense_Mutation_p.M226I|HDAC9_uc010kue.1_Missense_Mutation_p.M46I	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	303	Interaction with MAPK10 (By similarity).				B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	AACAGCAAATGGTTTCACAGC	0.373													28	66	---	---	---	---	PASS
STK31	56164	broad.mit.edu	37	7	23757152	23757152	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:23757152T>A	uc003sws.3	+	4	270	c.203T>A	c.(202-204)GTT>GAT	p.V68D	STK31_uc003swt.3_Missense_Mutation_p.V45D|STK31_uc011jze.1_Missense_Mutation_p.V68D|STK31_uc010kuq.2_Missense_Mutation_p.V45D	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	68							ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						CTGTCTGAAGTTTGCCCCCAG	0.353													24	41	---	---	---	---	PASS
TAX1BP1	8887	broad.mit.edu	37	7	27833973	27833973	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:27833973C>T	uc003szl.2	+	11	1600	c.1442C>T	c.(1441-1443)ACG>ATG	p.T481M	TAX1BP1_uc011jzo.1_Missense_Mutation_p.T481M|TAX1BP1_uc003szk.2_Missense_Mutation_p.T481M|TAX1BP1_uc011jzp.1_Missense_Mutation_p.T324M	NM_006024	NP_006015	Q86VP1	TAXB1_HUMAN	Tax1 (human T-cell leukemia virus type I)	481	Potential.				anti-apoptosis|apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production	cytosol	identical protein binding|kinase binding|zinc ion binding			breast(1)	1			GBM - Glioblastoma multiforme(3;0.0823)			ACAAAGAAAACGGGGAATCAG	0.353													18	79	---	---	---	---	PASS
NOD1	10392	broad.mit.edu	37	7	30492316	30492316	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:30492316G>A	uc003tav.2	-	6	1240	c.717C>T	c.(715-717)TTC>TTT	p.F239F	NOD1_uc010kvs.2_Intron	NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	239	NACHT.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						TGAAGCAGCTGAACATGCGGC	0.597													46	103	---	---	---	---	PASS
TXNDC3	51314	broad.mit.edu	37	7	37890021	37890021	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:37890021G>T	uc003tfn.2	+	4	447	c.75G>T	c.(73-75)CAG>CAT	p.Q25H		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	25	Thioredoxin.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						AGATGTTGCAGAACAAAGGCT	0.502									Kartagener_syndrome				91	188	---	---	---	---	PASS
AMPH	273	broad.mit.edu	37	7	38431426	38431426	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:38431426G>T	uc003tgu.2	-	19	1870	c.1801C>A	c.(1801-1803)CCA>ACA	p.P601T	AMPH_uc003tgv.2_Missense_Mutation_p.P559T|AMPH_uc003tgt.2_Missense_Mutation_p.P486T|AMPH_uc003tgw.1_Missense_Mutation_p.P624T|AMPH_uc010kxl.1_RNA	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	601					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						CCCATGGCTGGTGCAGAAGGC	0.597													16	61	---	---	---	---	PASS
HECW1	23072	broad.mit.edu	37	7	43351583	43351583	+	Silent	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:43351583C>A	uc003tid.1	+	4	854	c.249C>A	c.(247-249)GTC>GTA	p.V83V	HECW1_uc011kbi.1_Silent_p.V83V|HECW1_uc003tie.1_Silent_p.V115V	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	83					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						CGCTCATGGTCAGCAGCTCCT	0.612													25	63	---	---	---	---	PASS
URGCP	55665	broad.mit.edu	37	7	43918403	43918403	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:43918403G>A	uc003tiw.2	-	6	716	c.659C>T	c.(658-660)TCG>TTG	p.S220L	URGCP_uc003tiu.2_Missense_Mutation_p.S177L|URGCP_uc003tiv.2_Missense_Mutation_p.S145L|URGCP_uc003tix.2_Missense_Mutation_p.S211L|URGCP_uc003tiy.2_Missense_Mutation_p.S177L|URGCP_uc003tiz.2_Missense_Mutation_p.S177L|URGCP_uc011kbj.1_Missense_Mutation_p.S177L	NM_001077663	NP_001071131	Q8TCY9	URGCP_HUMAN	up-regulated gene 4 isoform 3	220					cell cycle	centrosome|nucleus	GTP binding			ovary(2)|liver(1)|skin(1)	4						GTGGTTCTCCGAGTCAGGCAA	0.572													11	40	---	---	---	---	PASS
C7orf57	136288	broad.mit.edu	37	7	48083169	48083169	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:48083169G>A	uc003toh.3	+	4	545	c.333G>A	c.(331-333)CCG>CCA	p.P111P	C7orf57_uc003toi.3_5'UTR	NM_001100159	NP_001093629	Q8NEG2	CG057_HUMAN	hypothetical protein LOC136288	111										ovary(1)	1						GCAAGCCACCGACAGCCAGCC	0.423													5	18	---	---	---	---	PASS
ASL	435	broad.mit.edu	37	7	65554683	65554683	+	Splice_Site	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:65554683G>T	uc003tuo.2	+	14	1173	c.1062_splice	c.e14+1	p.Q354_splice	ASL_uc003tup.2_Splice_Site_p.Q354_splice|ASL_uc003tur.2_Splice_Site_p.Q328_splice|ASL_uc003tuq.2_Splice_Site_p.Q334_splice	NM_000048	NP_000039	P04424	ARLY_HUMAN	argininosuccinate lyase isoform 1						arginine biosynthetic process via ornithine|arginine catabolic process|urea cycle	cytosol	argininosuccinate lyase activity			breast(2)	2					L-Arginine(DB00125)	TACGCTGCAGGCAAGACATCA	0.632													6	27	---	---	---	---	PASS
WBSCR17	64409	broad.mit.edu	37	7	71177092	71177092	+	Nonsense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:71177092C>A	uc003tvy.2	+	11	1758	c.1758C>A	c.(1756-1758)TGC>TGA	p.C586*	WBSCR17_uc003tvz.2_Nonsense_Mutation_p.C285*	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	586	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				TCCGCAGCTGCACAGGTCAGA	0.632													29	122	---	---	---	---	PASS
HGF	3082	broad.mit.edu	37	7	81350087	81350087	+	Nonsense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:81350087C>T	uc003uhl.2	-	10	1410	c.1245G>A	c.(1243-1245)TGG>TGA	p.W415*	HGF_uc003uhm.2_Nonsense_Mutation_p.W410*	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	415	Kringle 4.				epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						TGTTCTTGTCCCACATTGAAC	0.333													27	65	---	---	---	---	PASS
CROT	54677	broad.mit.edu	37	7	86998748	86998748	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:86998748G>T	uc003uit.2	+	7	849	c.604G>T	c.(604-606)GTC>TTC	p.V202F	CROT_uc003uiu.2_Missense_Mutation_p.V230F	NM_021151	NP_066974	Q9UKG9	OCTC_HUMAN	peroxisomal carnitine O-octanoyltransferase	202					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|transport	peroxisomal matrix	carnitine O-octanoyltransferase activity			ovary(2)|lung(1)	3	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)	CCGAGCTTTTGTCTTTGATGT	0.433													39	232	---	---	---	---	PASS
ABCB1	5243	broad.mit.edu	37	7	87170770	87170770	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:87170770C>A	uc003uiz.1	-	19	2640	c.2222G>T	c.(2221-2223)AGA>ATA	p.R741I	ABCB1_uc011khc.1_Missense_Mutation_p.R677I	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	741	ABC transmembrane type-1 2.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	ATCATCAATTCTTGTAAAAAC	0.358													23	132	---	---	---	---	PASS
ADAM22	53616	broad.mit.edu	37	7	87737555	87737555	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:87737555C>T	uc003ujn.2	+	5	534	c.455C>T	c.(454-456)TCA>TTA	p.S152L	ADAM22_uc003uji.1_Missense_Mutation_p.S151L|ADAM22_uc003ujj.1_Missense_Mutation_p.S152L|ADAM22_uc003ujk.1_Missense_Mutation_p.S152L|ADAM22_uc003ujl.1_Missense_Mutation_p.S152L|ADAM22_uc003ujm.2_Missense_Mutation_p.S152L|ADAM22_uc003ujo.2_Missense_Mutation_p.S152L|ADAM22_uc003ujp.1_Missense_Mutation_p.S204L	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	152					cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			GTTGCATTGTCAACATGCCAC	0.348													16	83	---	---	---	---	PASS
ZNF804B	219578	broad.mit.edu	37	7	88963235	88963235	+	Silent	SNP	A	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:88963235A>C	uc011khi.1	+	4	1477	c.939A>C	c.(937-939)ACA>ACC	p.T313T		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	313						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TTGATGAGACACTAGAAGATT	0.343										HNSCC(36;0.09)			20	76	---	---	---	---	PASS
CCDC132	55610	broad.mit.edu	37	7	92978023	92978023	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:92978023G>A	uc003umo.2	+	24	2336	c.2208G>A	c.(2206-2208)TTG>TTA	p.L736L	CCDC132_uc003umq.2_RNA|CCDC132_uc003ump.2_Silent_p.L706L|CCDC132_uc003umr.2_RNA|CCDC132_uc011khz.1_Silent_p.L456L	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	736											0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			TTCCCTTTAGGGTATTCTTGG	0.393													23	127	---	---	---	---	PASS
CCDC132	55610	broad.mit.edu	37	7	92983001	92983001	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:92983001G>T	uc003umo.2	+	26	2641	c.2513G>T	c.(2512-2514)CGC>CTC	p.R838L	CCDC132_uc003umq.2_RNA|CCDC132_uc003ump.2_Missense_Mutation_p.R808L|CCDC132_uc003umr.2_RNA|CCDC132_uc011khz.1_Missense_Mutation_p.R558L	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	838											0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			AAGAGAGTTCGCATACCCTTG	0.348													45	193	---	---	---	---	PASS
CALCR	799	broad.mit.edu	37	7	93101770	93101770	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:93101770C>A	uc003umv.1	-	6	661	c.400G>T	c.(400-402)GGT>TGT	p.G134C	CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Missense_Mutation_p.G116C|CALCR_uc003umw.2_Missense_Mutation_p.G116C	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	116	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	AACCAAACACCTTTTTCATCA	0.323													36	127	---	---	---	---	PASS
NRCAM	4897	broad.mit.edu	37	7	107824691	107824691	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:107824691C>T	uc003vfb.2	-	22	2769	c.2298G>A	c.(2296-2298)ACG>ACA	p.T766T	NRCAM_uc003vfc.2_Silent_p.T750T|NRCAM_uc011kmk.1_Silent_p.T761T|NRCAM_uc003vfd.2_Silent_p.T742T|NRCAM_uc003vfe.2_Silent_p.T742T	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	766	Fibronectin type-III 2.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						TCACCTTCCACGTAATCACCA	0.378													23	116	---	---	---	---	PASS
WNT2	7472	broad.mit.edu	37	7	116955210	116955210	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:116955210G>A	uc003viz.2	-	3	803	c.503C>T	c.(502-504)GCC>GTC	p.A168V	WNT2_uc003vja.2_Missense_Mutation_p.A72V	NM_003391	NP_003382	P09544	WNT2_HUMAN	wingless-type MMTV integration site family	168					atrial cardiac muscle tissue morphogenesis|canonical Wnt receptor signaling pathway|cardiac epithelial to mesenchymal transition|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|dorsal/ventral axis specification|iris morphogenesis|labyrinthine layer blood vessel development|lens development in camera-type eye|lung induction|mammary gland epithelium development|neuron differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of fibroblast proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|proteinaceous extracellular matrix	cytokine activity|frizzled binding|frizzled-2 binding|signal transducer activity			breast(2)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	7	all_epithelial(6;2.24e-06)|Lung NSC(10;0.000936)|all_lung(10;0.00109)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		AAATGCGCGGGCAAATTTGAT	0.433													43	139	---	---	---	---	PASS
RNF148	378925	broad.mit.edu	37	7	122342406	122342406	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:122342406T>A	uc003vkk.1	-	1	616	c.399A>T	c.(397-399)CAA>CAT	p.Q133H	CADPS2_uc010lkp.2_Intron|CADPS2_uc010lkq.2_Intron|RNF148_uc010lkr.1_Intron	NM_198085	NP_932351	Q8N7C7	RN148_HUMAN	ring finger protein 148 precursor	133	PA.					integral to membrane	zinc ion binding				0						TGCCCGTACCTTGATAGTTGT	0.473													217	351	---	---	---	---	PASS
MKRN1	23608	broad.mit.edu	37	7	140159596	140159596	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:140159596C>T	uc003vvt.2	-	3	680	c.455G>A	c.(454-456)AGA>AAA	p.R152K	MKRN1_uc003vvs.2_Missense_Mutation_p.R88K|MKRN1_uc011krd.1_Intron|MKRN1_uc003vvv.3_Missense_Mutation_p.R152K|MKRN1_uc003vvu.3_Missense_Mutation_p.R88K	NM_013446	NP_038474	Q9UHC7	MKRN1_HUMAN	makorin ring finger protein 1 isoform 1	152							ligase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.00956)					GTTTGAATTTCTTGACTCAGC	0.453													41	140	---	---	---	---	PASS
CNTNAP2	26047	broad.mit.edu	37	7	147092721	147092721	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:147092721A>T	uc003weu.1	+	10	2035	c.1519A>T	c.(1519-1521)AAC>TAC	p.N507Y		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	507	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CCAGATGAATAACTCAAGTCA	0.398										HNSCC(39;0.1)			110	211	---	---	---	---	PASS
GIMAP6	474344	broad.mit.edu	37	7	150327164	150327164	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr7:150327164C>T	uc003whn.2	-	2	491	c.67G>A	c.(67-69)GTG>ATG	p.V23M	GIMAP6_uc003whm.2_Silent_p.L17L	NM_024711	NP_078987	Q6P9H5	GIMA6_HUMAN	GTPase, IMAP family member 6	23							GTP binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		AGCTCCAGCACAGGATCCTGG	0.453													11	359	---	---	---	---	PASS
GPR124	25960	broad.mit.edu	37	8	37697643	37697643	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:37697643G>A	uc003xkj.2	+	17	2879	c.2516G>A	c.(2515-2517)GGC>GAC	p.G839D	GPR124_uc010lvy.2_Missense_Mutation_p.G622D	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	839	Helical; Name=3; (Potential).				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			CCGCAGGTGGGCATCACCCTG	0.652													5	299	---	---	---	---	PASS
WHSC1L1	54904	broad.mit.edu	37	8	38133958	38133958	+	Nonsense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:38133958G>A	uc003xli.2	-	23	4446	c.3928C>T	c.(3928-3930)CGA>TGA	p.R1310*	WHSC1L1_uc011lbm.1_Nonsense_Mutation_p.R1299*|WHSC1L1_uc010lwe.2_Nonsense_Mutation_p.R1261*|WHSC1L1_uc003xlh.2_Nonsense_Mutation_p.R89*	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	1310					cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			TTGATCTTTCGTCTCTTCTGT	0.403			T	NUP98	AML								20	312	---	---	---	---	PASS
RP1	6101	broad.mit.edu	37	8	55539409	55539409	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:55539409G>T	uc003xsd.1	+	4	3115	c.2967G>T	c.(2965-2967)GAG>GAT	p.E989D	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	989					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TATGTAAAGAGGGAGATAAGT	0.368													51	232	---	---	---	---	PASS
ARMC1	55156	broad.mit.edu	37	8	66525598	66525598	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:66525598C>T	uc003xvl.2	-	4	581	c.346G>A	c.(346-348)GCA>ACA	p.A116T	ARMC1_uc011leo.1_Intron	NM_018120	NP_060590	Q9NVT9	ARMC1_HUMAN	armadillo repeat-containing protein	116					metal ion transport		metal ion binding			skin(1)	1			Epithelial(68;0.103)|OV - Ovarian serous cystadenocarcinoma(28;0.235)			TCACCATCTGCCATATTGGAG	0.363													65	131	---	---	---	---	PASS
C8orf84	157869	broad.mit.edu	37	8	73979670	73979670	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:73979670G>A	uc003xzf.2	-	5	906	c.701C>T	c.(700-702)GCA>GTA	p.A234V		NM_153225	NP_694957	Q8IVN8	RPESP_HUMAN	RPE-spondin precursor	234					immune response	extracellular region	polysaccharide binding|scavenger receptor activity				0						ATTACCAATTGCTTGCCAATG	0.378													51	91	---	---	---	---	PASS
ZFHX4	79776	broad.mit.edu	37	8	77764043	77764043	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:77764043G>T	uc003yav.2	+	10	5138	c.4751G>T	c.(4750-4752)AGT>ATT	p.S1584I	ZFHX4_uc003yau.1_Missense_Mutation_p.S1629I|ZFHX4_uc003yaw.1_Missense_Mutation_p.S1584I	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1584						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CTGGAGCCCAGTGGTCATGTG	0.507										HNSCC(33;0.089)			41	57	---	---	---	---	PASS
ZFHX4	79776	broad.mit.edu	37	8	77767662	77767662	+	Silent	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:77767662G>T	uc003yav.2	+	10	8757	c.8370G>T	c.(8368-8370)CCG>CCT	p.P2790P	ZFHX4_uc003yau.1_Silent_p.P2835P|ZFHX4_uc003yaw.1_Silent_p.P2790P	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2790						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ATGTGAAACCGGCTTTGTCTC	0.488										HNSCC(33;0.089)			5	50	---	---	---	---	PASS
ZFHX4	79776	broad.mit.edu	37	8	77767663	77767663	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:77767663G>T	uc003yav.2	+	10	8758	c.8371G>T	c.(8371-8373)GCT>TCT	p.A2791S	ZFHX4_uc003yau.1_Missense_Mutation_p.A2836S|ZFHX4_uc003yaw.1_Missense_Mutation_p.A2791S	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2791						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TGTGAAACCGGCTTTGTCTCC	0.493										HNSCC(33;0.089)			5	50	---	---	---	---	PASS
DECR1	1666	broad.mit.edu	37	8	91029541	91029541	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:91029541G>T	uc003yek.1	+	2	400	c.259G>T	c.(259-261)GTG>TTG	p.V87L	DECR1_uc011lgc.1_Missense_Mutation_p.V78L|DECR1_uc011lgd.1_Intron	NM_001359	NP_001350	Q16698	DECR_HUMAN	2,4-dienoyl CoA reductase 1 precursor	87	NADP.				fatty acid beta-oxidation|protein homotetramerization	mitochondrial matrix|nucleus|plasma membrane	2,4-dienoyl-CoA reductase (NADPH) activity|NADPH binding|oxidoreductase activity, acting on NADH or NADPH				0			BRCA - Breast invasive adenocarcinoma(11;0.00953)			TGCTCAGTGCGTGATAGCCAG	0.468													11	53	---	---	---	---	PASS
CDH17	1015	broad.mit.edu	37	8	95186469	95186469	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:95186469G>A	uc003ygh.2	-	6	569	c.444C>T	c.(442-444)GTC>GTT	p.V148V	CDH17_uc011lgo.1_Intron|CDH17_uc011lgp.1_Silent_p.V148V	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	148	Extracellular (Potential).|Cadherin 2.					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			CTGTGGCATTGACATACAAGA	0.403													46	173	---	---	---	---	PASS
UBR5	51366	broad.mit.edu	37	8	103298627	103298627	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:103298627C>A	uc003ykr.1	-	38	5209	c.5176G>T	c.(5176-5178)GCA>TCA	p.A1726S	UBR5_uc003yks.1_Missense_Mutation_p.A1726S	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1726					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			GTACTGGCTGCTCGCTGATGC	0.468													13	21	---	---	---	---	PASS
RIMS2	9699	broad.mit.edu	37	8	104778588	104778588	+	Missense_Mutation	SNP	A	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:104778588A>C	uc003ylp.2	+	3	660	c.521A>C	c.(520-522)GAG>GCG	p.E174A		NM_001100117	NP_001093587	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	205					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			AGAAATGAGGAGGCACCTCAG	0.443										HNSCC(12;0.0054)			34	57	---	---	---	---	PASS
PKHD1L1	93035	broad.mit.edu	37	8	110416808	110416808	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:110416808G>A	uc003yne.2	+	15	1503	c.1399G>A	c.(1399-1401)GAG>AAG	p.E467K		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	467	Extracellular (Potential).				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)			CTTGCTGCAGGAGTACAGATT	0.308										HNSCC(38;0.096)			13	25	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	113318350	113318350	+	Silent	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:113318350G>T	uc003ynu.2	-	51	8116	c.7957C>A	c.(7957-7959)CGA>AGA	p.R2653R	CSMD3_uc003yns.2_Silent_p.R1855R|CSMD3_uc003ynt.2_Silent_p.R2613R|CSMD3_uc011lhx.1_Silent_p.R2549R	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2653	Extracellular (Potential).|Sushi 15.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TAGGTAACTCGCGTTCCTACC	0.388										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			61	80	---	---	---	---	PASS
SAMD12	401474	broad.mit.edu	37	8	119391882	119391882	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:119391882T>C	uc003yom.2	-	4	509	c.380A>G	c.(379-381)GAG>GGG	p.E127G	SAMD12_uc010mda.1_Missense_Mutation_p.E127G|SAMD12_uc010mdb.1_RNA	NM_207506	NP_997389	Q8N8I0	SAM12_HUMAN	sterile alpha motif domain containing 12 isoform	127	SAM.									ovary(1)	1	all_cancers(13;3.91e-25)|Lung NSC(37;1.13e-07)|Ovarian(258;0.0249)		STAD - Stomach adenocarcinoma(47;0.00391)			CCGGAGGTTCTCCTGGGCAAT	0.478													65	98	---	---	---	---	PASS
FER1L6	654463	broad.mit.edu	37	8	124978246	124978246	+	Splice_Site	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:124978246G>T	uc003yqw.2	+	4	404	c.198_splice	c.e4-1	p.R66_splice		NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6							integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			TCTTTTAATAGATCAAAACTG	0.358													10	30	---	---	---	---	PASS
KCNQ3	3786	broad.mit.edu	37	8	133141514	133141514	+	Missense_Mutation	SNP	T	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:133141514T>G	uc003ytj.2	-	15	2839	c.2614A>C	c.(2614-2616)ATT>CTT	p.I872L	KCNQ3_uc010mdt.2_Missense_Mutation_p.I860L|uc003yti.2_5'Flank	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	872					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			CTCTTTTAAATGGGCTTATTG	0.527													13	44	---	---	---	---	PASS
KCNQ3	3786	broad.mit.edu	37	8	133146582	133146582	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:133146582G>A	uc003ytj.2	-	13	1979	c.1754C>T	c.(1753-1755)TCT>TTT	p.S585F	KCNQ3_uc010mdt.2_Missense_Mutation_p.S585F	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	585					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			CCCTTTCTGAGACTTCTTGTG	0.483													32	121	---	---	---	---	PASS
PHF20L1	51105	broad.mit.edu	37	8	133855011	133855011	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr8:133855011G>C	uc003ytt.2	+	19	2964	c.2639G>C	c.(2638-2640)GGG>GCG	p.G880A	PHF20L1_uc011lja.1_Missense_Mutation_p.G854A	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	880							nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			GCAGACCCTGGGAGCTCAGAT	0.393													30	109	---	---	---	---	PASS
FREM1	158326	broad.mit.edu	37	9	14737563	14737563	+	Nonsense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:14737563C>T	uc003zlm.2	-	37	6961	c.6371G>A	c.(6370-6372)TGG>TAG	p.W2124*	FREM1_uc010mic.2_RNA|FREM1_uc003zlk.2_RNA|FREM1_uc003zll.2_Nonsense_Mutation_p.W660*	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	2124	C-type lectin.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		GATCCACTCCCAGTGGCCAGC	0.448													7	14	---	---	---	---	PASS
UBE2R2	54926	broad.mit.edu	37	9	33900199	33900199	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:33900199C>T	uc003ztm.2	+	3	866	c.292C>T	c.(292-294)CAT>TAT	p.H98Y		NM_017811	NP_060281	Q712K3	UB2R2_HUMAN	ubiquitin-conjugating enzyme UBC3B	98					protein K48-linked ubiquitination|protein monoubiquitination		ATP binding|ubiquitin-protein ligase activity				0			LUSC - Lung squamous cell carcinoma(29;0.0176)	GBM - Glioblastoma multiforme(74;0.188)		TTCGATTCTTCATCCGCCTGT	0.403													126	66	---	---	---	---	PASS
KLF9	687	broad.mit.edu	37	9	73028180	73028180	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:73028180C>G	uc004aht.2	-	1	1394	c.100G>C	c.(100-102)GAG>CAG	p.E34Q		NM_001206	NP_001197	Q13886	KLF9_HUMAN	Kruppel-like factor 9	34					regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CGCAGCCGCTCGGCGTCCGGA	0.647													19	37	---	---	---	---	PASS
TMC1	117531	broad.mit.edu	37	9	75431061	75431061	+	Silent	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:75431061T>C	uc004aiz.1	+	19	2238	c.1698T>C	c.(1696-1698)CCT>CCC	p.P566P	TMC1_uc010moz.1_Silent_p.P524P|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_Silent_p.P420P|TMC1_uc010mpa.1_Silent_p.P420P	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	566	Cytoplasmic (Potential).				sensory perception of sound	integral to membrane				ovary(1)	1						TCCTCTAGCCTTCATACACCG	0.458													69	112	---	---	---	---	PASS
TRPM6	140803	broad.mit.edu	37	9	77377111	77377111	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:77377111C>G	uc004ajl.1	-	26	4714	c.4476G>C	c.(4474-4476)AAG>AAC	p.K1492N	TRPM6_uc004ajk.1_Missense_Mutation_p.K1487N|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajj.1_Missense_Mutation_p.K448N	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	1492	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						CCTGGGCCTGCTTCTGGTGCT	0.498													66	119	---	---	---	---	PASS
ZNF169	169841	broad.mit.edu	37	9	97054700	97054700	+	Silent	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:97054700C>G	uc004aum.1	+	3	216	c.111C>G	c.(109-111)ACC>ACG	p.T37T	ZNF169_uc004aun.2_Silent_p.T37T|ZNF169_uc004auo.2_Silent_p.T37T	NM_194320	NP_919301	Q14929	ZN169_HUMAN	zinc finger protein 169	37	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				CTCAGAGGACCCTGTACAGGG	0.522													41	101	---	---	---	---	PASS
ANP32B	10541	broad.mit.edu	37	9	100756944	100756944	+	Nonsense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:100756944C>G	uc004aya.2	+	2	435	c.86C>G	c.(85-87)TCA>TGA	p.S29*		NM_006401	NP_006392	Q92688	AN32B_HUMAN	acidic (leucine-rich) nuclear phosphoprotein 32	29	LRR 1.					cytoplasm|nucleus					0		Acute lymphoblastic leukemia(62;0.0559)				AATTGCAAATCAAATGATGGA	0.358													65	110	---	---	---	---	PASS
ALDOB	229	broad.mit.edu	37	9	104193079	104193079	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:104193079G>T	uc004bbk.2	-	2	173	c.91C>A	c.(91-93)CTG>ATG	p.L31M		NM_000035	NP_000026	P05062	ALDOB_HUMAN	aldolase B, fructose-bisphosphate	31					fructose 1,6-bisphosphate metabolic process|fructose catabolic process|gluconeogenesis|glycolysis|NADH oxidation|positive regulation of ATPase activity|vacuolar proton-transporting V-type ATPase complex assembly	centriolar satellite|cytosol	ATPase binding|cytoskeletal protein binding|fructose binding|fructose-bisphosphate aldolase activity|identical protein binding			skin(1)	1		Acute lymphoblastic leukemia(62;0.0559)				TCTGCAGCCAGGATCCCCTTT	0.433													26	75	---	---	---	---	PASS
ZNF462	58499	broad.mit.edu	37	9	109686536	109686536	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:109686536C>A	uc004bcz.2	+	3	632	c.343C>A	c.(343-345)CGC>AGC	p.R115S	ZNF462_uc010mto.2_5'UTR|ZNF462_uc004bda.2_5'UTR	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	115	C2H2-type 2.				transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						GTTCTGTGTACGCTACTTCAG	0.473													44	103	---	---	---	---	PASS
C9orf91	203197	broad.mit.edu	37	9	117400949	117400949	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:117400949C>T	uc004bjd.3	+	8	1009	c.792C>T	c.(790-792)AAC>AAT	p.N264N	C9orf91_uc004bje.3_Silent_p.N243N|C9orf91_uc004bjf.3_Silent_p.N163N	NM_153045	NP_694590	Q5VZI3	CI091_HUMAN	hypothetical protein LOC203197	264						integral to membrane				pancreas(1)	1						CTTGTCCTAACGAGAGGCCAC	0.592													20	109	---	---	---	---	PASS
TRIM32	22954	broad.mit.edu	37	9	119460833	119460833	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:119460833G>A	uc004bjx.2	+	2	970	c.812G>A	c.(811-813)CGG>CAG	p.R271Q	ASTN2_uc004bjr.1_Intron|ASTN2_uc004bjs.1_Intron|ASTN2_uc004bjt.1_Intron|TRIM32_uc004bjw.2_Missense_Mutation_p.R271Q	NM_001099679	NP_001093149	Q13049	TRI32_HUMAN	tripartite motif-containing 32	271					fat cell differentiation|innate immune response|negative regulation of apoptosis|negative regulation of fibroblast proliferation|positive regulation of cell cycle|positive regulation of cell growth|positive regulation of cell migration|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein catabolic process|positive regulation of proteolysis|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to tumor necrosis factor|response to UV	nucleus	myosin binding|protein self-association|RNA binding|Tat protein binding|transcription coactivator activity|translation initiation factor binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(2)|kidney(1)	3						AGCTTGCCTCGGGAGCTCACC	0.552									Bardet-Biedl_syndrome				23	56	---	---	---	---	PASS
C9orf119	375757	broad.mit.edu	37	9	131048234	131048234	+	Nonsense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:131048234G>T	uc004bup.2	+	4	565	c.565G>T	c.(565-567)GAA>TAA	p.E189*	C9orf119_uc010mxx.1_Nonsense_Mutation_p.E189*	NM_001040011	NP_001035100	Q1ZZU3	SWI5_HUMAN	hypothetical protein LOC375757	189					double-strand break repair via homologous recombination	Swi5-Sfr1 complex	protein binding				0						CAGTGTGGATGAACTGGAGGA	0.483													16	35	---	---	---	---	PASS
SEC16A	9919	broad.mit.edu	37	9	139353940	139353940	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:139353940G>A	uc004chx.2	-	16	5568	c.5259C>T	c.(5257-5259)TAC>TAT	p.Y1753Y	SEC16A_uc004chu.2_5'Flank|SEC16A_uc004chv.3_Silent_p.Y1143Y|SEC16A_uc004chw.2_Silent_p.Y1753Y|SEC16A_uc010nbn.2_Silent_p.Y1753Y	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	1575					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		TTTTCTTCGTGTAAACACCAA	0.493													10	24	---	---	---	---	PASS
NOTCH1	4851	broad.mit.edu	37	9	139391559	139391559	+	Nonsense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:139391559G>C	uc004chz.2	-	34	6632	c.6632C>G	c.(6631-6633)TCA>TGA	p.S2211*		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	2211	Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GGCCACGTCTGACAGGTAGCC	0.682			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			25	43	---	---	---	---	PASS
C9orf173	441476	broad.mit.edu	37	9	140146913	140146913	+	Missense_Mutation	SNP	A	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:140146913A>C	uc004cmk.1	+	4	437	c.425A>C	c.(424-426)CAG>CCG	p.Q142P	C9orf173_uc004cmj.1_Missense_Mutation_p.Q143P|C9orf173_uc011meu.1_RNA|C9orf173_uc010ncd.1_RNA|C9orf173_uc011mev.1_Missense_Mutation_p.Q142P|C9orf173_uc004cml.1_Missense_Mutation_p.Q142P|COBRA1_uc004cmm.3_5'Flank			Q8N7X2	CI173_HUMAN	SubName: Full=LOC441476 protein;	143										pancreas(1)	1						AGGGCATGGCAGACTTTGTGG	0.627													6	15	---	---	---	---	PASS
MPP7	143098	broad.mit.edu	37	10	28420572	28420572	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:28420572C>A	uc001iua.1	-	8	768	c.364G>T	c.(364-366)GTG>TTG	p.V122L	MPP7_uc009xkz.1_RNA|MPP7_uc001iub.1_Missense_Mutation_p.V122L|MPP7_uc009xla.2_Missense_Mutation_p.V122L|MPP7_uc010qdv.1_RNA	NM_173496	NP_775767	Q5T2T1	MPP7_HUMAN	palmitoylated membrane protein 7	122	L27 2.				establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1						GGAGGCAACACTGGGTCGTAA	0.353													33	123	---	---	---	---	PASS
ANKRD30A	91074	broad.mit.edu	37	10	37506638	37506638	+	Silent	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:37506638A>G	uc001iza.1	+	33	3030	c.2931A>G	c.(2929-2931)CAA>CAG	p.Q977Q		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	1033	Potential.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						CTTTAAACCAAGAAGAAGAGA	0.294													7	27	---	---	---	---	PASS
C10orf72	196740	broad.mit.edu	37	10	50315656	50315656	+	Nonsense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:50315656G>T	uc001jhf.2	-	2	469	c.440C>A	c.(439-441)TCA>TAA	p.S147*	C10orf72_uc001jhh.2_Nonsense_Mutation_p.S147*	NM_001031746	NP_001026916	Q8IW00	CJ072_HUMAN	hypothetical protein LOC196740 isoform 1	147	Ig-like.|Extracellular (Potential).					integral to membrane|plasma membrane					0						TTCCGTGGCTGAGGAGCCATT	0.617													30	63	---	---	---	---	PASS
C10orf72	196740	broad.mit.edu	37	10	50316010	50316010	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:50316010G>A	uc001jhf.2	-	2	115	c.86C>T	c.(85-87)TCC>TTC	p.S29F	C10orf72_uc001jhh.2_Missense_Mutation_p.S29F	NM_001031746	NP_001026916	Q8IW00	CJ072_HUMAN	hypothetical protein LOC196740 isoform 1	29	Ig-like.|Extracellular (Potential).					integral to membrane|plasma membrane					0						GGGCCCCGGGGACACAGTGAC	0.627													5	13	---	---	---	---	PASS
ASAH2	56624	broad.mit.edu	37	10	52005154	52005154	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:52005154G>C	uc001jjd.2	-	2	188	c.188C>G	c.(187-189)GCT>GGT	p.A63G	ASAH2_uc009xos.2_Missense_Mutation_p.A63G	NM_019893	NP_063946	Q9NR71	ASAH2_HUMAN	N-acylsphingosine amidohydrolase 2 isoform a	63	Lumenal (Potential).				apoptosis|ceramide metabolic process|signal transduction	integral to membrane|mitochondrion|plasma membrane	ceramidase activity				0						GCGTTGGGCAGCTGTGGAGCC	0.507													18	86	---	---	---	---	PASS
PCDH15	65217	broad.mit.edu	37	10	55826581	55826581	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:55826581G>T	uc001jju.1	-	18	2551	c.2156C>A	c.(2155-2157)CCT>CAT	p.P719H	PCDH15_uc010qhq.1_Missense_Mutation_p.P724H|PCDH15_uc010qhr.1_Missense_Mutation_p.P719H|PCDH15_uc010qhs.1_Missense_Mutation_p.P731H|PCDH15_uc010qht.1_Missense_Mutation_p.P726H|PCDH15_uc010qhu.1_Missense_Mutation_p.P719H|PCDH15_uc001jjv.1_Missense_Mutation_p.P697H|PCDH15_uc010qhv.1_Missense_Mutation_p.P719H|PCDH15_uc010qhw.1_Missense_Mutation_p.P682H|PCDH15_uc010qhx.1_Missense_Mutation_p.P648H|PCDH15_uc010qhy.1_Missense_Mutation_p.P724H|PCDH15_uc010qhz.1_Missense_Mutation_p.P719H|PCDH15_uc010qia.1_Missense_Mutation_p.P697H|PCDH15_uc010qib.1_Missense_Mutation_p.P697H|PCDH15_uc001jjw.2_Missense_Mutation_p.P719H	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	719	Extracellular (Potential).|Cadherin 7.				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TGGCAGATAAGGATCAAACAC	0.368										HNSCC(58;0.16)			26	79	---	---	---	---	PASS
TFAM	7019	broad.mit.edu	37	10	60150600	60150600	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:60150600G>T	uc001jkf.2	+	5	649	c.517G>T	c.(517-519)GCT>TCT	p.A173S	TFAM_uc001jkg.2_RNA|TFAM_uc001jkh.2_Intron	NM_003201	NP_003192	Q00059	TFAM_HUMAN	transcription factor A, mitochondrial precursor	173	HMG box 2.				DNA-dependent DNA replication|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase I promoter|transcription initiation from mitochondrial promoter	mitochondrial nucleoid	mitochondrial light strand promoter sense binding|protein binding|sequence-specific DNA binding transcription factor activity				0						ATTCCAAGAAGCTAAGGGTGA	0.348													20	43	---	---	---	---	PASS
CDH23	64072	broad.mit.edu	37	10	73461826	73461826	+	Nonsense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:73461826C>A	uc001jrx.3	+	22	2822	c.2445C>A	c.(2443-2445)TAC>TAA	p.Y815*	CDH23_uc001jry.2_Nonsense_Mutation_p.Y431*|CDH23_uc001jrz.2_Nonsense_Mutation_p.Y431*	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	815	Cadherin 8.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CCCTGGTGTACAGCATCCAGC	0.652													3	64	---	---	---	---	PASS
GRID1	2894	broad.mit.edu	37	10	87628773	87628773	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:87628773C>A	uc001kdl.1	-	6	1046	c.945G>T	c.(943-945)ATG>ATT	p.M315I	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	315	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	TGACCTGCAGCATCTGGAGGT	0.582										Multiple Myeloma(13;0.14)			24	55	---	---	---	---	PASS
PAPSS2	9060	broad.mit.edu	37	10	89503199	89503199	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:89503199G>A	uc001kex.2	+	10	1540	c.1277G>A	c.(1276-1278)CGC>CAC	p.R426H	PAPSS2_uc001kew.2_Missense_Mutation_p.R431H	NM_004670	NP_004661	O95340	PAPS2_HUMAN	3'-phosphoadenosine 5'-phosphosulfate synthase 2	426	Adenylyl-sulfate kinase.			R -> C (in Ref. 1; AAC64583).	3'-phosphoadenosine 5'-phosphosulfate biosynthetic process|skeletal system development|sulfate assimilation|xenobiotic metabolic process	cytosol	adenylylsulfate kinase activity|ATP binding|protein binding|sulfate adenylyltransferase (ATP) activity			central_nervous_system(1)|skin(1)	2		Melanoma(5;0.019)|Colorectal(252;0.123)		UCEC - Uterine corpus endometrioid carcinoma (6;0.00164)|Colorectal(12;0.000323)|COAD - Colon adenocarcinoma(12;0.00124)		CAGGACACTCGCCGCAGGCTC	0.582													41	125	---	---	---	---	PASS
TNKS2	80351	broad.mit.edu	37	10	93619220	93619220	+	Silent	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:93619220G>T	uc001khp.2	+	25	3393	c.3096G>T	c.(3094-3096)GGG>GGT	p.G1032G		NM_025235	NP_079511	Q9H2K2	TNKS2_HUMAN	tankyrase, TRF1-interacting ankyrin-related	1032	PARP catalytic.				positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)				GTGTTTCAGGGTCTCCTTTTG	0.313													33	114	---	---	---	---	PASS
CYP2C9	1559	broad.mit.edu	37	10	96701714	96701714	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:96701714C>G	uc001kka.3	+	2	293	c.268C>G	c.(268-270)CTT>GTT	p.L90V	CYP2C9_uc009xut.2_Missense_Mutation_p.L90V|CYP2C9_uc001kjz.2_Missense_Mutation_p.L90V	NM_000771	NP_000762	P11712	CP2C9_HUMAN	cytochrome P450, family 2, subfamily C,	90					exogenous drug catabolic process|monocarboxylic acid metabolic process|monoterpenoid metabolic process|oxidative demethylation|steroid metabolic process|urea metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|caffeine oxidase activity|drug binding|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(4)|ovary(2)	6		Colorectal(252;0.0902)		all cancers(201;6.93e-05)	Acenocoumarol(DB01418)|Alosetron(DB00969)|Amiodarone(DB01118)|Antihemophilic Factor(DB00025)|Aprepitant(DB00673)|Bosentan(DB00559)|Carprofen(DB00821)|Carvedilol(DB01136)|Celecoxib(DB00482)|Clomipramine(DB01242)|Dapsone(DB00250)|Delavirdine(DB00705)|Desloratadine(DB00967)|Desogestrel(DB00304)|Diclofenac(DB00586)|Esomeprazole(DB00736)|Etodolac(DB00749)|Fluconazole(DB00196)|Fluoxetine(DB00472)|Flurbiprofen(DB00712)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Gemfibrozil(DB01241)|Ginkgo biloba(DB01381)|Glibenclamide(DB01016)|Glimepiride(DB00222)|Glipizide(DB01067)|Guanfacine(DB01018)|Hydromorphone(DB00327)|Ibuprofen(DB01050)|Imipramine(DB00458)|Irbesartan(DB01029)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Losartan(DB00678)|Lumiracoxib(DB01283)|Marinol(DB00470)|Mefenamic acid(DB00784)|Meloxicam(DB00814)|Mephenytoin(DB00532)|Metronidazole(DB00916)|Miconazole(DB01110)|Midazolam(DB00683)|Montelukast(DB00471)|Nateglinide(DB00731)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Oxymorphone(DB01192)|Pantoprazole(DB00213)|Paramethadione(DB00617)|Phenprocoumon(DB00946)|Phenytoin(DB00252)|Pravastatin(DB00175)|Quinidine(DB00908)|Ritonavir(DB00503)|Rosiglitazone(DB00412)|Sertraline(DB01104)|Sildenafil(DB00203)|Sulfamethoxazole(DB01015)|Suprofen(DB00870)|Tamoxifen(DB00675)|Tenoxicam(DB00469)|Terfenadine(DB00342)|Tolbutamide(DB01124)|Torasemide(DB00214)|Troleandomycin(DB01361)|Valdecoxib(DB00580)|Valsartan(DB00177)|Voriconazole(DB00582)|Warfarin(DB00682)|Zafirlukast(DB00549)|Zileuton(DB00744)	CCTGATTGATCTTGGAGAGGA	0.483													54	170	---	---	---	---	PASS
TLL2	7093	broad.mit.edu	37	10	98127941	98127941	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:98127941C>T	uc001kml.1	-	21	3178	c.2952G>A	c.(2950-2952)ATG>ATA	p.M984I		NM_012465	NP_036597	Q9Y6L7	TLL2_HUMAN	tolloid-like 2 precursor	984	CUB 5.				cell differentiation|multicellular organismal development|proteolysis	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Colorectal(252;0.0846)		Epithelial(162;1.51e-07)|all cancers(201;7.59e-06)		GGAATCGAATCATCAGGGAAT	0.458													21	89	---	---	---	---	PASS
NOLC1	9221	broad.mit.edu	37	10	103920564	103920564	+	Silent	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:103920564A>G	uc001kuo.2	+	10	1690	c.1455A>G	c.(1453-1455)ACA>ACG	p.T485T	NOLC1_uc001kup.2_Silent_p.T495T|NOLC1_uc001kuq.2_Silent_p.T486T|NOLC1_uc009xxb.1_Silent_p.T204T|NOLC1_uc001kur.2_Silent_p.T204T	NM_004741	NP_004732	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	485	Nuclear localization signal (Potential).|11 X 12 AA approximate repeats of an acidic serine cluster.				mitosis|rRNA processing	cytoplasm|nucleolus	ATP binding|GTP binding|protein binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		AAGAGAAGACATCTAAGTCTG	0.537													18	62	---	---	---	---	PASS
NT5C2	22978	broad.mit.edu	37	10	104849467	104849467	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:104849467C>T	uc001kwo.2	-	19	1834	c.1648G>A	c.(1648-1650)GAA>AAA	p.E550K	NT5C2_uc010qqp.1_Missense_Mutation_p.E521K|NT5C2_uc001kwq.2_Missense_Mutation_p.E550K|NT5C2_uc001kwp.2_Missense_Mutation_p.E397K	NM_012229	NP_036361	P49902	5NTC_HUMAN	5'-nucleotidase, cytosolic II	550	Asp/Glu-rich (acidic).				purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|metal ion binding|nucleotide binding|protein binding				0		all_hematologic(284;0.176)|Colorectal(252;0.178)		Epithelial(162;1.33e-08)|all cancers(201;1.04e-07)|BRCA - Breast invasive adenocarcinoma(275;0.159)	Adenosine triphosphate(DB00171)|Ribavirin(DB00811)	tcatcatcttcgtcATGGCAG	0.383													35	96	---	---	---	---	PASS
CALHM2	51063	broad.mit.edu	37	10	105207318	105207318	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:105207318C>T	uc001kwz.2	-	3	949	c.563G>A	c.(562-564)GGA>GAA	p.G188E	CALHM2_uc001kxa.2_Missense_Mutation_p.G188E|CALHM2_uc001kxc.2_Missense_Mutation_p.D184N|CALHM2_uc001kxb.2_Missense_Mutation_p.G188E	NM_015916	NP_057000	Q9HA72	CAHM2_HUMAN	calcium homeostasis modulator 2	188	Helical; (Potential).					integral to membrane				skin(1)	1						GAGCAGCCATCCAAAGAGCTG	0.597													5	25	---	---	---	---	PASS
SORCS1	114815	broad.mit.edu	37	10	108366960	108366960	+	Silent	SNP	A	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:108366960A>T	uc001kym.2	-	23	3137	c.3129T>A	c.(3127-3129)GCT>GCA	p.A1043A	SORCS1_uc001kyl.2_Silent_p.A1043A|SORCS1_uc009xxs.2_Silent_p.A1043A|SORCS1_uc001kyn.1_Silent_p.A1043A|SORCS1_uc001kyo.2_Silent_p.A1043A	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	1043	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)		TGTTTTCTCCAGCTGGATCCT	0.532													6	95	---	---	---	---	PASS
SORCS1	114815	broad.mit.edu	37	10	108716299	108716299	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:108716299C>A	uc001kym.2	-	2	606	c.598G>T	c.(598-600)GGG>TGG	p.G200W	SORCS1_uc001kyl.2_Missense_Mutation_p.G200W|SORCS1_uc009xxs.2_Missense_Mutation_p.G200W|SORCS1_uc001kyn.1_Missense_Mutation_p.G200W|SORCS1_uc001kyo.2_Missense_Mutation_p.G200W	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	200	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)		GTGATGCTCCCCAGGTTATAG	0.403													22	79	---	---	---	---	PASS
ATRNL1	26033	broad.mit.edu	37	10	117026389	117026389	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:117026389G>C	uc001lcg.2	+	12	2274	c.1888G>C	c.(1888-1890)GGG>CGG	p.G630R		NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	630	PSI 1.|Kelch 6.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		TGCTGGTCCAGGGATAAAATG	0.363													26	112	---	---	---	---	PASS
PNLIPRP3	119548	broad.mit.edu	37	10	118220599	118220599	+	Splice_Site	SNP	T	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:118220599T>A	uc001lcl.3	+	6	786	c.685_splice	c.e6+2	p.G229_splice		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor						lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		TTGAGCTTGGTAAGTTTTAAC	0.398													55	144	---	---	---	---	PASS
DHX32	55760	broad.mit.edu	37	10	127542766	127542766	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr10:127542766C>T	uc001ljf.1	-	4	1347	c.856G>A	c.(856-858)GAG>AAG	p.E286K	DHX32_uc001lje.1_5'UTR|DHX32_uc001ljg.1_Missense_Mutation_p.E286K|DHX32_uc009yam.1_Intron	NM_018180	NP_060650	Q7L7V1	DHX32_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 32	286						mitochondrion|nucleus	ATP binding|helicase activity			breast(2)|ovary(1)|lung(1)	4		all_lung(145;0.00751)|Lung NSC(174;0.0115)|Colorectal(57;0.0846)|all_neural(114;0.0936)				CAGACTTTCTCAATATCCTAA	0.303													9	57	---	---	---	---	PASS
MUC5B	727897	broad.mit.edu	37	11	1257660	1257660	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:1257660G>A	uc009ycr.1	+	40	5130	c.5004G>A	c.(5002-5004)GCG>GCA	p.A1668A	MUC5B_uc009yct.1_Silent_p.A975A|MUC5B_uc001ltb.2_Silent_p.A978A|MUC5B_uc001lta.2_Silent_p.A643A	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	975	VWFD 3.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		AGGCGGTGGCGAGAGGGCCGG	0.662													23	60	---	---	---	---	PASS
BRSK2	9024	broad.mit.edu	37	11	1467049	1467049	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:1467049C>T	uc001lti.2	+	12	1524	c.1138C>T	c.(1138-1140)CGC>TGC	p.R380C	BRSK2_uc009ycv.1_Missense_Mutation_p.R380C|BRSK2_uc001lth.1_Missense_Mutation_p.R380C|BRSK2_uc001ltj.2_Missense_Mutation_p.R380C|BRSK2_uc001ltk.2_RNA|BRSK2_uc001ltl.2_Missense_Mutation_p.R380C|BRSK2_uc001ltm.2_Missense_Mutation_p.R426C|BRSK2_uc001ltn.2_RNA|BRSK2_uc010qwx.1_RNA	NM_003957	NP_003948	Q8IWQ3	BRSK2_HUMAN	BR serine/threonine kinase 2	380					establishment of cell polarity|neuron differentiation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity				0		all_epithelial(84;4.17e-05)|Breast(177;0.000307)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00144)|Lung(200;0.0713)|LUSC - Lung squamous cell carcinoma(625;0.0842)		GCGGCCAGAACGCAAATCCAT	0.687													14	25	---	---	---	---	PASS
UBQLN3	50613	broad.mit.edu	37	11	5529258	5529258	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:5529258G>A	uc001may.1	-	2	1617	c.1531C>T	c.(1531-1533)CTT>TTT	p.L511F	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_5'Flank|OR51B5_uc001maq.1_5'Flank	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	511										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCTGCCTGAAGGTGCATCAGC	0.577													14	42	---	---	---	---	PASS
APBB1	322	broad.mit.edu	37	11	6423837	6423837	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:6423837A>G	uc001mdb.1	-	7	1323	c.1223T>C	c.(1222-1224)CTG>CCG	p.L408P	APBB1_uc001mcz.1_Missense_Mutation_p.L29P|APBB1_uc001mdd.3_Missense_Mutation_p.L188P|APBB1_uc001mda.2_Intron|APBB1_uc001mdc.1_Missense_Mutation_p.L408P|APBB1_uc010rab.1_5'Flank|APBB1_uc010rac.1_5'Flank|APBB1_uc010rad.1_Missense_Mutation_p.L29P|APBB1_uc010rae.1_Missense_Mutation_p.L173P|APBB1_uc010raf.1_Missense_Mutation_p.L149P|APBB1_uc009yfa.2_Missense_Mutation_p.L149P|APBB1_uc009yey.2_Missense_Mutation_p.L149P|APBB1_uc010rag.1_Missense_Mutation_p.L149P|APBB1_uc009yfb.2_Missense_Mutation_p.L149P|APBB1_uc001mde.2_Missense_Mutation_p.L149P|APBB1_uc010rah.1_Missense_Mutation_p.L149P	NM_001164	NP_001155	O00213	APBB1_HUMAN	amyloid beta A4 precursor protein-binding,	408	PID 1.				apoptosis|axonogenesis|cell cycle arrest|histone H4 acetylation|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of thymidylate synthase biosynthetic process|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|signal transduction|transcription, DNA-dependent	cytoplasm|growth cone|lamellipodium|nucleus|plasma membrane|synapse	beta-amyloid binding|chromatin binding|histone binding|proline-rich region binding|transcription factor binding			breast(2)	2		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;6.49e-08)|BRCA - Breast invasive adenocarcinoma(625;0.194)		GGGGTCATGCAGGTTGTTTTT	0.577													17	64	---	---	---	---	PASS
OR2D2	120776	broad.mit.edu	37	11	6912971	6912971	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:6912971G>A	uc010rau.1	-	1	761	c.761C>T	c.(760-762)TCA>TTA	p.S254L		NM_003700	NP_003691	Q9H210	OR2D2_HUMAN	olfactory receptor, family 2, subfamily D,	254	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		GATAATTGCTGATCCATAAAA	0.433													17	49	---	---	---	---	PASS
OVCH2	341277	broad.mit.edu	37	11	7723862	7723862	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:7723862G>T	uc010rbf.1	-	4	305	c.305C>A	c.(304-306)ACT>AAT	p.T102N		NM_198185	NP_937828			ovochymase 2 precursor												0				Epithelial(150;7.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.197)		AACATTCAAAGTAGACACAAT	0.388													5	19	---	---	---	---	PASS
DENND5A	23258	broad.mit.edu	37	11	9225228	9225228	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:9225228G>T	uc001mhl.2	-	4	1183	c.928C>A	c.(928-930)CAA>AAA	p.Q310K	DENND5A_uc010rbw.1_Missense_Mutation_p.Q310K|DENND5A_uc010rbx.1_RNA	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	310	DENN.									liver(1)	1						AGCAGGATTTGAAACTCCAGA	0.468													22	68	---	---	---	---	PASS
ANO5	203859	broad.mit.edu	37	11	22225351	22225351	+	Silent	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:22225351G>T	uc001mqi.2	+	2	359	c.42G>T	c.(40-42)GGG>GGT	p.G14G	ANO5_uc001mqj.2_Silent_p.G14G	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	14	Cytoplasmic (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						TTAATTTAGGGGAAAAAGTCA	0.269													4	21	---	---	---	---	PASS
RAG2	5897	broad.mit.edu	37	11	36614281	36614281	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:36614281C>G	uc001mwv.3	-	2	1626	c.1438G>C	c.(1438-1440)GAG>CAG	p.E480Q	RAG1_uc001mwt.2_Intron|C11orf74_uc010rfd.1_5'Flank|C11orf74_uc001mww.1_5'Flank|C11orf74_uc001mwx.1_5'Flank|C11orf74_uc001mwy.1_5'Flank|C11orf74_uc001mwz.1_5'Flank|C11orf74_uc010rfe.1_5'Flank	NM_000536	NP_000527	P55895	RAG2_HUMAN	recombination activating gene 2	480	PHD-type; atypical.				chromatin modification|pre-B cell allelic exclusion|somatic diversification of immunoglobulins|T cell differentiation in thymus|V(D)J recombination	nucleus	chromatin binding|DNA binding|endonuclease activity|methylated histone residue binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-4,5-bisphosphate binding|zinc ion binding			skin(3)|ovary(1)|pancreas(1)	5	all_lung(20;0.226)	all_hematologic(20;0.00756)				TCCACATGCTCATTGCAGTAA	0.478									Familial_Hemophagocytic_Lymphohistiocytosis				50	98	---	---	---	---	PASS
TTC17	55761	broad.mit.edu	37	11	43421578	43421578	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:43421578T>C	uc001mxi.2	+	9	1213	c.1199T>C	c.(1198-1200)ATG>ACG	p.M400T	TTC17_uc001mxh.2_Missense_Mutation_p.M400T|TTC17_uc010rfj.1_Missense_Mutation_p.M343T|TTC17_uc001mxj.2_Missense_Mutation_p.M170T	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	400							binding			ovary(5)	5						GAGACTCAGATGGCAAAAGAG	0.373													25	77	---	---	---	---	PASS
KIAA0652	9776	broad.mit.edu	37	11	46689361	46689361	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:46689361G>T	uc009yld.2	+	14	1760	c.1076G>T	c.(1075-1077)CGG>CTG	p.R359L	KIAA0652_uc001nda.2_Missense_Mutation_p.R392L|KIAA0652_uc001ndb.2_Missense_Mutation_p.R359L|KIAA0652_uc001ncz.2_Missense_Mutation_p.R322L|KIAA0652_uc001ndc.2_Missense_Mutation_p.R322L|KIAA0652_uc010rgv.1_Missense_Mutation_p.R243L	NM_001142673	NP_001136145	O75143	ATG13_HUMAN	autophagy-related protein 13 isoform 1	359					autophagic vacuole assembly	cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding				0				GBM - Glioblastoma multiforme(35;0.226)		AGTGAGGGACGGGCCTCCCCT	0.493													23	79	---	---	---	---	PASS
OR4A47	403253	broad.mit.edu	37	11	48510827	48510827	+	Silent	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:48510827T>C	uc010rhx.1	+	1	483	c.483T>C	c.(481-483)ATT>ATC	p.I161I		NM_001005512	NP_001005512	Q6IF82	O4A47_HUMAN	olfactory receptor, family 4, subfamily A,	161	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TTAGCATTATTTATGGGCTCC	0.438													56	168	---	---	---	---	PASS
OR4C46	119749	broad.mit.edu	37	11	51515935	51515935	+	Silent	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:51515935C>A	uc010ric.1	+	1	654	c.654C>A	c.(652-654)GTC>GTA	p.V218V		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	218	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CCTATGTGGTCATCTTGTGCT	0.507													30	81	---	---	---	---	PASS
OR4C6	219432	broad.mit.edu	37	11	55432813	55432813	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:55432813G>C	uc001nht.3	+	3	436	c.171G>C	c.(169-171)ATG>ATC	p.M57I	OR4C6_uc010rik.1_Missense_Mutation_p.M57I	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	57	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						GGTCACCTATGTATTTTTTTC	0.413													50	220	---	---	---	---	PASS
OR5D18	219438	broad.mit.edu	37	11	55587148	55587148	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:55587148C>T	uc010rin.1	+	1	43	c.43C>T	c.(43-45)CTC>TTC	p.L15F		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	15	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				CACGTTCACCCTCTTGGGCTT	0.428													19	75	---	---	---	---	PASS
SPRYD5	84767	broad.mit.edu	37	11	55657463	55657463	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:55657463G>T	uc010rip.1	+	6	899	c.807G>T	c.(805-807)GAG>GAT	p.E269D	SPRYD5_uc010riq.1_Missense_Mutation_p.E126D	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	269	B30.2/SPRY.					intracellular	zinc ion binding				0		all_epithelial(135;0.226)				TGAATCCAGAGCTCAGTGCAG	0.478													17	55	---	---	---	---	PASS
OR5W2	390148	broad.mit.edu	37	11	55681710	55681710	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:55681710C>T	uc010rir.1	-	1	349	c.349G>A	c.(349-351)GTG>ATG	p.V117M		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	117	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						AAGGCCATCACTGACAGCAGT	0.453													22	62	---	---	---	---	PASS
OR8J3	81168	broad.mit.edu	37	11	55904298	55904298	+	Silent	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:55904298A>G	uc010riz.1	-	1	897	c.897T>C	c.(895-897)GTT>GTC	p.V299V		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	299	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					TCTTTAAGGCAACATTTACAT	0.343													28	70	---	---	---	---	PASS
OR5T2	219464	broad.mit.edu	37	11	56000245	56000245	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:56000245C>A	uc010rjc.1	-	1	417	c.417G>T	c.(415-417)CAG>CAT	p.Q139H		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	139	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					CAAGAAACACCTGTGCTACAC	0.408													45	119	---	---	---	---	PASS
OR5M11	219487	broad.mit.edu	37	11	56310013	56310013	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:56310013C>A	uc010rjl.1	-	1	721	c.721G>T	c.(721-723)GGT>TGT	p.G241C		NM_001005245	NP_001005245	Q96RB7	OR5MB_HUMAN	olfactory receptor, family 5, subfamily M,	241	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATATGGGAACCACAGGTGGAG	0.468													24	80	---	---	---	---	PASS
PCNXL3	399909	broad.mit.edu	37	11	65394885	65394885	+	Silent	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:65394885G>T	uc001oey.2	+	22	3534	c.3534G>T	c.(3532-3534)GCG>GCT	p.A1178A	PCNXL3_uc001oez.2_Silent_p.A65A	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	1178						integral to membrane					0						GCTGCCGGGCGCTGCTGATGA	0.662													10	67	---	---	---	---	PASS
PC	5091	broad.mit.edu	37	11	66618590	66618590	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:66618590C>T	uc001ojn.1	-	15	2193	c.2144G>A	c.(2143-2145)CGC>CAC	p.R715H	PC_uc001ojo.1_Missense_Mutation_p.R715H|PC_uc001ojp.1_Missense_Mutation_p.R715H|PC_uc001ojm.1_5'Flank	NM_022172	NP_071504	P11498	PYC_HUMAN	pyruvate carboxylase precursor	715	Carboxyltransferase.				gluconeogenesis|lipid biosynthetic process	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|pyruvate carboxylase activity			ovary(2)|lung(1)|kidney(1)	4		Melanoma(852;0.0525)		Lung(977;0.153)|LUSC - Lung squamous cell carcinoma(976;0.227)	Biotin(DB00121)|Pyruvic acid(DB00119)	GTACTTGGTGCGGCTGGGGTC	0.632													15	81	---	---	---	---	PASS
PRKRIR	5612	broad.mit.edu	37	11	76062891	76062891	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:76062891C>G	uc001oxh.1	-	5	1303	c.1303G>C	c.(1303-1305)GAA>CAA	p.E435Q	PRKRIR_uc010rrz.1_Missense_Mutation_p.E260Q	NM_004705	NP_004696	O43422	P52K_HUMAN	protein-kinase, interferon-inducible double	435					negative regulation of cell proliferation|response to stress|signal transduction		DNA binding|metal ion binding|protein dimerization activity			ovary(2)|pancreas(1)	3						ACTAAAATTTCAAAAGCATCA	0.368													12	101	---	---	---	---	PASS
NAALAD2	10003	broad.mit.edu	37	11	89907064	89907064	+	Nonsense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:89907064G>T	uc001pdf.3	+	14	1592	c.1483G>T	c.(1483-1485)GAA>TAA	p.E495*	NAALAD2_uc009yvx.2_Nonsense_Mutation_p.E462*|NAALAD2_uc009yvy.2_Intron	NM_005467	NP_005458	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	495	Extracellular (Potential).|NAALADase.				proteolysis	integral to membrane	carboxypeptidase activity|dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity|serine-type peptidase activity			pancreas(1)|skin(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				CCCTTCACCTGAAAATAAAAA	0.388													32	244	---	---	---	---	PASS
FAT3	120114	broad.mit.edu	37	11	92534346	92534346	+	Missense_Mutation	SNP	A	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:92534346A>C	uc001pdj.3	+	9	8184	c.8167A>C	c.(8167-8169)ATT>CTT	p.I2723L		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2723	Extracellular (Potential).|Cadherin 25.				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)				AGATACAGCCATTGGGAGTAC	0.478										TCGA Ovarian(4;0.039)			3	94	---	---	---	---	PASS
KDM4D	55693	broad.mit.edu	37	11	94730904	94730904	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:94730904G>C	uc001pfe.2	+	3	1200	c.368G>C	c.(367-369)CGA>CCA	p.R123P		NM_018039	NP_060509	Q6B0I6	KDM4D_HUMAN	jumonji domain containing 2D	123					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GATTTGGAGCGAAAATACTGG	0.408													27	199	---	---	---	---	PASS
USP28	57646	broad.mit.edu	37	11	113679872	113679872	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:113679872C>G	uc001poh.2	-	17	2110	c.2077G>C	c.(2077-2079)GAG>CAG	p.E693Q	USP28_uc001pog.2_Missense_Mutation_p.E401Q|USP28_uc010rwy.1_Missense_Mutation_p.E568Q|USP28_uc001poi.2_Missense_Mutation_p.E48Q	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	693					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		TCCCACTCCTCTACTTCCTGC	0.473													120	653	---	---	---	---	PASS
HTR3B	9177	broad.mit.edu	37	11	113815332	113815332	+	Silent	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:113815332C>G	uc001pok.2	+	8	1012	c.945C>G	c.(943-945)CTC>CTG	p.L315L	HTR3B_uc001pol.2_Silent_p.L304L	NM_006028	NP_006019	O95264	5HT3B_HUMAN	5-hydroxytryptamine (serotonin) receptor 3B	315	Helical; Name=3; (Potential).				synaptic transmission	integral to plasma membrane|postsynaptic membrane	serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;6.81e-18)|all_epithelial(67;6.67e-11)|all_hematologic(158;4.67e-05)|Melanoma(852;0.000316)|Acute lymphoblastic leukemia(157;0.000976)|Breast(348;0.0101)|Prostate(24;0.0154)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.04e-06)|Epithelial(105;1.98e-05)|all cancers(92;0.000201)|OV - Ovarian serous cystadenocarcinoma(223;0.151)		TCTTGGTTCTCAGCTTAGCTA	0.512													13	125	---	---	---	---	PASS
FAM55D	54827	broad.mit.edu	37	11	114453569	114453569	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:114453569C>A	uc001ppc.2	-	3	452	c.271G>T	c.(271-273)GTG>TTG	p.V91L	FAM55D_uc001ppd.2_5'UTR	NM_001077639	NP_001071107	Q6UWF7	FA55D_HUMAN	hypothetical protein LOC54827 isoform 1	91						extracellular region				ovary(2)|skin(2)	4		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.82e-06)|Epithelial(105;0.000129)|all cancers(92;0.000938)		GTGGTGTTCACGTGGGTGAAA	0.507													202	176	---	---	---	---	PASS
MLL	4297	broad.mit.edu	37	11	118390362	118390362	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:118390362C>G	uc001pta.2	+	32	11190	c.11167C>G	c.(11167-11169)CTC>GTC	p.L3723V	MLL_uc001ptb.2_Missense_Mutation_p.L3726V	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	3723	FYR C-terminal.				apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		GCTGGGGATTCTCCATGATGC	0.493			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								40	239	---	---	---	---	PASS
HSPA8	3312	broad.mit.edu	37	11	122931507	122931507	+	Splice_Site	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:122931507C>G	uc001pyo.2	-	3	284	c.206_splice	c.e3-1	p.D69_splice	HSPA8_uc009zbc.2_5'Flank|HSPA8_uc001pyp.2_Splice_Site_p.D69_splice|HSPA8_uc010rzu.1_Intron|HSPA8_uc009zbd.1_Splice_Site_p.D69_splice|HSPA8_uc010rzv.1_Splice_Site_p.D69_splice	NM_006597	NP_006588	P11142	HSP7C_HUMAN	heat shock 70kDa protein 8 isoform 1						cellular membrane organization|interspecies interaction between organisms|mRNA metabolic process|negative regulation of transcription, DNA-dependent|neurotransmitter secretion|post-Golgi vesicle-mediated transport|protein folding|response to unfolded protein|transcription, DNA-dependent	cell surface|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|melanosome|plasma membrane|ribonucleoprotein complex	ATP binding|ATPase activity, coupled|protein binding			central_nervous_system(7)|lung(1)	8		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		CGTTTGGCATCTGTAAAAGGT	0.403													5	115	---	---	---	---	PASS
OR8D4	338662	broad.mit.edu	37	11	123777167	123777167	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:123777167C>A	uc010saa.1	+	1	29	c.29C>A	c.(28-30)ACT>AAT	p.T10N		NM_001005197	NP_001005197	Q8NGM9	OR8D4_HUMAN	olfactory receptor, family 8, subfamily D,	10	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		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;4.93e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0409)		TCCACAGTGACTGAGTTTCTT	0.403													45	129	---	---	---	---	PASS
OR8D4	338662	broad.mit.edu	37	11	123777593	123777593	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:123777593G>T	uc010saa.1	+	1	455	c.455G>T	c.(454-456)GGT>GTT	p.G152V		NM_001005197	NP_001005197	Q8NGM9	OR8D4_HUMAN	olfactory receptor, family 8, subfamily D,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		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;4.93e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0409)		TTCTCAGTAGGTTTCACTGAT	0.483													60	249	---	---	---	---	PASS
OR8D4	338662	broad.mit.edu	37	11	123777642	123777642	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:123777642C>T	uc010saa.1	+	1	504	c.504C>T	c.(502-504)TTC>TTT	p.F168F		NM_001005197	NP_001005197	Q8NGM9	OR8D4_HUMAN	olfactory receptor, family 8, subfamily D,	168	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		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;4.93e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0409)		GGTTGTCTTTCTGTGGATCAA	0.418													156	322	---	---	---	---	PASS
VWA5A	4013	broad.mit.edu	37	11	124007928	124007928	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:124007928C>A	uc001pzu.2	+	15	2041	c.1832C>A	c.(1831-1833)CCA>CAA	p.P611Q	VWA5A_uc001pzt.2_Missense_Mutation_p.P611Q	NM_001130142	NP_001123614	O00534	VMA5A_HUMAN	BCSC-1 isoform 1	611										upper_aerodigestive_tract(1)|ovary(1)	2						GTCCCAAGGCCAATTCTGTTG	0.438													17	130	---	---	---	---	PASS
OR8B4	283162	broad.mit.edu	37	11	124294691	124294691	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:124294691G>T	uc010sak.1	-	1	77	c.77C>A	c.(76-78)CCT>CAT	p.P26H		NM_001005196	NP_001005196	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B,	26	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		AAGGAAAAGAGGGAGCTGGAG	0.488													29	75	---	---	---	---	PASS
OR8A1	390275	broad.mit.edu	37	11	124440531	124440531	+	Silent	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:124440531C>G	uc010san.1	+	1	567	c.567C>G	c.(565-567)CTC>CTG	p.L189L		NM_001005194	NP_001005194	Q8NGG7	OR8A1_HUMAN	olfactory receptor, family 8, subfamily A,	189	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0214)		GTGAGCACCTCATCAGTCACT	0.498													48	161	---	---	---	---	PASS
OR8A1	390275	broad.mit.edu	37	11	124440627	124440627	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:124440627C>T	uc010san.1	+	1	663	c.663C>T	c.(661-663)TTC>TTT	p.F221F		NM_001005194	NP_001005194	Q8NGG7	OR8A1_HUMAN	olfactory receptor, family 8, subfamily A,	221	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0214)		CGGCTGGATTCAACATCATAG	0.473													38	133	---	---	---	---	PASS
PANX3	116337	broad.mit.edu	37	11	124481499	124481499	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:124481499T>C	uc001qah.2	+	1	47	c.47T>C	c.(46-48)CTG>CCG	p.L16P		NM_052959	NP_443191	Q96QZ0	PANX3_HUMAN	pannexin 3	16	Cytoplasmic (Potential).				protein hexamerization	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0219)		TCAGATGCCCTGCTGCCTGAC	0.617													9	56	---	---	---	---	PASS
C11orf61	79684	broad.mit.edu	37	11	124637400	124637400	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr11:124637400C>A	uc001qba.1	-	4	1375	c.1352G>T	c.(1351-1353)CGG>CTG	p.R451L	C11orf61_uc001qaz.1_Missense_Mutation_p.R399L|C11orf61_uc010sap.1_Missense_Mutation_p.R171L|C11orf61_uc001qay.1_Missense_Mutation_p.R221L	NM_024631	NP_078907	Q6P1R3	CK061_HUMAN	hypothetical protein LOC79684	451											0	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0079)		CAGGTCAACCCGGCCCTCTTT	0.507													197	178	---	---	---	---	PASS
WNK1	65125	broad.mit.edu	37	12	992672	992672	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:992672G>C	uc001qio.3	+	16	4108	c.3601G>C	c.(3601-3603)GAG>CAG	p.E1201Q	WNK1_uc001qip.3_Missense_Mutation_p.E954Q|WNK1_uc001qir.3_Missense_Mutation_p.E374Q	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1201					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			TGTGGAACCAGAGGGTGATCA	0.423													32	142	---	---	---	---	PASS
WNK1	65125	broad.mit.edu	37	12	1005368	1005368	+	Silent	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:1005368G>C	uc001qio.3	+	24	6222	c.5715G>C	c.(5713-5715)GTG>GTC	p.V1905V	WNK1_uc001qip.3_Silent_p.V1657V|WNK1_uc001qir.3_Silent_p.V1078V	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1905					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			GTACCTTGGTGAAACCAGAGC	0.473													24	91	---	---	---	---	PASS
TSPAN9	10867	broad.mit.edu	37	12	3389621	3389621	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:3389621A>G	uc001qlp.2	+	6	551	c.404A>G	c.(403-405)AAG>AGG	p.K135R		NM_006675	NP_006666	O75954	TSN9_HUMAN	tetraspanin 9	135	Extracellular (Potential).					integral to plasma membrane|membrane fraction				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.00153)|COAD - Colon adenocarcinoma(12;0.0831)			GTGGGGCTGAAGAACGCCTGG	0.647													18	29	---	---	---	---	PASS
KCNA5	3741	broad.mit.edu	37	12	5153871	5153871	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:5153871G>A	uc001qni.2	+	1	787	c.558G>A	c.(556-558)CGG>CGA	p.R186R		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	186						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity	p.R186R(1)		ovary(2)|breast(2)	4						GCCGCCTGCGGAGGCCGGTCA	0.637													10	52	---	---	---	---	PASS
FAM90A1	55138	broad.mit.edu	37	12	8376803	8376803	+	Nonsense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:8376803G>T	uc001qui.2	-	5	691	c.132C>A	c.(130-132)TGC>TGA	p.C44*	FAM90A1_uc001quh.2_Nonsense_Mutation_p.C44*	NM_018088	NP_060558	Q86YD7	F90A1_HUMAN	hypothetical protein LOC55138	44							nucleic acid binding|zinc ion binding			ovary(1)	1				Kidney(36;0.0866)		CACAGTTTTTGCACTTGAGCT	0.542													33	106	---	---	---	---	PASS
ATF7IP	55729	broad.mit.edu	37	12	14633984	14633984	+	Missense_Mutation	SNP	A	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:14633984A>C	uc001rbw.2	+	13	3303	c.3145A>C	c.(3145-3147)ACA>CCA	p.T1049P	ATF7IP_uc001rbv.1_Missense_Mutation_p.T1048P|ATF7IP_uc001rbx.2_Missense_Mutation_p.T1048P|ATF7IP_uc001rby.3_Missense_Mutation_p.T1049P|ATF7IP_uc001rca.2_Missense_Mutation_p.T1049P	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	1049					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						TCAGGTGACCACAAGACTCCC	0.458													69	124	---	---	---	---	PASS
SLCO1B1	10599	broad.mit.edu	37	12	21377756	21377756	+	Silent	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:21377756T>C	uc001req.3	+	14	1952	c.1848T>C	c.(1846-1848)TAT>TAC	p.Y616Y		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	616	Extracellular (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	GTAGGACATATAATTCCACAT	0.303													58	62	---	---	---	---	PASS
GOLT1B	51026	broad.mit.edu	37	12	21661455	21661455	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:21661455G>T	uc001rez.2	+	3	415	c.256G>T	c.(256-258)GGC>TGC	p.G86C	GOLT1B_uc009zis.2_RNA|GOLT1B_uc009zit.2_RNA|GOLT1B_uc009ziu.2_Intron	NM_016072	NP_057156	Q9Y3E0	GOT1B_HUMAN	golgi transport 1 homolog B	86	Phe-rich.|Helical; Name=3; (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade|protein transport|vesicle-mediated transport	endoplasmic reticulum|Golgi membrane|integral to membrane	signal transducer activity				0						GCCTTTGATAGGCATGATCTT	0.333													52	101	---	---	---	---	PASS
TSPAN11	441631	broad.mit.edu	37	12	31144836	31144836	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:31144836C>T	uc010sju.1	+	8	1128	c.748C>T	c.(748-750)CGG>TGG	p.R250W	TSPAN11_uc001rjp.2_Missense_Mutation_p.R250W|TSPAN11_uc010sjv.1_Missense_Mutation_p.R240W	NM_001080509	NP_001073978	A1L157	TSN11_HUMAN	tetraspanin 11	250						integral to membrane					0	all_lung(12;3.11e-10)|Lung NSC(12;5.24e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					GAGGCTCCAGCGGCATTTTTA	0.552													16	63	---	---	---	---	PASS
ADAMTS20	80070	broad.mit.edu	37	12	43822454	43822454	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:43822454G>A	uc010skx.1	-	25	3638	c.3638C>T	c.(3637-3639)GCA>GTA	p.A1213V	ADAMTS20_uc001rno.1_Missense_Mutation_p.A331V|ADAMTS20_uc001rnp.1_Missense_Mutation_p.A367V	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1213	TSP type-1 8.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CCAATCCCCTGCTTGCCACTC	0.343													30	33	---	---	---	---	PASS
ITGA5	3678	broad.mit.edu	37	12	54799710	54799710	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:54799710C>A	uc001sga.2	-	10	975	c.907G>T	c.(907-909)GTC>TTC	p.V303F	ITGA5_uc010sow.1_RNA|ITGA5_uc009znp.1_RNA	NM_002205	NP_002196	P08648	ITA5_HUMAN	integrin alpha 5 precursor	303	Extracellular (Potential).|FG-GAP 4.				angiogenesis|axon guidance|blood coagulation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|wound healing, spreading of epidermal cells	alphav-beta3 integrin-vitronectin complex|integrin complex|ruffle	platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			ovary(2)	2						AGGATGGTGACCTGGGAGATG	0.522													26	96	---	---	---	---	PASS
OR9K2	441639	broad.mit.edu	37	12	55524230	55524230	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:55524230C>T	uc010spe.1	+	1	678	c.678C>T	c.(676-678)TCC>TCT	p.S226S		NM_001005243	NP_001005243	Q8NGE7	OR9K2_HUMAN	olfactory receptor, family 9, subfamily K,	226	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2						TATCTTTTTCCTTATCATGTA	0.363													38	124	---	---	---	---	PASS
GLIPR1L1	256710	broad.mit.edu	37	12	75741445	75741445	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:75741445T>C	uc001sxo.2	+	3	510	c.464T>C	c.(463-465)ATG>ACG	p.M155T	CAPS2_uc001sxm.3_Intron|CAPS2_uc009zsa.2_Intron|GLIPR1L1_uc001sxn.2_Missense_Mutation_p.M155T	NM_152779	NP_689992	Q6UWM5	GPRL1_HUMAN	GLI pathogenesis-related 1 like 1	155						extracellular region					0						GCAGTTGCAATGTGTCCTAAC	0.333													36	176	---	---	---	---	PASS
GLIPR1L2	144321	broad.mit.edu	37	12	75804237	75804237	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:75804237G>A	uc001sxr.1	+	2	266	c.258G>A	c.(256-258)CGG>CGA	p.R86R	GLIPR1L2_uc001sxp.1_Silent_p.R86R|GLIPR1L2_uc001sxq.1_5'UTR	NM_152436	NP_689649	Q4G1C9	GRPL2_HUMAN	GLI pathogenesis-related 1 like 2	86						integral to membrane				ovary(1)	1						CTTTATCACGGACTGCTAGAG	0.284													41	71	---	---	---	---	PASS
ZDHHC17	23390	broad.mit.edu	37	12	77222220	77222220	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:77222220T>C	uc001syk.1	+	10	1254	c.1091T>C	c.(1090-1092)TTG>TCG	p.L364S		NM_015336	NP_056151	Q8IUH5	ZDH17_HUMAN	huntingtin interacting protein 14	364	Helical; (Potential).				lipoprotein transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi-associated vesicle membrane|integral to membrane	magnesium ion transmembrane transporter activity|protein binding|protein-cysteine S-palmitoleyltransferase activity|signal transducer activity|zinc ion binding				0						GGGATATATTTGGCAACCAAA	0.313													96	371	---	---	---	---	PASS
LIN7A	8825	broad.mit.edu	37	12	81205391	81205391	+	Silent	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:81205391C>A	uc001szj.1	-	5	748	c.555G>T	c.(553-555)GTG>GTT	p.V185V	LIN7A_uc001szk.1_RNA	NM_004664	NP_004655	O14910	LIN7A_HUMAN	lin-7 homolog A	185	PDZ.				exocytosis|protein complex assembly|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	L27 domain binding			ovary(1)|skin(1)	2						TGTATCGCACCACCAGCTTGA	0.463													22	116	---	---	---	---	PASS
SPIC	121599	broad.mit.edu	37	12	101873408	101873408	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:101873408G>T	uc001tid.2	+	4	305	c.146G>T	c.(145-147)GGA>GTA	p.G49V	SPIC_uc009zua.2_5'UTR|SPIC_uc010svp.1_Missense_Mutation_p.G48V	NM_152323	NP_689536	Q8N5J4	SPIC_HUMAN	Spi-C transcription factor (Spi-1/PU.1 related)	49						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						CATGTCAAAGGAAATTCCAGC	0.363													44	52	---	---	---	---	PASS
SPIC	121599	broad.mit.edu	37	12	101873409	101873409	+	Silent	SNP	A	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:101873409A>T	uc001tid.2	+	4	306	c.147A>T	c.(145-147)GGA>GGT	p.G49G	SPIC_uc009zua.2_5'UTR|SPIC_uc010svp.1_Silent_p.G48G	NM_152323	NP_689536	Q8N5J4	SPIC_HUMAN	Spi-C transcription factor (Spi-1/PU.1 related)	49						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						ATGTCAAAGGAAATTCCAGCT	0.358													45	54	---	---	---	---	PASS
C12orf48	55010	broad.mit.edu	37	12	102589768	102589768	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:102589768C>T	uc001tjf.2	+	11	1551	c.1439C>T	c.(1438-1440)ACG>ATG	p.T480M	C12orf48_uc001tjg.2_Missense_Mutation_p.T399M|C12orf48_uc010swa.1_Missense_Mutation_p.T557M|C12orf48_uc001tjh.2_Missense_Mutation_p.T399M|C12orf48_uc010swb.1_Silent_p.N173N|C12orf48_uc009zuc.2_Missense_Mutation_p.T34M|C12orf48_uc001tjj.2_Missense_Mutation_p.T195M|C12orf48_uc001tjk.2_3'UTR|C12orf48_uc009zud.2_Silent_p.N287N	NM_017915	NP_060385	Q9NWS1	PR1BP_HUMAN	hypothetical protein LOC55010	480					response to DNA damage stimulus	cytoplasm|nucleus	DNA binding				0						ACAATTGGAACGAGTTTTGGA	0.338													14	37	---	---	---	---	PASS
STAB2	55576	broad.mit.edu	37	12	104067755	104067755	+	Nonsense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:104067755C>A	uc001tjw.2	+	23	2628	c.2442C>A	c.(2440-2442)TGC>TGA	p.C814*		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	814	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CTGGCACATGCAGAGACGGCT	0.567													10	62	---	---	---	---	PASS
CRY1	1407	broad.mit.edu	37	12	107486612	107486612	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:107486612C>G	uc001tmi.3	-	1	987	c.128G>C	c.(127-129)GGC>GCC	p.G43A		NM_004075	NP_004066	Q16526	CRY1_HUMAN	cryptochrome 1 (photolyase-like)	43	DNA photolyase.				DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	blue light photoreceptor activity|DNA photolyase activity|double-stranded DNA binding|nucleotide binding|protein binding			ovary(3)	3						ATTGGAGGAGCCGGCGAACCA	0.577											OREG0022082	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	15	---	---	---	---	PASS
CUX2	23316	broad.mit.edu	37	12	111748470	111748470	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:111748470C>T	uc001tsa.1	+	15	2037	c.1884C>T	c.(1882-1884)ATC>ATT	p.I628I		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	628	CUT 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						TCAGGACCATCCAAGTGCGGC	0.517													22	35	---	---	---	---	PASS
ATXN2	6311	broad.mit.edu	37	12	111926308	111926308	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:111926308C>A	uc001tsj.2	-	15	2854	c.2692G>T	c.(2692-2694)GAT>TAT	p.D898Y	ATXN2_uc001tsh.2_Missense_Mutation_p.D633Y|ATXN2_uc001tsi.2_Missense_Mutation_p.D609Y|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsg.2_Missense_Mutation_p.D84Y	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	898					cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						TCTTCCTTATCGTCTTTCTCT	0.433													23	107	---	---	---	---	PASS
MAPKAPK5	8550	broad.mit.edu	37	12	112321495	112321495	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:112321495G>C	uc001tta.2	+	9	1030	c.771G>C	c.(769-771)AAG>AAC	p.K257N	MAPKAPK5_uc001tsz.2_Missense_Mutation_p.K257N|MAPKAPK5_uc001ttb.2_Missense_Mutation_p.K190N	NM_139078	NP_620777	Q8IW41	MAPK5_HUMAN	MAP kinase-activated protein kinase 5 isoform 2	257	Protein kinase.				signal transduction	cytoplasm|nucleus	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)	3						TGCGAAGAAAGATCATGACAG	0.498													61	213	---	---	---	---	PASS
MAPKAPK5	8550	broad.mit.edu	37	12	112321523	112321523	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:112321523G>A	uc001tta.2	+	9	1058	c.799G>A	c.(799-801)GAG>AAG	p.E267K	MAPKAPK5_uc001tsz.2_Missense_Mutation_p.E267K|MAPKAPK5_uc001ttb.2_Missense_Mutation_p.E200K	NM_139078	NP_620777	Q8IW41	MAPK5_HUMAN	MAP kinase-activated protein kinase 5 isoform 2	267	Protein kinase.				signal transduction	cytoplasm|nucleus	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)	3						TGAGTTCCCAGAGGAAGAGTG	0.527													44	155	---	---	---	---	PASS
OAS3	4940	broad.mit.edu	37	12	113384716	113384716	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:113384716T>A	uc001tug.2	+	4	892	c.805T>A	c.(805-807)TGG>AGG	p.W269R		NM_006187	NP_006178	Q9Y6K5	OAS3_HUMAN	2'-5'oligoadenylate synthetase 3	269	OAS domain 1.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	microsome	ATP binding|nucleotidyltransferase activity|RNA binding			central_nervous_system(1)	1						GTGTGTTTTCTGGACTGTCAA	0.562													25	34	---	---	---	---	PASS
PLBD2	196463	broad.mit.edu	37	12	113812701	113812701	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:113812701C>T	uc001tve.2	+	5	783	c.748C>T	c.(748-750)CTG>TTG	p.L250L	PLBD2_uc001tvf.2_Silent_p.L250L	NM_173542	NP_775813	Q8NHP8	PLBL2_HUMAN	phospholipase B domain containing 2 isoform 1	250					lipid catabolic process	lysosomal lumen	hydrolase activity				0						CCTCATCAAGCTGCTCCCTGG	0.577													19	130	---	---	---	---	PASS
CLIP1	6249	broad.mit.edu	37	12	122832004	122832004	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:122832004G>A	uc001ucg.1	-	9	1530	c.1424C>T	c.(1423-1425)GCC>GTC	p.A475V	CLIP1_uc001uch.1_Missense_Mutation_p.A464V|CLIP1_uc001uci.1_Intron|CLIP1_uc001ucj.1_Missense_Mutation_p.A165V|CLIP1_uc009zxo.1_Intron	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	475	Potential.				mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		CTTAATGCGGGCATGCTCCAG	0.478													5	305	---	---	---	---	PASS
RILPL1	353116	broad.mit.edu	37	12	123970353	123970353	+	Splice_Site	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:123970353C>G	uc001ufe.2	-	5	1038	c.802_splice	c.e5-1	p.T268_splice	RILPL1_uc001ufd.2_Splice_Site_p.T117_splice|RILPL1_uc010tas.1_Splice_Site_p.T268_splice	NM_178314	NP_847884	Q5EBL4	RIPL1_HUMAN	Rab interacting lysosomal protein-like 1						neuroprotection	cytosol					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.00067)|all cancers(50;0.00836)|BRCA - Breast invasive adenocarcinoma(302;0.197)		CCGGCTCCGTCTGGAGGAGGC	0.627													8	25	---	---	---	---	PASS
SACS	26278	broad.mit.edu	37	13	23913541	23913541	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:23913541C>G	uc001uon.2	-	10	5063	c.4474G>C	c.(4474-4476)GAA>CAA	p.E1492Q	SACS_uc001uoo.2_Missense_Mutation_p.E1345Q|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	1492					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AAACTGCATTCTGTTGCATTT	0.378													64	47	---	---	---	---	PASS
CPB2	1361	broad.mit.edu	37	13	46641480	46641480	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:46641480C>T	uc001vaw.2	-	7	731	c.664G>A	c.(664-666)GTG>ATG	p.V222M	uc001vau.1_Intron|uc001vav.1_Intron|CPB2_uc001vax.2_Intron	NM_001872	NP_001863	Q96IY4	CBPB2_HUMAN	plasma carboxypeptidase B2 isoform a	222					blood coagulation|fibrinolysis|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(96;4.21e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|all_neural(104;0.235)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.44e-05)		ACATTAACCACTGGCATAACA	0.363													5	33	---	---	---	---	PASS
RCBTB1	55213	broad.mit.edu	37	13	50115024	50115024	+	Missense_Mutation	SNP	T	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:50115024T>G	uc001vde.1	-	12	1704	c.1443A>C	c.(1441-1443)AGA>AGC	p.R481S		NM_018191	NP_060661	Q8NDN9	RCBT1_HUMAN	regulator of chromosome condensation (RCC1) and	481	BTB 2.				cell cycle|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(1)	1		Lung NSC(96;2.1e-05)|Breast(56;0.00015)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;4.7e-09)		CTGCATCATATCTGACTGCAG	0.433													24	63	---	---	---	---	PASS
NEK5	341676	broad.mit.edu	37	13	52682506	52682506	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:52682506G>A	uc001vge.2	-	8	642	c.502C>T	c.(502-504)CCT>TCT	p.P168S	NEK5_uc001vgf.2_Missense_Mutation_p.P168S	NM_199289	NP_954983	Q6P3R8	NEK5_HUMAN	NIMA-related kinase 5	168	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)	1		Breast(56;0.00173)|Lung NSC(96;0.0168)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;3.7e-08)		AGGTAGTAAGGTGTTCCAATA	0.333													41	54	---	---	---	---	PASS
PCCA	5095	broad.mit.edu	37	13	100955223	100955223	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:100955223C>G	uc001voo.2	+	14	1293	c.1255C>G	c.(1255-1257)CAG>GAG	p.Q419E	PCCA_uc010aga.2_Missense_Mutation_p.Q393E|PCCA_uc010tiz.1_Missense_Mutation_p.Q419E|PCCA_uc001vop.2_RNA	NM_000282	NP_000273	P05165	PCCA_HUMAN	propionyl-Coenzyme A carboxylase, alpha	419	Biotin carboxylation.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|enzyme binding|metal ion binding|propionyl-CoA carboxylase activity			skin(2)	2	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Biotin(DB00121)	GAGATTGTCTCAGTACCAAGA	0.373													38	67	---	---	---	---	PASS
NALCN	259232	broad.mit.edu	37	13	101763018	101763018	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:101763018G>C	uc001vox.1	-	20	2505	c.2316C>G	c.(2314-2316)AAC>AAG	p.N772K		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	772	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TCCTCTGGCTGTTTGATCCAT	0.373													29	56	---	---	---	---	PASS
NALCN	259232	broad.mit.edu	37	13	101881796	101881796	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:101881796A>G	uc001vox.1	-	13	1763	c.1574T>C	c.(1573-1575)TTG>TCG	p.L525S	NALCN_uc001voy.2_Missense_Mutation_p.L240S|NALCN_uc001voz.2_Missense_Mutation_p.L525S|NALCN_uc001vpa.2_Missense_Mutation_p.L525S	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	525	Helical; Name=S5 of repeat II; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GAACATCTGCAAACTAATTGC	0.353													11	96	---	---	---	---	PASS
FGF14	2259	broad.mit.edu	37	13	102527585	102527585	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:102527585C>A	uc001vpe.2	-	2	255	c.255G>T	c.(253-255)ATG>ATT	p.M85I	FGF14_uc001vpf.2_Missense_Mutation_p.M90I	NM_004115	NP_004106	Q92915	FGF14_HUMAN	fibroblast growth factor 14 isoform 1A	85					cell death|cell-cell signaling|JNK cascade|nervous system development|signal transduction	nucleus	growth factor activity|heparin binding	p.G85G(1)		ovary(2)|lung(1)|large_intestine(1)	4	all_neural(89;0.0239)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CATCGGGGTGCATTTGCAAGT	0.458													15	44	---	---	---	---	PASS
COL4A1	1282	broad.mit.edu	37	13	110839513	110839513	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:110839513G>T	uc001vqw.3	-	25	1822	c.1700C>A	c.(1699-1701)CCG>CAG	p.P567Q	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	567	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			AGGAAGACCCGGATGGCCATC	0.517													33	103	---	---	---	---	PASS
GAS6	2621	broad.mit.edu	37	13	114541079	114541079	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr13:114541079G>C	uc001vud.2	-	6	705	c.552C>G	c.(550-552)AGC>AGG	p.S184R	GAS6_uc001vuf.2_5'Flank	NM_000820	NP_000811	Q14393	GAS6_HUMAN	growth arrest-specific 6 isoform 1 precursor	184	EGF-like 2; calcium-binding (Potential).				cell proliferation|leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|post-translational protein modification|proteolysis|regulation of growth	endoplasmic reticulum lumen|extracellular space|Golgi lumen|platelet alpha granule lumen	calcium ion binding|receptor agonist activity			central_nervous_system(4)	4	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0176)|all_epithelial(44;0.0104)|all_lung(25;0.0249)|Lung NSC(25;0.0908)|Breast(118;0.188)				GCTCGAAGCCGCTGTGGCAGG	0.587													17	30	---	---	---	---	PASS
RNASE3	6037	broad.mit.edu	37	14	21360108	21360108	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:21360108G>A	uc001vyj.2	+	2	317	c.263G>A	c.(262-264)CGC>CAC	p.R88H		NM_002935	NP_002926	P12724	ECP_HUMAN	ribonuclease, RNase A family, 3 (eosinophil	88					defense response to bacterium|RNA catabolic process	extracellular region|soluble fraction	nucleic acid binding|pancreatic ribonuclease activity				0	all_cancers(95;0.00453)		OV - Ovarian serous cystadenocarcinoma(11;6.3e-09)|Epithelial(56;1.42e-07)|all cancers(55;5.48e-07)	GBM - Glioblastoma multiforme(265;0.0187)	Pranlukast(DB01411)	CAAAGTATACGCTGCCCTCAT	0.398													35	150	---	---	---	---	PASS
HNRNPC	3183	broad.mit.edu	37	14	21679612	21679612	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:21679612C>A	uc001vzy.2	-	8	1034	c.790G>T	c.(790-792)GGG>TGG	p.G264W	HNRNPC_uc001vzw.2_Missense_Mutation_p.G251W|HNRNPC_uc001wad.2_Missense_Mutation_p.G184W|HNRNPC_uc001vzx.2_RNA|HNRNPC_uc001vzz.2_Missense_Mutation_p.G251W|HNRNPC_uc001waa.2_Missense_Mutation_p.G264W|HNRNPC_uc010ail.2_Missense_Mutation_p.G264W|HNRNPC_uc010tlq.1_RNA|HNRNPC_uc001wab.2_Missense_Mutation_p.G250W|HNRNPC_uc001wac.2_Missense_Mutation_p.G208W|HNRNPC_uc010tlr.1_Missense_Mutation_p.G129W|HNRNPC_uc001waf.2_Missense_Mutation_p.G251W|HNRNPC_uc001wae.2_Missense_Mutation_p.G251W	NM_031314	NP_112604	P07910	HNRPC_HUMAN	heterogeneous nuclear ribonucleoprotein C	264	Asp/Glu-rich (acidic).					catalytic step 2 spliceosome|nucleoplasm	identical protein binding|nucleotide binding|RNA binding				0	all_cancers(95;0.00176)		Epithelial(56;1.08e-06)|all cancers(55;8.95e-06)	GBM - Glioblastoma multiforme(265;0.00783)		AGTAGGTCCCCCTCCTCAGCA	0.522													36	77	---	---	---	---	PASS
REC8	9985	broad.mit.edu	37	14	24642575	24642575	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:24642575G>T	uc001wmr.2	+	6	844	c.417G>T	c.(415-417)ATG>ATT	p.M139I	REC8_uc001wms.2_Missense_Mutation_p.M139I	NM_005132	NP_005123	O95072	REC8_HUMAN	REC8 homolog	139					mitotic metaphase/anaphase transition|mitotic prometaphase|reciprocal meiotic recombination|sister chromatid cohesion	nucleoplasm					0				GBM - Glioblastoma multiforme(265;0.00839)		TTTTTGGGATGATGTCTGTGG	0.532													175	238	---	---	---	---	PASS
CFL2	1073	broad.mit.edu	37	14	35182136	35182136	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:35182136G>A	uc001wsg.3	-	4	577	c.436C>T	c.(436-438)CGT>TGT	p.R146C	CFL2_uc010tpn.1_Missense_Mutation_p.R129C|CFL2_uc001wsh.3_Missense_Mutation_p.R146C|CFL2_uc001wsi.3_RNA|CFL2_uc001wsj.3_RNA	NM_021914	NP_068733	Q9Y281	COF2_HUMAN	cofilin 2	146	ADF-H.					cytoplasm|cytoskeleton|nuclear matrix	actin binding			breast(2)	2	Breast(36;0.0361)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;6.07e-06)|Lung(238;2.23e-05)|Epithelial(34;0.0387)|all cancers(34;0.0814)	GBM - Glioblastoma multiforme(112;0.0424)		AGTGTCGAACGGTCCTTAATA	0.328													30	92	---	---	---	---	PASS
PTGDR	5729	broad.mit.edu	37	14	52734567	52734567	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:52734567C>A	uc001wzq.2	+	1	137	c.35C>A	c.(34-36)ACC>AAC	p.T12N		NM_000953	NP_000944	Q13258	PD2R_HUMAN	prostaglandin D2 receptor	12	Extracellular (Potential).					integral to membrane|plasma membrane	prostaglandin D receptor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	CAGAACACCACCTCTGTGGAA	0.701													9	5	---	---	---	---	PASS
KIAA1737	85457	broad.mit.edu	37	14	77580545	77580545	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:77580545G>C	uc001xtd.2	+	4	1263	c.1084G>C	c.(1084-1086)GAA>CAA	p.E362Q	KIAA1737_uc001xtc.1_Missense_Mutation_p.E264Q	NM_033426	NP_219494	Q9C0C6	K1737_HUMAN	KIAA1737 protein	362											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0284)		GCTGTTTATAGAAGCCACCAA	0.493													3	78	---	---	---	---	PASS
TTC8	123016	broad.mit.edu	37	14	89337998	89337998	+	Silent	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:89337998T>C	uc010ath.2	+	12	1337	c.1203T>C	c.(1201-1203)CGT>CGC	p.R401R	TTC8_uc001xxl.2_Silent_p.R146R|TTC8_uc010ati.2_Silent_p.R187R|TTC8_uc001xxm.2_Silent_p.R345R|TTC8_uc010atj.2_Silent_p.R120R|TTC8_uc001xxi.2_Silent_p.R385R|TTC8_uc001xxj.2_Silent_p.R375R|TTC8_uc001xxk.2_Silent_p.R345R	NM_198309	NP_938051	Q8TAM2	TTC8_HUMAN	tetratricopeptide repeat domain 8 isoform B	411	TPR 6.				cilium assembly|establishment of anatomical structure orientation|sensory processing	BBSome|centrosome|cilium membrane|microtubule basal body	protein binding				0						CATTTGAACGTGCCCTTTCTT	0.433									Bardet-Biedl_syndrome				6	189	---	---	---	---	PASS
KIAA1409	57578	broad.mit.edu	37	14	94088624	94088624	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:94088624C>A	uc001ybv.1	+	28	4663	c.4580C>A	c.(4579-4581)GCT>GAT	p.A1527D	KIAA1409_uc001ybs.1_Missense_Mutation_p.A1505D	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1682						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		CTGAGCACAGCTCCGCTTGTA	0.537													78	49	---	---	---	---	PASS
PPP4R4	57718	broad.mit.edu	37	14	94697620	94697620	+	Missense_Mutation	SNP	G	A	A	rs149895295		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:94697620G>A	uc001ycs.1	+	5	638	c.484G>A	c.(484-486)GAA>AAA	p.E162K		NM_058237	NP_478144	Q6NUP7	PP4R4_HUMAN	HEAT-like repeat-containing protein isoform 1	162						cytoplasm|protein serine/threonine phosphatase complex	protein binding			skin(3)|upper_aerodigestive_tract(1)	4						GTCTGTTATAGAAGTATTGCC	0.358													81	64	---	---	---	---	PASS
EIF5	1983	broad.mit.edu	37	14	103802453	103802453	+	Silent	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:103802453G>T	uc001ymq.2	+	4	675	c.153G>T	c.(151-153)ACG>ACT	p.T51T	EIF5_uc001ymr.2_Silent_p.T51T|EIF5_uc001yms.2_Silent_p.T51T|EIF5_uc001ymt.2_Silent_p.T51T|EIF5_uc001ymu.2_Silent_p.T51T|SNORA28_uc001ymv.1_5'Flank	NM_001969	NP_001960	P55010	IF5_HUMAN	eukaryotic translation initiation factor 5	51					regulation of translational initiation|RNA metabolic process	cytosol	GTP binding|GTPase activity|translation initiation factor activity			pancreas(1)|breast(1)|skin(1)	3		Melanoma(154;0.155)	Epithelial(46;0.182)			GGCCTCCAACGTGTAAGTAAA	0.393													29	20	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106321889	106321889	+	RNA	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:106321889G>T	uc010tyt.1	-	3599		c.55507C>A			uc001yrs.2_Intron|uc001yrt.2_Intron|uc001yrw.1_Intron|uc001yrx.1_Intron|uc001yrz.1_Intron|uc001yse.2_Intron|uc001ysf.2_Intron|uc001ysj.2_Intron|uc001ysk.1_Intron|uc001ysl.1_Intron|uc001ysm.1_Intron|uc001ysn.1_Intron|uc001yso.1_Intron					Parts of antibodies, mostly variable regions.												0						GTGGGACGAAGACGCTCACTT	0.667													28	17	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106610747	106610747	+	RNA	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:106610747A>G	uc010tyt.1	-	1166		c.26187T>C								Parts of antibodies, mostly variable regions.												0						AGCAGCAAGGAAAATCCAGCT	0.463													26	110	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106926482	106926482	+	RNA	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr14:106926482T>C	uc010tyt.1	-	235		c.10073A>G			uc010tyu.1_Intron					Parts of antibodies, mostly variable regions.												0						CCAGCTGCACTTCACACTGGA	0.527													4	159	---	---	---	---	PASS
NIPA1	123606	broad.mit.edu	37	15	23049066	23049066	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:23049066C>T	uc001yvc.2	-	5	778	c.753G>A	c.(751-753)GCG>GCA	p.A251A	NIPA1_uc001yvd.2_Silent_p.A81A|NIPA1_uc001yve.2_Silent_p.A176A	NM_144599	NP_653200	Q7RTP0	NIPA1_HUMAN	non-imprinted in Prader-Willi/Angelman syndrome	251	Cytoplasmic (Potential).				cell death	early endosome|integral to membrane|plasma membrane					0		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;4.18e-06)|Epithelial(43;3.97e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00165)		AGCACTCCAGCGCCTTGTTGA	0.597													15	57	---	---	---	---	PASS
C15orf2	23742	broad.mit.edu	37	15	24921553	24921553	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:24921553T>A	uc001ywo.2	+	1	1013	c.539T>A	c.(538-540)CTT>CAT	p.L180H		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	180					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		AGGACCCCCCTTAGCAGCGGA	0.607													33	32	---	---	---	---	PASS
ATP10A	57194	broad.mit.edu	37	15	25932883	25932883	+	Silent	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:25932883G>T	uc010ayu.2	-	16	3364	c.3258C>A	c.(3256-3258)GCC>GCA	p.A1086A		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1086	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GCACCATGTTGGCAAGTCGGG	0.488													87	134	---	---	---	---	PASS
ATP10A	57194	broad.mit.edu	37	15	25966902	25966902	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:25966902T>A	uc010ayu.2	-	7	1371	c.1265A>T	c.(1264-1266)CAG>CTG	p.Q422L		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	422	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GAAAATGTACTGTATCTGTCC	0.428													57	134	---	---	---	---	PASS
RYR3	6263	broad.mit.edu	37	15	33926842	33926842	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:33926842G>A	uc001zhi.2	+	25	3153	c.3083G>A	c.(3082-3084)CGT>CAT	p.R1028H	RYR3_uc010bar.2_Missense_Mutation_p.R1028H	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1028	2.|B30.2/SPRY 2.|Cytoplasmic (By similarity).|4 X approximate repeats.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CTGGATGAGCGTACCAAGAAG	0.458													23	110	---	---	---	---	PASS
INO80	54617	broad.mit.edu	37	15	41377648	41377648	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:41377648C>A	uc001zni.2	-	7	1005	c.792G>T	c.(790-792)AAG>AAT	p.K264N	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	264	Assembles INO80 complex module with putative regulatory components INO80E, INO80F, UCHL5, NFRKB, MCRS1 and IN80D.|Assembles INO80 complex module consisting of conserved components ACTR8, ACTL6A and YY1.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						AGTGCTTTTTCTTAGTGCCAG	0.483													46	210	---	---	---	---	PASS
GANC	2595	broad.mit.edu	37	15	42602892	42602892	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:42602892A>T	uc001zpi.2	+	10	1219	c.905A>T	c.(904-906)TAC>TTC	p.Y302F	GANC_uc001zph.2_Missense_Mutation_p.Y302F|GANC_uc001zpj.1_Missense_Mutation_p.Y41F	NM_198141	NP_937784	Q8TET4	GANC_HUMAN	glucosidase, alpha; neutral C	302					carbohydrate metabolic process		carbohydrate binding|maltose alpha-glucosidase activity			central_nervous_system(2)	2		all_cancers(109;3.08e-16)|all_epithelial(112;7.48e-15)|Lung NSC(122;3.08e-09)|all_lung(180;1.48e-08)|Melanoma(134;0.0574)|Colorectal(260;0.153)		GBM - Glioblastoma multiforme(94;1.06e-06)		TTTTTCCAGTACACACTGACC	0.418													32	102	---	---	---	---	PASS
LRRC57	255252	broad.mit.edu	37	15	42839477	42839477	+	Silent	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:42839477G>C	uc001zqd.1	-	3	842	c.474C>G	c.(472-474)CTC>CTG	p.L158L	HAUS2_uc001zqe.2_5'Flank|HAUS2_uc010udi.1_5'Flank|HAUS2_uc001zqf.2_5'Flank|LRRC57_uc001zqc.2_Silent_p.L158L	NM_153260	NP_694992	Q8N9N7	LRC57_HUMAN	leucine rich repeat containing 57	158	LRR 6.										0		all_cancers(109;1.99e-12)|all_epithelial(112;5.11e-11)|Lung NSC(122;4.53e-07)|all_lung(180;1.64e-06)|Melanoma(134;0.0262)		GBM - Glioblastoma multiforme(94;6.87e-07)		GGTTGAGGTTGAGTTCGATGA	0.448													66	86	---	---	---	---	PASS
TGM7	116179	broad.mit.edu	37	15	43577058	43577058	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:43577058C>T	uc001zrf.1	-	7	963	c.958G>A	c.(958-960)GAC>AAC	p.D320N		NM_052955	NP_443187	Q96PF1	TGM7_HUMAN	transglutaminase 7	320					peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)	2		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.14e-07)	L-Glutamine(DB00130)	GCATTTCGGTCATAGTACGTA	0.468													48	223	---	---	---	---	PASS
TLN2	83660	broad.mit.edu	37	15	63004276	63004276	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:63004276G>C	uc002alb.3	+	19	2634	c.2634G>C	c.(2632-2634)AAG>AAC	p.K878N		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	878	Ala-rich.				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						AAGCTGCAAAGGTATTCTACT	0.448													22	48	---	---	---	---	PASS
DPP8	54878	broad.mit.edu	37	15	65759515	65759515	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:65759515T>C	uc002aov.2	-	13	3209	c.1631A>G	c.(1630-1632)AAA>AGA	p.K544R	DPP8_uc002aow.2_Missense_Mutation_p.K544R|DPP8_uc010uiv.1_RNA|DPP8_uc002aox.2_Missense_Mutation_p.K528R|DPP8_uc002aoy.2_Missense_Mutation_p.K544R|DPP8_uc002aoz.2_Missense_Mutation_p.K528R|DPP8_uc010bhj.2_Missense_Mutation_p.K544R|DPP8_uc002apa.2_Missense_Mutation_p.K441R|DPP8_uc010bhi.2_5'UTR|DPP8_uc010bhk.1_Missense_Mutation_p.K113R	NM_130434	NP_569118	Q6V1X1	DPP8_HUMAN	dipeptidyl peptidase 8 isoform 1	544					immune response|proteolysis	cytoplasm|membrane|nucleus	aminopeptidase activity|dipeptidyl-peptidase activity|serine-type peptidase activity			ovary(1)	1						AGGGGAGTCTTTGGTGCCTTC	0.448													34	56	---	---	---	---	PASS
C15orf60	283677	broad.mit.edu	37	15	73852191	73852191	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:73852191G>C	uc002avq.2	+	6	763	c.735G>C	c.(733-735)CAG>CAC	p.Q245H	C15orf60_uc010bjb.2_Missense_Mutation_p.Q217H	NM_001042367	NP_001035826	Q7Z4M0	CO060_HUMAN	hypothetical protein LOC283677	245										pancreas(1)	1						TTATGGATCAGAATTTCCCAG	0.438													52	97	---	---	---	---	PASS
AGBL1	123624	broad.mit.edu	37	15	86807662	86807662	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:86807662G>T	uc002blz.1	+	10	1202	c.1122G>T	c.(1120-1122)AAG>AAT	p.K374N	AGBL1_uc002bma.1_Missense_Mutation_p.K105N|AGBL1_uc002bmb.1_Missense_Mutation_p.K68N	NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	374					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						GCAGGGTGAAGACGGGAAGGT	0.483													24	29	---	---	---	---	PASS
SPATA8	145946	broad.mit.edu	37	15	97326950	97326950	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr15:97326950C>A	uc002bue.2	+	1	275	c.65C>A	c.(64-66)TCT>TAT	p.S22Y	uc010uro.1_5'Flank|uc010urp.1_5'Flank|uc002bud.1_5'Flank	NM_173499	NP_775770	Q6RVD6	SPAT8_HUMAN	spermatogenesis associated 8	22										ovary(1)|skin(1)	2	Melanoma(26;0.0142)|Lung NSC(78;0.041)|all_lung(78;0.0468)		OV - Ovarian serous cystadenocarcinoma(32;0.0718)			ATTGCCCCCTCTTTTCAGAGG	0.557													23	57	---	---	---	---	PASS
PRSS21	10942	broad.mit.edu	37	16	2868807	2868807	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:2868807C>T	uc002crt.2	+	4	493	c.387C>T	c.(385-387)CGC>CGT	p.R129R	PRSS21_uc002crs.2_Silent_p.R127R|PRSS21_uc002crr.2_Silent_p.R129R	NM_006799	NP_006790	Q9Y6M0	TEST_HUMAN	testisin isoform 1	129	Peptidase S1.				proteolysis	anchored to membrane|cytoplasm|membrane fraction|plasma membrane	serine-type endopeptidase activity			ovary(1)|skin(1)	2						TGAGCCCTCGCTACCTGGGGA	0.532													85	156	---	---	---	---	PASS
ZNF205	7755	broad.mit.edu	37	16	3165878	3165878	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:3165878G>C	uc002cub.2	+	4	455	c.320G>C	c.(319-321)AGA>ACA	p.R107T	MGC3771_uc010bte.2_5'Flank|MGC3771_uc002ctz.3_5'Flank|ZNF205_uc002cua.2_Missense_Mutation_p.R107T	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	107					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						GGGAGGACCAGAGACCGGCAG	0.667													14	39	---	---	---	---	PASS
ZNF205	7755	broad.mit.edu	37	16	3166446	3166446	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:3166446G>A	uc002cub.2	+	5	517	c.382G>A	c.(382-384)GAT>AAT	p.D128N	MGC3771_uc010bte.2_5'Flank|MGC3771_uc002ctz.3_5'Flank|ZNF205_uc002cua.2_Missense_Mutation_p.D128N	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	128	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						GACTTTCGAGGATGTGGCCTT	0.547													13	83	---	---	---	---	PASS
ZNF205	7755	broad.mit.edu	37	16	3166483	3166483	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:3166483G>A	uc002cub.2	+	5	554	c.419G>A	c.(418-420)CGG>CAG	p.R140Q	MGC3771_uc010bte.2_5'Flank|MGC3771_uc002ctz.3_5'Flank|ZNF205_uc002cua.2_Missense_Mutation_p.R140Q	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	140	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						GAGTGGGGACGGCTGGACCAC	0.557													17	70	---	---	---	---	PASS
ZNF205	7755	broad.mit.edu	37	16	3169513	3169513	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:3169513G>A	uc002cub.2	+	7	987	c.852G>A	c.(850-852)GAG>GAA	p.E284E	ZNF205_uc002cua.2_Silent_p.E284E	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	284					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						AGCCCAACGAGGAGGAGAAGG	0.706													4	11	---	---	---	---	PASS
MYH11	4629	broad.mit.edu	37	16	15850288	15850288	+	Silent	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:15850288C>G	uc002ddy.2	-	14	1766	c.1659G>C	c.(1657-1659)CTG>CTC	p.L553L	MYH11_uc002ddv.2_Silent_p.L560L|MYH11_uc002ddw.2_Silent_p.L553L|MYH11_uc002ddx.2_Silent_p.L560L|MYH11_uc010bvg.2_Silent_p.L385L|MYH11_uc002dea.1_Silent_p.L259L	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	553	Myosin head-like.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						GCTCCGTGCACAGCTTCTCCA	0.567			T	CBFB	AML						OREG0023636	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	52	43	---	---	---	---	PASS
SMG1	23049	broad.mit.edu	37	16	18830965	18830965	+	Silent	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:18830965A>G	uc002dfm.2	-	56	10116	c.9753T>C	c.(9751-9753)GCT>GCC	p.A3251A	SMG1_uc010bwb.2_Silent_p.A3111A|SMG1_uc010bwa.2_Silent_p.A1982A	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	3251					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						ATTCAAGTGCAGCTAGCTTCT	0.408													5	3	---	---	---	---	PASS
ACSM2A	123876	broad.mit.edu	37	16	20489923	20489923	+	Missense_Mutation	SNP	T	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:20489923T>G	uc010bwe.2	+	11	1444	c.1205T>G	c.(1204-1206)CTG>CGG	p.L402R	ACSM2A_uc010vax.1_Missense_Mutation_p.L323R|ACSM2A_uc002dhf.3_Missense_Mutation_p.L402R|ACSM2A_uc002dhg.3_Missense_Mutation_p.L402R|ACSM2A_uc010vay.1_Missense_Mutation_p.L323R|ACSM2A_uc002dhh.3_Missense_Mutation_p.L32R	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	402					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						GGCAACGTCCTGCCCCCCGGC	0.502													23	115	---	---	---	---	PASS
EEF2K	29904	broad.mit.edu	37	16	22237271	22237271	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:22237271C>G	uc002dki.2	+	2	706	c.221C>G	c.(220-222)TCC>TGC	p.S74C	EEF2K_uc002dkh.2_RNA	NM_013302	NP_037434	O00418	EF2K_HUMAN	elongation factor-2 kinase	74					insulin receptor signaling pathway|translational elongation	cytosol	ATP binding|calcium ion binding|calmodulin binding|elongation factor-2 kinase activity|translation factor activity, nucleic acid binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(48;0.0223)		TCCAGCGGGTCCCCGGCAAAC	0.522													24	50	---	---	---	---	PASS
SCNN1B	6338	broad.mit.edu	37	16	23392036	23392036	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:23392036C>A	uc002dln.2	+	13	2013	c.1837C>A	c.(1837-1839)CCA>ACA	p.P613T		NM_000336	NP_000327	P51168	SCNNB_HUMAN	sodium channel, nonvoltage-gated 1, beta	613	Cytoplasmic (By similarity).				excretion|sensory perception of taste	apical plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(3)|breast(2)|large_intestine(1)|pancreas(1)	7				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)	CCTGCCCATCCCAGGCACCCC	0.672													12	52	---	---	---	---	PASS
ZKSCAN2	342357	broad.mit.edu	37	16	25258570	25258570	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:25258570A>T	uc002dod.3	-	5	1354	c.947T>A	c.(946-948)GTC>GAC	p.V316D	ZKSCAN2_uc010vcl.1_Missense_Mutation_p.V112D|ZKSCAN2_uc002doe.2_Missense_Mutation_p.V316D	NM_001012981	NP_001012999	Q63HK3	ZKSC2_HUMAN	zinc finger with KRAB and SCAN domains 2	316					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|breast(1)	4				GBM - Glioblastoma multiforme(48;0.0378)		CCTTGCAGGGACCTGAATAGC	0.463													82	107	---	---	---	---	PASS
ABCC12	94160	broad.mit.edu	37	16	48180233	48180233	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:48180233C>A	uc002efc.1	-	1	449	c.103G>T	c.(103-105)GTG>TTG	p.V35L	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Missense_Mutation_p.V35L|ABCC12_uc010vgj.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	35						integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				CAGGGTCGCACTGGGATCATG	0.577													23	78	---	---	---	---	PASS
LONP2	83752	broad.mit.edu	37	16	48337093	48337093	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:48337093G>A	uc002efi.1	+	11	1761	c.1672G>A	c.(1672-1674)GAG>AAG	p.E558K	LONP2_uc010vgm.1_RNA|LONP2_uc002efj.1_Missense_Mutation_p.E514K	NM_031490	NP_113678	Q86WA8	LONP2_HUMAN	peroxisomal LON protease-like	558					misfolded or incompletely synthesized protein catabolic process|protein targeting to peroxisome|signal peptide processing	nucleoid|peroxisomal matrix	ATP binding|ATP-dependent peptidase activity|enzyme binding|sequence-specific DNA binding|serine-type endopeptidase activity				0						GTATACCAGAGAGGCAGGGGT	0.413													20	41	---	---	---	---	PASS
NOD2	64127	broad.mit.edu	37	16	50745180	50745180	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:50745180A>G	uc002egm.1	+	4	1463	c.1358A>G	c.(1357-1359)GAG>GGG	p.E453G	NOD2_uc010cbk.1_Missense_Mutation_p.E426G|NOD2_uc002egl.1_Missense_Mutation_p.E231G|NOD2_uc010cbl.1_Missense_Mutation_p.E231G|NOD2_uc010cbm.1_Missense_Mutation_p.E231G|NOD2_uc010cbn.1_RNA|NOD2_uc010cbo.1_RNA|NOD2_uc010cbp.1_5'Flank|NOD2_uc010cbq.1_5'Flank|NOD2_uc010cbr.1_5'Flank	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	453	NACHT.				activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				CAGGGCATCGAGCTGTACCTG	0.637													28	87	---	---	---	---	PASS
CES7	221223	broad.mit.edu	37	16	55903629	55903629	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:55903629A>T	uc002eip.2	-	4	594	c.445T>A	c.(445-447)TTC>ATC	p.F149I	CES7_uc002eio.2_Missense_Mutation_p.F149I|CES7_uc002eiq.2_5'UTR|CES7_uc002eir.2_Missense_Mutation_p.F43I	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	149						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		CCAGTCTTGAAGGCACCTCCT	0.587													7	20	---	---	---	---	PASS
CDH1	999	broad.mit.edu	37	16	68849430	68849430	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:68849430G>C	uc002ewg.1	+	10	1457	c.1333G>C	c.(1333-1335)GAG>CAG	p.E445Q	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Missense_Mutation_p.E384Q	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	445	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding	p.G441_E463del(1)|p.L442fs*18(1)		breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		CTTGGATTTTGAGGCCAAGCA	0.418			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				27	69	---	---	---	---	PASS
ZNF23	7571	broad.mit.edu	37	16	71483060	71483060	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:71483060T>A	uc002faf.2	-	6	1682	c.868A>T	c.(868-870)AGC>TGC	p.S290C	ZNF23_uc002fad.2_Missense_Mutation_p.S232C|ZNF23_uc002fae.2_Missense_Mutation_p.S232C|ZNF23_uc010vmf.1_Missense_Mutation_p.S232C|ZNF23_uc002fag.2_Missense_Mutation_p.S232C|ZNF23_uc002fah.2_Missense_Mutation_p.S290C|ZNF23_uc002fai.2_Missense_Mutation_p.S329C	NM_145911	NP_666016	P17027	ZNF23_HUMAN	zinc finger protein 23	290	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(137;0.00768)		BRCA - Breast invasive adenocarcinoma(221;0.0686)		GAACTACAGCTGAAGCCATTT	0.443													32	115	---	---	---	---	PASS
ZFHX3	463	broad.mit.edu	37	16	72821815	72821815	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:72821815C>A	uc002fck.2	-	10	11033	c.10360G>T	c.(10360-10362)GAC>TAC	p.D3454Y	ZFHX3_uc002fcl.2_Missense_Mutation_p.D2540Y	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3454					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				ATGAAGGGGTCGTAGAGGGAG	0.582													42	142	---	---	---	---	PASS
ADAT1	23536	broad.mit.edu	37	16	75646400	75646400	+	Nonsense_Mutation	SNP	T	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:75646400T>A	uc002feo.1	-	7	886	c.784A>T	c.(784-786)AAG>TAG	p.K262*	ADAT1_uc002fep.1_Nonsense_Mutation_p.K113*	NM_012091	NP_036223	Q9BUB4	ADAT1_HUMAN	adenosine deaminase, tRNA-specific 1	262	A to I editase.				tRNA processing		metal ion binding|RNA binding|tRNA-specific adenosine deaminase activity			ovary(1)|skin(1)	2						GGTACACACTTGGCTCCAGTT	0.562													34	99	---	---	---	---	PASS
CNTNAP4	85445	broad.mit.edu	37	16	76509861	76509861	+	Missense_Mutation	SNP	G	C	C	rs150806968		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:76509861G>C	uc002feu.1	+	13	2066	c.1681G>C	c.(1681-1683)GGT>CGT	p.G561R	CNTNAP4_uc002fev.1_Missense_Mutation_p.G425R|CNTNAP4_uc010chb.1_Missense_Mutation_p.G488R|CNTNAP4_uc002fex.1_Missense_Mutation_p.G564R|CNTNAP4_uc002few.2_Missense_Mutation_p.G536R	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	561	Extracellular (Potential).|EGF-like 1.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						TTGTGAACACGGTGGGGAGTG	0.428													8	67	---	---	---	---	PASS
CNTNAP4	85445	broad.mit.edu	37	16	76556094	76556094	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:76556094A>T	uc002feu.1	+	19	3080	c.2695A>T	c.(2695-2697)ACA>TCA	p.T899S	CNTNAP4_uc002fev.1_Missense_Mutation_p.T763S|CNTNAP4_uc010chb.1_Missense_Mutation_p.T826S|CNTNAP4_uc002fex.1_Missense_Mutation_p.T902S	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	899	Extracellular (Potential).|Laminin G-like 3.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						GACACCAAAGACACAGCCCGC	0.498													18	76	---	---	---	---	PASS
NECAB2	54550	broad.mit.edu	37	16	84035944	84035944	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr16:84035944G>A	uc002fhd.2	+	13	1171	c.1154G>A	c.(1153-1155)CGG>CAG	p.R385Q	NECAB2_uc002fhe.2_Missense_Mutation_p.R302Q	NM_019065	NP_061938	Q7Z6G3	NECA2_HUMAN	neuronal calcium-binding protein 2	385					antibiotic biosynthetic process	cytoplasm	calcium ion binding|oxidoreductase activity|protein binding			ovary(2)	2						ACGGTGGGACGGGACTGACAG	0.557													54	183	---	---	---	---	PASS
TP53	7157	broad.mit.edu	37	17	7577536	7577536	+	Missense_Mutation	SNP	T	C	C	rs67185453		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:7577536T>C	uc002gim.2	-	7	939	c.745A>G	c.(745-747)AGG>GGG	p.R249G	TP53_uc002gig.1_Missense_Mutation_p.R249G|TP53_uc002gih.2_Missense_Mutation_p.R249G|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R117G|TP53_uc010cng.1_Missense_Mutation_p.R117G|TP53_uc002gii.1_Missense_Mutation_p.R117G|TP53_uc010cnh.1_Missense_Mutation_p.R249G|TP53_uc010cni.1_Missense_Mutation_p.R249G|TP53_uc002gij.2_Missense_Mutation_p.R249G|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R156G|TP53_uc002gio.2_Missense_Mutation_p.R117G	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	249	|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> W (in sporadic cancers; somatic mutation).|RP -> SA (in a sporadic cancer; somatic mutation).|RP -> SS (in sporadic cancers; somatic mutation).|R -> T (in sporadic cancers; somatic mutation).|R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> I (in a sporadic cancer; somatic mutation).|R -> M (in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> K (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.R249S(303)|p.R249M(25)|p.R249G(24)|p.R249W(23)|p.R249T(16)|p.R249K(14)|p.0?(7)|p.R249R(6)|p.R249fs*96(6)|p.M246_P250delMNRRP(2)|p.R249fs*14(2)|p.N247_P250delNRRP(1)|p.R249fs*15(1)|p.R249_I251delRPI(1)|p.R249_P250delRP(1)|p.R249_P250insR(1)|p.N247_R248delNR(1)|p.R248_P250delRRP(1)|p.N247_R249delNRR(1)|p.R249_T256delRPILTIIT(1)|p.R249_P250>SS(1)|p.G245fs*14(1)|p.R249fs*19(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)		AGGATGGGCCTCCGGTTCATG	0.567		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)			19	28	---	---	---	---	PASS
MYH4	4622	broad.mit.edu	37	17	10348415	10348415	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:10348415G>A	uc002gmn.2	-	37	5455	c.5344C>T	c.(5344-5346)CAC>TAC	p.H1782Y	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1782	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						CGCTCCAGGTGGGCGCTGGTG	0.517													100	91	---	---	---	---	PASS
MYH2	4620	broad.mit.edu	37	17	10426914	10426914	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:10426914T>C	uc010coi.2	-	37	5499	c.5371A>G	c.(5371-5373)AAC>GAC	p.N1791D	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.N1791D|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1791	Potential.				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						TGCTCCATGTTCTTCTTCATC	0.547													69	81	---	---	---	---	PASS
TMEM99	147184	broad.mit.edu	37	17	38991086	38991086	+	Nonsense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:38991086G>A	uc002hvj.1	+	3	625	c.318G>A	c.(316-318)TGG>TGA	p.W106*		NM_145274	NP_660317	Q8N816	TMM99_HUMAN	transmembrane protein 99 precursor	106	Helical; (Potential).					integral to membrane				skin(1)	1		Breast(137;0.000301)				TTGGCTCGTGGTTGCTCTTCA	0.473													5	226	---	---	---	---	PASS
KRT13	3860	broad.mit.edu	37	17	39658702	39658702	+	Missense_Mutation	SNP	T	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:39658702T>G	uc002hwu.1	-	6	1231	c.1168A>C	c.(1168-1170)ATG>CTG	p.M390L	KRT13_uc002hwv.1_Missense_Mutation_p.M390L|KRT13_uc002hww.2_Missense_Mutation_p.M283L|KRT13_uc010wfr.1_Missense_Mutation_p.M283L|KRT13_uc010cxo.2_Missense_Mutation_p.M390L|KRT13_uc002hwx.1_Missense_Mutation_p.M378L	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	390	Rod.|Coil 2.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				TCCAGCAGCATCTTGTACTCT	0.602													21	361	---	---	---	---	PASS
KRT13	3860	broad.mit.edu	37	17	39658791	39658791	+	Missense_Mutation	SNP	A	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:39658791A>C	uc002hwu.1	-	6	1142	c.1079T>G	c.(1078-1080)CTG>CGG	p.L360R	KRT13_uc002hwv.1_Missense_Mutation_p.L360R|KRT13_uc002hww.2_Missense_Mutation_p.L253R|KRT13_uc010wfr.1_Missense_Mutation_p.L253R|KRT13_uc010cxo.2_Missense_Mutation_p.L360R|KRT13_uc002hwx.1_Missense_Mutation_p.L348R	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	360	Rod.|Coil 2.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				GATCTGCTGCAGCTGCAGGGC	0.602													9	245	---	---	---	---	PASS
KRT16	3868	broad.mit.edu	37	17	39767629	39767629	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:39767629C>G	uc002hxg.3	-	3	878	c.739G>C	c.(739-741)GAG>CAG	p.E247Q	JUP_uc010wfs.1_Intron	NM_005557	NP_005548	P08779	K1C16_HUMAN	keratin 16	247	Coil 1B.|Rod.				cell proliferation|epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton			skin(1)	1		Breast(137;0.000307)				TAGGCCAGCTCCTCCTTCAGG	0.642													43	60	---	---	---	---	PASS
C17orf53	78995	broad.mit.edu	37	17	42230141	42230141	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:42230141G>T	uc002ifi.1	+	5	1630	c.1445G>T	c.(1444-1446)CGC>CTC	p.R482L	C17orf53_uc010czq.1_Missense_Mutation_p.R482L|C17orf53_uc002ifj.1_Intron|C17orf53_uc002ifk.1_Intron	NM_024032	NP_076937	Q8N3J3	CQ053_HUMAN	hypothetical protein LOC78995	482											0		Breast(137;0.0364)|Prostate(33;0.0376)		BRCA - Breast invasive adenocarcinoma(366;0.114)		ATGGTGCTGCGCAAGGTAAGG	0.542													41	78	---	---	---	---	PASS
HOXB1	3211	broad.mit.edu	37	17	46607865	46607865	+	Silent	SNP	C	A	A	rs141645068		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:46607865C>A	uc002ink.1	-	1	408	c.402G>T	c.(400-402)CCG>CCT	p.P134P		NM_002144	NP_002135	P14653	HXB1_HUMAN	homeobox B1	134						nucleus	protein domain specific binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GATATGGCCCCGGACCGGCTC	0.612													3	63	---	---	---	---	PASS
COL1A1	1277	broad.mit.edu	37	17	48271336	48271336	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:48271336C>T	uc002iqm.2	-	25	1861	c.1735G>A	c.(1735-1737)GTG>ATG	p.V579M		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	579	Triple-helical region.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	AATCCCATCACACCAGCCTGA	0.493			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						37	50	---	---	---	---	PASS
WFIKKN2	124857	broad.mit.edu	37	17	48917584	48917584	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:48917584C>T	uc002isv.3	+	2	1629	c.935C>T	c.(934-936)GCC>GTC	p.A312V	WFIKKN2_uc010dbu.2_Missense_Mutation_p.A219V	NM_175575	NP_783165	Q8TEU8	WFKN2_HUMAN	WFIKKN2 protein	312						extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			CAGGCTGCAGCCACCTCAGAG	0.662													29	21	---	---	---	---	PASS
KIF2B	84643	broad.mit.edu	37	17	51901916	51901916	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:51901916A>G	uc002iua.2	+	1	1678	c.1522A>G	c.(1522-1524)ATA>GTA	p.I508V	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	508					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						GGACTCCTTTATAGGCCAGAA	0.473													26	49	---	---	---	---	PASS
TRIM37	4591	broad.mit.edu	37	17	57134397	57134397	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:57134397C>G	uc002iwy.3	-	13	1482	c.1038G>C	c.(1036-1038)GAG>GAC	p.E346D	TRIM37_uc002iwz.3_Missense_Mutation_p.E346D|TRIM37_uc002ixa.3_Missense_Mutation_p.E224D|TRIM37_uc010woc.1_Missense_Mutation_p.E312D	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	346	MATH.					perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					GGTGAACCATCTCTACACGAT	0.318									Mulibrey_Nanism				23	84	---	---	---	---	PASS
TRIM65	201292	broad.mit.edu	37	17	73888574	73888574	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:73888574G>T	uc002jpx.2	-	3	554	c.518C>A	c.(517-519)GCC>GAC	p.A173D		NM_173547	NP_775818	Q6PJ69	TRI65_HUMAN	tripartite motif-containing 65	173	Potential.					intracellular	zinc ion binding				0			Epithelial(20;7.53e-06)|all cancers(21;9.11e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00092)|LUSC - Lung squamous cell carcinoma(166;0.154)			CAAGATGCAGGCCGAGTTCTG	0.647													7	61	---	---	---	---	PASS
SOCS3	9021	broad.mit.edu	37	17	76354708	76354708	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr17:76354708G>A	uc002jvl.2	-	2	885	c.469C>T	c.(469-471)CCT>TCT	p.P157S		NM_003955	NP_003946	O14543	SOCS3_HUMAN	suppressor of cytokine signaling 3	157					anti-apoptosis|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|regulation of growth|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytosol	protein kinase inhibitor activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(99;0.000688)|OV - Ovarian serous cystadenocarcinoma(97;0.0554)			GGACTCCCAGGGAGTGGCTGG	0.662													26	35	---	---	---	---	PASS
PPP4R1	9989	broad.mit.edu	37	18	9553390	9553390	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:9553390G>C	uc002koe.1	-	16	2339	c.2221C>G	c.(2221-2223)CTT>GTT	p.L741V	PPP4R1_uc002kof.2_Missense_Mutation_p.L158V|PPP4R1_uc010wzo.1_Missense_Mutation_p.L587V|PPP4R1_uc002kod.1_Missense_Mutation_p.L724V	NM_001042388	NP_001035847	Q8TF05	PP4R1_HUMAN	protein phosphatase 4, regulatory subunit 1	741					protein phosphorylation|signal transduction	protein phosphatase 4 complex	protein binding|protein phosphatase type 4 regulator activity			skin(1)	1						AGTTGATAAAGATATTCTCTT	0.318													24	57	---	---	---	---	PASS
HRH4	59340	broad.mit.edu	37	18	22048908	22048908	+	Nonsense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:22048908C>G	uc002kvi.2	+	2	450	c.350C>G	c.(349-351)TCA>TGA	p.S117*	HRH4_uc010xbd.1_Intron|HRH4_uc010dlx.2_Intron	NM_021624	NP_067637	Q9H3N8	HRH4_HUMAN	histamine H4 receptor isoform 1	117	Cytoplasmic (Potential).					integral to membrane|plasma membrane	histamine receptor activity			ovary(2)	2	all_cancers(21;0.000545)|all_epithelial(16;6.56e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)				Clozapine(DB00363)	CTGTCAGTCTCAAATGCTGTA	0.343													73	78	---	---	---	---	PASS
ZNF521	25925	broad.mit.edu	37	18	22804463	22804463	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:22804463C>A	uc002kvk.2	-	4	3666	c.3419G>T	c.(3418-3420)TGC>TTC	p.C1140F	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.C1140F|ZNF521_uc002kvl.2_Missense_Mutation_p.C920F	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	1140	C2H2-type 26.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					GCAGCTAGAGCAGCGTGTCTT	0.532			T	PAX5	ALL								35	125	---	---	---	---	PASS
CDH2	1000	broad.mit.edu	37	18	25593741	25593741	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:25593741A>G	uc002kwg.2	-	3	764	c.305T>C	c.(304-306)TTC>TCC	p.F102S	CDH2_uc010xbn.1_Missense_Mutation_p.F71S	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	102					adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						ATATATCAGGAACTTGGCATG	0.463													59	373	---	---	---	---	PASS
DSC1	1823	broad.mit.edu	37	18	28713956	28713956	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:28713956C>G	uc002kwn.2	-	13	2276	c.2014G>C	c.(2014-2016)GAG>CAG	p.E672Q	DSC1_uc002kwm.2_Missense_Mutation_p.E672Q	NM_024421	NP_077739	Q08554	DSC1_HUMAN	desmocollin 1 isoform Dsc1a preproprotein	672	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	desmosome|gap junction|integral to membrane|membrane fraction	calcium ion binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(10;0.00778)			ATTCTACACTCAGATGGAGTT	0.353													146	198	---	---	---	---	PASS
GALNT1	2589	broad.mit.edu	37	18	33272176	33272176	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:33272176G>A	uc010dmu.2	+	9	1244	c.1191G>A	c.(1189-1191)TCG>TCA	p.S397S	GALNT1_uc002kyz.3_Silent_p.S337S|GALNT1_uc002kzb.2_Silent_p.S397S	NM_020474	NP_065207	Q10472	GALT1_HUMAN	polypeptide N-acetylgalactosaminyltransferase 1	397	Lumenal (Potential).				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						GAGATATATCGTCAAGAGTTG	0.318													48	358	---	---	---	---	PASS
KIAA1632	57724	broad.mit.edu	37	18	43438727	43438727	+	Nonsense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:43438727C>A	uc002lbm.2	-	41	7130	c.7030G>T	c.(7030-7032)GGA>TGA	p.G2344*	KIAA1632_uc010xcq.1_Nonsense_Mutation_p.G898*|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Nonsense_Mutation_p.G1219*	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	2344					autophagy						0						GGTCCCCATCCTGAATTCTGA	0.443													46	110	---	---	---	---	PASS
STARD6	147323	broad.mit.edu	37	18	51851222	51851222	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:51851222A>G	uc010xdt.1	-	6	503	c.503T>C	c.(502-504)GTG>GCG	p.V168A		NM_139171	NP_631910	P59095	STAR6_HUMAN	START domain containing protein 6	168	START.				lipid transport		lipid binding			ovary(1)	1				Colorectal(16;0.021)|READ - Rectum adenocarcinoma(59;0.188)		GACAAACATCACTAGTTTGGA	0.333													37	101	---	---	---	---	PASS
ST8SIA3	51046	broad.mit.edu	37	18	55020104	55020104	+	Silent	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:55020104C>A	uc002lgn.2	+	1	384	c.27C>A	c.(25-27)GTC>GTA	p.V9V		NM_015879	NP_056963	O43173	SIA8C_HUMAN	ST8 alpha-N-acetyl-neuraminide	9	Cytoplasmic (Potential).				glycosphingolipid biosynthetic process|N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			breast(1)|skin(1)	2				READ - Rectum adenocarcinoma(59;0.19)|Colorectal(16;0.205)		TGGCCCGGGTCGCCAGTGTGC	0.572													20	45	---	---	---	---	PASS
ALPK2	115701	broad.mit.edu	37	18	56274632	56274632	+	Missense_Mutation	SNP	T	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:56274632T>G	uc002lhj.3	-	3	363	c.149A>C	c.(148-150)CAG>CCG	p.Q50P		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	50	Ig-like 1.						ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						ATCGATGGCCTGACCATTCTT	0.363													40	107	---	---	---	---	PASS
PIGN	23556	broad.mit.edu	37	18	59768385	59768385	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:59768385A>G	uc002lii.3	-	23	2448	c.2000T>C	c.(1999-2001)GTG>GCG	p.V667A	PIGN_uc002lij.3_Missense_Mutation_p.V667A	NM_176787	NP_789744	O95427	PIGN_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	667	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	phosphotransferase activity, for other substituted phosphate groups			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5		Colorectal(73;0.187)				AGTGCTATACACAACATACAT	0.398													34	99	---	---	---	---	PASS
ZNF236	7776	broad.mit.edu	37	18	74620347	74620347	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr18:74620347A>T	uc002lmi.2	+	14	2561	c.2363A>T	c.(2362-2364)CAG>CTG	p.Q788L	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	788					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GTAGACCAGCAGAGCATGCAG	0.562													72	122	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	8999556	8999556	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:8999556T>A	uc002mkp.2	-	56	40823	c.40619A>T	c.(40618-40620)AAG>ATG	p.K13540M	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.K357M|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13542	SEA 10.|Extracellular (Potential).			Missing (in Ref. 3; AAK74120).	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						TGCCCCATCCTTCTTGGGCCT	0.602													37	28	---	---	---	---	PASS
FAM125A	93343	broad.mit.edu	37	19	17531190	17531190	+	Silent	SNP	C	T	T	rs142361127		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:17531190C>T	uc002ngo.1	+	2	192	c.159C>T	c.(157-159)TTC>TTT	p.F53F	FAM125A_uc002ngn.1_Silent_p.F53F|FAM125A_uc002ngp.1_5'UTR|FAM125A_uc002ngq.1_5'Flank	NM_138401	NP_612410	Q96EY5	F125A_HUMAN	family with sequence similarity 125, member A	53	MABP.				protein transport	late endosome membrane|microtubule organizing center|nucleus	SH3 domain binding				0						CTGGCTACTTCCTGTGCCTTA	0.637													31	27	---	---	---	---	PASS
PIK3R2	5296	broad.mit.edu	37	19	18279951	18279951	+	Silent	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:18279951C>G	uc002nia.1	+	16	2546	c.2034C>G	c.(2032-2034)GGC>GGG	p.G678G	PIK3R2_uc002nib.1_RNA|PIK3R2_uc010ebi.1_RNA	NM_005027	NP_005018	O00459	P85B_HUMAN	phosphoinositide-3-kinase, regulatory subunit 2	678	SH2 2.				fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|negative regulation of anti-apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|T cell costimulation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	GTPase activator activity|phosphatidylinositol 3-kinase regulator activity|protein binding			lung(2)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)	6						CCGGCTTCGGCTTCGCGGAGC	0.677													17	12	---	---	---	---	PASS
KLHL26	55295	broad.mit.edu	37	19	18779381	18779381	+	Missense_Mutation	SNP	C	T	T	rs141330016	by1000genomes	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:18779381C>T	uc002njz.1	+	3	1201	c.1174C>T	c.(1174-1176)CGC>TGC	p.R392C		NM_018316	NP_060786	Q53HC5	KLH26_HUMAN	kelch-like 26	392	Kelch 2.									ovary(1)	1						CCACCTGAATCGCTGGCTGCG	0.677													7	1	---	---	---	---	PASS
SFRS14	10147	broad.mit.edu	37	19	19115332	19115332	+	Silent	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:19115332C>A	uc002nkx.2	-	7	2720	c.2574G>T	c.(2572-2574)ACG>ACT	p.T858T	SFRS14_uc002nkz.1_Silent_p.T872T|SFRS14_uc002nla.1_Silent_p.T858T|SFRS14_uc002nlb.2_Silent_p.T858T|SFRS14_uc010xqk.1_Silent_p.T627T	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	858					mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			CCTGAGAACCCGTGGTGTCAC	0.537													4	127	---	---	---	---	PASS
RFXANK	8625	broad.mit.edu	37	19	19308355	19308355	+	Silent	SNP	C	T	T	rs139803434	byFrequency	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:19308355C>T	uc002nls.2	+	6	868	c.363C>T	c.(361-363)GAC>GAT	p.D121D	RFXANK_uc002nlt.2_Silent_p.D98D|RFXANK_uc002nlu.2_Silent_p.D99D|RFXANK_uc002nlv.2_Silent_p.D121D|RFXANK_uc002nlw.2_Silent_p.D120D	NM_003721	NP_003712	O14593	RFXK_HUMAN	regulatory factor X-associated	121						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(2)	2			Epithelial(12;0.00228)			ACAAGCCAGACGAGCGCGGCT	0.652													7	35	---	---	---	---	PASS
ZNF99	7652	broad.mit.edu	37	19	22952023	22952023	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:22952023T>A	uc010xrh.1	-	2	170	c.170A>T	c.(169-171)AAC>ATC	p.N57I		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				GTTTCTGTAGTTCTCTAACAT	0.388													5	100	---	---	---	---	PASS
ZNF91	7644	broad.mit.edu	37	19	23542902	23542902	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:23542902T>C	uc002nre.2	-	4	2992	c.2879A>G	c.(2878-2880)CAT>CGT	p.H960R	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Missense_Mutation_p.H928R	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	960	C2H2-type 29.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				CTCTCCAGTATGAATTATCTT	0.383													55	60	---	---	---	---	PASS
ZNF91	7644	broad.mit.edu	37	19	23544923	23544923	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:23544923C>A	uc002nre.2	-	4	971	c.858G>T	c.(856-858)AGG>AGT	p.R286S	ZNF91_uc010xrj.1_Missense_Mutation_p.R254S	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	286	C2H2-type 5.					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)				CAGTGTGTATCCTCTTATGTC	0.373													72	91	---	---	---	---	PASS
CCDC123	84902	broad.mit.edu	37	19	33439273	33439273	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:33439273A>G	uc002nty.2	-	5	583	c.494T>C	c.(493-495)GTG>GCG	p.V165A	CCDC123_uc002ntx.2_5'UTR|CCDC123_uc010edg.2_RNA|CCDC123_uc002ntz.1_Missense_Mutation_p.V165A|CCDC123_uc002nua.2_Missense_Mutation_p.V165A|CCDC123_uc002nub.1_Missense_Mutation_p.V57A	NM_032816	NP_116205	Q96ST8	CEP89_HUMAN	coiled-coil domain containing 123	165						centrosome|spindle pole					0	Esophageal squamous(110;0.137)					TAACAATGGCACCTTTTTGTT	0.403													10	34	---	---	---	---	PASS
ZNF302	55900	broad.mit.edu	37	19	35175835	35175835	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:35175835C>G	uc002nvr.1	+	6	1288	c.1025C>G	c.(1024-1026)TCC>TGC	p.S342C	ZNF302_uc002nvp.1_Missense_Mutation_p.S298C|ZNF302_uc002nvq.1_Missense_Mutation_p.S298C|ZNF302_uc002nvs.1_Missense_Mutation_p.S298C	NM_018443	NP_060913	Q9NR11	ZN302_HUMAN	zinc finger protein 302	377	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_lung(56;6.16e-07)|Lung NSC(56;9.71e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			AGTCGTGTGTCCCTTCTCATT	0.428													11	248	---	---	---	---	PASS
ZNF302	55900	broad.mit.edu	37	19	35175852	35175852	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:35175852C>G	uc002nvr.1	+	6	1305	c.1042C>G	c.(1042-1044)CTA>GTA	p.L348V	ZNF302_uc002nvp.1_Missense_Mutation_p.L304V|ZNF302_uc002nvq.1_Missense_Mutation_p.L304V|ZNF302_uc002nvs.1_Missense_Mutation_p.L304V	NM_018443	NP_060913	Q9NR11	ZN302_HUMAN	zinc finger protein 302	383	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_lung(56;6.16e-07)|Lung NSC(56;9.71e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			CATTCAGCATCTAAGAATTCA	0.418													14	247	---	---	---	---	PASS
ZNF146	7705	broad.mit.edu	37	19	36727715	36727715	+	Nonsense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:36727715G>T	uc002odq.3	+	4	1896	c.373G>T	c.(373-375)GAG>TAG	p.E125*	ZNF146_uc010eet.2_Nonsense_Mutation_p.E125*|ZNF146_uc010eeu.2_Nonsense_Mutation_p.E125*	NM_007145	NP_009076	Q15072	OZF_HUMAN	zinc finger protein 146	125					regulation of transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|heparin binding|zinc ion binding				0	Esophageal squamous(110;0.162)					TCACACAGGAGAGAAGCCCTT	0.408													64	234	---	---	---	---	PASS
SUPT5H	6829	broad.mit.edu	37	19	39955614	39955614	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:39955614G>A	uc002olo.3	+	11	980	c.801G>A	c.(799-801)GTG>GTA	p.V267V	SUPT5H_uc002olp.3_Silent_p.V267V|SUPT5H_uc002olq.3_Silent_p.V263V|SUPT5H_uc002oln.3_Silent_p.V267V|SUPT5H_uc002olr.3_Silent_p.V267V|SUPT5H_uc002ols.1_5'Flank	NM_001111020	NP_001104490	O00267	SPT5H_HUMAN	suppressor of Ty 5 homolog isoform a	267	Interaction with SUPT4H1.				cell cycle|chromatin remodeling|mRNA capping|negative regulation of transcription elongation, DNA-dependent|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|response to organic substance|retroviral genome replication|transcription elongation from RNA polymerase II promoter	nucleoplasm	enzyme binding|protein heterodimerization activity			ovary(3)|pancreas(1)	4	all_cancers(60;6.69e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;1.57e-06)|Ovarian(47;0.159)		Epithelial(26;3.9e-26)|all cancers(26;1.35e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			TCAAAGTGGTGAAGGAGGTGG	0.607													40	717	---	---	---	---	PASS
FCGBP	8857	broad.mit.edu	37	19	40433534	40433534	+	Silent	SNP	C	T	T	rs142265008		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:40433534C>T	uc002omp.3	-	2	743	c.735G>A	c.(733-735)ACG>ACA	p.T245T		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	245	IgGFc-binding.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CCCAGGCAGACGTGGGTAGCA	0.582													54	331	---	---	---	---	PASS
KLK3	354	broad.mit.edu	37	19	51359544	51359544	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:51359544A>G	uc002pts.1	+	2	136	c.95A>G	c.(94-96)GAG>GGG	p.E32G	KLK3_uc002ptp.1_Missense_Mutation_p.E32G|KLK3_uc010ycj.1_Missense_Mutation_p.E32G|KLK3_uc002ptr.1_Missense_Mutation_p.E32G|KLK3_uc010eof.1_RNA	NM_001030047	NP_001025218	P07288	KLK3_HUMAN	prostate specific antigen isoform 3	32	Peptidase S1.				negative regulation of angiogenesis|proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00763)|GBM - Glioblastoma multiforme(134;0.0144)		TGGGAGTGCGAGAAGCATTCC	0.637													68	68	---	---	---	---	PASS
NLRP11	204801	broad.mit.edu	37	19	56321463	56321463	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr19:56321463G>A	uc010ygf.1	-	5	1224	c.513C>T	c.(511-513)ATC>ATT	p.I171I	NLRP11_uc002qlz.2_Silent_p.I72I|NLRP11_uc002qmb.2_Silent_p.I72I|NLRP11_uc002qmc.2_RNA|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	171	NACHT.						ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		TCTCACCCTTGATCCACCTCA	0.453													36	30	---	---	---	---	PASS
SNPH	9751	broad.mit.edu	37	20	1285934	1285934	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:1285934G>A	uc002wes.2	+	6	957	c.721G>A	c.(721-723)GCA>ACA	p.A241T	SNPH_uc002wet.2_Missense_Mutation_p.A285T	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	241					synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						TGAGGATGGGGCAGACAGTGG	0.667													7	37	---	---	---	---	PASS
PAK7	57144	broad.mit.edu	37	20	9520247	9520247	+	Silent	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:9520247C>A	uc002wnl.2	-	11	2567	c.2022G>T	c.(2020-2022)CGG>CGT	p.R674R	PAK7_uc002wnk.2_Silent_p.R674R|PAK7_uc002wnj.2_Silent_p.R674R|PAK7_uc010gby.1_Silent_p.R587R	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	674	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			CTAGGAATCCCCGGAGCACTG	0.488													138	164	---	---	---	---	PASS
PAK7	57144	broad.mit.edu	37	20	9538334	9538334	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:9538334G>T	uc002wnl.2	-	8	2209	c.1664C>A	c.(1663-1665)GCT>GAT	p.A555D	PAK7_uc002wnk.2_Missense_Mutation_p.A555D|PAK7_uc002wnj.2_Missense_Mutation_p.A555D|PAK7_uc010gby.1_Missense_Mutation_p.A555D	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	555	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			GTAGGAGAGAGCTCTCAGAAC	0.428													61	74	---	---	---	---	PASS
NCOA6	23054	broad.mit.edu	37	20	33328472	33328472	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:33328472C>A	uc002xav.2	-	12	8159	c.5588G>T	c.(5587-5589)GGG>GTG	p.G1863V	NCOA6_uc002xaw.2_Missense_Mutation_p.G1863V	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	1863	EP300/CRSP3-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						TCCCATGAGCCCCGGAGCTGT	0.537													107	141	---	---	---	---	PASS
C20orf117	140710	broad.mit.edu	37	20	35443639	35443639	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:35443639C>T	uc002xgd.1	-	5	1819	c.1492G>A	c.(1492-1494)GGG>AGG	p.G498R	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	498											0		Myeloproliferative disorder(115;0.00874)				ACAGAGCACCCGAGGACTGCA	0.607													46	169	---	---	---	---	PASS
R3HDML	140902	broad.mit.edu	37	20	42969916	42969916	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:42969916G>C	uc002xls.1	+	2	514	c.342G>C	c.(340-342)ATG>ATC	p.M114I		NM_178491	NP_848586	Q9H3Y0	CRSPL_HUMAN	R3H domain containing-like precursor	114						extracellular region	peptidase inhibitor activity				0		Myeloproliferative disorder(115;0.028)	COAD - Colon adenocarcinoma(18;0.00189)			CACAGCTGATGAGATACGTGG	0.498													26	43	---	---	---	---	PASS
SYS1-DBNDD2	767557	broad.mit.edu	37	20	44037115	44037115	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:44037115C>G	uc002xnx.2	+	4	504	c.8C>G	c.(7-9)CCA>CGA	p.P3R	DBNDD2_uc002xnz.2_Missense_Mutation_p.P3R|DBNDD2_uc002xoa.2_Missense_Mutation_p.P3R|DBNDD2_uc002xob.2_Missense_Mutation_p.P3R|DBNDD2_uc002xoc.2_Missense_Mutation_p.P3R|DBNDD2_uc002xod.2_Missense_Mutation_p.P3R|DBNDD2_uc002xoe.2_Missense_Mutation_p.P3R|DBNDD2_uc002xof.2_Missense_Mutation_p.P3R|DBNDD2_uc002xog.2_Missense_Mutation_p.P3R	NM_001048225	NP_001041690			SCF apoptosis response protein 1 isoform a												0						GACATGGACCCAAATCCTCGG	0.577													14	92	---	---	---	---	PASS
CDH22	64405	broad.mit.edu	37	20	44869816	44869816	+	Silent	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:44869816G>T	uc002xrm.2	-	2	737	c.336C>A	c.(334-336)ATC>ATA	p.I112I	CDH22_uc010ghk.1_Silent_p.I112I	NM_021248	NP_067071	Q9UJ99	CAD22_HUMAN	cadherin 22 precursor	112	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|skin(1)	5		Myeloproliferative disorder(115;0.0122)				TCAGCTCGTCGATCAGGAAGA	0.617													18	43	---	---	---	---	PASS
DIDO1	11083	broad.mit.edu	37	20	61528146	61528146	+	Silent	SNP	C	T	T	rs140512956		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:61528146C>T	uc002ydr.1	-	7	2055	c.1791G>A	c.(1789-1791)AGG>AGA	p.R597R	DIDO1_uc002yds.1_Silent_p.R597R|DIDO1_uc002ydt.1_Silent_p.R597R|DIDO1_uc002ydu.1_Silent_p.R597R	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	597					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					AGAGCCATGGCCTCTTGGGGA	0.592													26	106	---	---	---	---	PASS
PRIC285	85441	broad.mit.edu	37	20	62196785	62196785	+	Silent	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:62196785G>A	uc002yfm.2	-	9	4282	c.3390C>T	c.(3388-3390)CGC>CGT	p.R1130R	PRIC285_uc002yfl.1_Silent_p.R561R	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	1130					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			AAGAGCAGTGGCGGTACCGCT	0.706													4	4	---	---	---	---	PASS
NPBWR2	2832	broad.mit.edu	37	20	62737593	62737593	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr20:62737593C>A	uc011abt.1	-	1	592	c.592G>T	c.(592-594)GGG>TGG	p.G198W		NM_005286	NP_005277	P48146	NPBW2_HUMAN	neuropeptides B/W receptor 2	198	Extracellular (Potential).					plasma membrane	opioid receptor activity|protein binding			large_intestine(1)	1	all_cancers(38;2.58e-11)|all_epithelial(29;6.4e-13)|Lung NSC(23;1.25e-09)|all_lung(23;4.21e-09)					AAGCTCAGCCCACAGCTTGGG	0.632													10	31	---	---	---	---	PASS
RBM11	54033	broad.mit.edu	37	21	15591942	15591942	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr21:15591942T>C	uc002yjo.3	+	2	197	c.155T>C	c.(154-156)TTT>TCT	p.F52S	RBM11_uc002yjn.3_5'UTR|RBM11_uc002yjp.3_Intron	NM_144770	NP_658983	P57052	RBM11_HUMAN	RNA binding motif protein 11	52	RRM.						nucleotide binding|RNA binding				0				Epithelial(23;0.000314)|COAD - Colon adenocarcinoma(22;0.00242)|Colorectal(24;0.0129)|Lung(58;0.141)		CCAAAGTCTTTTGGATTTGTC	0.373													18	10	---	---	---	---	PASS
SFRS15	57466	broad.mit.edu	37	21	33074095	33074095	+	Silent	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr21:33074095G>T	uc002ypd.2	-	6	1020	c.594C>A	c.(592-594)GGC>GGA	p.G198G	SFRS15_uc002ype.2_Silent_p.G198G|SFRS15_uc010glu.2_Silent_p.G183G|SFRS15_uc002ypf.1_5'UTR|SFRS15_uc002ypg.2_Silent_p.G198G	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	198						nucleus	nucleotide binding|RNA binding				0						TTACCTGTTGGCCTTGAGTTG	0.453													21	27	---	---	---	---	PASS
POTEH	23784	broad.mit.edu	37	22	16287437	16287437	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr22:16287437C>A	uc010gqp.2	-	1	501	c.449G>T	c.(448-450)GGC>GTC	p.G150V	POTEH_uc002zlg.1_5'Flank|POTEH_uc002zlh.1_5'Flank|POTEH_uc002zlj.1_Intron	NM_001136213	NP_001129685	Q6S545	POTEH_HUMAN	ANKRD26-like family C, member 3	150										skin(1)	1						TTTGTTCTTGCCGCTCCCCCT	0.592													47	190	---	---	---	---	PASS
C22orf29	79680	broad.mit.edu	37	22	19839124	19839124	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr22:19839124C>G	uc002zqg.2	-	2	1260	c.661G>C	c.(661-663)GAG>CAG	p.E221Q	GNB1L_uc002zqd.1_Intron|GNB1L_uc002zqe.1_Intron|GNB1L_uc002zqf.1_Intron|C22orf29_uc002zqh.2_Missense_Mutation_p.E221Q|C22orf29_uc002zqi.2_Missense_Mutation_p.E221Q|C22orf29_uc010grt.1_Intron	NM_024627	NP_078903	Q7L3V2	CV029_HUMAN	hypothetical protein LOC79680	221											0	Colorectal(54;0.0993)					GCCAGGCCCTCTAAGAACCTA	0.602													27	64	---	---	---	---	PASS
RFPL3	10738	broad.mit.edu	37	22	32756325	32756325	+	Nonsense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr22:32756325C>T	uc003amj.2	+	2	665	c.460C>T	c.(460-462)CAG>TAG	p.Q154*	RFPL3_uc010gwn.2_Nonsense_Mutation_p.Q125*|RFPL3S_uc003amk.2_RNA|RFPL3S_uc003aml.2_RNA	NM_001098535	NP_001092005	O75679	RFPL3_HUMAN	ret finger protein-like 3 isoform 1	154	B30.2/SPRY.						zinc ion binding			ovary(1)	1						GCTCATCACACAGAATCGGCA	0.557													45	121	---	---	---	---	PASS
RASD2	23551	broad.mit.edu	37	22	35942983	35942983	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr22:35942983C>T	uc003anx.2	+	2	332	c.127C>T	c.(127-129)CGC>TGC	p.R43C	RASD2_uc003any.2_Missense_Mutation_p.R43C	NM_014310	NP_055125	Q96D21	RHES_HUMAN	RASD family, member 2 precursor	43					locomotory behavior|positive regulation of protein kinase B signaling cascade|positive regulation of protein sumoylation|regulation of cAMP-mediated signaling	intracellular|plasma membrane	G-protein beta-subunit binding|GTP binding|GTPase activity			lung(2)|skin(1)	3						CCTCAATGGCCGCTTTGAGGA	0.582													5	21	---	---	---	---	PASS
ZC3H7B	23264	broad.mit.edu	37	22	41745268	41745268	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr22:41745268C>T	uc003azw.2	+	16	2127	c.1911C>T	c.(1909-1911)TTC>TTT	p.F637F	ZC3H7B_uc010gyl.1_Intron	NM_017590	NP_060060	Q9UGR2	Z3H7B_HUMAN	zinc finger CCCH-type containing 7B	653	C3H1-type 2.				interspecies interaction between organisms	nucleus	nucleic acid binding|protein binding|zinc ion binding			central_nervous_system(1)	1						CCCACAGCTTCATCGAGCTCA	0.652													18	39	---	---	---	---	PASS
DHRSX	207063	broad.mit.edu	37	X	2184904	2184904	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:2184904A>G	uc004cqf.3	-	5	522	c.473T>C	c.(472-474)CTG>CCG	p.L158P		NM_145177	NP_660160	Q8N5I4	DHRSX_HUMAN	dehydrogenase/reductase (SDR family) X-linked	158							binding|oxidoreductase activity				0		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				AAGGTTGGTCAGCAGGAAGTG	0.547													96	194	---	---	---	---	PASS
PNPLA4	8228	broad.mit.edu	37	X	7880069	7880069	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:7880069C>A	uc011mhq.1	-	5	639	c.477G>T	c.(475-477)CAG>CAT	p.Q159H	PNPLA4_uc011mhr.1_Missense_Mutation_p.Q159H|PNPLA4_uc011mhs.1_Missense_Mutation_p.Q72H	NM_004650	NP_004641	P41247	PLPL4_HUMAN	patatin-like phospholipase domain containing 4	159	Patatin.				lipid catabolic process		triglyceride lipase activity				0		Colorectal(8;0.0329)|Medulloblastoma(8;0.232)				ACAAGCTTACCTGCCCTTTGT	0.368													44	33	---	---	---	---	PASS
GRPR	2925	broad.mit.edu	37	X	16170751	16170751	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:16170751C>A	uc004cxj.2	+	3	1791	c.1138C>A	c.(1138-1140)CAC>AAC	p.H380N		NM_005314	NP_005305	P30550	GRPR_HUMAN	gastrin-releasing peptide receptor	380	Cytoplasmic (Potential).				cell proliferation	integral to plasma membrane	bombesin receptor activity			ovary(3)|lung(1)	4	Hepatocellular(33;0.183)					AAACATCTGTCACGAGCGGTA	0.522													118	75	---	---	---	---	PASS
CNKSR2	22866	broad.mit.edu	37	X	21627282	21627282	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:21627282C>A	uc004czx.1	+	20	2275	c.2239C>A	c.(2239-2241)CAG>AAG	p.Q747K	CNKSR2_uc004czw.2_Missense_Mutation_p.Q747K|CNKSR2_uc011mjn.1_Missense_Mutation_p.Q698K|CNKSR2_uc011mjo.1_Missense_Mutation_p.Q717K|CNKSR2_uc004czy.2_Missense_Mutation_p.Q339K	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	747					regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						GGAGTTTCGCCAGGAAGTAAC	0.522													61	30	---	---	---	---	PASS
KLHL34	257240	broad.mit.edu	37	X	21675230	21675230	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:21675230C>A	uc004czz.1	-	1	1219	c.677G>T	c.(676-678)GGC>GTC	p.G226V		NM_153270	NP_695002	Q8N239	KLH34_HUMAN	kelch-like 34	226	BACK.									ovary(1)	1						GGGAACCAGGCCAAAGCGGAC	0.667													7	6	---	---	---	---	PASS
DMD	1756	broad.mit.edu	37	X	31676156	31676156	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:31676156G>A	uc004dda.1	-	54	8222	c.7978C>T	c.(7978-7980)CAC>TAC	p.H2660Y	DMD_uc004dcr.1_Missense_Mutation_p.H200Y|DMD_uc004dcs.1_Missense_Mutation_p.H200Y|DMD_uc004dct.1_Missense_Mutation_p.H200Y|DMD_uc004dcu.1_Missense_Mutation_p.H200Y|DMD_uc004dcv.1_Missense_Mutation_p.H200Y|DMD_uc004dcw.2_Missense_Mutation_p.H1316Y|DMD_uc004dcx.2_Missense_Mutation_p.H1319Y|DMD_uc004dcz.2_Missense_Mutation_p.H2537Y|DMD_uc004dcy.1_Missense_Mutation_p.H2656Y|DMD_uc004ddb.1_Missense_Mutation_p.H2652Y	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2660	Spectrin 18.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				GTTATCATGTGGACTTTTCTG	0.418													35	89	---	---	---	---	PASS
XK	7504	broad.mit.edu	37	X	37545361	37545361	+	Silent	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:37545361G>T	uc004ddq.2	+	1	229	c.147G>T	c.(145-147)GCG>GCT	p.A49A		NM_021083	NP_066569	P51811	XK_HUMAN	membrane transport protein XK	49	Helical; (Potential).				amino acid transport	integral to membrane	protein binding|transporter activity				0		all_lung(315;0.175)				TGCCTTGCGCGCTCGTGCAGC	0.662													8	9	---	---	---	---	PASS
PORCN	64840	broad.mit.edu	37	X	48369716	48369716	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:48369716T>A	uc010nie.1	+	3	328	c.170T>A	c.(169-171)GTG>GAG	p.V57E	PORCN_uc004djq.1_Missense_Mutation_p.V170E|PORCN_uc004djr.1_Missense_Mutation_p.V57E|PORCN_uc004djs.1_Missense_Mutation_p.V57E|PORCN_uc004djt.1_Intron|PORCN_uc011mlx.1_Intron|PORCN_uc004dju.1_Intron|PORCN_uc004djv.1_Missense_Mutation_p.V57E|PORCN_uc004djw.1_Missense_Mutation_p.V57E	NM_203475	NP_982301	Q9H237	PORCN_HUMAN	porcupine isoform D	57	Extracellular (Potential).|Leu-rich.				Wnt receptor signaling pathway	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity			ovary(2)|central_nervous_system(1)	3						GCAAGCACCGTGGCAGGCGGG	0.413											OREG0019764	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	81	23	---	---	---	---	PASS
HUWE1	10075	broad.mit.edu	37	X	53641579	53641579	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:53641579G>C	uc004dsp.2	-	23	2579	c.2177C>G	c.(2176-2178)TCT>TGT	p.S726C		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	726					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						ATCCTCACTAGAGGCTTCTTC	0.488													3	127	---	---	---	---	PASS
FAM123B	139285	broad.mit.edu	37	X	63410979	63410979	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:63410979G>A	uc004dvo.2	-	2	2461	c.2188C>T	c.(2188-2190)CCA>TCA	p.P730S		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	730					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						TGCATGTCTGGCTCAAACATG	0.507													3	61	---	---	---	---	PASS
RGAG4	340526	broad.mit.edu	37	X	71349717	71349717	+	Silent	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:71349717C>A	uc010nlh.1	-	1	2035	c.1674G>T	c.(1672-1674)GGG>GGT	p.G558G	NHSL2_uc011mqa.1_Intron|RGAG4_uc004eaj.1_RNA	NM_001024455	NP_001019626	Q5HYW3	RGAG4_HUMAN	retrotransposon gag domain containing 4	558										ovary(2)|skin(1)	3	Renal(35;0.156)					CTCGGTGGCCCCCCTGTCTCG	0.612													16	12	---	---	---	---	PASS
FAM46D	169966	broad.mit.edu	37	X	79698639	79698639	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:79698639G>C	uc004edl.1	+	5	935	c.601G>C	c.(601-603)GTT>CTT	p.V201L	FAM46D_uc004edm.1_Missense_Mutation_p.V201L	NM_152630	NP_689843	Q8NEK8	FA46D_HUMAN	hypothetical protein LOC169966	201										lung(2)	2						ATCCTATCCTGTTGTGGTAGC	0.403													62	31	---	---	---	---	PASS
NRK	203447	broad.mit.edu	37	X	105166013	105166013	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:105166013C>G	uc004emd.2	+	17	2873	c.2570C>G	c.(2569-2571)CCT>CGT	p.P857R	NRK_uc010npc.1_Missense_Mutation_p.P525R	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	857							ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						TCATCACCACCTTATTCTACT	0.348										HNSCC(51;0.14)			12	4	---	---	---	---	PASS
TEX13B	56156	broad.mit.edu	37	X	107225025	107225025	+	Silent	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:107225025C>T	uc004enn.1	-	2	426	c.333G>A	c.(331-333)CTG>CTA	p.L111L		NM_031273	NP_112563	Q9BXU2	TX13B_HUMAN	testis expressed 13B	111										ovary(1)	1						TGAGTTCCGTCAGGTTTGAGG	0.577													113	66	---	---	---	---	PASS
GRIA3	2892	broad.mit.edu	37	X	122532510	122532510	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:122532510C>A	uc004etq.3	+	8	1229	c.936C>A	c.(934-936)GAC>GAA	p.D312E	GRIA3_uc004etr.3_Missense_Mutation_p.D312E|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Missense_Mutation_p.D296E	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	312	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	TGACACACGACGCAATACTGG	0.428													23	20	---	---	---	---	PASS
GRIA3	2892	broad.mit.edu	37	X	122537300	122537300	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:122537300T>A	uc004etq.3	+	10	1516	c.1223T>A	c.(1222-1224)TTC>TAC	p.F408Y	GRIA3_uc004etr.3_Missense_Mutation_p.F408Y|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Missense_Mutation_p.F392Y	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	408	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	TTTGTGCCTTTCTCAGATCAG	0.433													143	69	---	---	---	---	PASS
GRIA3	2892	broad.mit.edu	37	X	122561815	122561815	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:122561815G>C	uc004etq.3	+	13	2194	c.1901G>C	c.(1900-1902)GGA>GCA	p.G634A	GRIA3_uc004etr.3_Missense_Mutation_p.G634A|GRIA3_uc004ets.3_RNA	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	634	Cytoplasmic (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	CGCATTGTTGGAGGGGTTTGG	0.433													128	93	---	---	---	---	PASS
ENOX2	10495	broad.mit.edu	37	X	129813618	129813618	+	Nonsense_Mutation	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:129813618C>A	uc004evw.2	-	7	863	c.445G>T	c.(445-447)GAG>TAG	p.E149*	ENOX2_uc004evx.2_Nonsense_Mutation_p.E120*|ENOX2_uc004evy.2_Nonsense_Mutation_p.E120*|ENOX2_uc004evv.2_5'UTR	NM_182314	NP_872114	Q16206	ENOX2_HUMAN	ecto-NOX disulfide-thiol exchanger 2 isoform b	149	RRM.				cell growth|electron transport chain|regulation of growth|transport|ultradian rhythm	cytosol|external side of plasma membrane|extracellular space	nucleic acid binding|nucleotide binding|protein disulfide oxidoreductase activity			ovary(1)	1						CCACACTGCTCGAAAACTTCC	0.493													146	63	---	---	---	---	PASS
SOX3	6658	broad.mit.edu	37	X	139587162	139587162	+	Silent	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:139587162G>T	uc004fbd.1	-	1	64	c.64C>A	c.(64-66)CGG>AGG	p.R22R		NM_005634	NP_005625	P41225	SOX3_HUMAN	SRY (sex determining region Y)-box 3	22					face development|hypothalamus development|negative regulation of neuron differentiation|pituitary gland development|regulation of transcription, DNA-dependent|sensory organ development|sex determination|transcription, DNA-dependent	nucleus	DNA binding			pancreas(1)	1	Acute lymphoblastic leukemia(192;7.65e-05)					AAAATGCTCCGCGCCAAATCA	0.627													10	5	---	---	---	---	PASS
MIR892A	100126342	broad.mit.edu	37	X	145078222	145078222	+	RNA	SNP	G	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:145078222G>T	hsa-mir-892a|MI0005528	-			c.40G>T			MIR890_hsa-mir-890|MI0005533_5'Flank|MIR888_hsa-mir-888|MI0005537_5'Flank																	0						ACAGTGACATGTAGTGTAAGT	0.517													93	56	---	---	---	---	PASS
PDZD4	57595	broad.mit.edu	37	X	153072196	153072196	+	Splice_Site	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:153072196C>A	uc004fiz.1	-	4	736	c.486_splice	c.e4+1	p.E162_splice	PDZD4_uc004fiy.1_Splice_Site_p.E87_splice|PDZD4_uc004fix.2_Splice_Site_p.E66_splice|PDZD4_uc004fja.1_Splice_Site_p.E168_splice|PDZD4_uc011mze.1_Splice_Site_p.E53_splice	NM_032512	NP_115901	Q76G19	PDZD4_HUMAN	PDZ domain containing 4							cell cortex				breast(1)	1	all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CGTCTGCATACCTCTCCGACA	0.607													23	10	---	---	---	---	PASS
TSPY2	64591	broad.mit.edu	37	Y	6114379	6114379	+	Silent	SNP	C	A	A			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrY:6114379C>A	uc004fqr.1	+	1	116	c.70C>A	c.(70-72)CGG>AGG	p.R24R	TTTY23_uc004fqq.1_5'Flank|TSPY2_uc004fqs.1_Silent_p.R24R	NM_022573	NP_072095	A6NKD2	TSPY2_HUMAN	testis specific protein, Y-linked 2	24					cell differentiation|gonadal mesoderm development|nucleosome assembly|spermatogenesis	cytoplasm|nucleus					0						TGGCGTGGGTCGGGCAGCACA	0.711													14	4	---	---	---	---	PASS
NLGN4Y	22829	broad.mit.edu	37	Y	16953005	16953005	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrY:16953005C>T	uc004ftg.2	+	6	2566	c.2314C>T	c.(2314-2316)CCA>TCA	p.P772S	NLGN4Y_uc004fte.2_Missense_Mutation_p.P604S|NLGN4Y_uc011nas.1_Missense_Mutation_p.P792S|NLGN4Y_uc004ftf.2_Missense_Mutation_p.P465S|NLGN4Y_uc004fth.2_Missense_Mutation_p.P772S	NM_014893	NP_055708	Q8NFZ3	NLGNY_HUMAN	neuroligin 4, Y-linked isoform 1	772	Cytoplasmic (Potential).				brainstem development|cell adhesion|cerebellum development|male courtship behavior|positive regulation of organ growth|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|integral to plasma membrane|synapse	neurexin binding|receptor activity				0						GGATGACATCCCATTTATGAC	0.532													20	52	---	---	---	---	PASS
RPS4Y2	140032	broad.mit.edu	37	Y	22930792	22930792	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrY:22930792C>G	uc011nbb.1	+	5	558	c.462C>G	c.(460-462)ATC>ATG	p.I154M		NM_001039567	NP_001034656	Q8TD47	RS4Y2_HUMAN	ribosomal protein S4, Y-linked 2	154					translation	ribosome	rRNA binding|structural constituent of ribosome				0						ATCCTCTCATCAAGGTGAACG	0.398													73	37	---	---	---	---	PASS
SOX11	6664	broad.mit.edu	37	2	5833916	5833916	+	Frame_Shift_Del	DEL	G	-	-			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr2:5833916delG	uc002qyj.2	+	1	1118	c.1063delG	c.(1063-1065)GGCfs	p.G355fs		NM_003108	NP_003099	P35716	SOX11_HUMAN	SRY-box 11	355					cardiac ventricle formation|closure of optic fissure|cornea development in camera-type eye|embryonic digestive tract morphogenesis|embryonic skeletal system morphogenesis|eyelid development in camera-type eye|glial cell proliferation|hard palate development|lens morphogenesis in camera-type eye|limb bud formation|lung morphogenesis|negative regulation of cell death|negative regulation of glial cell proliferation|negative regulation of lymphocyte proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|neural crest cell development|neural tube formation|neuroepithelial cell differentiation|noradrenergic neuron differentiation|outflow tract morphogenesis|positive regulation of BMP signaling pathway|positive regulation of hippo signaling cascade|positive regulation of hormone secretion|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of ossification|positive regulation of osteoblast differentiation|positive regulation of stem cell proliferation|regulation of transforming growth factor beta receptor signaling pathway|signal transduction involved in G1/S transition checkpoint|soft palate development|somite development|spinal cord development|sympathetic nervous system development|ventricular septum morphogenesis	cytoplasm|nucleolus	enhancer sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|RNA polymerase II transcription coactivator activity|translation factor activity, nucleic acid binding			central_nervous_system(3)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			OV - Ovarian serous cystadenocarcinoma(76;0.132)		cggcagcagcggcGAGGACGC	0.502													11	6	---	---	---	---	
USP19	10869	broad.mit.edu	37	3	49152898	49152898	+	Frame_Shift_Del	DEL	C	-	-			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr3:49152898delC	uc003cwd.1	-	11	1719	c.1558delG	c.(1558-1560)GAAfs	p.E520fs	USP19_uc003cwa.2_Frame_Shift_Del_p.E328fs|USP19_uc003cvz.3_Frame_Shift_Del_p.E623fs|USP19_uc011bcg.1_Frame_Shift_Del_p.E611fs|USP19_uc003cwb.2_Frame_Shift_Del_p.E606fs|USP19_uc003cwc.1_Frame_Shift_Del_p.E278fs|USP19_uc011bch.1_Frame_Shift_Del_p.E621fs|USP19_uc011bci.1_Frame_Shift_Del_p.E608fs	NM_006677	NP_006668	O94966	UBP19_HUMAN	ubiquitin thioesterase 19	520	Cytoplasmic (Potential).				ER-associated protein catabolic process|positive regulation of cell cycle process|protein deubiquitination|regulation of protein stability|response to endoplasmic reticulum stress|skeletal muscle atrophy	endoplasmic reticulum membrane|integral to membrane	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(4)|breast(2)|lung(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TCCCGGAGTTCCCGAGTGTTG	0.507													40	21	---	---	---	---	
GPR126	57211	broad.mit.edu	37	6	142758629	142758631	+	In_Frame_Del	DEL	GCA	-	-	rs1262686	by1000genomes	TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr6:142758629_142758631delGCA	uc010khc.2	+	23	3789_3791	c.3378_3380delGCA	c.(3376-3381)CGGCGG>CGG	p.1126_1127RR>R	GPR126_uc010khd.2_In_Frame_Del_p.1098_1099RR>R|GPR126_uc010khe.2_In_Frame_Del_p.1126_1127RR>R|GPR126_uc010khf.2_In_Frame_Del_p.1098_1099RR>R|GPR126_uc011edv.1_In_Frame_Del_p.Q187del	NM_020455	NP_065188	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126 alpha 1	1126_1127	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(32;0.176)			OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)		AACAGTGGCGGCAGCATCTCTGC	0.365													119	60	---	---	---	---	
FKBP15	23307	broad.mit.edu	37	9	115931591	115931591	+	Frame_Shift_Del	DEL	C	-	-			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr9:115931591delC	uc004bgs.2	-	26	3516	c.3398delG	c.(3397-3399)GGTfs	p.G1133fs	FKBP15_uc004bgr.2_Frame_Shift_Del_p.G570fs|FKBP15_uc011lxc.1_Frame_Shift_Del_p.G714fs|FKBP15_uc011lxd.1_Frame_Shift_Del_p.G1065fs	NM_015258	NP_056073	Q5T1M5	FKB15_HUMAN	FK506 binding protein 15, 133kDa	1133					endocytosis|protein folding	axon|early endosome	actin binding			ovary(3)	3						CTTGTGGGGACCGGTGGAGCT	0.597													86	38	---	---	---	---	
PPHLN1	51535	broad.mit.edu	37	12	42836533	42836534	+	Frame_Shift_Ins	INS	-	A	A	rs143861840		TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chr12:42836533_42836534insA	uc001rng.1	+	11	1220_1221	c.1115_1116insA	c.(1114-1116)ACTfs	p.T372fs	PPHLN1_uc010skr.1_Frame_Shift_Ins_p.T317fs|PPHLN1_uc010sks.1_Frame_Shift_Ins_p.T298fs|PPHLN1_uc010skt.1_Frame_Shift_Ins_p.T252fs|PPHLN1_uc001rni.1_Frame_Shift_Ins_p.T317fs|PPHLN1_uc001rnh.1_RNA|PPHLN1_uc010sku.1_Intron	NM_016488	NP_057572	Q8NEY8	PPHLN_HUMAN	periphilin 1 isoform 1	372					keratinization	cytoplasm|nucleus				ovary(1)|breast(1)	2	all_cancers(12;0.00049)|Breast(8;0.165)	Lung NSC(34;0.123)		GBM - Glioblastoma multiforme(48;0.0875)		ggcgaagagactgcgcagtcag	0.010													145	89	---	---	---	---	
USP9X	8239	broad.mit.edu	37	X	41075504	41075505	+	Frame_Shift_Ins	INS	-	T	T			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrX:41075504_41075505insT	uc004dfb.2	+	35	6317_6318	c.5684_5685insT	c.(5683-5685)AATfs	p.N1895fs	USP9X_uc004dfc.2_Frame_Shift_Ins_p.N1895fs	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	1895					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						GGTGAGAGAAATCGCTGGTATA	0.416													42	68	---	---	---	---	
PCDH11Y	83259	broad.mit.edu	37	Y	4924798	4924803	+	Translation_Start_Site	DEL	ACAGAG	-	-			TCGA-66-2759-01A-01D-1522-08	TCGA-66-2759-11A-01D-1522-08									Somatic	Phase_I	Capture				Illumina GAIIx	fecd0a2b-d176-438a-be95-306f453fde40	10b56aa0-ab28-49ef-9902-031c1694ada1	g.chrY:4924798_4924803delACAGAG	uc004fqo.2	+	1	668_673	c.-66_-61delACAGAG	c.(-68--59)TAACAGAGTG>TATG		PCDH11Y_uc010nwg.1_Intron|PCDH11Y_uc004fql.1_Intron|PCDH11Y_uc004fqm.1_Intron|PCDH11Y_uc004fqn.1_Translation_Start_Site	NM_032973	NP_116755	Q9BZA8	PC11Y_HUMAN	protocadherin 11 Y-linked isoform c						homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						TCACTAATTAACAGAGTGTCAATTAT	0.267													18	25	---	---	---	---	
