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
PRDM16	63976	broad.mit.edu	37	1	3334552	3334552	+	Missense_Mutation	SNP	A	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:3334552A>G	uc001akf.2	+	11	2932	c.2852A>G	c.(2851-2853)TAC>TGC	p.Y951C	PRDM16_uc001akc.2_Missense_Mutation_p.Y950C|PRDM16_uc001akd.2_Missense_Mutation_p.Y950C|PRDM16_uc001ake.2_Missense_Mutation_p.Y951C|PRDM16_uc009vlh.2_Missense_Mutation_p.Y651C	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	951	Mediates interaction with SKI and regulation of TGF-beta signaling.|C2H2-type 8.|Interaction with CTBP1 and CTBP2 (By similarity).				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		AAGGAGCGATACACGTGCAGG	0.652			T	EVI1	MDS|AML								18	13	---	---	---	---	PASS
INPP5B	3633	broad.mit.edu	37	1	38409499	38409499	+	Silent	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:38409499C>A	uc001ccg.1	-	4	313	c.219G>T	c.(217-219)GTG>GTT	p.V73V	INPP5B_uc009vvk.1_Silent_p.V14V|INPP5B_uc001cch.2_Silent_p.V14V	NM_005540	NP_005531	P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa	73					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to membrane|microtubule cytoskeleton	GTPase activator activity|inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			urinary_tract(1)	1	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				GCGAGACTGGCACTATCTGGT	0.582													51	23	---	---	---	---	PASS
WDR65	149465	broad.mit.edu	37	1	43665131	43665131	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:43665131C>T	uc001cip.1	+	9	1620	c.1499C>T	c.(1498-1500)ACG>ATG	p.T500M	EBNA1BP2_uc001cio.2_Intron|WDR65_uc010ojz.1_Missense_Mutation_p.T489M|WDR65_uc001ciq.1_Missense_Mutation_p.T500M	NM_152498	NP_689711	Q96MR6	WDR65_HUMAN	WD repeat domain 65	500	WD 7.									skin(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TACACCACCACGAGCCTAGAG	0.498													76	38	---	---	---	---	PASS
BCAS2	10286	broad.mit.edu	37	1	115113346	115113346	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:115113346C>A	uc001efa.2	-	5	498	c.445G>T	c.(445-447)GCA>TCA	p.A149S	DENND2C_uc001eez.2_RNA	NM_005872	NP_005863	O75934	SPF27_HUMAN	breast carcinoma amplified sequence 2	149	Potential.				mRNA processing|RNA splicing, via transesterification reactions	nucleolus|spliceosomal complex	protein binding			large_intestine(1)	1	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCCTTCTGTGCGTGTTCAATC	0.269													8	10	---	---	---	---	PASS
SYCP1	6847	broad.mit.edu	37	1	115401310	115401310	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:115401310G>T	uc001efr.2	+	6	643	c.434G>T	c.(433-435)CGA>CTA	p.R145L	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Missense_Mutation_p.R145L|SYCP1_uc009wgw.2_Missense_Mutation_p.R145L	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	145	Potential.				cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GAAGCACAGCGAAAAGCCATT	0.333													50	30	---	---	---	---	PASS
RBM8A	9939	broad.mit.edu	37	1	145509204	145509204	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:145509204G>T	uc001ent.1	+	6	547	c.518G>T	c.(517-519)CGT>CTT	p.R173L	NBPF10_uc001emp.3_Intron|RBM8A_uc001enu.1_Missense_Mutation_p.R172L|RBM8A_uc001enw.1_5'Flank	NM_005105	NP_005096	Q9Y5S9	RBM8A_HUMAN	RNA binding motif protein 8A	173					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)					GACCGGAGACGTCGCTGACAG	0.498													77	48	---	---	---	---	PASS
NBPF14	25832	broad.mit.edu	37	1	148012533	148012533	+	Missense_Mutation	SNP	T	G	G	rs144977899		TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:148012533T>G	uc001eqq.2	-	12	1443	c.1426A>C	c.(1426-1428)AAG>CAG	p.K476Q	LOC200030_uc001eqe.2_Intron|LOC200030_uc001eqf.2_Intron|LOC200030_uc001eqg.2_Intron|FLJ39739_uc001eqo.1_Intron|NBPF14_uc010pab.1_Intron|NBPF14_uc010pac.1_Intron|NBPF14_uc001eqx.2_Missense_Mutation_p.K387Q|NBPF14_uc010pae.1_Missense_Mutation_p.K143Q|NBPF14_uc010paf.1_Missense_Mutation_p.K631Q|NBPF14_uc010pad.1_5'Flank|NBPF14_uc001eqs.1_Intron	NM_015383	NP_056198	Q5TI25	NBPFE_HUMAN	hypothetical protein LOC25832	476	NBPF 5.					cytoplasm				ovary(1)	1	all_hematologic(923;0.032)					CCAACATGCTTTTCCTCCAAT	0.448													6	35	---	---	---	---	PASS
SF3B4	10262	broad.mit.edu	37	1	149895540	149895540	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:149895540C>A	uc001etj.1	-	6	1220	c.1169G>T	c.(1168-1170)CGA>CTA	p.R390L	SF3B4_uc001eti.1_Missense_Mutation_p.R154L|SF3B4_uc001etk.1_Missense_Mutation_p.R390L	NM_005850	NP_005841	Q15427	SF3B4_HUMAN	splicing factor 3b, subunit 4	390						nucleoplasm|U12-type spliceosomal complex	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Breast(34;0.0009)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)			GGGTGGGGGTCGTGGAGGGCC	0.642													22	11	---	---	---	---	PASS
FLG	2312	broad.mit.edu	37	1	152279999	152279999	+	Missense_Mutation	SNP	A	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:152279999A>T	uc001ezu.1	-	3	7399	c.7363T>A	c.(7363-7365)TCC>ACC	p.S2455T		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2455	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCCTCTTGGGACGTTGAGTGC	0.582									Ichthyosis				201	699	---	---	---	---	PASS
PMF1	11243	broad.mit.edu	37	1	156206080	156206080	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:156206080C>T	uc001fnq.2	+	4	393	c.370C>T	c.(370-372)CGC>TGC	p.R124C	PMF1_uc001fnr.2_Intron|BGLAP_uc001fns.1_Intron	NM_007221	NP_009152	Q6P1K2	PMF1_HUMAN	polyamine-modulated factor 1	124					cell division|chromosome segregation|mitotic prometaphase|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytosol|MIS12/MIND type complex|transcription factor complex	leucine zipper domain binding|transcription coactivator activity				0	Hepatocellular(266;0.158)					GCCCTCCAGGCGCCCCAGCGG	0.617													63	272	---	---	---	---	PASS
NES	10763	broad.mit.edu	37	1	156647042	156647042	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:156647042C>T	uc001fpq.2	-	1	148	c.15G>A	c.(13-15)ATG>ATA	p.M5I		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	5	Head.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					ACTCCTCCCCCATGCAGCCCT	0.642													21	84	---	---	---	---	PASS
NTRK1	4914	broad.mit.edu	37	1	156846302	156846302	+	Silent	SNP	G	A	A	rs138423540		TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:156846302G>A	uc001fqh.1	+	14	1799	c.1743G>A	c.(1741-1743)GAG>GAA	p.E581E	NTRK1_uc001fqf.1_Silent_p.E545E|NTRK1_uc009wsi.1_Silent_p.E280E|NTRK1_uc001fqi.1_Silent_p.E575E|NTRK1_uc009wsk.1_Silent_p.E578E	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	581	Cytoplasmic (Potential).|Protein kinase.				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	TCTGCACCGAGGGCCGCCCCC	0.667			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			64	46	---	---	---	---	PASS
OR10X1	128367	broad.mit.edu	37	1	158549599	158549599	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:158549599C>A	uc010pin.1	-	1	91	c.91G>T	c.(91-93)GTT>TTT	p.V31F		NM_001004477	NP_001004477	Q8NGY0	O10X1_HUMAN	olfactory receptor, family 10, subfamily X,	31	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					GAAAAGCCAACAAGAATGAAT	0.368													74	242	---	---	---	---	PASS
IFI16	3428	broad.mit.edu	37	1	159002392	159002392	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:159002392C>A	uc001ftg.2	+	7	1530	c.1240C>A	c.(1240-1242)CCT>ACT	p.P414T	IFI16_uc010pis.1_Missense_Mutation_p.P358T|IFI16_uc001fth.2_Missense_Mutation_p.P13T|IFI16_uc010pit.1_Missense_Mutation_p.P13T	NM_005531	NP_005522	Q16666	IF16_HUMAN	interferon, gamma-inducible protein 16	414					cell proliferation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|monocyte differentiation|negative regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	cytoplasm|nuclear speck|nucleolus	double-stranded DNA binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)					GCTTCCATATCCTTCAGAGGC	0.463													9	152	---	---	---	---	PASS
DNM3	26052	broad.mit.edu	37	1	172222761	172222761	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:172222761G>A	uc001gie.2	+	15	1884	c.1708G>A	c.(1708-1710)GAT>AAT	p.D570N	DNM3_uc009wwb.2_Missense_Mutation_p.D570N|DNM3_uc001gif.2_Missense_Mutation_p.D570N	NM_015569	NP_056384	Q9UQ16	DYN3_HUMAN	dynamin 3 isoform a	580	PH.				endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1						GAAAGTTCGGGATGTGGAAAA	0.318													3	24	---	---	---	---	PASS
TNR	7143	broad.mit.edu	37	1	175325459	175325459	+	Silent	SNP	A	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:175325459A>C	uc001gkp.1	-	14	3195	c.3114T>G	c.(3112-3114)TCT>TCG	p.S1038S	TNR_uc009wwu.1_Silent_p.S1038S	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1038	Fibronectin type-III 8.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					ACTCACGAGTAGAAAAGTTGG	0.478													72	221	---	---	---	---	PASS
FAM5C	339479	broad.mit.edu	37	1	190067167	190067167	+	Missense_Mutation	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:190067167G>C	uc001gse.1	-	8	2514	c.2282C>G	c.(2281-2283)ACG>AGG	p.T761R	FAM5C_uc010pot.1_Missense_Mutation_p.T659R	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	761						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TAATTTGGTCGTGTCATAATC	0.398													76	305	---	---	---	---	PASS
CRB1	23418	broad.mit.edu	37	1	197398609	197398609	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:197398609C>A	uc001gtz.2	+	8	2842	c.2707C>A	c.(2707-2709)CAT>AAT	p.H903N	CRB1_uc010poz.1_Missense_Mutation_p.H879N|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.H791N|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.H384N|CRB1_uc001gub.1_Missense_Mutation_p.H552N	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	903	Extracellular (Potential).|EGF-like 13.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						AGGTGTTTGCCATTCCCGGTG	0.498													252	141	---	---	---	---	PASS
SRGAP2	23380	broad.mit.edu	37	1	206634438	206634438	+	Silent	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:206634438G>A	uc001hdy.2	+	20	2961	c.2628G>A	c.(2626-2628)CAG>CAA	p.Q876Q	SRGAP2_uc010pru.1_Silent_p.Q799Q	NM_015326	NP_056141	O75044	FNBP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 2	963	Potential.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding				0	Breast(84;0.137)					TAGAACGGCAGAGCAGTGTCA	0.567													15	63	---	---	---	---	PASS
KCTD3	51133	broad.mit.edu	37	1	215759950	215759950	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:215759950G>A	uc001hks.2	+	9	1033	c.739G>A	c.(739-741)GAC>AAC	p.D247N	KCTD3_uc001hkt.2_Missense_Mutation_p.D247N|KCTD3_uc010pub.1_Missense_Mutation_p.D145N|KCTD3_uc009xdn.2_5'UTR	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	247	WD 1.					voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		TGGAGACAAAGACAAAATGGT	0.448													79	318	---	---	---	---	PASS
USH2A	7399	broad.mit.edu	37	1	216246232	216246232	+	Silent	SNP	T	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:216246232T>G	uc001hku.1	-	29	6243	c.5856A>C	c.(5854-5856)GCA>GCC	p.A1952A		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1952	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)		AGTATTTACCTGCTCCTGTTG	0.378										HNSCC(13;0.011)			155	105	---	---	---	---	PASS
CDC42BPA	8476	broad.mit.edu	37	1	227348261	227348261	+	Missense_Mutation	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:227348261G>C	uc001hqr.2	-	6	1619	c.676C>G	c.(676-678)CTG>GTG	p.L226V	CDC42BPA_uc001hqs.2_Missense_Mutation_p.L226V|CDC42BPA_uc009xes.2_Missense_Mutation_p.L226V|CDC42BPA_uc010pvs.1_Missense_Mutation_p.L226V	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B	226	Protein kinase.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				TCTTCCATCAGCTTCAGACAA	0.308													12	281	---	---	---	---	PASS
KIAA1804	84451	broad.mit.edu	37	1	233515049	233515049	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:233515049G>T	uc001hvt.3	+	9	2558	c.2297G>T	c.(2296-2298)CGG>CTG	p.R766L	KIAA1804_uc001hvu.3_Missense_Mutation_p.R212L	NM_032435	NP_115811	Q5TCX8	M3KL4_HUMAN	mixed lineage kinase 4	766					activation of JUN kinase activity|protein autophosphorylation		ATP binding|MAP kinase kinase kinase activity|protein homodimerization activity			lung(5)|central_nervous_system(2)|skin(1)	8		all_cancers(173;0.000405)|all_epithelial(177;0.0345)|Prostate(94;0.122)				ATCTTCCAGCGGGCTTCCAAG	0.602													133	91	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237550599	237550599	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:237550599G>A	uc001hyl.1	+	9	715	c.595G>A	c.(595-597)GGC>AGC	p.G199S		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	199	Cytoplasmic (By similarity).|MIR 2.				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)			TTATGGCAACGGCAGCTTACA	0.493													59	178	---	---	---	---	PASS
FMN2	56776	broad.mit.edu	37	1	240421269	240421269	+	Missense_Mutation	SNP	A	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:240421269A>G	uc010pyd.1	+	7	4315	c.4090A>G	c.(4090-4092)AGA>GGA	p.R1364G	FMN2_uc010pye.1_Missense_Mutation_p.R1368G|FMN2_uc010pyf.1_Missense_Mutation_p.R10G|FMN2_uc010pyg.1_Intron	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1364	FH2.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			AAGCAACAAAAGATCACAAGC	0.308													99	85	---	---	---	---	PASS
OR2G2	81470	broad.mit.edu	37	1	247752240	247752240	+	Silent	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:247752240G>T	uc010pyy.1	+	1	579	c.579G>T	c.(577-579)GTG>GTT	p.V193V		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	193	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			TGGCTTGTGTGGGCACCACGT	0.537													93	246	---	---	---	---	PASS
OR6F1	343169	broad.mit.edu	37	1	247875180	247875180	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:247875180C>T	uc001idj.1	-	1	878	c.878G>A	c.(877-879)CGT>CAT	p.R293H		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	293	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			TTCCTTATTACGAAGCGTATA	0.438													168	117	---	---	---	---	PASS
OR2M2	391194	broad.mit.edu	37	1	248343511	248343511	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:248343511G>T	uc010pzf.1	+	1	224	c.224G>T	c.(223-225)TGC>TTC	p.C75F		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	75	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-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)			ATGCTCATCTGCACCACCGTA	0.498													97	690	---	---	---	---	PASS
OR2T33	391195	broad.mit.edu	37	1	248437053	248437053	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:248437053G>T	uc010pzi.1	-	1	64	c.64C>A	c.(64-66)CAC>AAC	p.H22N		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			AGGACTTGGTGGGCTCTGGTG	0.463													57	178	---	---	---	---	PASS
OR2T12	127064	broad.mit.edu	37	1	248458858	248458858	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:248458858G>A	uc010pzj.1	-	1	23	c.23C>T	c.(22-24)CCA>CTA	p.P8L		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	8	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			AATAAAATCTGGGGTAGTATT	0.438													156	113	---	---	---	---	PASS
OR14I1	401994	broad.mit.edu	37	1	248845103	248845103	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:248845103C>A	uc001ieu.1	-	1	503	c.503G>T	c.(502-504)AGA>ATA	p.R168I		NM_001004734	NP_001004734	A6ND48	O14I1_HUMAN	olfactory receptor, family 14, subfamily I,	168	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CACACTGGATCTGCAAACGTG	0.532													16	59	---	---	---	---	PASS
SMC6	79677	broad.mit.edu	37	2	17912378	17912378	+	Missense_Mutation	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:17912378C>G	uc002rco.2	-	7	806	c.510G>C	c.(508-510)GAG>GAC	p.E170D	SMC6_uc010exo.2_Missense_Mutation_p.E170D|SMC6_uc002rcn.2_Missense_Mutation_p.E170D|SMC6_uc002rcp.1_Missense_Mutation_p.E196D|SMC6_uc002rcq.2_Missense_Mutation_p.E196D|SMC6_uc002rcr.1_Missense_Mutation_p.E170D	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	170					DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TTGCAATCAGCTCTTCTTTCC	0.333													47	88	---	---	---	---	PASS
OSR1	130497	broad.mit.edu	37	2	19553399	19553399	+	Silent	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:19553399C>G	uc002rdc.2	-	2	471	c.168G>C	c.(166-168)ACG>ACC	p.T56T		NM_145260	NP_660303	Q8TAX0	OSR1_HUMAN	odd-skipped related 1	56					chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|heart development|mesangial cell development|mesonephric duct morphogenesis|metanephric cap mesenchymal cell proliferation involved in metanephros development|metanephric glomerulus vasculature development|metanephric interstitial cell development|metanephric mesenchymal cell differentiation|metanephric nephron tubule development|metanephric smooth muscle tissue development|middle ear morphogenesis|negative regulation of apoptosis|negative regulation of nephron tubule epithelial cell differentiation|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|pattern specification involved in metanephros development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of gastrulation|positive regulation of transcription from RNA polymerase II promoter|pronephros development|renal vesicle progenitor cell differentiation|specification of anterior mesonephric tubule identity|specification of posterior mesonephric tubule identity|stem cell differentiation|transcription, DNA-dependent|ureter urothelium development|ureteric bud development	nucleolus	nucleic acid binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	Acute lymphoblastic leukemia(84;0.221)				GGTAGCCCAGCGTCCACTGAT	0.627													25	39	---	---	---	---	PASS
SOS1	6654	broad.mit.edu	37	2	39222461	39222461	+	Missense_Mutation	SNP	A	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:39222461A>G	uc002rrk.3	-	20	3190	c.3149T>C	c.(3148-3150)ATG>ACG	p.M1050T	SOS1_uc002rrj.3_Missense_Mutation_p.M664T	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	1050					apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				GGGATGCCTCATGGTACCTGG	0.418									Noonan_syndrome				91	112	---	---	---	---	PASS
C2orf34	79823	broad.mit.edu	37	2	44981257	44981257	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:44981257G>T	uc002rum.2	+	9	866	c.762G>T	c.(760-762)AGG>AGT	p.R254S		NM_024766	NP_079042	Q7Z624	CMKMT_HUMAN	hypothetical protein LOC79823	254						cytoplasm	calmodulin-lysine N-methyltransferase activity				0		all_hematologic(82;0.0892)|Acute lymphoblastic leukemia(82;0.17)				TCCAGCCCAGGGTAAGTATGT	0.418													22	385	---	---	---	---	PASS
NRXN1	9378	broad.mit.edu	37	2	50149369	50149369	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:50149369C>A	uc010fbp.2	-	6	1849	c.1042G>T	c.(1042-1044)GGC>TGC	p.G348C	NRXN1_uc002rxb.3_Missense_Mutation_p.G1082C|NRXN1_uc010fbq.2_Missense_Mutation_p.G1453C|NRXN1_uc002rxe.3_Missense_Mutation_p.G1383C|NRXN1_uc010yon.1_Missense_Mutation_p.G48C|NRXN1_uc002rxa.3_Missense_Mutation_p.G45C	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	348	Extracellular (Potential).				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GGCTCTCTGCCGCCTGCTCGG	0.507													13	29	---	---	---	---	PASS
ACTG2	72	broad.mit.edu	37	2	74146658	74146658	+	Missense_Mutation	SNP	T	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:74146658T>A	uc002sjw.2	+	9	1209	c.1087T>A	c.(1087-1089)TAT>AAT	p.Y363N	ACTG2_uc010fey.2_Missense_Mutation_p.Y363N|ACTG2_uc010yrn.1_Missense_Mutation_p.Y320N	NM_001615	NP_001606	P63267	ACTH_HUMAN	actin, gamma 2 propeptide	363					muscle contraction	cytoskeleton|cytosol	ATP binding				0						CAAGCCTGAGTATGATGAGGC	0.532													41	50	---	---	---	---	PASS
SEMA4F	10505	broad.mit.edu	37	2	74881627	74881627	+	Nonsense_Mutation	SNP	A	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:74881627A>T	uc002sna.1	+	1	235	c.124A>T	c.(124-126)AGA>TGA	p.R42*	SEMA4F_uc010ysb.1_Nonsense_Mutation_p.R42*|SEMA4F_uc010ffq.1_Nonsense_Mutation_p.R42*|SEMA4F_uc010ffr.1_5'UTR|SEMA4F_uc002snb.1_5'UTR|SEMA4F_uc002snc.1_Nonsense_Mutation_p.R42*	NM_004263	NP_004254	O95754	SEM4F_HUMAN	semaphorin W precursor	42	Sema.|Extracellular (Potential).				cell-cell signaling	endoplasmic reticulum|integral to plasma membrane	receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CTCGGTGCCCAGAACCTCGCT	0.726													15	24	---	---	---	---	PASS
REG3G	130120	broad.mit.edu	37	2	79254179	79254179	+	Missense_Mutation	SNP	C	A	A	rs115709602	byFrequency	TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:79254179C>A	uc002snw.2	+	4	300	c.215C>A	c.(214-216)CCC>CAC	p.P72H	REG3G_uc002snx.2_Missense_Mutation_p.P72H|REG3G_uc010ffu.2_Intron	NM_198448	NP_940850	Q6UW15	REG3G_HUMAN	regenerating islet-derived 3 gamma precursor	72	C-type lectin.				acute-phase response	extracellular region	sugar binding				0						CAGAAGCGGCCCTCTGGAAAA	0.557													78	130	---	---	---	---	PASS
CTNNA2	1496	broad.mit.edu	37	2	79971647	79971647	+	Silent	SNP	T	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:79971647T>A	uc010ysh.1	+	2	242	c.237T>A	c.(235-237)GCT>GCA	p.A79A	CTNNA2_uc010yse.1_Silent_p.A79A|CTNNA2_uc010ysf.1_Silent_p.A79A|CTNNA2_uc010ysg.1_Silent_p.A79A	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	79					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						AACAGATCGCTAAGGAGAGTC	0.453													18	39	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	2	89442273	89442273	+	RNA	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:89442273C>A	uc010ytr.1	-	33		c.4144G>T			uc002stl.2_Intron					Parts of antibodies, mostly variable regions.																		TCTGACTGGCCCTGCAGGAGA	0.552													60	93	---	---	---	---	PASS
TMEM131	23505	broad.mit.edu	37	2	98409296	98409296	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:98409296C>T	uc002syh.3	-	31	3926	c.3697G>A	c.(3697-3699)GAA>AAA	p.E1233K		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1233						integral to membrane				ovary(4)|central_nervous_system(2)	6						CTGACGTTTTCCACGTCAGCT	0.512													6	64	---	---	---	---	PASS
ANAPC1	64682	broad.mit.edu	37	2	112539964	112539964	+	Silent	SNP	A	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:112539964A>T	uc002thi.2	-	43	5431	c.5184T>A	c.(5182-5184)TCT>TCA	p.S1728S		NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	1728					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						CCCGGGCTTCAGAGTTCCTGT	0.433													7	62	---	---	---	---	PASS
NCKAP5	344148	broad.mit.edu	37	2	133542370	133542370	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:133542370C>T	uc002ttp.2	-	14	2388	c.2014G>A	c.(2014-2016)GAT>AAT	p.D672N	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	672							protein binding				0						TCTTCCGCATCAAATATCACA	0.443													94	132	---	---	---	---	PASS
CXCR4	7852	broad.mit.edu	37	2	136873260	136873260	+	Silent	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:136873260G>A	uc002tuz.2	-	2	333	c.238C>T	c.(238-240)CTG>TTG	p.L80L	CXCR4_uc002tuy.2_Silent_p.L84L|CXCR4_uc010fnk.2_Silent_p.L65L	NM_003467	NP_003458	P61073	CXCR4_HUMAN	chemokine (C-X-C motif) receptor 4 isoform b	80	Helical; Name=2.				activation of MAPK activity|apoptosis|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|inflammatory response|initiation of viral infection|regulation of chemotaxis|response to hypoxia|response to virus	cell leading edge|cell surface|cytoplasmic membrane-bounded vesicle|integral to membrane|plasma membrane	actin binding|C-X-C chemokine receptor activity|coreceptor activity|myosin light chain binding|ubiquitin binding|ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.155)	Framycetin(DB00452)	GCCACTGACAGGTGCAGCCTG	0.512													14	216	---	---	---	---	PASS
NEB	4703	broad.mit.edu	37	2	152487332	152487332	+	Missense_Mutation	SNP	C	T	T	rs111841612	by1000genomes	TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:152487332C>T	uc010fnx.2	-	63	9082	c.8891G>A	c.(8890-8892)CGT>CAT	p.R2964H	NEB_uc002txu.2_Missense_Mutation_p.R311H	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2964	Nebulin 80.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TGTGTATAAACGCTATAAAAG	0.318													3	19	---	---	---	---	PASS
TTC21B	79809	broad.mit.edu	37	2	166744965	166744965	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:166744965C>T	uc002udk.2	-	25	3416	c.3283G>A	c.(3283-3285)GAA>AAA	p.E1095K	TTC21B_uc002udj.1_RNA	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	1095						cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						TGCACAGATTCTTGCTTCTCA	0.348													5	78	---	---	---	---	PASS
KLHL23	151230	broad.mit.edu	37	2	170591838	170591838	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:170591838G>T	uc002ufh.1	+	4	652	c.314G>T	c.(313-315)AGA>ATA	p.R105I	KLHL23_uc002ufi.1_Missense_Mutation_p.R105I	NM_144711	NP_653312	Q8NBE8	KLH23_HUMAN	kelch-like 23	105											0						ATAACTAAAAGAAATGTTCAA	0.363													51	81	---	---	---	---	PASS
DLX2	1746	broad.mit.edu	37	2	172967087	172967087	+	Silent	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:172967087G>T	uc002uhn.2	-	1	392	c.180C>A	c.(178-180)ACC>ACA	p.T60T	DLX2_uc010zdx.1_Silent_p.T60T	NM_004405	NP_004396	Q07687	DLX2_HUMAN	distal-less homeobox 2	60						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.216)			TGTCGGTGGCGGTGGACACCG	0.373													9	9	---	---	---	---	PASS
NFE2L2	4780	broad.mit.edu	37	2	178098815	178098815	+	Missense_Mutation	SNP	T	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:178098815T>C	uc002ulh.3	-	2	785	c.230A>G	c.(229-231)GAT>GGT	p.D77G	NFE2L2_uc002ulg.3_Missense_Mutation_p.D61G|NFE2L2_uc010zfa.1_Missense_Mutation_p.D61G|NFE2L2_uc002uli.3_Missense_Mutation_p.D61G|NFE2L2_uc010fra.2_Missense_Mutation_p.D61G|NFE2L2_uc010frb.2_Missense_Mutation_p.D61G	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	77					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			TGTCTCTTCATCTAGTTGTAA	0.433			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			54	79	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179441890	179441890	+	Missense_Mutation	SNP	T	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:179441890T>A	uc010zfg.1	-	273	61692	c.61468A>T	c.(61468-61470)ACA>TCA	p.T20490S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T14185S|TTN_uc010zfi.1_Missense_Mutation_p.T14118S|TTN_uc010zfj.1_Missense_Mutation_p.T13993S|uc002umv.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21417							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)			CATGTAAGTGTTGCTTTTTCA	0.458													34	54	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179575470	179575470	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:179575470C>T	uc010zfg.1	-	95	24846	c.24622G>A	c.(24622-24624)GCC>ACC	p.A8208T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.A4869T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9135							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)			GTCAGGTGGGCGCTGTTTTCC	0.483													64	111	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179598145	179598145	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:179598145G>A	uc010zfg.1	-	51	12367	c.12143C>T	c.(12142-12144)CCC>CTC	p.P4048L	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.P709L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4975							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)			GTACCATTTGGGCTTCAGTTC	0.478													102	170	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179656920	179656920	+	Missense_Mutation	SNP	C	A	A	rs139178471		TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:179656920C>A	uc010zfg.1	-	10	1765	c.1541G>T	c.(1540-1542)AGA>ATA	p.R514I	TTN_uc010zfh.1_Missense_Mutation_p.R514I|TTN_uc010zfi.1_Missense_Mutation_p.R514I|TTN_uc010zfj.1_Missense_Mutation_p.R514I|TTN_uc002unb.2_Missense_Mutation_p.R514I|TTN_uc010frg.1_Missense_Mutation_p.R188I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	514							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)			AGTTTCTTTTCTTATCTGCAA	0.284													31	40	---	---	---	---	PASS
ITGA4	3676	broad.mit.edu	37	2	182388249	182388249	+	Missense_Mutation	SNP	A	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:182388249A>G	uc002unu.2	+	19	2922	c.2159A>G	c.(2158-2160)CAT>CGT	p.H720R	ITGA4_uc010frj.1_Missense_Mutation_p.H202R|ITGA4_uc002unv.2_5'UTR	NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor	720	Extracellular (Potential).				blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	TATGTAGATCATCTCTCAAGG	0.328													35	48	---	---	---	---	PASS
ZNF804A	91752	broad.mit.edu	37	2	185802960	185802960	+	Missense_Mutation	SNP	A	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:185802960A>T	uc002uph.2	+	4	3431	c.2837A>T	c.(2836-2838)AAT>ATT	p.N946I		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	946						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						ATAAATCTTAATGAAAAGCAA	0.398													44	65	---	---	---	---	PASS
COL3A1	1281	broad.mit.edu	37	2	189857616	189857616	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:189857616C>A	uc002uqj.1	+	15	1117	c.1000C>A	c.(1000-1002)CCT>ACT	p.P334T	COL3A1_uc010frw.1_RNA	NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	334	Triple-helical region.				axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	TTTTCAGGGCCCTCCTGGTCC	0.383													58	101	---	---	---	---	PASS
DNAH7	56171	broad.mit.edu	37	2	196664156	196664156	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:196664156C>T	uc002utj.3	-	55	10318	c.10217G>A	c.(10216-10218)GGA>GAA	p.G3406E		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3406	AAA 6 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						GAATGCACGTCCCAATCTGTT	0.403													59	84	---	---	---	---	PASS
DNAH7	56171	broad.mit.edu	37	2	196825095	196825095	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:196825095G>T	uc002utj.3	-	18	2881	c.2780C>A	c.(2779-2781)ACA>AAA	p.T927K		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	927	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						CAAAATAAATGTCCCAGTTTC	0.368													95	163	---	---	---	---	PASS
FZD7	8324	broad.mit.edu	37	2	202899509	202899509	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:202899509G>T	uc002uyw.1	+	1	200	c.139G>T	c.(139-141)GGC>TGC	p.G47C		NM_003507	NP_003498	O75084	FZD7_HUMAN	frizzled 7 precursor	47	FZ.|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						GCCGGACCACGGCTTCTGCCA	0.697													51	79	---	---	---	---	PASS
CPS1	1373	broad.mit.edu	37	2	211471664	211471664	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:211471664G>T	uc002vee.3	+	18	2323	c.2191G>T	c.(2191-2193)GGC>TGC	p.G731C	CPS1_uc010fur.2_Missense_Mutation_p.G737C|CPS1_uc010fus.2_Missense_Mutation_p.G280C	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	731	ATP-grasp 1.				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)		AAAAGCCACTGGGTAAGACCA	0.418													34	52	---	---	---	---	PASS
CPS1	1373	broad.mit.edu	37	2	211512690	211512690	+	Missense_Mutation	SNP	A	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:211512690A>C	uc002vee.3	+	26	3377	c.3245A>C	c.(3244-3246)CAG>CCG	p.Q1082P	CPS1_uc010fur.2_Missense_Mutation_p.Q1088P|CPS1_uc010fus.2_Missense_Mutation_p.Q631P	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1082					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)		AGCCCCCTGCAGATCGACAGG	0.507													38	90	---	---	---	---	PASS
ERBB4	2066	broad.mit.edu	37	2	212989506	212989506	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:212989506C>T	uc002veg.1	-	2	303	c.205G>A	c.(205-207)GAG>AAG	p.E69K	ERBB4_uc002veh.1_Missense_Mutation_p.E69K|ERBB4_uc010zji.1_Missense_Mutation_p.E69K|ERBB4_uc010zjj.1_Missense_Mutation_p.E69K|ERBB4_uc010fut.1_Missense_Mutation_p.E69K	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	69	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CGGTTGTGCTCAATGCTGGTT	0.512										TSP Lung(8;0.080)			33	58	---	---	---	---	PASS
CCDC108	255101	broad.mit.edu	37	2	219892395	219892395	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:219892395G>A	uc002vjl.1	-	13	2272	c.2188C>T	c.(2188-2190)CTC>TTC	p.L730F	CCDC108_uc010fwa.1_Missense_Mutation_p.L173F|CCDC108_uc010zkp.1_Missense_Mutation_p.L719F|CCDC108_uc010zkq.1_Missense_Mutation_p.L665F	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	730						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AAGGCTTCGAGCTCCACCGTG	0.612													5	203	---	---	---	---	PASS
CUL3	8452	broad.mit.edu	37	2	225367790	225367790	+	Splice_Site	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:225367790C>T	uc002vny.2	-	10	1762	c.1378_splice	c.e10-1	p.T460_splice	CUL3_uc010zls.1_Splice_Site_p.T394_splice|CUL3_uc010fwy.1_Splice_Site_p.T466_splice|CUL3_uc002vnz.1_5'Flank	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3						cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		CACATTCAGTCTGTGGAGGAA	0.353													125	187	---	---	---	---	PASS
COL4A4	1286	broad.mit.edu	37	2	227895204	227895204	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:227895204C>T	uc010zlt.1	-	41	4582	c.3928G>A	c.(3928-3930)GGA>AGA	p.G1310R		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	1310	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		CCTTTGTATCCTGGAGGGCCT	0.532													99	130	---	---	---	---	PASS
COL4A4	1286	broad.mit.edu	37	2	227942619	227942619	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:227942619C>A	uc010zlt.1	-	25	2632	c.1978G>T	c.(1978-1980)GGT>TGT	p.G660C		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	660	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		CCTTTCTGACCCTTCAAGCCA	0.358													13	41	---	---	---	---	PASS
CHRNG	1146	broad.mit.edu	37	2	233410280	233410280	+	Silent	SNP	C	A	A	rs121912671		TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:233410280C>A	uc002vsx.1	+	12	1429	c.1408C>A	c.(1408-1410)CGA>AGA	p.R470R	CHRNG_uc010fye.1_Silent_p.R418R	NM_005199	NP_005190	P07510	ACHG_HUMAN	cholinergic receptor, nicotinic, gamma	470	Cytoplasmic (Potential).				muscle contraction	cell junction|postsynaptic membrane	acetylcholine receptor activity				0		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;6.39e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00079)|LUSC - Lung squamous cell carcinoma(224;0.00757)|Lung(119;0.0086)		CCTGGTGGGCCGAGTGCTGGA	0.632													29	42	---	---	---	---	PASS
EFHD1	80303	broad.mit.edu	37	2	233546384	233546384	+	Silent	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:233546384C>G	uc002vtc.2	+	4	883	c.675C>G	c.(673-675)CTC>CTG	p.L225L	EFHD1_uc010fyf.2_Silent_p.L129L|EFHD1_uc002vtd.2_Silent_p.L113L	NM_025202	NP_079478	Q9BUP0	EFHD1_HUMAN	EF-hand domain family, member D1	225							calcium ion binding|protein binding				0		all_hematologic(139;0.0123)|Acute lymphoblastic leukemia(138;0.0182)|Breast(86;0.0199)|Renal(207;0.025)		Epithelial(121;2.08e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00825)|Lung(119;0.0101)		AGAGGCGGCTCCGCCAGGCAG	0.562													62	89	---	---	---	---	PASS
CAND2	23066	broad.mit.edu	37	3	12856708	12856708	+	Missense_Mutation	SNP	A	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:12856708A>T	uc003bxk.2	+	8	1124	c.1075A>T	c.(1075-1077)ATC>TTC	p.I359F	CAND2_uc003bxj.2_Missense_Mutation_p.I266F	NM_001162499	NP_001155971	O75155	CAND2_HUMAN	TBP-interacting protein isoform 1	359	HEAT 8.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			skin(3)|pancreas(1)	4						TGCCAAGTGCATCGCAGCCTT	0.602													43	38	---	---	---	---	PASS
FBLN2	2199	broad.mit.edu	37	3	13659716	13659716	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:13659716G>T	uc011avb.1	+	6	1995	c.1870G>T	c.(1870-1872)GTG>TTG	p.V624L	FBLN2_uc011auz.1_Missense_Mutation_p.V650L|FBLN2_uc011ava.1_Missense_Mutation_p.V624L|FBLN2_uc011avc.1_Missense_Mutation_p.V624L	NM_001998	NP_001989	P98095	FBLN2_HUMAN	fibulin 2 isoform b precursor	624	EGF-like 1; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			CATCAATACTGTGGGTTCTTA	0.632													95	39	---	---	---	---	PASS
PLCL2	23228	broad.mit.edu	37	3	17053469	17053469	+	Missense_Mutation	SNP	C	G	G	rs140113907		TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:17053469C>G	uc011awc.1	+	5	2712	c.2607C>G	c.(2605-2607)CAC>CAG	p.H869Q	PLCL2_uc011awd.1_Missense_Mutation_p.H751Q	NM_001144382	NP_001137854	Q9UPR0	PLCL2_HUMAN	phospholipase C-like 2 isoform 1	877					intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(2)|ovary(1)|lung(1)	4						TATTTGTCCACGTGGCTATTA	0.468													84	38	---	---	---	---	PASS
PTPRG	5793	broad.mit.edu	37	3	61975462	61975462	+	Missense_Mutation	SNP	A	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:61975462A>C	uc003dlb.2	+	3	1073	c.354A>C	c.(352-354)AAA>AAC	p.K118N	PTPRG_uc003dlc.2_Missense_Mutation_p.K118N	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G	118	Extracellular (Potential).|Alpha-carbonic anhydrase.				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)		CCTGGATGAAAAACACAGGGA	0.423													12	38	---	---	---	---	PASS
IMPG2	50939	broad.mit.edu	37	3	100962390	100962390	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:100962390G>T	uc003duq.1	-	13	2988	c.2785C>A	c.(2785-2787)CAA>AAA	p.Q929K	IMPG2_uc011bhe.1_Missense_Mutation_p.Q792K	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	929	Extracellular (Potential).|SEA 2.				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						AAGAATCTTTGCTCCAGGGCT	0.408													20	14	---	---	---	---	PASS
MYH15	22989	broad.mit.edu	37	3	108183497	108183497	+	Silent	SNP	A	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:108183497A>G	uc003dxa.1	-	16	1836	c.1779T>C	c.(1777-1779)CAT>CAC	p.H593H		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	593	Myosin head-like.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						CTCCTGCATAATGGACAAGTT	0.413													186	61	---	---	---	---	PASS
CCDC80	151887	broad.mit.edu	37	3	112357210	112357210	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:112357210G>T	uc003dzf.2	-	2	1761	c.1543C>A	c.(1543-1545)CCT>ACT	p.P515T	CCDC80_uc011bhv.1_Missense_Mutation_p.P515T|CCDC80_uc003dzg.2_Missense_Mutation_p.P515T|CCDC80_uc003dzh.1_Missense_Mutation_p.P515T	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	515	Lys-rich.									ovary(2)	2						GAGGCAGTAGGCCGGCTGAGG	0.483													31	173	---	---	---	---	PASS
HSPBAP1	79663	broad.mit.edu	37	3	122496727	122496727	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:122496727C>A	uc003efu.1	-	2	214	c.91G>T	c.(91-93)GAG>TAG	p.E31*	HSPBAP1_uc003efv.1_Nonsense_Mutation_p.E31*	NM_024610	NP_078886	Q96EW2	HBAP1_HUMAN	Hspb associated protein 1	31						cytoplasm				ovary(1)|lung(1)	2				GBM - Glioblastoma multiforme(114;0.0531)		TTTGCTTTCTCTGGCTTAAAA	0.343													17	33	---	---	---	---	PASS
ROPN1	54763	broad.mit.edu	37	3	123688018	123688018	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:123688018C>A	uc003eha.2	-	7	964	c.623G>T	c.(622-624)AGG>ATG	p.R208M		NM_017578	NP_060048	Q9HAT0	ROP1A_HUMAN	ropporin	208					signal transduction		cAMP-dependent protein kinase regulator activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.148)		CAGCTGAACCCTGGGGTTTTG	0.373													46	125	---	---	---	---	PASS
MGLL	11343	broad.mit.edu	37	3	127540634	127540634	+	Missense_Mutation	SNP	T	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:127540634T>A	uc003ejx.2	-	2	173	c.28A>T	c.(28-30)ACC>TCC	p.T10S	MGLL_uc003ejw.2_Missense_Mutation_p.T20S|MGLL_uc011bko.1_Missense_Mutation_p.T20S|MGLL_uc010hsp.1_Missense_Mutation_p.T10S	NM_001003794	NP_001003794	Q99685	MGLL_HUMAN	monoglyceride lipase isoform 2	10					arachidonic acid metabolic process|fatty acid biosynthetic process|inflammatory response|platelet activation|regulation of endocannabinoid signaling pathway|regulation of inflammatory response|regulation of sensory perception of pain|triglyceride catabolic process	plasma membrane	acylglycerol lipase activity|carboxylesterase activity|lysophospholipase activity|protein homodimerization activity				0						CTCTGCGGGGTCCGCCTGGGG	0.517													174	42	---	---	---	---	PASS
PIK3R4	30849	broad.mit.edu	37	3	130424510	130424510	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:130424510C>T	uc003enj.2	-	12	3408	c.2827G>A	c.(2827-2829)GAA>AAA	p.E943K		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	943					fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						TGCTGAAGTTCAGTTTTACAA	0.403													47	216	---	---	---	---	PASS
ZBTB38	253461	broad.mit.edu	37	3	141163318	141163318	+	Missense_Mutation	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:141163318G>C	uc003etw.2	+	8	3070	c.2088G>C	c.(2086-2088)TTG>TTC	p.L696F	ZBTB38_uc010hun.2_Missense_Mutation_p.L693F|ZBTB38_uc010huo.2_Missense_Mutation_p.L696F|ZBTB38_uc003ety.2_Missense_Mutation_p.L696F|ZBTB38_uc010hup.2_Missense_Mutation_p.L697F	NM_001080412	NP_001073881	Q8NAP3	ZBT38_HUMAN	zinc finger and BTB domain containing 38	696					positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						TTTTATCTTTGAGTAATAGCA	0.463													4	197	---	---	---	---	PASS
TRPC1	7220	broad.mit.edu	37	3	142511727	142511727	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:142511727G>T	uc003evc.2	+	9	1635	c.1499G>T	c.(1498-1500)GGG>GTG	p.G500V	TRPC1_uc003evb.2_Missense_Mutation_p.G466V|TRPC1_uc011bni.1_Intron	NM_003304	NP_003295	P48995	TRPC1_HUMAN	transient receptor potential cation channel,	500	Extracellular (Potential).				axon guidance|cytosolic calcium ion homeostasis|positive regulation of release of sequestered calcium ion into cytosol|response to calcium ion	cytosol|integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						GTGGCAGAAGGGCTTTTTGCA	0.368													78	124	---	---	---	---	PASS
WWTR1	25937	broad.mit.edu	37	3	149290745	149290745	+	Silent	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:149290745C>G	uc003exe.2	-	2	490	c.474G>C	c.(472-474)GCG>GCC	p.A158A	WWTR1_uc003exf.2_Silent_p.A158A|WWTR1_uc011bns.1_Silent_p.A158A|WWTR1_uc003exh.2_Silent_p.A158A	NM_015472	NP_056287	Q9GZV5	WWTR1_HUMAN	WW domain containing transcription regulator 1	158					hippo signaling cascade|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of protein kinase activity|negative regulation of protein phosphorylation|positive regulation of cell proliferation|positive regulation of epithelial to mesenchymal transition|regulation of SMAD protein import into nucleus|stem cell division|transcription, DNA-dependent	cytoplasm	transcription coactivator activity			breast(3)|skin(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			GCTGATTCATCGCCTTCCTAG	0.433													6	149	---	---	---	---	PASS
PFN2	5217	broad.mit.edu	37	3	149684332	149684332	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:149684332C>T	uc003ext.1	-	3	465	c.367G>A	c.(367-369)GGA>AGA	p.G123R	PFN2_uc003exs.1_Intron|PFN2_uc003exu.1_Intron|PFN2_uc011bnu.1_Intron	NM_053024	NP_444252	P35080	PROF2_HUMAN	profilin 2 isoform a	123					actin cytoskeleton organization|regulation of actin polymerization or depolymerization	actin cytoskeleton|cytoplasm	actin binding|phosphatidylinositol-4,5-bisphosphate binding				0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			TTATTCAATCCGCCTCCATGG	0.388													16	783	---	---	---	---	PASS
MED12L	116931	broad.mit.edu	37	3	150881801	150881801	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:150881801C>T	uc003eyp.2	+	8	1267	c.1229C>T	c.(1228-1230)CCG>CTG	p.P410L	MED12L_uc011bnz.1_Intron|MED12L_uc003eyn.2_Missense_Mutation_p.P410L|MED12L_uc003eyo.2_Missense_Mutation_p.P410L	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	410					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CTCCCCATGCCGGGTGGGAAC	0.433													50	107	---	---	---	---	PASS
MED12L	116931	broad.mit.edu	37	3	151100489	151100489	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:151100489G>A	uc003eyp.2	+	31	4569	c.4531G>A	c.(4531-4533)GCG>ACG	p.A1511T	MED12L_uc011bnz.1_Missense_Mutation_p.A1371T|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Missense_Mutation_p.A674T	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1511					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TGACATAAAAGCGCGGCAGAT	0.348													14	46	---	---	---	---	PASS
ZBBX	79740	broad.mit.edu	37	3	167045904	167045904	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:167045904C>A	uc003fep.2	-	11	1011	c.688G>T	c.(688-690)GTA>TTA	p.V230L	ZBBX_uc011bpc.1_Missense_Mutation_p.V230L|ZBBX_uc003feq.2_Missense_Mutation_p.V201L	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	230						intracellular	zinc ion binding			ovary(2)	2						GTAATTTCTACCTAATTAAAA	0.318													82	110	---	---	---	---	PASS
NAALADL2	254827	broad.mit.edu	37	3	175184863	175184863	+	Missense_Mutation	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:175184863G>C	uc003fit.2	+	8	1511	c.1424G>C	c.(1423-1425)CGT>CCT	p.R475P	NAALADL2_uc003fiu.1_Missense_Mutation_p.R468P|NAALADL2_uc010hwy.1_Missense_Mutation_p.R249P|NAALADL2_uc010hwz.1_Missense_Mutation_p.R69P	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	475	Extracellular (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		GCGTTTATCCGTGCCTTGATG	0.438													97	207	---	---	---	---	PASS
ABCF3	55324	broad.mit.edu	37	3	183904636	183904636	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:183904636C>T	uc003fmz.2	+	3	407	c.274C>T	c.(274-276)CAG>TAG	p.Q92*	ABCF3_uc003fna.2_Nonsense_Mutation_p.Q86*|ABCF3_uc003fnb.2_5'Flank	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),	92							ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CGCCCCTATCCAGTTGTCAAA	0.547													24	95	---	---	---	---	PASS
CLDN1	9076	broad.mit.edu	37	3	190026066	190026066	+	Nonstop_Mutation	SNP	T	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:190026066T>G	uc003fsh.2	-	4	856	c.636A>C	c.(634-636)TGA>TGC	p.*212C		NM_021101	NP_066924	O95832	CLD1_HUMAN	claudin 1	212					calcium-independent cell-cell adhesion|interspecies interaction between organisms	integral to plasma membrane|tight junction	identical protein binding|structural molecule activity			lung(1)	1	all_cancers(143;2.95e-10)|Ovarian(172;0.0512)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.015)		TGCCTCTGTGTCACACGTAGT	0.433													39	311	---	---	---	---	PASS
CCDC50	152137	broad.mit.edu	37	3	191074882	191074882	+	Missense_Mutation	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr3:191074882C>G	uc003fsw.2	+	2	645	c.55C>G	c.(55-57)CGA>GGA	p.R19G	CCDC50_uc003fsv.2_Missense_Mutation_p.R19G	NM_174908	NP_777568	Q8IVM0	CCD50_HUMAN	Ymer protein short isoform	19						cytoplasm	protein binding				0	all_cancers(143;8.88e-09)|Ovarian(172;0.103)|Breast(254;0.221)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000136)		TCTAGTATGCCGAGATTTTGC	0.378													16	72	---	---	---	---	PASS
PDS5A	23244	broad.mit.edu	37	4	39839791	39839791	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:39839791C>T	uc003guv.3	-	32	4235	c.3695G>A	c.(3694-3696)AGC>AAC	p.S1232N	PDS5A_uc010ifo.2_Missense_Mutation_p.S1192N	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	1232					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						TCGGTCACTGCTGATGTTGCC	0.388													3	25	---	---	---	---	PASS
KCTD8	386617	broad.mit.edu	37	4	44177267	44177267	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:44177267C>A	uc003gwu.2	-	2	1246	c.962G>T	c.(961-963)CGA>CTA	p.R321L		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	321						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						CTGAGGTGGTCCTAAAAAGGA	0.323										HNSCC(17;0.042)			25	16	---	---	---	---	PASS
USP46	64854	broad.mit.edu	37	4	53492340	53492340	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:53492340G>A	uc003gzn.2	-	4	591	c.406C>T	c.(406-408)CTT>TTT	p.L136F	USP46_uc003gzm.3_Missense_Mutation_p.L129F|USP46_uc011bzr.1_Missense_Mutation_p.L113F|USP46_uc011bzs.1_Missense_Mutation_p.L20F	NM_022832	NP_073743	P62068	UBP46_HUMAN	ubiquitin specific peptidase 46 isoform 1	136					behavior|protein deubiquitination|regulation of synaptic transmission, GABAergic|ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)	1			LUSC - Lung squamous cell carcinoma(32;0.0295)			TCCTCCTGAAGGATGTCCGCA	0.373													4	48	---	---	---	---	PASS
AASDH	132949	broad.mit.edu	37	4	57237718	57237718	+	Missense_Mutation	SNP	A	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:57237718A>T	uc003hbn.2	-	5	913	c.760T>A	c.(760-762)TCA>ACA	p.S254T	AASDH_uc010ihb.2_5'UTR|AASDH_uc011caa.1_Missense_Mutation_p.S101T|AASDH_uc003hbo.2_Missense_Mutation_p.S154T|AASDH_uc011cab.1_5'UTR|AASDH_uc010ihc.2_Missense_Mutation_p.S254T|AASDH_uc003hbp.2_Missense_Mutation_p.S254T	NM_181806	NP_861522	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	254					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding			ovary(4)	4	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				GCACCACTTGATAGAGCAAGA	0.423													3	37	---	---	---	---	PASS
MUC7	4589	broad.mit.edu	37	4	71346978	71346978	+	Missense_Mutation	SNP	T	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:71346978T>C	uc011cat.1	+	4	805	c.517T>C	c.(517-519)TCT>CCT	p.S173P	MUC7_uc011cau.1_Missense_Mutation_p.S173P|MUC7_uc003hfj.2_Missense_Mutation_p.S173P|uc011cav.1_RNA	NM_001145006	NP_001138478	Q8TAX7	MUC7_HUMAN	mucin 7, secreted precursor	173	1.|Thr-rich.					extracellular region	protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4			Lung(101;0.211)			ACCCACACCTTCTGCAACTAC	0.522													3	138	---	---	---	---	PASS
ANKRD17	26057	broad.mit.edu	37	4	73986010	73986010	+	Silent	SNP	C	G	G	rs139894750	byFrequency	TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:73986010C>G	uc003hgp.2	-	21	4011	c.3894G>C	c.(3892-3894)GCG>GCC	p.A1298A	ANKRD17_uc003hgo.2_Silent_p.A1185A|ANKRD17_uc003hgq.2_Silent_p.A1047A|ANKRD17_uc003hgr.2_Silent_p.A1297A|ANKRD17_uc011cbd.1_Silent_p.A863A	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	1298	ANK 22.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GGCCCACCTCCGCATATCCAC	0.443													29	24	---	---	---	---	PASS
C4orf21	55345	broad.mit.edu	37	4	113510904	113510904	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:113510904C>A	uc003iau.2	-	11	3314	c.3103G>T	c.(3103-3105)GAT>TAT	p.D1035Y	C4orf21_uc003iav.2_5'Flank|C4orf21_uc003iaw.2_Missense_Mutation_p.D1035Y	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		AAATGAAGATCATCAGGTAAA	0.358													4	91	---	---	---	---	PASS
DCHS2	54798	broad.mit.edu	37	4	155156792	155156792	+	Silent	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:155156792C>A	uc003inw.2	-	25	7647	c.7647G>T	c.(7645-7647)GTG>GTT	p.V2549V		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	2549	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		GTATCAGAAACACTAAAAAGG	0.378													27	10	---	---	---	---	PASS
HAND2	9464	broad.mit.edu	37	4	174450308	174450308	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:174450308C>A	uc003ith.1	-	1	1071	c.133G>T	c.(133-135)GGC>TGC	p.G45C	NBLA00301_uc011ckd.1_5'Flank|NBLA00301_uc003itl.3_5'Flank|NBLA00301_uc003itj.2_5'Flank|NBLA00301_uc010irf.2_5'Flank|NBLA00301_uc010irg.2_5'Flank|NBLA00301_uc010irh.2_5'Flank|NBLA00301_uc010iri.2_5'Flank|NBLA00301_uc010irj.2_5'Flank|NBLA00301_uc010irk.2_5'Flank|NBLA00301_uc010irl.2_5'Flank|NBLA00301_uc010irm.2_5'Flank|NBLA00301_uc010irn.2_5'Flank|NBLA00301_uc003itk.2_5'Flank|HAND2_uc003itg.1_Missense_Mutation_p.G45C|HAND2_uc010ire.1_Missense_Mutation_p.G45C	NM_021973	NP_068808	P61296	HAND2_HUMAN	basic helix-loop-helix transcription factor	45					adult heart development|angiogenesis|apoptosis|cardiac neural crest cell development involved in outflow tract morphogenesis|heart looping|in utero embryonic development|negative regulation of cardiac muscle cell apoptosis|noradrenergic neuron differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|regulation of secondary heart field cardioblast proliferation|thymus development	nuclear chromatin|transcription factor complex	activating transcription factor binding|protein homodimerization activity|RNA polymerase II regulatory region sequence-specific DNA binding|transcription coactivator activity			skin(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_neural(102;0.0837)|all_hematologic(60;0.107)		all cancers(43;1.37e-18)|Epithelial(43;5.5e-17)|OV - Ovarian serous cystadenocarcinoma(60;3.3e-10)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)		ATGAGCCAGCCATGGAAGTAG	0.502													16	2	---	---	---	---	PASS
ZFP42	132625	broad.mit.edu	37	4	188924884	188924884	+	Missense_Mutation	SNP	A	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:188924884A>G	uc003izg.1	+	3	1168	c.923A>G	c.(922-924)GAG>GGG	p.E308G	ZFP42_uc003izh.1_Missense_Mutation_p.E308G|ZFP42_uc003izi.1_Missense_Mutation_p.E308G	NM_174900	NP_777560	Q96MM3	ZFP42_HUMAN	zinc finger protein 42	308					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)		AATGAACAAGAGGGAAAGTAG	0.403													20	10	---	---	---	---	PASS
MTRR	4552	broad.mit.edu	37	5	7875392	7875392	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr5:7875392C>A	uc003jed.2	+	4	416	c.386C>A	c.(385-387)ACC>AAC	p.T129N	MTRR_uc010itn.1_RNA|MTRR_uc003jee.3_Missense_Mutation_p.T102N|MTRR_uc003jef.3_RNA|MTRR_uc003jeg.3_RNA|MTRR_uc010ito.2_RNA	NM_024010	NP_076915	Q9UBK8	MTRR_HUMAN	methionine synthase reductase isoform 2	129	FMN (By similarity).|Flavodoxin-like.				methionine biosynthetic process	cytosol	[methionine synthase] reductase activity|flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding			ovary(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)|L-Methionine(DB00134)	TCAGAATACACCTACTTTTGC	0.373													14	417	---	---	---	---	PASS
CDH10	1008	broad.mit.edu	37	5	24505315	24505315	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr5:24505315G>T	uc003jgr.1	-	8	1631	c.1299C>A	c.(1297-1299)AAC>AAA	p.N433K	CDH10_uc011cnu.1_Intron	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	433	Cadherin 4.|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)		CTGAATGAATGTTAAAGATTC	0.368										HNSCC(23;0.051)			53	64	---	---	---	---	PASS
CDH10	1008	broad.mit.edu	37	5	24537743	24537743	+	Missense_Mutation	SNP	T	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr5:24537743T>C	uc003jgr.1	-	3	604	c.272A>G	c.(271-273)TAT>TGT	p.Y91C	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	91	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AGATAAGATATATTTGAGTGA	0.373										HNSCC(23;0.051)			147	13	---	---	---	---	PASS
PDZD2	23037	broad.mit.edu	37	5	32090943	32090943	+	Silent	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr5:32090943G>A	uc003jhl.2	+	20	7777	c.7389G>A	c.(7387-7389)AAG>AAA	p.K2463K	PDZD2_uc003jhm.2_Silent_p.K2463K	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	2463					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CTCCTGTTAAGAGGAACAAGT	0.562													10	276	---	---	---	---	PASS
F2RL2	2151	broad.mit.edu	37	5	75913823	75913823	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr5:75913823G>T	uc003kem.2	-	2	894	c.709C>A	c.(709-711)CTT>ATT	p.L237I	IQGAP2_uc003kek.2_Intron|IQGAP2_uc010izv.2_Intron|IQGAP2_uc011csv.1_Intron|IQGAP2_uc003kel.2_Intron|F2RL2_uc011csw.1_Missense_Mutation_p.L215I	NM_004101	NP_004092	O00254	PAR3_HUMAN	coagulation factor II (thrombin) receptor-like 2	237	Extracellular (Potential).				platelet activation	extracellular region|integral to plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|thrombin receptor activity			skin(2)|ovary(1)	3		all_lung(232;0.000462)|Lung NSC(167;0.00124)|Prostate(461;0.00955)|Ovarian(174;0.0129)		all cancers(79;4.43e-43)		GGCTGAACAAGATAATATTCC	0.453													14	9	---	---	---	---	PASS
GPR98	84059	broad.mit.edu	37	5	90074700	90074700	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr5:90074700C>T	uc003kju.2	+	64	12964	c.12868C>T	c.(12868-12870)CGT>TGT	p.R4290C	GPR98_uc003kjt.2_Missense_Mutation_p.R1996C|GPR98_uc003kjw.2_5'Flank	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	4290	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)		CACAATCATCCGTTCCAGTGG	0.438													63	40	---	---	---	---	PASS
KCTD16	57528	broad.mit.edu	37	5	143853480	143853480	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr5:143853480G>T	uc003lnm.1	+	4	1719	c.1090G>T	c.(1090-1092)GAC>TAC	p.D364Y	KCTD16_uc003lnn.1_Missense_Mutation_p.D364Y	NM_020768	NP_065819	Q68DU8	KCD16_HUMAN	potassium channel tetramerisation domain	364						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(2)|ovary(1)|skin(1)	4		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)			GCGGAAAAGCGACTTACTCCG	0.522													36	23	---	---	---	---	PASS
ATP10B	23120	broad.mit.edu	37	5	160047944	160047944	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr5:160047944G>T	uc003lym.1	-	15	2673	c.1826C>A	c.(1825-1827)CCC>CAC	p.P609H	ATP10B_uc010jit.1_5'UTR|ATP10B_uc003lyn.2_Missense_Mutation_p.P167H	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	609	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CTTGCTTGAGGGTTTGATGGT	0.458													132	75	---	---	---	---	PASS
GABRB2	2561	broad.mit.edu	37	5	160757955	160757955	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr5:160757955G>T	uc003lys.1	-	9	1230	c.1012C>A	c.(1012-1014)CAA>AAA	p.Q338K	GABRB2_uc011deh.1_Missense_Mutation_p.Q177K|GABRB2_uc003lyr.1_Missense_Mutation_p.Q338K|GABRB2_uc003lyt.1_Missense_Mutation_p.Q338K|GABRB2_uc010jiu.1_Missense_Mutation_p.Q275K	NM_021911	NP_068711	P47870	GBRB2_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	338	Cytoplasmic (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)	GCTTTCTTTTGGCGTTGGGGC	0.498													110	54	---	---	---	---	PASS
RHAG	6005	broad.mit.edu	37	6	49578736	49578736	+	Splice_Site	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:49578736C>T	uc003ozk.3	-	7	1129	c.1067_splice	c.e7+1	p.T356_splice	RHAG_uc010jzl.2_Splice_Site_p.T356_splice|RHAG_uc010jzm.2_Intron	NM_000324	NP_000315	Q02094	RHAG_HUMAN	Rh-associated glycoprotein						carbon dioxide transport|cellular ion homeostasis	integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			breast(1)|skin(1)	2	Lung NSC(77;0.0255)					CTTTTACTCACGTGTTGGAGG	0.502													25	63	---	---	---	---	PASS
GSTA2	2939	broad.mit.edu	37	6	52622742	52622742	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:52622742C>T	uc003pay.2	-	2	154	c.4G>A	c.(4-6)GCA>ACA	p.A2T		NM_000846	NP_000837	P09210	GSTA2_HUMAN	glutathione S-transferase alpha 2	2					glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)	1	Lung NSC(77;0.118)				Aminophenazone(DB01424)|Amsacrine(DB00276)|Busulfan(DB01008)|Chlorambucil(DB00291)|Chloroquine(DB00608)|Cinnarizine(DB00568)|Clofibrate(DB00636)|Ethacrynic acid(DB00903)|Glutathione(DB00143)|Mechlorethamine(DB00888)|Praziquantel(DB01058)|Vitamin E(DB00163)	GGCTTCTCTGCCATGGTAGCA	0.418													49	63	---	---	---	---	PASS
DST	667	broad.mit.edu	37	6	56457026	56457026	+	Missense_Mutation	SNP	A	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:56457026A>C	uc003pdf.2	-	43	6528	c.6500T>G	c.(6499-6501)ATT>AGT	p.I2167S	DST_uc003pcz.3_Missense_Mutation_p.I1989S|DST_uc011dxj.1_Missense_Mutation_p.I2018S|DST_uc011dxk.1_Missense_Mutation_p.I2029S|DST_uc003pcy.3_Missense_Mutation_p.I1663S|DST_uc010kaa.1_RNA	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	4075	Spectrin 3.				cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			GTCCACCGCAATAGGTTCAGA	0.448													17	31	---	---	---	---	PASS
DST	667	broad.mit.edu	37	6	56504519	56504519	+	Nonsense_Mutation	SNP	A	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:56504519A>T	uc003pdf.2	-	19	2601	c.2573T>A	c.(2572-2574)TTA>TAA	p.L858*	DST_uc003pcz.3_Nonsense_Mutation_p.L680*|DST_uc011dxj.1_Nonsense_Mutation_p.L709*|DST_uc011dxk.1_Nonsense_Mutation_p.L720*|DST_uc011dxl.1_Nonsense_Mutation_p.L709*|DST_uc003pcy.3_Nonsense_Mutation_p.L354*|DST_uc003pdb.2_Nonsense_Mutation_p.L354*|DST_uc003pdc.3_Nonsense_Mutation_p.L354*|DST_uc003pdd.3_Nonsense_Mutation_p.L354*|DST_uc003pde.2_Nonsense_Mutation_p.L796*	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	680					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			CTGACTCTCTAATCTGTGCAA	0.328													108	160	---	---	---	---	PASS
PHF3	23469	broad.mit.edu	37	6	64394311	64394311	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:64394311G>T	uc003pep.1	+	3	714	c.688G>T	c.(688-690)GAT>TAT	p.D230Y	PHF3_uc010kaf.1_Missense_Mutation_p.D230Y|PHF3_uc003pem.2_Missense_Mutation_p.D183Y|PHF3_uc010kag.1_Missense_Mutation_p.D142Y|PHF3_uc010kah.1_Missense_Mutation_p.D44Y|PHF3_uc003pen.2_Missense_Mutation_p.D142Y|PHF3_uc011dxs.1_Intron|PHF3_uc003peo.2_Missense_Mutation_p.D230Y	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	230					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			TGAAATGAAGGATGAAGATGG	0.378													61	111	---	---	---	---	PASS
TBX18	9096	broad.mit.edu	37	6	85446610	85446610	+	Missense_Mutation	SNP	T	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:85446610T>A	uc003pkl.1	-	8	1617	c.1617A>T	c.(1615-1617)AAA>AAT	p.K539N	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	539					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		TGGCAGCCAGTTTGGGGGATG	0.502													90	122	---	---	---	---	PASS
MAP3K7	6885	broad.mit.edu	37	6	91226264	91226264	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:91226264C>T	uc003pnz.1	-	17	1939	c.1777G>A	c.(1777-1779)GAG>AAG	p.E593K	MAP3K7_uc003pny.1_Missense_Mutation_p.E130K|MAP3K7_uc003poa.1_3'UTR|MAP3K7_uc003pob.1_Missense_Mutation_p.E566K|MAP3K7_uc003poc.1_3'UTR	NM_145331	NP_663304	O43318	M3K7_HUMAN	mitogen-activated protein kinase kinase kinase 7	593					activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|histone H3 acetylation|I-kappaB phosphorylation|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|stress-activated MAPK cascade|T cell receptor signaling pathway|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|transforming growth factor beta receptor signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytosol|endosome membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)	6		all_cancers(76;6.4e-08)|Acute lymphoblastic leukemia(125;1.43e-09)|Prostate(29;9.32e-09)|all_hematologic(105;3.69e-06)|all_epithelial(107;0.000187)|Ovarian(999;0.0164)		OV - Ovarian serous cystadenocarcinoma(136;2.05e-11)|all cancers(137;3.25e-11)|GBM - Glioblastoma multiforme(226;0.0416)|BRCA - Breast invasive adenocarcinoma(108;0.0429)		CTGATGACCTCTAGTTGTTTT	0.378													88	163	---	---	---	---	PASS
GPR63	81491	broad.mit.edu	37	6	97246999	97246999	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:97246999C>A	uc010kcl.2	-	3	1087	c.609G>T	c.(607-609)TGG>TGT	p.W203C	GPR63_uc003pou.2_Missense_Mutation_p.W203C	NM_001143957	NP_001137429	Q9BZJ6	GPR63_HUMAN	G protein-coupled receptor 63	203	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(76;6.89e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0618)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0912)		AGGAAGTTGCCCAAGAAACTG	0.463													68	90	---	---	---	---	PASS
KLHL32	114792	broad.mit.edu	37	6	97561847	97561847	+	Silent	SNP	T	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:97561847T>C	uc010kcm.1	+	7	1288	c.816T>C	c.(814-816)TAT>TAC	p.Y272Y	KLHL32_uc003poy.2_Silent_p.Y272Y|KLHL32_uc011ead.1_Silent_p.Y236Y|KLHL32_uc003poz.2_Intron|KLHL32_uc011eae.1_Silent_p.Y203Y|KLHL32_uc003ppa.2_Intron	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	272										ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)		AGAGCATCTATGCACAGCCTG	0.537													39	50	---	---	---	---	PASS
FIG4	9896	broad.mit.edu	37	6	110059537	110059537	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:110059537G>T	uc003ptt.2	+	7	871	c.656G>T	c.(655-657)GGG>GTG	p.G219V	FIG4_uc011eau.1_Intron	NM_014845	NP_055660	Q92562	FIG4_HUMAN	Sac domain-containing inositol phosphatase 3	219	SAC.				cell death	endosome membrane	protein binding			ovary(1)	1		all_cancers(87;8.63e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000124)|all_lung(197;0.0187)|Colorectal(196;0.0492)|Lung SC(18;0.0548)		OV - Ovarian serous cystadenocarcinoma(136;0.0355)|Epithelial(106;0.038)|all cancers(137;0.0425)|BRCA - Breast invasive adenocarcinoma(108;0.079)		GGGGTATTTGGGATCTGTAGT	0.299													55	164	---	---	---	---	PASS
SLC35F1	222553	broad.mit.edu	37	6	118556697	118556697	+	Silent	SNP	A	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:118556697A>G	uc003pxx.3	+	3	576	c.375A>G	c.(373-375)TTA>TTG	p.L125L		NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1	125					transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)		TGGCAATTTTACGACGAAGAT	0.378													50	68	---	---	---	---	PASS
PLN	5350	broad.mit.edu	37	6	118880183	118880183	+	Silent	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:118880183C>T	uc003pye.2	+	2	310	c.99C>T	c.(97-99)ATC>ATT	p.I33I	C6orf204_uc003pxz.1_Intron|C6orf204_uc003pya.1_Intron|C6orf204_uc003pyb.2_Intron|C6orf204_uc011ebj.1_Intron|C6orf204_uc003pyc.2_Intron	NM_002667	NP_002658	P26678	PPLA_HUMAN	phospholamban	33	Helical; (Potential).				blood circulation|regulation of calcium ion transport	integral to membrane|mitochondrial membrane|sarcoplasmic reticulum	calcium channel regulator activity|protein binding				0		all_cancers(87;0.0916)|all_epithelial(87;0.131)		GBM - Glioblastoma multiforme(226;0.0325)|all cancers(137;0.154)|OV - Ovarian serous cystadenocarcinoma(136;0.176)		ATCTATTTATCAATTTCTGTC	0.413													5	190	---	---	---	---	PASS
LAMA2	3908	broad.mit.edu	37	6	129748927	129748927	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:129748927G>T	uc003qbn.2	+	41	6001	c.5896G>T	c.(5896-5898)GAT>TAT	p.D1966Y	LAMA2_uc003qbo.2_Missense_Mutation_p.D1966Y	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1966	Domain II and I.|Potential.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		ATTAAAGGAAGATGCCAAAGG	0.338													85	40	---	---	---	---	PASS
VNN2	8875	broad.mit.edu	37	6	133065441	133065441	+	Nonstop_Mutation	SNP	A	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:133065441A>G	uc003qdt.2	-	7	1572	c.1561T>C	c.(1561-1563)TAG>CAG	p.*521Q	VNN2_uc003qds.2_Nonstop_Mutation_p.*230Q|VNN2_uc010kgb.2_Nonstop_Mutation_p.*300Q|VNN2_uc003qdv.2_Nonstop_Mutation_p.*468Q	NM_004665	NP_004656	O95498	VNN2_HUMAN	vanin 2 isoform 1 precursor	521					cellular component movement|pantothenate metabolic process	anchored to membrane|plasma membrane	pantetheine hydrolase activity				0				OV - Ovarian serous cystadenocarcinoma(155;0.00237)|GBM - Glioblastoma multiforme(226;0.0267)		GAGACGCCCTATAACATTACA	0.368													42	17	---	---	---	---	PASS
BCLAF1	9774	broad.mit.edu	37	6	136589379	136589379	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:136589379C>A	uc003qgx.1	-	10	2571	c.2318G>T	c.(2317-2319)AGA>ATA	p.R773I	BCLAF1_uc011edb.1_Missense_Mutation_p.R101I|BCLAF1_uc003qgw.1_Missense_Mutation_p.R600I|BCLAF1_uc003qgy.1_Missense_Mutation_p.R771I|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.R771I	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	773					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TTCTTCTTCTCTTTCCTTCTT	0.383													38	113	---	---	---	---	PASS
SYNE1	23345	broad.mit.edu	37	6	152647160	152647160	+	Nonsense_Mutation	SNP	A	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:152647160A>T	uc010kiw.2	-	80	15973	c.15371T>A	c.(15370-15372)TTG>TAG	p.L5124*	SYNE1_uc003qot.3_Nonsense_Mutation_p.L5053*|SYNE1_uc003qou.3_Nonsense_Mutation_p.L5124*|SYNE1_uc010kiz.2_Nonsense_Mutation_p.L879*	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5124	Spectrin 16.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		AAACTCAGACAATTTCTTTTC	0.373										HNSCC(10;0.0054)			29	14	---	---	---	---	PASS
RBAK	57786	broad.mit.edu	37	7	5103389	5103389	+	Missense_Mutation	SNP	A	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:5103389A>T	uc010kss.1	+	6	626	c.302A>T	c.(301-303)CAA>CTA	p.Q101L	LOC389458_uc003snr.2_Intron|RBAK_uc003sns.1_Missense_Mutation_p.Q101L	NM_021163	NP_066986	Q9NYW8	RBAK_HUMAN	RB-associated KRAB repressor	101					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(3)|kidney(1)|skin(1)	5		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0916)|OV - Ovarian serous cystadenocarcinoma(56;2.44e-14)		CATTCAAGGCAAGCTGCTTGT	0.353													72	15	---	---	---	---	PASS
MIOS	54468	broad.mit.edu	37	7	7612910	7612910	+	Missense_Mutation	SNP	A	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:7612910A>T	uc003srf.2	+	4	1112	c.804A>T	c.(802-804)AAA>AAT	p.K268N	MIOS_uc010ktp.1_Missense_Mutation_p.K268N	NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	268	WD 5.										0						AGCAACCAAAACCCTTAACAA	0.393													180	32	---	---	---	---	PASS
TXNDC3	51314	broad.mit.edu	37	7	37907339	37907339	+	Silent	SNP	T	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:37907339T>C	uc003tfn.2	+	11	1029	c.657T>C	c.(655-657)AGT>AGC	p.S219S		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	219	NDK 1.				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						TTATGACAAGTGGCTTAAGCT	0.403									Kartagener_syndrome				119	24	---	---	---	---	PASS
GLI3	2737	broad.mit.edu	37	7	42011972	42011972	+	Silent	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:42011972G>A	uc011kbh.1	-	13	2158	c.2067C>T	c.(2065-2067)TGC>TGT	p.C689C	GLI3_uc011kbg.1_Silent_p.C630C	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	689					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						TCACCTGGAGGCATTCTTCCC	0.562									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				14	466	---	---	---	---	PASS
WBSCR17	64409	broad.mit.edu	37	7	70853220	70853220	+	Splice_Site	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:70853220G>T	uc003tvy.2	+	3	423	c.423_splice	c.e3-1	p.K141_splice	WBSCR17_uc003tvz.2_Splice_Site	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide							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)				TCCTTCCCCAGGTGTAAGGAG	0.517													95	92	---	---	---	---	PASS
STEAP4	79689	broad.mit.edu	37	7	87912145	87912145	+	Silent	SNP	A	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:87912145A>G	uc003ujs.2	-	3	900	c.795T>C	c.(793-795)GCT>GCC	p.A265A	STEAP4_uc010lek.2_Intron|STEAP4_uc003ujt.2_Silent_p.A265A	NM_024636	NP_078912	Q687X5	STEA4_HUMAN	tumor necrosis factor, alpha-induced protein 9	265	Ferric oxidoreductase.|Helical; (Potential).				fat cell differentiation|ion transport|iron ion homeostasis	Golgi membrane|integral to membrane|plasma membrane	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity				0	Esophageal squamous(14;0.00802)					GTAGAATGGCAGCAATAACAC	0.453													86	14	---	---	---	---	PASS
SLC25A13	10165	broad.mit.edu	37	7	95751027	95751027	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:95751027C>A	uc003uof.3	-	17	1972	c.1781G>T	c.(1780-1782)GGT>GTT	p.G594V	SLC25A13_uc003uog.3_Missense_Mutation_p.G595V|SLC25A13_uc011kik.1_Missense_Mutation_p.G486V	NM_014251	NP_055066	Q9UJS0	CMC2_HUMAN	solute carrier family 25, member 13 isoform 2	594	Solcar 3.|Helical; Name=6; (Potential).				ATP biosynthetic process|gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to plasma membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity			central_nervous_system(3)|skin(1)	4	all_cancers(62;7.75e-08)|all_epithelial(64;1.16e-07)		STAD - Stomach adenocarcinoma(171;0.194)		L-Aspartic Acid(DB00128)	CAAAGTTACACCAAACTGGGG	0.353													158	43	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	7	100607765	100607765	+	RNA	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:100607765G>T	uc003uxk.1	+	4		c.2296G>T			uc003uxl.1_Missense_Mutation_p.D538Y|uc003uxm.1_Intron|uc003uxn.1_Intron|uc010lhn.1_5'Flank					Homo sapiens MUC3B mRNA for intestinal mucin, partial cds.																		CATCGTGGTGGACTACCTGGT	0.607													85	173	---	---	---	---	PASS
RELN	5649	broad.mit.edu	37	7	103206680	103206680	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:103206680C>T	uc003vca.2	-	33	5087	c.4927G>A	c.(4927-4929)GAA>AAA	p.E1643K	RELN_uc010liz.2_Missense_Mutation_p.E1643K	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1643					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CCTATGTTTTCAGTGAATATC	0.348													9	99	---	---	---	---	PASS
SLC26A4	5172	broad.mit.edu	37	7	107342503	107342503	+	Splice_Site	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:107342503G>A	uc003vep.2	+	17	2258	c.2034_splice	c.e17+1	p.V678_splice	SLC26A4_uc011kmb.1_Splice_Site_p.V265_splice|SLC26A4_uc011kmc.1_Splice_Site_p.V239_splice|SLC26A4_uc011kmd.1_Splice_Site_p.V247_splice	NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin						regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						ACTGCGGGTGGTAAGGTTCTG	0.438									Pendred_syndrome				43	8	---	---	---	---	PASS
KCND2	3751	broad.mit.edu	37	7	119914821	119914821	+	Silent	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:119914821G>C	uc003vjj.1	+	1	1100	c.135G>C	c.(133-135)CTG>CTC	p.L45L		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	45	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					TCATTGTGCTGAATGTGAGTG	0.602													8	443	---	---	---	---	PASS
CUL1	8454	broad.mit.edu	37	7	148484186	148484186	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr7:148484186G>A	uc010lpg.2	+	13	1979	c.1453G>A	c.(1453-1455)GAA>AAA	p.E485K	CUL1_uc003wey.2_Missense_Mutation_p.E485K|CUL1_uc003wez.2_Missense_Mutation_p.E375K|CUL1_uc003wfa.2_Missense_Mutation_p.E146K	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	485					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			TGACGATGCCGAAGCCAGCAT	0.398													76	24	---	---	---	---	PASS
TNKS	8658	broad.mit.edu	37	8	9413685	9413685	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:9413685G>T	uc003wss.2	+	1	241	c.236G>T	c.(235-237)CGA>CTA	p.R79L	TNKS_uc011kwv.1_Missense_Mutation_p.R79L|uc003wsr.1_RNA	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	79					mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		GACAGGCCCCGATCCCCGGAC	0.701													31	13	---	---	---	---	PASS
STC1	6781	broad.mit.edu	37	8	23702537	23702537	+	Missense_Mutation	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:23702537C>G	uc003xdw.1	-	4	774	c.490G>C	c.(490-492)GTC>CTC	p.V164L		NM_003155	NP_003146	P52823	STC1_HUMAN	stanniocalcin 1 precursor	164					cell surface receptor linked signaling pathway|cell-cell signaling|cellular calcium ion homeostasis		hormone activity			skin(3)|upper_aerodigestive_tract(1)	4		Prostate(55;0.055)|Breast(100;0.116)		Colorectal(74;0.0155)|COAD - Colon adenocarcinoma(73;0.0632)		AGGCTTCGGACAAGTCTGTTA	0.522													58	30	---	---	---	---	PASS
MYST3	7994	broad.mit.edu	37	8	41806877	41806877	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:41806877G>A	uc010lxb.2	-	11	2147	c.1603C>T	c.(1603-1605)CCC>TCC	p.P535S	MYST3_uc010lxc.2_Missense_Mutation_p.P535S|MYST3_uc003xon.3_Missense_Mutation_p.P535S|MYST3_uc010lxd.2_Missense_Mutation_p.P535S	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	535	Mediates interaction with BRPF1, required for histone H3 acetyltransferase activity.|Catalytic.|Interaction with RUNX1-1.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			TACAATTTGGGCAGCCTGTAA	0.348													17	29	---	---	---	---	PASS
POTEA	340441	broad.mit.edu	37	8	43155765	43155765	+	Silent	SNP	A	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:43155765A>T	uc003xpz.1	+	4	736	c.693A>T	c.(691-693)GGA>GGT	p.G231G	POTEA_uc003xqa.1_Silent_p.G231G	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	231	ANK 5.									ovary(1)	1						ATAGGTTTGGAAGGTATAGTT	0.308													46	55	---	---	---	---	PASS
XKR4	114786	broad.mit.edu	37	8	56015461	56015461	+	Missense_Mutation	SNP	T	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:56015461T>A	uc003xsf.2	+	1	445	c.413T>A	c.(412-414)CTG>CAG	p.L138Q		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	138						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			GACTACTACCTGCGCGGCCAG	0.642													41	80	---	---	---	---	PASS
XKR4	114786	broad.mit.edu	37	8	56435884	56435884	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:56435884G>T	uc003xsf.2	+	3	1083	c.1051G>T	c.(1051-1053)GCC>TCC	p.A351S		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	351	Helical; (Potential).					integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			CTGGGCCTTGGCCTCCTACCA	0.567													20	32	---	---	---	---	PASS
PRDM14	63978	broad.mit.edu	37	8	70981880	70981880	+	Silent	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:70981880C>A	uc003xym.2	-	2	418	c.216G>T	c.(214-216)CGG>CGT	p.R72R		NM_024504	NP_078780	Q9GZV8	PRD14_HUMAN	PR domain containing 14	72					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3	Breast(64;0.193)		Epithelial(68;0.00508)|all cancers(69;0.0259)|OV - Ovarian serous cystadenocarcinoma(28;0.0405)			GAGGCGCCATCCGGAAGGGGA	0.657													4	5	---	---	---	---	PASS
REXO1L1	254958	broad.mit.edu	37	8	86573743	86573743	+	Missense_Mutation	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:86573743G>C	uc011lfw.1	-	1	1526	c.1480C>G	c.(1480-1482)CCA>GCA	p.P494A		NM_172239	NP_758439	Q8IX06	GOR_HUMAN	exonuclease GOR	662						cytoplasm|nucleus	exonuclease activity|nucleic acid binding				0						CGGTGGCGTGGCTGGATCTGG	0.677													7	77	---	---	---	---	PASS
STK3	6788	broad.mit.edu	37	8	99560267	99560267	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:99560267C>T	uc003yip.2	-	9	1212	c.1071G>A	c.(1069-1071)ATG>ATA	p.M357I	STK3_uc003yio.2_Missense_Mutation_p.M385I|STK3_uc010mbm.1_Missense_Mutation_p.M246I	NM_006281	NP_006272	Q13188	STK3_HUMAN	serine/threonine kinase 3	357					apoptosis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of apoptosis	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein dimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	Breast(36;2.4e-06)	Breast(495;0.106)	OV - Ovarian serous cystadenocarcinoma(57;0.0382)	KIRC - Kidney renal clear cell carcinoma(542;9.44e-06)		CGGATTCCAACATCGTGCTAT	0.453													24	28	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	113326668	113326668	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:113326668C>A	uc003ynu.2	-	48	7698	c.7539G>T	c.(7537-7539)CAG>CAT	p.Q2513H	CSMD3_uc003yns.2_Missense_Mutation_p.Q1715H|CSMD3_uc003ynt.2_Missense_Mutation_p.Q2473H|CSMD3_uc011lhx.1_Missense_Mutation_p.Q2409H|CSMD3_uc003ynw.1_Missense_Mutation_p.Q224H	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2513	CUB 14.|Extracellular (Potential).					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						CATCATACACCTGAAGAACAT	0.318										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			44	78	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	113649188	113649188	+	Silent	SNP	A	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:113649188A>G	uc003ynu.2	-	22	3732	c.3573T>C	c.(3571-3573)GGT>GGC	p.G1191G	CSMD3_uc003yns.2_Silent_p.G463G|CSMD3_uc003ynt.2_Silent_p.G1151G|CSMD3_uc011lhx.1_Silent_p.G1087G	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1191	Sushi 6.|Extracellular (Potential).					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						CGATTCGACTACCATATTGAG	0.443										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			58	82	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	113933931	113933931	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:113933931C>A	uc003ynu.2	-	10	1717	c.1558G>T	c.(1558-1560)GGC>TGC	p.G520C	CSMD3_uc003ynt.2_Missense_Mutation_p.G480C|CSMD3_uc011lhx.1_Missense_Mutation_p.G416C	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	520	Extracellular (Potential).|Sushi 2.					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						CTCTTTGCGCCCTGTAGGACA	0.378										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			48	72	---	---	---	---	PASS
RAD21	5885	broad.mit.edu	37	8	117859849	117859849	+	Missense_Mutation	SNP	T	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:117859849T>C	uc003yod.2	-	14	2074	c.1786A>G	c.(1786-1788)AAG>GAG	p.K596E		NM_006265	NP_006256	O60216	RAD21_HUMAN	RAD21 homolog	596					apoptosis|cell division|chromosome segregation|double-strand break repair|mitotic metaphase/anaphase transition|mitotic prometaphase|protein localization to chromatin|reciprocal meiotic recombination|regulation of transcription from RNA polymerase II promoter	chromosome, centromeric region|cohesin complex|nuclear chromosome|nucleoplasm	protein binding			lung(1)|skin(1)	2	all_cancers(13;1.21e-21)|Lung NSC(37;0.000134)|Ovarian(258;0.0172)					CTGTAGAACTTTGCGGCAGCT	0.423													6	140	---	---	---	---	PASS
OC90	729330	broad.mit.edu	37	8	133041424	133041424	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:133041424C>A	uc003ytg.2	-	12	1034	c.1034G>T	c.(1033-1035)TGC>TTC	p.C345F	OC90_uc011lix.1_Missense_Mutation_p.C345F	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90	361	Phospholipase A2-like 2.				lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			GGACAAGCAGCACCTAAGACC	0.552													22	66	---	---	---	---	PASS
LRRC6	23639	broad.mit.edu	37	8	133637629	133637629	+	Missense_Mutation	SNP	T	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:133637629T>C	uc003ytk.2	-	6	799	c.725A>G	c.(724-726)AAC>AGC	p.N242S	LRRC6_uc003ytl.2_RNA	NM_012472	NP_036604	Q86X45	LRRC6_HUMAN	leucine rich repeat containing 6	242				Missing (in Ref. 1; AAB02976).		cytoplasm				ovary(1)|kidney(1)	2	Ovarian(258;0.00352)|Esophageal squamous(12;0.00507)|all_neural(3;0.0052)|Medulloblastoma(3;0.0922)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			ATCTTCACTGTTGTCTAATTT	0.388													34	43	---	---	---	---	PASS
FAM135B	51059	broad.mit.edu	37	8	139164776	139164776	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:139164776G>T	uc003yuy.2	-	13	2113	c.1942C>A	c.(1942-1944)CTG>ATG	p.L648M	FAM135B_uc003yux.2_Missense_Mutation_p.L549M|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.L210M|FAM135B_uc003yvb.2_Missense_Mutation_p.L210M	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	648										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			GGCTCCCTCAGGGTAGAACTT	0.483										HNSCC(54;0.14)			49	79	---	---	---	---	PASS
COL22A1	169044	broad.mit.edu	37	8	139658919	139658919	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:139658919C>A	uc003yvd.2	-	47	3901	c.3454G>T	c.(3454-3456)GCT>TCT	p.A1152S	COL22A1_uc011ljo.1_Missense_Mutation_p.A432S	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1152	Pro-rich.|Gly-rich.|Collagen-like 10.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			GGAGGCCCAGCCTCTCCCTGT	0.512										HNSCC(7;0.00092)			4	9	---	---	---	---	PASS
COL22A1	169044	broad.mit.edu	37	8	139697541	139697541	+	Missense_Mutation	SNP	T	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:139697541T>A	uc003yvd.2	-	38	3324	c.2877A>T	c.(2875-2877)GAA>GAT	p.E959D	COL22A1_uc011ljo.1_Missense_Mutation_p.E259D	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	959	Pro-rich.|Gly-rich.|Collagen-like 8.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			GGCTGCCTTCTTCCCCCGCTG	0.572										HNSCC(7;0.00092)			48	73	---	---	---	---	PASS
PLEC	5339	broad.mit.edu	37	8	145002096	145002096	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr8:145002096C>T	uc003zaf.1	-	26	3906	c.3736G>A	c.(3736-3738)GAG>AAG	p.E1246K	PLEC_uc003zab.1_Missense_Mutation_p.E1109K|PLEC_uc003zac.1_Missense_Mutation_p.E1113K|PLEC_uc003zad.2_Missense_Mutation_p.E1109K|PLEC_uc003zae.1_Missense_Mutation_p.E1077K|PLEC_uc003zag.1_Missense_Mutation_p.E1087K|PLEC_uc003zah.2_Missense_Mutation_p.E1095K|PLEC_uc003zaj.2_Missense_Mutation_p.E1136K	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	1246	Globular 1.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						AGCTGCTCCTCGTGGGCCCTG	0.677													13	15	---	---	---	---	PASS
FREM1	158326	broad.mit.edu	37	9	14776177	14776177	+	Silent	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr9:14776177C>A	uc003zlm.2	-	25	5057	c.4467G>T	c.(4465-4467)CGG>CGT	p.R1489R	FREM1_uc010mic.2_Intron|FREM1_uc003zlk.2_5'Flank|FREM1_uc003zll.2_Silent_p.R25R	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	1489	CSPG 11.				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)		CGTGCTCGGTCCGCAGTCCAT	0.527													27	14	---	---	---	---	PASS
PIP5K1B	8395	broad.mit.edu	37	9	71503911	71503911	+	Silent	SNP	T	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr9:71503911T>C	uc004agu.2	+	7	638	c.333T>C	c.(331-333)AGT>AGC	p.S111S	PIP5K1B_uc011lrq.1_Silent_p.S111S|PIP5K1B_uc004agv.2_RNA	NM_003558	NP_003549	O14986	PI51B_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	111	PIPK.					endomembrane system|membrane|uropod	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|protein binding			stomach(1)	1				Lung(182;0.133)		CCATCTGCAGTGAACCTCTAA	0.378													76	111	---	---	---	---	PASS
VPS13A	23230	broad.mit.edu	37	9	79938034	79938034	+	Missense_Mutation	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr9:79938034G>C	uc004akr.2	+	45	6142	c.5882G>C	c.(5881-5883)CGA>CCA	p.R1961P	VPS13A_uc004akp.3_Missense_Mutation_p.R1961P|VPS13A_uc004akq.3_Missense_Mutation_p.R1961P|VPS13A_uc004aks.2_Missense_Mutation_p.R1922P|VPS13A_uc004akt.2_Missense_Mutation_p.R301P	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	1961					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						AAAGTGGGACGACGTCTGTAC	0.343													28	41	---	---	---	---	PASS
ZNF483	158399	broad.mit.edu	37	9	114304857	114304857	+	Missense_Mutation	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr9:114304857G>C	uc004bff.2	+	6	1866	c.1642G>C	c.(1642-1644)GAA>CAA	p.E548Q	ZNF483_uc004bfg.2_Intron	NM_133464	NP_597721	Q8TF39	ZN483_HUMAN	zinc finger protein 483 isoform a	548					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1						TCATACTGGAGAAAAACCCTA	0.373													22	96	---	---	---	---	PASS
TNC	3371	broad.mit.edu	37	9	117849375	117849375	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr9:117849375G>A	uc004bjj.3	-	3	997	c.635C>T	c.(634-636)ACG>ATG	p.T212M	TNC_uc010mvf.2_Missense_Mutation_p.T212M	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	212	EGF-like 2.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						GTCCTCGCCCGTGAAGCCGTC	0.612													4	139	---	---	---	---	PASS
PAPPA	5069	broad.mit.edu	37	9	118950117	118950117	+	Missense_Mutation	SNP	A	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr9:118950117A>C	uc004bjn.2	+	2	1481	c.1100A>C	c.(1099-1101)AAC>ACC	p.N367T	PAPPA_uc011lxp.1_Missense_Mutation_p.N160T|PAPPA_uc011lxq.1_Missense_Mutation_p.N160T	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	367	Metalloprotease.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						GATCATAAGAACCCGACGGTG	0.562													4	71	---	---	---	---	PASS
TRAF1	7185	broad.mit.edu	37	9	123688260	123688260	+	Missense_Mutation	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr9:123688260C>G	uc004bku.1	-	2	666	c.94G>C	c.(94-96)GAG>CAG	p.E32Q	TRAF1_uc010mvl.1_Missense_Mutation_p.E32Q	NM_005658	NP_005649	Q13077	TRAF1_HUMAN	TNF receptor-associated factor 1	32					apoptosis|positive regulation of NF-kappaB transcription factor activity|protein complex assembly|regulation of apoptosis|signal transduction	cytoplasm	protein binding|zinc ion binding			skin(2)|ovary(1)	3						GCCCTGGGCTCCTTTGGGTCC	0.647													22	46	---	---	---	---	PASS
RXRA	6256	broad.mit.edu	37	9	137320990	137320990	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr9:137320990G>T	uc004cfb.2	+	7	1109	c.947G>T	c.(946-948)CGC>CTC	p.R316L	RXRA_uc004cfc.1_Missense_Mutation_p.R219L	NM_002957	NP_002948	P19793	RXRA_HUMAN	retinoid X receptor, alpha	316	Ligand-binding.				cellular lipid metabolic process|cholesterol metabolic process|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to retinoic acid|vitamin metabolic process	nuclear chromatin|nucleoplasm	enzyme binding|ligand-regulated transcription factor activity|protein heterodimerization activity|retinoic acid-responsive element binding|retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|transcription coactivator activity|vitamin D receptor binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(145;4.66e-08)|Epithelial(140;6.72e-08)|all cancers(34;2.22e-07)	Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)	TTCTCCCACCGCTCCATCGCC	0.682													83	171	---	---	---	---	PASS
NOTCH1	4851	broad.mit.edu	37	9	139404224	139404224	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr9:139404224C>T	uc004chz.2	-	18	2930	c.2930G>A	c.(2929-2931)GGG>GAG	p.G977E	NOTCH1_uc004cia.1_Missense_Mutation_p.G207E	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	977	Extracellular (Potential).|EGF-like 25; calcium-binding (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)		ACAGTGGATCCCGCTGAAGCC	0.657			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			90	135	---	---	---	---	PASS
NOTCH1	4851	broad.mit.edu	37	9	139404225	139404225	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr9:139404225C>A	uc004chz.2	-	18	2929	c.2929G>T	c.(2929-2931)GGG>TGG	p.G977W	NOTCH1_uc004cia.1_Missense_Mutation_p.G207W	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	977	Extracellular (Potential).|EGF-like 25; calcium-binding (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)		CAGTGGATCCCGCTGAAGCCT	0.657			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			90	137	---	---	---	---	PASS
KIAA1217	56243	broad.mit.edu	37	10	24727407	24727407	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr10:24727407G>T	uc001iru.3	+	5	1248	c.845G>T	c.(844-846)AGG>ATG	p.R282M	KIAA1217_uc001irs.2_Missense_Mutation_p.R202M|KIAA1217_uc001irt.3_Missense_Mutation_p.R282M|KIAA1217_uc010qcy.1_Missense_Mutation_p.R282M|KIAA1217_uc010qcz.1_Missense_Mutation_p.R282M|KIAA1217_uc001irv.1_Missense_Mutation_p.R132M|KIAA1217_uc010qda.1_RNA	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	282					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						GGAGACATGAGGGTAAGTGTT	0.408													51	73	---	---	---	---	PASS
MYO3A	53904	broad.mit.edu	37	10	26414384	26414384	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr10:26414384G>T	uc001isn.2	+	19	2321	c.1961G>T	c.(1960-1962)TGT>TTT	p.C654F	MYO3A_uc009xko.1_Missense_Mutation_p.C654F|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	654	Myosin head-like.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						ACCTCCCACTGTGTGGTCACT	0.418													68	91	---	---	---	---	PASS
ANKRD22	118932	broad.mit.edu	37	10	90591649	90591649	+	Missense_Mutation	SNP	A	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr10:90591649A>C	uc001kfj.3	-	2	524	c.156T>G	c.(154-156)CAT>CAG	p.H52Q		NM_144590	NP_653191	Q5VYY1	ANR22_HUMAN	ankyrin repeat domain 22	52	ANK 1.										0		Colorectal(252;0.0163)		Colorectal(12;6.29e-05)|COAD - Colon adenocarcinoma(12;7.69e-05)		CGATTCTCACATGCCCTCGCC	0.458													154	100	---	---	---	---	PASS
CARS	833	broad.mit.edu	37	11	3022364	3022364	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:3022364G>A	uc001lxh.2	-	22	2301	c.2227C>T	c.(2227-2229)CAG>TAG	p.Q743*	CARS_uc009ydu.2_RNA|CARS_uc001lxe.2_Nonsense_Mutation_p.Q733*|CARS_uc001lxf.2_Nonsense_Mutation_p.Q826*|CARS_uc001lxg.2_3'UTR|CARS_uc010qxo.1_3'UTR|CARS_uc010qxp.1_3'UTR	NM_001751	NP_001742	P49589	SYCC_HUMAN	cysteinyl-tRNA synthetase isoform b	743					cysteinyl-tRNA aminoacylation	cytoplasm|cytosol	ATP binding|cysteine-tRNA ligase activity|metal ion binding|protein homodimerization activity|protein homodimerization activity|tRNA binding|tRNA binding		CARS/ALK(5)	soft_tissue(5)|ovary(2)	7		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00317)|LUSC - Lung squamous cell carcinoma(625;0.218)	L-Cysteine(DB00151)	CTTCCATTCTGGGCCATCTGC	0.522			T	ALK	ALCL								101	51	---	---	---	---	PASS
NAV2	89797	broad.mit.edu	37	11	19955123	19955123	+	Missense_Mutation	SNP	G	A	A	rs143571074		TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:19955123G>A	uc010rdm.1	+	8	1763	c.1402G>A	c.(1402-1404)GCC>ACC	p.A468T	NAV2_uc001mpp.2_Missense_Mutation_p.A381T|NAV2_uc001mpr.3_Missense_Mutation_p.A445T	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	468						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						GCTGGAGGCCGCCAGTCGCAT	0.642													17	183	---	---	---	---	PASS
KIF18A	81930	broad.mit.edu	37	11	28056982	28056982	+	Missense_Mutation	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:28056982G>C	uc001msc.2	-	15	2638	c.2456C>G	c.(2455-2457)TCC>TGC	p.S819C		NM_031217	NP_112494	Q8NI77	KI18A_HUMAN	kinesin family member 18A	819					blood coagulation|microtubule depolymerization|microtubule-based movement|mitotic metaphase plate congression|mitotic prometaphase|protein transport	caveola|cytosol|kinetochore microtubule|microtubule organizing center|nucleus|ruffle	actin binding|ATP binding|microtubule plus-end binding|plus-end-directed microtubule motor activity|tubulin-dependent ATPase activity|ubiquitin binding			ovary(2)	2						TGCCATGTAGGATGGCACCAT	0.328													24	74	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	11	31086091	31086091	+	Missense_Mutation	SNP	A	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:31086091A>G	uc009yjk.1	-	8	929	c.860T>C	c.(859-861)CTT>CCT	p.L287P	uc009yjl.1_Missense_Mutation_p.L215P|DCDC1_uc001msu.1_Missense_Mutation_p.L458P					RecName: Full=Doublecortin domain-containing protein 5;																		CGTCTCCTCAAGAGAACCTTC	0.478													96	254	---	---	---	---	PASS
CHRM4	1132	broad.mit.edu	37	11	46406689	46406689	+	Silent	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:46406689C>T	uc001nct.1	-	1	1419	c.1419G>A	c.(1417-1419)CGG>CGA	p.R473R		NM_000741	NP_000732	P08173	ACM4_HUMAN	cholinergic receptor, muscarinic 4	473	Cytoplasmic (By similarity).				cell proliferation	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity				0				GBM - Glioblastoma multiforme(35;0.0254)|Lung(87;0.14)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)|Tropicamide(DB00809)	TGCCGATGTTCCGATACTGGC	0.602													9	51	---	---	---	---	PASS
FOLH1	2346	broad.mit.edu	37	11	49178342	49178342	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:49178342G>T	uc001ngy.2	-	15	1811	c.1550C>A	c.(1549-1551)TCT>TAT	p.S517Y	FOLH1_uc001ngx.2_5'Flank|FOLH1_uc001ngz.2_Missense_Mutation_p.S517Y|FOLH1_uc009yly.2_Missense_Mutation_p.S502Y|FOLH1_uc009ylz.2_Missense_Mutation_p.S502Y|FOLH1_uc009yma.2_Missense_Mutation_p.S209Y	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	517	NAALADase.|Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	ATCATTTCCAGATCCCAATTT	0.333													48	72	---	---	---	---	PASS
OR4A5	81318	broad.mit.edu	37	11	51411577	51411577	+	Silent	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:51411577G>C	uc001nhi.1	-	1	819	c.819C>G	c.(817-819)ACC>ACG	p.T273T		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	273	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				GTGTGATAATGGTATAAAACA	0.323													11	61	---	---	---	---	PASS
OR4C46	119749	broad.mit.edu	37	11	51515751	51515751	+	Missense_Mutation	SNP	A	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:51515751A>G	uc010ric.1	+	1	470	c.470A>G	c.(469-471)CAG>CGG	p.Q157R		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	157	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GCAACCATACAGATCCTCTTC	0.468													88	139	---	---	---	---	PASS
SPRYD5	84767	broad.mit.edu	37	11	55656477	55656477	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:55656477G>T	uc010rip.1	+	5	853	c.761G>T	c.(760-762)AGG>ATG	p.R254M	SPRYD5_uc010riq.1_Missense_Mutation_p.R111M	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	254						intracellular	zinc ion binding				0		all_epithelial(135;0.226)				ATATTACACAGGTGAGTGCAC	0.363													41	72	---	---	---	---	PASS
OR5M3	219482	broad.mit.edu	37	11	56237098	56237098	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:56237098G>T	uc010rjk.1	-	1	876	c.876C>A	c.(874-876)AAC>AAA	p.N292K		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	292	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TCACATCCTTGTTCCTCAGAC	0.393													14	47	---	---	---	---	PASS
OR5M3	219482	broad.mit.edu	37	11	56237099	56237099	+	Missense_Mutation	SNP	T	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:56237099T>G	uc010rjk.1	-	1	875	c.875A>C	c.(874-876)AAC>ACC	p.N292T		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	292	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					CACATCCTTGTTCCTCAGACT	0.393													14	47	---	---	---	---	PASS
OR10W1	81341	broad.mit.edu	37	11	58034498	58034498	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:58034498G>T	uc001nmq.1	-	1	1235	c.833C>A	c.(832-834)CCA>CAA	p.P278Q		NM_207374	NP_997257	Q8NGF6	O10W1_HUMAN	olfactory receptor, family 10, subfamily W,	278	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				ATAGATAAGTGGGTTGAGCAG	0.537													57	125	---	---	---	---	PASS
LPXN	9404	broad.mit.edu	37	11	58343234	58343234	+	Missense_Mutation	SNP	T	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:58343234T>G	uc001nmw.2	-	1	157	c.12A>C	c.(10-12)TTA>TTC	p.L4F	LPXN_uc009ymp.2_5'UTR|LPXN_uc010rkj.1_Intron|LPXN_uc010rkk.1_Intron	NM_004811	NP_004802	O60711	LPXN_HUMAN	leupaxin isoform 2	4	LD motif 1.				cell adhesion|protein complex assembly|signal transduction	cytoplasm	zinc ion binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				CTCACTCACCTAACTCTTCCA	0.512													39	66	---	---	---	---	PASS
TCN1	6947	broad.mit.edu	37	11	59620686	59620686	+	Silent	SNP	T	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:59620686T>C	uc001noj.2	-	8	1328	c.1230A>G	c.(1228-1230)CCA>CCG	p.P410P		NM_001062	NP_001053	P20061	TCO1_HUMAN	transcobalamin I precursor	410					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular region	cobalamin binding			ovary(2)	2		all_epithelial(135;0.198)			Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CTTGGCTCAGTGGTTCGCCTC	0.527													197	317	---	---	---	---	PASS
PRPF19	27339	broad.mit.edu	37	11	60671208	60671208	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:60671208C>A	uc001nqf.2	-	2	352	c.145G>T	c.(145-147)GAG>TAG	p.E49*		NM_014502	NP_055317	Q9UMS4	PRP19_HUMAN	PRP19/PSO4 pre-mRNA processing factor 19	49	U-box.				DNA repair|protein polyubiquitination|spliceosome assembly	catalytic step 2 spliceosome|nuclear speck|spindle|ubiquitin ligase complex	DNA binding|identical protein binding|ubiquitin-ubiquitin ligase activity			ovary(1)	1						AGCTGCTCCTCGGAGAGAGGC	0.537													52	77	---	---	---	---	PASS
FADS3	3995	broad.mit.edu	37	11	61643866	61643866	+	Missense_Mutation	SNP	C	A	A	rs144242985		TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:61643866C>A	uc001nsm.2	-	9	1198	c.1045G>T	c.(1045-1047)GGC>TGC	p.G349C	FADS3_uc001nsn.2_Missense_Mutation_p.G225C	NM_021727	NP_068373	Q9Y5Q0	FADS3_HUMAN	fatty acid desaturase 3	349	Cytoplasmic (Potential).				electron transport chain|transport|unsaturated fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|membrane fraction	heme binding|oxidoreductase activity, acting on paired donors, with oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules of water			ovary(1)|pancreas(1)	2						TTCTCGTGGCCGATCTCCTTG	0.652													48	94	---	---	---	---	PASS
CDC42BPG	55561	broad.mit.edu	37	11	64601086	64601086	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:64601086C>T	uc001obs.3	-	23	2611	c.2611G>A	c.(2611-2613)GGT>AGT	p.G871S		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	871					actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						GCAGGAAGACCTTCTGTAGAG	0.657													4	27	---	---	---	---	PASS
SNX32	254122	broad.mit.edu	37	11	65618619	65618619	+	Missense_Mutation	SNP	C	T	T	rs147615662	byFrequency	TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:65618619C>T	uc001ofr.2	+	7	824	c.697C>T	c.(697-699)CGC>TGC	p.R233C		NM_152760	NP_689973	Q86XE0	SNX32_HUMAN	sorting nexin 6B	233					cell communication|protein transport		phosphatidylinositol binding				0				READ - Rectum adenocarcinoma(159;0.171)		CCGCGTCATGCGCGCCCACAA	0.632											OREG0021087	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	278	---	---	---	---	PASS
TSGA10IP	254187	broad.mit.edu	37	11	65721060	65721060	+	Silent	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:65721060C>A	uc001ogk.1	+	7	1206	c.1174C>A	c.(1174-1176)CGG>AGG	p.R392R	TSGA10IP_uc009yqw.1_RNA|TSGA10IP_uc009yqx.1_RNA	NM_152762	NP_689975	Q3SY00	T10IP_HUMAN	testis specific, 10 interacting protein	392	Potential.										0						GGCCTGGGAGCGGCAGCGGCA	0.697													76	91	---	---	---	---	PASS
XRRA1	143570	broad.mit.edu	37	11	74651838	74651838	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:74651838G>A	uc009yub.2	-	3	418	c.86C>T	c.(85-87)CCG>CTG	p.P29L	XRRA1_uc001ovm.2_Intron|XRRA1_uc001ovo.2_Intron|XRRA1_uc001ovq.3_Missense_Mutation_p.P29L|XRRA1_uc001ovp.3_Intron|XRRA1_uc001ovr.2_Intron	NM_182969	NP_892014	Q6P2D8	XRRA1_HUMAN	X-ray radiation resistance associated 1	29					response to X-ray	cytoplasm|nucleus				central_nervous_system(1)	1						ACCTTCCTCCGGCACGCGAAG	0.502													8	19	---	---	---	---	PASS
KCTD14	65987	broad.mit.edu	37	11	77727789	77727789	+	Silent	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:77727789C>G	uc001oyw.3	-	2	643	c.618G>C	c.(616-618)GCG>GCC	p.A206A		NM_023930	NP_076419	Q9BQ13	KCD14_HUMAN	potassium channel tetramerisation domain	206						voltage-gated potassium channel complex	voltage-gated potassium channel activity	p.A206V(1)		ovary(2)	2	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1e-24)			TGTCTAGGACCGCCTTCCAGG	0.493													86	126	---	---	---	---	PASS
GUCY1A2	2977	broad.mit.edu	37	11	106810465	106810465	+	Silent	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:106810465G>T	uc001pjg.1	-	4	1317	c.927C>A	c.(925-927)ACC>ACA	p.T309T	GUCY1A2_uc010rvo.1_Silent_p.T309T|GUCY1A2_uc009yxn.1_Silent_p.T309T	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	309					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		GAACTTGGGAGGTTCCCTGTG	0.433													30	38	---	---	---	---	PASS
GUCY1A2	2977	broad.mit.edu	37	11	106810466	106810466	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:106810466G>T	uc001pjg.1	-	4	1316	c.926C>A	c.(925-927)ACC>AAC	p.T309N	GUCY1A2_uc010rvo.1_Missense_Mutation_p.T309N|GUCY1A2_uc009yxn.1_Missense_Mutation_p.T309N	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	309					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		AACTTGGGAGGTTCCCTGTGG	0.433													29	38	---	---	---	---	PASS
BCL9L	283149	broad.mit.edu	37	11	118769595	118769595	+	Silent	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:118769595G>A	uc001pug.2	-	8	4994	c.4029C>T	c.(4027-4029)CCC>CCT	p.P1343P	BCL9L_uc009zal.2_Silent_p.P1338P	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	1343	Pro-rich.				negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		TCTCGCTCTTGGGGAAGTACT	0.612													59	98	---	---	---	---	PASS
TECTA	7007	broad.mit.edu	37	11	121061508	121061508	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:121061508C>A	uc010rzo.1	+	23	6461	c.6461C>A	c.(6460-6462)ACC>AAC	p.T2154N		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	2154					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		TCAGGCACGACCTCATAATTA	0.358													26	52	---	---	---	---	PASS
FLI1	2313	broad.mit.edu	37	11	128638130	128638130	+	Silent	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:128638130C>T	uc010sbu.1	+	3	689	c.348C>T	c.(346-348)AAC>AAT	p.N116N	FLI1_uc010sbt.1_Intron|FLI1_uc010sbv.1_Silent_p.N83N|FLI1_uc009zci.2_Silent_p.N50N|FLI1_uc001qen.2_Silent_p.N83N	NM_002017	NP_002008	Q01543	FLI1_HUMAN	Friend leukemia virus integration 1	116	PNT.				hemostasis|organ morphogenesis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/FLI1(2266)	bone(2210)|soft_tissue(48)|autonomic_ganglia(4)|central_nervous_system(4)|lung(3)|ovary(2)|pancreas(2)	2273	all_hematologic(175;0.0641)	Lung NSC(97;0.00588)|all_lung(97;0.00764)|Breast(109;0.0115)|Medulloblastoma(222;0.0523)|all_neural(223;0.0862)|all_hematologic(192;0.182)		OV - Ovarian serous cystadenocarcinoma(99;0.01)|LUSC - Lung squamous cell carcinoma(976;0.0324)|Lung(977;0.0327)		CTCCTCCCAACATGACCACCA	0.597			T	EWSR1	Ewing sarcoma								23	42	---	---	---	---	PASS
NTM	50863	broad.mit.edu	37	11	132205014	132205014	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:132205014G>T	uc001qgp.2	+	7	1673	c.1009G>T	c.(1009-1011)GTC>TTC	p.V337F	NTM_uc001qgm.2_Missense_Mutation_p.V337F|NTM_uc010sch.1_Missense_Mutation_p.V339F|NTM_uc010sci.1_Missense_Mutation_p.V348F|NTM_uc010scj.1_Missense_Mutation_p.V296F|NTM_uc001qgq.2_Missense_Mutation_p.V348F|NTM_uc001qgr.2_Missense_Mutation_p.V119F	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	337					cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						GCCTCTTCTGGTCTTGCACCT	0.612													23	180	---	---	---	---	PASS
GLB1L3	112937	broad.mit.edu	37	11	134182735	134182735	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:134182735G>T	uc009zdf.2	+	15	1814	c.1454G>T	c.(1453-1455)GGG>GTG	p.G485V	GLB1L3_uc001qho.3_RNA	NM_001080407	NP_001073876	Q8NCI6	GLBL3_HUMAN	galactosidase, beta 1 like 3	485					carbohydrate metabolic process		cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			pancreas(1)	1	all_hematologic(175;0.127)	all_cancers(12;5.52e-23)|all_epithelial(12;2.15e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|all_neural(223;0.0182)|Medulloblastoma(222;0.0208)|Esophageal squamous(93;0.0559)		Epithelial(10;1.3e-11)|all cancers(11;2.07e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000873)|Lung(977;0.222)		ACAATGATAGGGATTCTGAAT	0.517													11	16	---	---	---	---	PASS
SYT10	341359	broad.mit.edu	37	12	33560269	33560269	+	Silent	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr12:33560269G>A	uc001rll.1	-	3	829	c.532C>T	c.(532-534)CTG>TTG	p.L178L	SYT10_uc009zju.1_5'UTR	NM_198992	NP_945343	Q6XYQ8	SYT10_HUMAN	synaptotagmin X	178	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(1)|skin(1)	2	Lung NSC(5;8.37e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0334)					TGCCTCGGCAGGTGTCTTCGG	0.428													6	170	---	---	---	---	PASS
VDR	7421	broad.mit.edu	37	12	48272874	48272874	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr12:48272874G>A	uc001rqm.2	-	4	305	c.23C>T	c.(22-24)ACT>ATT	p.T8I	VDR_uc001rql.2_Missense_Mutation_p.T58I|VDR_uc001rqn.2_Missense_Mutation_p.T8I|VDR_uc010slq.1_5'UTR	NM_001017535	NP_001017535	P11473	VDR_HUMAN	vitamin D (1,25-dihydroxyvitamin D3) receptor	8					decidualization|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of vitamin D 24-hydroxylase activity|regulation of calcidiol 1-monooxygenase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid X receptor binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|vitamin D3 receptor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Acute lymphoblastic leukemia(13;0.109)|all_hematologic(14;0.214)		GBM - Glioblastoma multiforme(48;0.17)	Calcidiol(DB00146)|Calcipotriol(DB02300)|Calcitriol(DB00136)|Dihydrotachysterol(DB01070)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	AGGCAGGGAAGTGCTGGCCGC	0.607													33	65	---	---	---	---	PASS
SILV	6490	broad.mit.edu	37	12	56351335	56351335	+	Missense_Mutation	SNP	A	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr12:56351335A>T	uc001sip.2	-	6	783	c.752T>A	c.(751-753)CTG>CAG	p.L251Q	SILV_uc001siq.2_Missense_Mutation_p.L251Q|SILV_uc010spx.1_Missense_Mutation_p.L165Q|SILV_uc001sir.2_Missense_Mutation_p.L251Q	NM_006928	NP_008859	P40967	PMEL_HUMAN	silver homolog	251					melanin biosynthetic process|melanosome organization	endoplasmic reticulum membrane|extracellular region|Golgi apparatus|integral to membrane|melanosome|multivesicular body membrane|plasma membrane	protein binding				0						AGCTTCAGCCAGATAGCCACT	0.567													94	137	---	---	---	---	PASS
SLC24A6	80024	broad.mit.edu	37	12	113758149	113758149	+	Silent	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr12:113758149C>A	uc001tvc.2	-	7	891	c.681G>T	c.(679-681)CTG>CTT	p.L227L	SLC24A6_uc001tuz.2_5'Flank|SLC24A6_uc001tva.2_RNA|SLC24A6_uc001tvb.2_Intron	NM_024959	NP_079235	Q6J4K2	NCKX6_HUMAN	solute carrier family 24 member 6 precursor	227	Helical; Name=5; (Potential).				response to stimulus|sodium ion transport	integral to membrane|plasma membrane	calcium:cation antiporter activity			central_nervous_system(1)	1						GAGCCCATGCCAGGGTGACCC	0.612													115	186	---	---	---	---	PASS
RFC5	5985	broad.mit.edu	37	12	118465787	118465787	+	Missense_Mutation	SNP	T	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr12:118465787T>A	uc001twq.2	+	9	948	c.823T>A	c.(823-825)TTG>ATG	p.L275M	RFC5_uc010syx.1_Missense_Mutation_p.L254M|RFC5_uc010syy.1_Missense_Mutation_p.L254M|RFC5_uc010syz.1_Missense_Mutation_p.L190M|RFC5_uc009zwr.2_Missense_Mutation_p.L272M	NM_007370	NP_031396	P40937	RFC5_HUMAN	replication factor C 5 isoform 1	275					cell cycle checkpoint|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCTGAAGGGGTTGGCACTGCA	0.428													71	100	---	---	---	---	PASS
ATP8A2	51761	broad.mit.edu	37	13	26145830	26145830	+	Silent	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:26145830G>A	uc001uqk.2	+	18	1804	c.1662G>A	c.(1660-1662)GCG>GCA	p.A554A	ATP8A2_uc010tdi.1_Silent_p.A514A|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Silent_p.A64A|ATP8A2_uc001uql.1_Silent_p.A514A	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	514	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		TCATAGAAGCGGTGAGTAACA	0.423													83	118	---	---	---	---	PASS
CDX2	1045	broad.mit.edu	37	13	28542705	28542705	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:28542705G>T	uc001urv.2	-	1	613	c.439C>A	c.(439-441)CCC>ACC	p.P147T		NM_001265	NP_001256	Q99626	CDX2_HUMAN	caudal type homeobox 2	147					organ morphogenesis|transcription from RNA polymerase II promoter		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)	1	all_cancers(110;0.191)|all_hematologic(3;0.0447)|Acute lymphoblastic leukemia(6;0.155)	Lung SC(185;0.0156)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	GBM - Glioblastoma multiforme(144;0.0407)|all cancers(112;0.0491)|OV - Ovarian serous cystadenocarcinoma(117;0.199)		GTGGCGGCGGGCCCAGGAGGG	0.612			T	ETV6	AML								15	16	---	---	---	---	PASS
FLT3	2322	broad.mit.edu	37	13	28608124	28608124	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:28608124C>A	uc001urw.2	-	15	1924	c.1842G>T	c.(1840-1842)AAG>AAT	p.K614N	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Missense_Mutation_p.K614N	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	614	Protein kinase.|Cytoplasmic (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity	p.G613_K614ins17(2)|p.G613_K614ins16(2)|p.G613_K614ins28(1)|p.K614K(1)|p.K614_V615ins15(1)|p.G613_K614ins22(1)|p.G613_K614ins23(1)|p.G613_K614ins15(1)|p.G613_K614ins33(1)|p.K614_V615ins35(1)|p.K614_V615ins36(1)|p.K614_V615ins30(1)		haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	ATCCTAGTACCTTCCCTGCAA	0.403			Mis|O		AML|ALL								116	170	---	---	---	---	PASS
FLT1	2321	broad.mit.edu	37	13	29041090	29041090	+	Missense_Mutation	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:29041090G>C	uc001usb.3	-	3	623	c.338C>G	c.(337-339)CCT>CGT	p.P113R	FLT1_uc010aar.1_Missense_Mutation_p.P113R|FLT1_uc001usc.3_Missense_Mutation_p.P113R|FLT1_uc010tdp.1_Missense_Mutation_p.P113R|FLT1_uc001usd.2_Missense_Mutation_p.P113R	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	113	Ig-like C2-type 1.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	CTTTGAAGTAGGTACAGCTAG	0.378													57	78	---	---	---	---	PASS
FREM2	341640	broad.mit.edu	37	13	39448720	39448720	+	Missense_Mutation	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:39448720C>G	uc001uwv.2	+	18	8587	c.8278C>G	c.(8278-8280)CCC>GCC	p.P2760A		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	2760	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GCTGTCACATCCCGGTAAGCC	0.488													44	97	---	---	---	---	PASS
LCP1	3936	broad.mit.edu	37	13	46733098	46733098	+	Missense_Mutation	SNP	A	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:46733098A>T	uc001vaz.3	-	3	217	c.91T>A	c.(91-93)TTC>ATC	p.F31I	LCP1_uc001vba.3_Missense_Mutation_p.F31I	NM_002298	NP_002289	P13796	PLSL_HUMAN	L-plastin	31	1 (By similarity).|EF-hand 1.				regulation of intracellular protein transport|T cell activation involved in immune response	cell junction|cytosol|ruffle membrane	calcium ion binding			lung(4)|ovary(3)	7		Lung NSC(96;1.27e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.39e-05)		AACTCATTGAAGCTGATGTAT	0.433			T	BCL6	NHL 								91	127	---	---	---	---	PASS
FNDC3A	22862	broad.mit.edu	37	13	49772213	49772213	+	Silent	SNP	A	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:49772213A>C	uc001vcm.2	+	22	2891	c.2586A>C	c.(2584-2586)ATA>ATC	p.I862I	FNDC3A_uc001vcn.2_Silent_p.I862I|FNDC3A_uc001vco.2_RNA|FNDC3A_uc001vcq.2_Silent_p.I806I	NM_001079673	NP_001073141	Q9Y2H6	FND3A_HUMAN	fibronectin type III domain containing 3A	862	Fibronectin type-III 7.					Golgi membrane|integral to membrane				lung(2)	2		all_lung(13;7.44e-08)|Lung NSC(96;4.08e-06)|Breast(56;0.000111)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.94e-09)		TTCAAGAAATAAGCGATGATG	0.463													5	139	---	---	---	---	PASS
HNRNPA1L2	144983	broad.mit.edu	37	13	53217180	53217180	+	Missense_Mutation	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:53217180G>C	uc001vgx.1	+	7	1626	c.553G>C	c.(553-555)GAG>CAG	p.E185Q	HNRNPA1L2_uc001vgy.1_Missense_Mutation_p.E185Q|HNRNPA1L2_uc001vgz.1_Missense_Mutation_p.E185Q	NM_001011724	NP_001011724	Q32P51	RA1L2_HUMAN	heterogeneous nuclear ribonucleoprotein A1-like	185	Globular B domain.				mRNA processing|mRNA transport|RNA splicing	cytoplasm|spliceosomal complex	nucleotide binding|RNA binding				0						GCCAAAGCAAGAGATGGCTAG	0.353													3	99	---	---	---	---	PASS
COL4A2	1284	broad.mit.edu	37	13	111138064	111138064	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:111138064G>T	uc001vqx.2	+	34	3377	c.3088G>T	c.(3088-3090)GGC>TGC	p.G1030C		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	1030	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			TGGGAGGCCCGGCCACATCAA	0.622													49	87	---	---	---	---	PASS
ARHGEF7	8874	broad.mit.edu	37	13	111926211	111926211	+	Missense_Mutation	SNP	T	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:111926211T>C	uc001vrs.2	+	11	1437	c.1187T>C	c.(1186-1188)ATT>ACT	p.I396T	ARHGEF7_uc001vrr.2_Missense_Mutation_p.I375T|ARHGEF7_uc001vrt.2_Missense_Mutation_p.I346T|ARHGEF7_uc010tjn.1_Intron|ARHGEF7_uc001vru.1_Missense_Mutation_p.I218T|ARHGEF7_uc001vrv.3_Missense_Mutation_p.I218T|ARHGEF7_uc001vrw.3_Missense_Mutation_p.I218T|ARHGEF7_uc001vrx.3_Missense_Mutation_p.I218T|ARHGEF7_uc010tjo.1_Missense_Mutation_p.I293T|ARHGEF7_uc010tjp.1_Missense_Mutation_p.I140T|ARHGEF7_uc010agn.1_Missense_Mutation_p.I140T	NM_001113511	NP_001106983	Q14155	ARHG7_HUMAN	PAK-interacting exchange factor beta isoform c	396	DH.				apoptosis|epidermal growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_lung(23;3.96e-05)|Lung NSC(43;0.00156)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.188)			AGCCCTGGGATTCTCGTGCTG	0.552													55	80	---	---	---	---	PASS
ATP11A	23250	broad.mit.edu	37	13	113473630	113473630	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:113473630G>A	uc001vsi.3	+	7	671	c.583G>A	c.(583-585)GTC>ATC	p.V195I	ATP11A_uc001vsj.3_Missense_Mutation_p.V195I|ATP11A_uc001vsm.1_Missense_Mutation_p.V71I	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	195	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				GCATTACGCGGTCCAGGACAC	0.557													55	90	---	---	---	---	PASS
F7	2155	broad.mit.edu	37	13	113773306	113773306	+	Missense_Mutation	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr13:113773306G>C	uc001vsv.2	+	9	1436	c.1385G>C	c.(1384-1386)CGA>CCA	p.R462P	F7_uc001vsw.2_Missense_Mutation_p.R440P|F7_uc010tjt.1_Missense_Mutation_p.R393P	NM_000131	NP_000122	P08709	FA7_HUMAN	coagulation factor VII isoform a precursor	462					anti-apoptosis|blood coagulation, extrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of leukocyte chemotaxis|positive regulation of platelet-derived growth factor receptor signaling pathway|positive regulation of positive chemotaxis|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|Golgi lumen|plasma membrane	calcium ion binding|glycoprotein binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0364)|all_epithelial(44;0.0393)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0737)|Epithelial(84;0.213)|BRCA - Breast invasive adenocarcinoma(86;0.218)		Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Menadione(DB00170)	GTCCTCCTGCGAGCCCCATTT	0.587													35	52	---	---	---	---	PASS
POTEG	404785	broad.mit.edu	37	14	19553635	19553635	+	Silent	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr14:19553635G>A	uc001vuz.1	+	1	271	c.219G>A	c.(217-219)AGG>AGA	p.R73R	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	73										ovary(1)	1						CCTGGTGCAGGGGGAGCAGCA	0.582													181	215	---	---	---	---	PASS
OR4N2	390429	broad.mit.edu	37	14	20295985	20295985	+	Missense_Mutation	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr14:20295985C>G	uc010tkv.1	+	1	378	c.378C>G	c.(376-378)ATC>ATG	p.I126M		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		ACATCGCCATCTGCCGGCCTC	0.522													40	216	---	---	---	---	PASS
OR4K1	79544	broad.mit.edu	37	14	20404636	20404636	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr14:20404636C>T	uc001vwj.1	+	1	811	c.811C>T	c.(811-813)CTT>TTT	p.L271F		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	271	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		GGACAAATTTCTTTCTGTGTT	0.418													84	96	---	---	---	---	PASS
EML5	161436	broad.mit.edu	37	14	89192897	89192897	+	Missense_Mutation	SNP	A	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr14:89192897A>G	uc001xxg.2	-	9	1361	c.1175T>C	c.(1174-1176)GTA>GCA	p.V392A		NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	392						cytoplasm|microtubule				ovary(3)	3						TACTCTAAGTACAGTGAATGA	0.353													11	21	---	---	---	---	PASS
TCL1A	8115	broad.mit.edu	37	14	96178685	96178685	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr14:96178685C>T	uc001yfc.3	-	2	299	c.169G>A	c.(169-171)GTC>ATC	p.V57I	TCL1A_uc001yfb.3_Missense_Mutation_p.V57I	NM_001098725	NP_001092195	P56279	TCL1A_HUMAN	T-cell leukemia/lymphoma 1A	57					multicellular organismal development	endoplasmic reticulum|microsome				lung(1)	1		all_cancers(154;0.103)		COAD - Colon adenocarcinoma(157;0.205)|Epithelial(152;0.248)		CTCCCCAGGACGACGTCTTCC	0.562			T	TRA@	T-CLL								60	90	---	---	---	---	PASS
CCNK	8812	broad.mit.edu	37	14	99961958	99961958	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr14:99961958G>A	uc001ygi.3	+	4	533	c.403G>A	c.(403-405)GAC>AAC	p.D135N	CCNK_uc001ygg.3_Missense_Mutation_p.D135N	NM_001099402	NP_001092872	O75909	CCNK_HUMAN	cyclin K isoform 1	135					cell division|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein kinase binding				0		all_cancers(154;0.224)|all_epithelial(191;0.0643)|Melanoma(154;0.0866)				GTTTGGAGATGACCCAAAGGT	0.383													138	174	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	107169953	107169953	+	RNA	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr14:107169953G>A	uc010tyt.1	-	39		c.2834C>T								Parts of antibodies, mostly variable regions.												0						ATACACGGCCGTGTCCTCAGA	0.557													15	682	---	---	---	---	PASS
CYFIP1	23191	broad.mit.edu	37	15	22940827	22940827	+	Silent	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr15:22940827G>C	uc001yus.2	+	11	1196	c.1092G>C	c.(1090-1092)GCG>GCC	p.A364A	CYFIP1_uc001yut.2_Silent_p.A364A|CYFIP1_uc010aya.1_Silent_p.A392A	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	364					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		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;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		CGGAGCTGGCGCGCTACAGCA	0.592													23	25	---	---	---	---	PASS
C15orf2	23742	broad.mit.edu	37	15	24923727	24923727	+	Missense_Mutation	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr15:24923727G>C	uc001ywo.2	+	1	3187	c.2713G>C	c.(2713-2715)GAT>CAT	p.D905H		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	905					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)		TGGGGCCACTGATGGGCAGCA	0.502													88	95	---	---	---	---	PASS
HERC2	8924	broad.mit.edu	37	15	28506002	28506002	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr15:28506002C>A	uc001zbj.2	-	16	2343	c.2237G>T	c.(2236-2238)CGC>CTC	p.R746L	HERC2_uc001zbl.1_Missense_Mutation_p.R441L	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	746	RCC1 5.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CTTGGTCACGCGCAAGGTGTC	0.582													14	57	---	---	---	---	PASS
DUOX1	53905	broad.mit.edu	37	15	45428573	45428573	+	Missense_Mutation	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr15:45428573C>G	uc001zus.1	+	9	1236	c.890C>G	c.(889-891)CCC>CGC	p.P297R	DUOX1_uc001zut.1_Missense_Mutation_p.P297R|DUOX1_uc010bee.1_5'UTR	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	297	Peroxidase-like; mediates peroxidase activity.|Extracellular (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		GAGTGGCTGCCCAGCTTCCTG	0.632													3	63	---	---	---	---	PASS
SEMA6D	80031	broad.mit.edu	37	15	48063212	48063212	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr15:48063212C>T	uc010bek.2	+	19	2812	c.2452C>T	c.(2452-2454)CCA>TCA	p.P818S	SEMA6D_uc001zvw.2_Missense_Mutation_p.P756S|SEMA6D_uc001zvy.2_Missense_Mutation_p.P818S|SEMA6D_uc001zvz.2_Missense_Mutation_p.P762S|SEMA6D_uc001zwa.2_3'UTR|SEMA6D_uc001zwb.2_Missense_Mutation_p.P756S|SEMA6D_uc001zwc.2_Missense_Mutation_p.P743S	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	818	Cytoplasmic (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		ACCTCATTCCCCATTAAGTCA	0.488													48	81	---	---	---	---	PASS
UNC13C	440279	broad.mit.edu	37	15	54586201	54586201	+	Silent	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr15:54586201G>T	uc002ack.2	+	9	3927	c.3927G>T	c.(3925-3927)CTG>CTT	p.L1309L	UNC13C_uc002acl.2_Silent_p.L139L	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1309	C2 1.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		ATGATTTTCTGGGACAAACAA	0.348													85	109	---	---	---	---	PASS
DENND4A	10260	broad.mit.edu	37	15	65964148	65964148	+	Silent	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr15:65964148G>A	uc002aph.2	-	24	4692	c.4314C>T	c.(4312-4314)TTC>TTT	p.F1438F	DENND4A_uc002api.2_Silent_p.F1481F	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	1438					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						CATAGTTCTGGAAGATATTTG	0.373													45	93	---	---	---	---	PASS
AKAP13	11214	broad.mit.edu	37	15	86262337	86262337	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr15:86262337G>A	uc002blv.1	+	23	6202	c.6032G>A	c.(6031-6033)CGC>CAC	p.R2011H	AKAP13_uc002blu.1_Missense_Mutation_p.R2015H|AKAP13_uc010bnf.1_Missense_Mutation_p.R632H|AKAP13_uc002blw.1_Missense_Mutation_p.R476H|AKAP13_uc002blx.1_Missense_Mutation_p.R256H	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	2011	Interaction with ESR1.|DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						CATCATGTCCGCACTCTCAAG	0.458													4	96	---	---	---	---	PASS
OR4F6	390648	broad.mit.edu	37	15	102346039	102346039	+	Silent	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr15:102346039G>T	uc010utr.1	+	1	117	c.117G>T	c.(115-117)CTG>CTT	p.L39L		NM_001005326	NP_001005326	Q8NGB9	OR4F6_HUMAN	olfactory receptor, family 4, subfamily F,	39	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			TGTCAAGCCTGATGGGAAATC	0.488													117	304	---	---	---	---	PASS
C16orf11	146325	broad.mit.edu	37	16	614874	614874	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr16:614874C>A	uc002chk.2	+	3	1562	c.1283C>A	c.(1282-1284)GCG>GAG	p.A428E	NHLRC4_uc002chl.2_5'Flank|PIGQ_uc010bqw.2_5'Flank	NM_145270	NP_660313	P0CG20	CP011_HUMAN	hypothetical protein LOC146325	428										central_nervous_system(1)	1						TTGGGGCCCGCGGGGGGCCTG	0.726													10	7	---	---	---	---	PASS
TPSD1	23430	broad.mit.edu	37	16	1306282	1306282	+	Missense_Mutation	SNP	A	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr16:1306282A>T	uc002clb.1	+	1	10	c.1A>T	c.(1-3)ATG>TTG	p.M1L	TPSD1_uc010brm.1_5'Flank	NM_012217	NP_036349	Q9BZJ3	TRYD_HUMAN	tryptase delta 1 precursor	1					proteolysis	extracellular region	serine-type endopeptidase activity				0		Hepatocellular(780;0.00369)				CAGGCCCACGATGCTCCTCCT	0.716													36	113	---	---	---	---	PASS
GNPTG	84572	broad.mit.edu	37	16	1412532	1412532	+	Silent	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr16:1412532C>A	uc002clm.2	+	8	641	c.606C>A	c.(604-606)CCC>CCA	p.P202P		NM_032520	NP_115909	Q9UJJ9	GNPTG_HUMAN	N-acetylglucosamine-1-phosphotransferase, gamma	202						extracellular region|Golgi apparatus	protein binding			central_nervous_system(1)	1		Hepatocellular(780;0.0893)				TGATCACCCCCCAGGTAAGCG	0.662													37	12	---	---	---	---	PASS
MAPK8IP3	23162	broad.mit.edu	37	16	1814419	1814419	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr16:1814419G>T	uc002cmk.2	+	19	2356	c.2236G>T	c.(2236-2238)GGC>TGC	p.G746C	MAPK8IP3_uc002cml.2_Missense_Mutation_p.G740C|MAPK8IP3_uc010uvl.1_Missense_Mutation_p.G747C	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	746					vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						CGAAGGAGACGGCGAGCCCAA	0.662													12	3	---	---	---	---	PASS
VAT1L	57687	broad.mit.edu	37	16	77918563	77918563	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr16:77918563C>A	uc002ffg.1	+	7	1038	c.941C>A	c.(940-942)GCG>GAG	p.A314E		NM_020927	NP_065978	Q9HCJ6	VAT1L_HUMAN	vesicle amine transport protein 1 homolog (T.	314							oxidoreductase activity|zinc ion binding			central_nervous_system(1)	1						AAAGTCATCGCGGGGTTTTCC	0.502													20	10	---	---	---	---	PASS
PITPNM3	83394	broad.mit.edu	37	17	6380497	6380497	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:6380497C>A	uc002gdd.3	-	9	1088	c.937G>T	c.(937-939)GCC>TCC	p.A313S	PITPNM3_uc010cln.2_Missense_Mutation_p.A277S|PITPNM3_uc002gdc.3_5'UTR	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	313	Ser-rich.				phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		TTGCTGCTGGCCAGGCTGCAA	0.587													4	95	---	---	---	---	PASS
TP53	7157	broad.mit.edu	37	17	7578394	7578394	+	Missense_Mutation	SNP	T	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:7578394T>A	uc002gim.2	-	5	730	c.536A>T	c.(535-537)CAT>CTT	p.H179L	TP53_uc002gig.1_Missense_Mutation_p.H179L|TP53_uc002gih.2_Missense_Mutation_p.H179L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H47L|TP53_uc010cng.1_Missense_Mutation_p.H47L|TP53_uc002gii.1_Missense_Mutation_p.H47L|TP53_uc010cnh.1_Missense_Mutation_p.H179L|TP53_uc010cni.1_Missense_Mutation_p.H179L|TP53_uc002gij.2_Missense_Mutation_p.H179L|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.H86L|TP53_uc002gio.2_Missense_Mutation_p.H47L|TP53_uc010vug.1_Missense_Mutation_p.H140L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	179	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).	Zinc.	H -> Q (in sporadic cancers; somatic mutation).|H -> N (in sporadic cancers; somatic mutation).|H -> R (in sporadic cancers; somatic mutation).|HH -> QS (in a sporadic cancer; somatic mutation).|H -> L (in sporadic cancers; somatic mutation).|H -> D (in sporadic cancers; somatic mutation).|H -> P (in sporadic cancers; somatic mutation).|H -> Y (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.H179R(99)|p.H179Y(74)|p.H179L(31)|p.H179Q(17)|p.H179N(13)|p.H179D(10)|p.P177_C182delPHHERC(8)|p.0?(7)|p.C176_R181delCPHHER(3)|p.R174fs*24(3)|p.H179P(3)|p.R175_E180delRCPHHE(3)|p.H179fs*68(2)|p.H179H(2)|p.P177fs*3(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.K164_P219del(1)|p.C176fs*65(1)|p.P177_H179delPHH(1)|p.V173fs*23(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.H179del(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.R174_E180>K(1)|p.H178fs*6(1)|p.P177_E180delPHHE(1)|p.R42fs*24(1)|p.E171fs*1(1)|p.R174fs*3(1)|p.H178_H179>QY(1)|p.E171fs*61(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)		GCAGCGCTCATGGTGGGGGCA	0.642		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)			93	21	---	---	---	---	PASS
MYH2	4620	broad.mit.edu	37	17	10450873	10450873	+	Missense_Mutation	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:10450873C>G	uc010coi.2	-	4	395	c.267G>C	c.(265-267)GAG>GAC	p.E89D	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.E89D|MYH2_uc010coj.2_Missense_Mutation_p.E89D	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	89	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TGGCCATATCCTCGATCTTGT	0.468													97	182	---	---	---	---	PASS
MYH3	4621	broad.mit.edu	37	17	10554936	10554936	+	Missense_Mutation	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:10554936G>C	uc002gmq.1	-	4	475	c.398C>G	c.(397-399)CCG>CGG	p.P133R		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	133	Myosin head-like.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						GTTGTACACCGGCAGCCACTT	0.527													79	117	---	---	---	---	PASS
COX10	1352	broad.mit.edu	37	17	13977644	13977644	+	Silent	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:13977644C>T	uc002gof.3	+	2	252	c.48C>T	c.(46-48)TGC>TGT	p.C16C	COX10_uc010vvs.1_5'UTR|COX10_uc010vvt.1_5'UTR	NM_001303	NP_001294	Q12887	COX10_HUMAN	heme A:farnesyltransferase precursor	16					heme a biosynthetic process|heme O biosynthetic process|respiratory chain complex IV assembly	integral to membrane|mitochondrial membrane	protoheme IX farnesyltransferase activity				0		all_lung(20;0.06)|Lung SC(565;0.168)		UCEC - Uterine corpus endometrioid carcinoma (92;0.106)		TTATAGGTTGCGTAGGAGGCT	0.418													66	121	---	---	---	---	PASS
ZNF286A	57335	broad.mit.edu	37	17	15619515	15619515	+	Missense_Mutation	SNP	A	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:15619515A>T	uc010cot.2	+	6	873	c.477A>T	c.(475-477)GAA>GAT	p.E159D	ZNF286A_uc002goz.3_Missense_Mutation_p.E47D|ZNF286A_uc010vwa.1_Missense_Mutation_p.E159D|ZNF286A_uc002gpa.2_Missense_Mutation_p.E159D	NM_001130842	NP_001124314	Q9HBT8	Z286A_HUMAN	zinc finger protein 286	159					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)|READ - Rectum adenocarcinoma(1115;0.0222)|BRCA - Breast invasive adenocarcinoma(8;0.0781)		TTGAATGTGAAAATTGGTTAG	0.388													49	83	---	---	---	---	PASS
CORO6	84940	broad.mit.edu	37	17	27944061	27944061	+	Splice_Site	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:27944061C>T	uc002hel.2	-	6	756	c.754_splice	c.e6-1	p.N252_splice	CORO6_uc002hem.2_Splice_Site_p.N18_splice|CORO6_uc002hen.2_Splice_Site_p.N18_splice	NM_032854	NP_116243	Q6QEF8	CORO6_HUMAN	coronin 6						actin cytoskeleton organization	actin cytoskeleton	actin filament binding				0						CGAAGTTGTTCTGCCCGAGCA	0.607													38	158	---	---	---	---	PASS
NF1	4763	broad.mit.edu	37	17	29527583	29527583	+	Silent	SNP	A	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:29527583A>G	uc002hgg.2	+	9	1365	c.1032A>G	c.(1030-1032)CTA>CTG	p.L344L	NF1_uc002hge.1_Silent_p.L344L|NF1_uc002hgf.1_Silent_p.L344L|NF1_uc002hgh.2_Silent_p.L344L|NF1_uc010csn.1_Silent_p.L204L	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	344					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(2)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TCATTTTCCTACTTGTTCAGT	0.353			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			66	96	---	---	---	---	PASS
MMP28	79148	broad.mit.edu	37	17	34105972	34105972	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:34105972G>A	uc002hjy.1	-	3	558	c.299C>T	c.(298-300)GCG>GTG	p.A100V	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA|MMP28_uc002hka.2_Missense_Mutation_p.A100V	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	100					proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		AGCCCAGGCCGCATAACTGTT	0.567													4	124	---	---	---	---	PASS
KLHL11	55175	broad.mit.edu	37	17	40021526	40021526	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:40021526G>A	uc002hyf.1	-	1	104	c.98C>T	c.(97-99)TCG>TTG	p.S33L		NM_018143	NP_060613	Q9NVR0	KLH11_HUMAN	kelch-like 11 precursor	33						extracellular region					0		Breast(137;0.00156)				CAGTCCTGCCGAGCCGGCGGC	0.547													18	26	---	---	---	---	PASS
GHDC	84514	broad.mit.edu	37	17	40345412	40345412	+	Missense_Mutation	SNP	T	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:40345412T>G	uc002hzd.2	-	2	672	c.188A>C	c.(187-189)CAC>CCC	p.H63P	GHDC_uc002hzg.1_Missense_Mutation_p.H63P|GHDC_uc010wgg.1_Missense_Mutation_p.H63P|GHDC_uc002hze.3_Missense_Mutation_p.H63P|GHDC_uc002hzf.3_Missense_Mutation_p.H63P|GHDC_uc010cxz.2_RNA	NM_032484	NP_115873	Q8N2G8	GHDC_HUMAN	LGP1 homolog isoform 1	63						endoplasmic reticulum|nuclear envelope					0		all_cancers(22;0.000229)|Breast(137;0.00104)|all_epithelial(22;0.00304)		BRCA - Breast invasive adenocarcinoma(366;0.124)		CTGGCTCTGGTGCACATGGAG	0.677													6	17	---	---	---	---	PASS
COASY	80347	broad.mit.edu	37	17	40717012	40717012	+	Nonsense_Mutation	SNP	A	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:40717012A>T	uc002hzz.2	+	6	1406	c.1249A>T	c.(1249-1251)AAA>TAA	p.K417*	COASY_uc010cyj.2_Nonsense_Mutation_p.K446*|COASY_uc002iab.2_Nonsense_Mutation_p.K122*|COASY_uc002iad.2_Nonsense_Mutation_p.K417*|COASY_uc002iac.2_Nonsense_Mutation_p.K417*|COASY_uc002iae.2_Nonsense_Mutation_p.K212*|MLX_uc002iaf.2_5'Flank|MLX_uc002iag.2_5'Flank|MLX_uc002iah.2_5'Flank	NM_001042529	NP_001035994	Q13057	COASY_HUMAN	coenzyme A synthase isoform a	417	DPCK.				coenzyme A biosynthetic process|pantothenate metabolic process	mitochondrial outer membrane	ATP binding|dephospho-CoA kinase activity|pantetheine-phosphate adenylyltransferase activity				0		all_cancers(22;1.06e-05)|Breast(137;0.000153)|all_epithelial(22;0.000344)		BRCA - Breast invasive adenocarcinoma(366;0.13)		TATTCTCCATAAAGATGGCAT	0.502													110	127	---	---	---	---	PASS
BRCA1	672	broad.mit.edu	37	17	41246321	41246321	+	Silent	SNP	T	A	A	rs149349675		TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:41246321T>A	uc002icq.2	-	10	1459	c.1227A>T	c.(1225-1227)GTA>GTT	p.V409V	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Silent_p.V338V|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Silent_p.V362V|BRCA1_uc002ict.2_Silent_p.V409V|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Silent_p.V409V|BRCA1_uc002ide.1_Silent_p.V240V|BRCA1_uc010cyy.1_Silent_p.V409V|BRCA1_uc010whs.1_Silent_p.V409V|BRCA1_uc010cyz.2_Silent_p.V362V|BRCA1_uc010cza.2_Silent_p.V383V|BRCA1_uc010wht.1_Silent_p.V113V	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	409					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		ATACATCAGCTACTTTGGCAT	0.388			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			65	129	---	---	---	---	PASS
SP2	6668	broad.mit.edu	37	17	45994416	45994416	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:45994416G>A	uc002imk.2	+	3	1116	c.979G>A	c.(979-981)GCA>ACA	p.A327T	SP2_uc002iml.2_Missense_Mutation_p.A320T|uc002imm.2_Intron	NM_003110	NP_003101	Q02086	SP2_HUMAN	Sp2 transcription factor	327					immune response|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|histone deacetylase binding|zinc ion binding				0						GGTGCAGGCGGCATCTGCCAC	0.647													4	111	---	---	---	---	PASS
MED13	9969	broad.mit.edu	37	17	60088374	60088374	+	Missense_Mutation	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:60088374G>C	uc002izo.2	-	9	1581	c.1504C>G	c.(1504-1506)CCA>GCA	p.P502A	MED13_uc002izp.2_Missense_Mutation_p.P118A	NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	502					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						TGACTGTCTGGAGCAGAGATC	0.473													50	62	---	---	---	---	PASS
AXIN2	8313	broad.mit.edu	37	17	63526217	63526217	+	Silent	SNP	A	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:63526217A>G	uc002jfi.2	-	11	2698	c.2409T>C	c.(2407-2409)TAT>TAC	p.Y803Y	AXIN2_uc002jfh.2_Silent_p.Y738Y	NM_004655	NP_004646	Q9Y2T1	AXIN2_HUMAN	axin 2	803	DIX.				cellular protein localization|cellular response to organic cyclic compound|dorsal/ventral axis specification|intramembranous ossification|maintenance of DNA repeat elements|mRNA stabilization|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of cell proliferation|negative regulation of osteoblast differentiation|odontogenesis|positive regulation of cell death|positive regulation of epithelial to mesenchymal transition|positive regulation of protein phosphorylation|regulation of centromeric sister chromatid cohesion|regulation of mismatch repair|Wnt receptor signaling pathway involved in somitogenesis	Axin-APC-beta-catenin-GSK3B complex|cell cortex|centrosome|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|nucleus|plasma membrane|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			central_nervous_system(1)|skin(1)	2						TTTTGAAGTAATACCTTAAAA	0.443									Oligodontia_Ectodermal_Dysplasia_and_Colorectal_Polyp_syndrome				5	145	---	---	---	---	PASS
SDK2	54549	broad.mit.edu	37	17	71386527	71386527	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:71386527C>A	uc010dfm.2	-	29	4091	c.4091G>T	c.(4090-4092)GGC>GTC	p.G1364V	SDK2_uc002jjt.3_Missense_Mutation_p.G523V|SDK2_uc010dfn.2_Missense_Mutation_p.G1043V	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	1364	Fibronectin type-III 8.|Extracellular (Potential).				cell adhesion	integral to membrane				ovary(2)	2						TGGCTTGAGGCCCGTGGCTGT	0.647													5	38	---	---	---	---	PASS
CD300E	342510	broad.mit.edu	37	17	72613346	72613346	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr17:72613346C>A	uc002jlb.1	-	2	340	c.299G>T	c.(298-300)GGA>GTA	p.G100V		NM_181449	NP_852114	Q496F6	CLM2_HUMAN	CD300e molecule precursor	100	Ig-like V-type.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						CCAGTAAGATCCAGCATCATC	0.542													68	133	---	---	---	---	PASS
LAMA1	284217	broad.mit.edu	37	18	7011410	7011410	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr18:7011410C>A	uc002knm.2	-	25	3670	c.3576G>T	c.(3574-3576)GAG>GAT	p.E1192D	LAMA1_uc010wzj.1_Missense_Mutation_p.E668D	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	1192	Laminin IV type A 2.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGTAAACCCCCTCGGTCGTGC	0.607													10	12	---	---	---	---	PASS
ZNF519	162655	broad.mit.edu	37	18	14105676	14105676	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr18:14105676C>A	uc002kst.1	-	3	1016	c.863G>T	c.(862-864)GGA>GTA	p.G288V	ZNF519_uc002ksq.1_Intron|ZNF519_uc002ksr.1_Intron|ZNF519_uc010dlm.1_Intron	NM_145287	NP_660330	Q8TB69	ZN519_HUMAN	zinc finger protein 519	288					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGGTTTCTCTCCAGTATGAAT	0.368													52	77	---	---	---	---	PASS
KIAA1328	57536	broad.mit.edu	37	18	34647324	34647324	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr18:34647324G>A	uc002kzz.2	+	7	1070	c.1048G>A	c.(1048-1050)GGG>AGG	p.G350R	KIAA1328_uc002lab.2_Missense_Mutation_p.G66R|KIAA1328_uc002lac.1_Missense_Mutation_p.G173R|KIAA1328_uc010dnc.1_RNA|KIAA1328_uc002lad.2_Missense_Mutation_p.G66R	NM_020776	NP_065827	Q86T90	K1328_HUMAN	hypothetical protein LOC57536	350										central_nervous_system(1)	1				COAD - Colon adenocarcinoma(74;0.195)		GCATGGTGGTGGGGCACTGCA	0.453													18	22	---	---	---	---	PASS
SLC14A1	6563	broad.mit.edu	37	18	43310350	43310350	+	Missense_Mutation	SNP	T	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr18:43310350T>A	uc010xcn.1	+	4	384	c.65T>A	c.(64-66)GTT>GAT	p.V22D	SLC14A1_uc010dnk.2_Missense_Mutation_p.V78D|SLC14A1_uc002lbf.3_Missense_Mutation_p.V22D|SLC14A1_uc002lbg.3_RNA|SLC14A1_uc010xco.1_Intron|SLC14A1_uc002lbh.3_Intron|SLC14A1_uc002lbi.3_Intron|SLC14A1_uc002lbj.3_Missense_Mutation_p.V78D|SLC14A1_uc002lbk.3_Missense_Mutation_p.V22D	NM_001146036	NP_001139508	Q13336	UT1_HUMAN	solute carrier family 14 (urea transporter),	22						integral to plasma membrane	urea transmembrane transporter activity			central_nervous_system(1)|pancreas(1)	2						GAAAACCAGGTTTCGCCATGT	0.507													9	100	---	---	---	---	PASS
SLC14A1	6563	broad.mit.edu	37	18	43329813	43329813	+	Missense_Mutation	SNP	A	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr18:43329813A>G	uc010xcn.1	+	11	1386	c.1067A>G	c.(1066-1068)AAT>AGT	p.N356S	SLC14A1_uc010dnk.2_Missense_Mutation_p.N412S|SLC14A1_uc002lbf.3_Missense_Mutation_p.N356S|SLC14A1_uc002lbg.3_RNA|SLC14A1_uc010xco.1_Missense_Mutation_p.N251S|SLC14A1_uc002lbh.3_Missense_Mutation_p.N248S|SLC14A1_uc002lbi.3_Missense_Mutation_p.N224S|SLC14A1_uc002lbj.3_Missense_Mutation_p.N412S|SLC14A1_uc002lbk.3_Missense_Mutation_p.N356S	NM_001146036	NP_001139508	Q13336	UT1_HUMAN	solute carrier family 14 (urea transporter),	356						integral to plasma membrane	urea transmembrane transporter activity			central_nervous_system(1)|pancreas(1)	2						ACCACAAAAAATTCCAACATC	0.468													5	173	---	---	---	---	PASS
ALPK2	115701	broad.mit.edu	37	18	56202301	56202301	+	Silent	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr18:56202301C>G	uc002lhj.3	-	5	5332	c.5118G>C	c.(5116-5118)ACG>ACC	p.T1706T	ALPK2_uc002lhk.1_Silent_p.T1037T	NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	1706							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						CCTCTGACCCCGTCACTGCTG	0.572													72	102	---	---	---	---	PASS
SERPINB2	5055	broad.mit.edu	37	18	61570215	61570215	+	Nonsense_Mutation	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr18:61570215C>G	uc010xeu.1	+	9	1257	c.924C>G	c.(922-924)TAC>TAG	p.Y308*	SERPINB2_uc002ljo.2_Nonsense_Mutation_p.Y308*|SERPINB2_uc010dqh.2_Nonsense_Mutation_p.Y238*|SERPINB2_uc002ljp.1_Intron|SERPINB2_uc002ljq.1_Intron	NM_001143818	NP_001137290	P05120	PAI2_HUMAN	serine (or cysteine) proteinase inhibitor, clade	308					anti-apoptosis|blood coagulation|fibrinolysis|regulation of proteolysis	extracellular space|Golgi apparatus|plasma membrane	serine-type endopeptidase inhibitor activity			lung(1)|skin(1)	2		Esophageal squamous(42;0.131)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)|Urokinase(DB00013)	TTGAGGTATACATACCCCAGT	0.403													26	53	---	---	---	---	PASS
CDH7	1005	broad.mit.edu	37	18	63477136	63477136	+	Missense_Mutation	SNP	A	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr18:63477136A>G	uc002ljz.2	+	3	732	c.407A>G	c.(406-408)GAG>GGG	p.E136G	CDH7_uc002lka.2_Missense_Mutation_p.E136G|CDH7_uc002lkb.2_Missense_Mutation_p.E136G	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	136	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				GTGGAGCCCGAGTCGGAGTTT	0.522													80	107	---	---	---	---	PASS
ARRDC5	645432	broad.mit.edu	37	19	4891305	4891305	+	Missense_Mutation	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:4891305C>G	uc002mbm.2	-	3	782	c.782G>C	c.(781-783)CGC>CCC	p.R261P		NM_001080523	NP_001073992	A6NEK1	ARRD5_HUMAN	arrestin domain containing 5	261					signal transduction						0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0257)		GGTGTTGAAGCGGGTCACGGG	0.627													19	97	---	---	---	---	PASS
PTPRS	5802	broad.mit.edu	37	19	5212481	5212481	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:5212481C>T	uc002mbv.2	-	31	4870	c.4636G>A	c.(4636-4638)GAG>AAG	p.E1546K	PTPRS_uc002mbu.1_Missense_Mutation_p.E1115K|PTPRS_uc010xin.1_Missense_Mutation_p.E1088K|PTPRS_uc002mbw.2_Missense_Mutation_p.E1508K|PTPRS_uc002mbx.2_Missense_Mutation_p.E1103K|PTPRS_uc002mby.2_Missense_Mutation_p.E1099K	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1546	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.			E -> D (in Ref. 6; AAB21146).	cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		TGGCGGACCTCGCGTTTCTCA	0.468													6	4	---	---	---	---	PASS
EMR1	2015	broad.mit.edu	37	19	6919585	6919585	+	Missense_Mutation	SNP	T	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:6919585T>A	uc002mfw.2	+	13	1485	c.1447T>A	c.(1447-1449)TTT>ATT	p.F483I	EMR1_uc010dvc.2_Missense_Mutation_p.F483I|EMR1_uc010dvb.2_Missense_Mutation_p.F431I|EMR1_uc010xji.1_Missense_Mutation_p.F342I|EMR1_uc010xjj.1_Missense_Mutation_p.F306I	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	483	Ser/Thr-rich.|Extracellular (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					TTTTGTCTCCTTTGTGGGCAT	0.433													45	105	---	---	---	---	PASS
CLEC4M	10332	broad.mit.edu	37	19	7830087	7830087	+	Silent	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:7830087C>T	uc002mih.2	+	3	265	c.147C>T	c.(145-147)GGC>GGT	p.G49G	CLEC4M_uc010xjv.1_Intron|CLEC4M_uc002mhy.2_Intron|CLEC4M_uc010xjw.1_Intron|CLEC4M_uc010dvt.2_Silent_p.G49G|CLEC4M_uc010dvs.2_Silent_p.G48G|CLEC4M_uc010xjx.1_Silent_p.G21G|CLEC4M_uc002mhz.2_Silent_p.G49G|CLEC4M_uc002mic.2_Silent_p.G21G|CLEC4M_uc002mia.2_Intron	NM_001144910	NP_001138382	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M isoform	49	Cytoplasmic (Probable).				cell-cell recognition|endocytosis|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to plasma membrane	ICAM-3 receptor activity|mannose binding|metal ion binding|peptide antigen binding|virion binding			pancreas(1)	1						TTGGCCATGGCGCCCTGGTGC	0.637													61	94	---	---	---	---	PASS
CLEC4M	10332	broad.mit.edu	37	19	7830088	7830088	+	Missense_Mutation	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:7830088G>C	uc002mih.2	+	3	266	c.148G>C	c.(148-150)GCC>CCC	p.A50P	CLEC4M_uc010xjv.1_Intron|CLEC4M_uc002mhy.2_Intron|CLEC4M_uc010xjw.1_Intron|CLEC4M_uc010dvt.2_Missense_Mutation_p.A50P|CLEC4M_uc010dvs.2_Missense_Mutation_p.A49P|CLEC4M_uc010xjx.1_Missense_Mutation_p.A22P|CLEC4M_uc002mhz.2_Missense_Mutation_p.A50P|CLEC4M_uc002mic.2_Missense_Mutation_p.A22P|CLEC4M_uc002mia.2_Intron	NM_001144910	NP_001138382	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M isoform	50	Helical; Signal-anchor for type II membrane protein; (Probable).				cell-cell recognition|endocytosis|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to plasma membrane	ICAM-3 receptor activity|mannose binding|metal ion binding|peptide antigen binding|virion binding			pancreas(1)	1						TGGCCATGGCGCCCTGGTGCT	0.632													61	98	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9067600	9067600	+	Missense_Mutation	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:9067600G>C	uc002mkp.2	-	3	20050	c.19846C>G	c.(19846-19848)CCA>GCA	p.P6616A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6618	Thr-rich.|Extracellular (Potential).				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						ACTTTGGGTGGTTCTGAGTAG	0.448													127	154	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9071212	9071212	+	Missense_Mutation	SNP	T	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:9071212T>A	uc002mkp.2	-	3	16438	c.16234A>T	c.(16234-16236)ACA>TCA	p.T5412S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5414	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding	p.T5412K(1)		lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GCGGCTTCTGTGTGTGCAGTG	0.502													306	323	---	---	---	---	PASS
KANK2	25959	broad.mit.edu	37	19	11287340	11287340	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:11287340G>T	uc010dxv.2	-	9	2232	c.1674C>A	c.(1672-1674)AGC>AGA	p.S558R	KANK2_uc002mqm.2_Missense_Mutation_p.S566R|KANK2_uc002mqo.3_Missense_Mutation_p.S558R|KANK2_uc002mqp.1_Missense_Mutation_p.S367R	NM_015493	NP_056308	Q63ZY3	KANK2_HUMAN	ankyrin repeat domain 25 isoform 1	558											0						ACTCCTGCCGGCTGGTCTTGG	0.627													59	158	---	---	---	---	PASS
RLN3	117579	broad.mit.edu	37	19	14139032	14139032	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:14139032C>A	uc002mxw.1	+	1	16	c.16C>A	c.(16-18)CTG>ATG	p.L6M	RLN3_uc010dzj.1_Missense_Mutation_p.L6M	NM_080864	NP_543140	Q8WXF3	REL3_HUMAN	relaxin 3 preproprotein	6						extracellular region	hormone activity				0						CAGGTACATGCTGCTGCTGCT	0.637													17	72	---	---	---	---	PASS
CYP4F12	66002	broad.mit.edu	37	19	15806829	15806829	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:15806829G>T	uc002nbl.2	+	10	1260	c.1199G>T	c.(1198-1200)CGA>CTA	p.R400L		NM_023944	NP_076433			cytochrome P450, family 4, subfamily F,											skin(3)|ovary(2)|central_nervous_system(2)	7	Acute lymphoblastic leukemia(2;0.0367)					TTCATCTCCCGATGCTGCACC	0.612													28	107	---	---	---	---	PASS
OR10H5	284433	broad.mit.edu	37	19	15905405	15905405	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:15905405C>T	uc010xos.1	+	1	547	c.547C>T	c.(547-549)CCT>TCT	p.P183S		NM_001004466	NP_001004466	Q8NGA6	O10H5_HUMAN	olfactory receptor, family 10, subfamily H,	183	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CCACGTGCCACCTCTGTTGAA	0.577													38	82	---	---	---	---	PASS
ZNF626	199777	broad.mit.edu	37	19	20807714	20807714	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:20807714C>A	uc002npb.1	-	4	1119	c.969G>T	c.(967-969)AAG>AAT	p.K323N	ZNF626_uc002npc.1_Missense_Mutation_p.K247N	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	323	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TATAGGAGTACTTAAAGGCTT	0.388													33	105	---	---	---	---	PASS
ZNF257	113835	broad.mit.edu	37	19	22256295	22256295	+	Missense_Mutation	SNP	T	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:22256295T>G	uc010ecx.2	+	3	324	c.155T>G	c.(154-156)CTG>CGG	p.L52R	ZNF257_uc010ecy.2_Missense_Mutation_p.L20R	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	52	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				AAGCCAGACCTGATCACCTGT	0.418													33	120	---	---	---	---	PASS
ZNF675	171392	broad.mit.edu	37	19	23837199	23837199	+	Missense_Mutation	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:23837199C>G	uc002nri.2	-	4	718	c.536G>C	c.(535-537)AGA>ACA	p.R179T		NM_138330	NP_612203	Q8TD23	ZN675_HUMAN	zinc finger protein 675	179	C2H2-type 2; degenerate.				bone resorption|cytokine-mediated signaling pathway|hemopoiesis|I-kappaB kinase/NF-kappaB cascade|negative regulation of JNK cascade|negative regulation of osteoclast differentiation|negative regulation of protein kinase activity|negative regulation of transcription, DNA-dependent|regulation of ossification|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				GCAAAATGATCTGCCACATTC	0.299													11	25	---	---	---	---	PASS
KIAA0355	9710	broad.mit.edu	37	19	34832958	34832958	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:34832958G>A	uc002nvd.3	+	10	2978	c.2119G>A	c.(2119-2121)GCA>ACA	p.A707T		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	707										ovary(1)	1	Esophageal squamous(110;0.162)					CCAGGCTGGGGCACACACACC	0.627													74	78	---	---	---	---	PASS
LIN37	55957	broad.mit.edu	37	19	36245219	36245219	+	Missense_Mutation	SNP	A	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:36245219A>T	uc002obm.2	+	9	772	c.658A>T	c.(658-660)AGG>TGG	p.R220W	uc002obl.2_5'Flank	NM_019104	NP_061977	Q96GY3	LIN37_HUMAN	lin-37 homolog	220							protein binding				0	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CATCCGCCAGAGGTGAGCGTC	0.632													8	114	---	---	---	---	PASS
KIRREL2	84063	broad.mit.edu	37	19	36351927	36351927	+	Missense_Mutation	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:36351927G>C	uc002ocb.3	+	8	1257	c.1045G>C	c.(1045-1047)GGT>CGT	p.G349R	KIRREL2_uc002obz.3_Missense_Mutation_p.G349R|KIRREL2_uc002oca.3_Missense_Mutation_p.G299R|KIRREL2_uc002occ.3_Missense_Mutation_p.G296R|KIRREL2_uc002ocd.3_Missense_Mutation_p.G346R	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	349	Extracellular (Potential).|Ig-like C2-type 4.				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GACCCGCCGCGGTGGCGCGCA	0.677													10	20	---	---	---	---	PASS
ZNF566	84924	broad.mit.edu	37	19	36940468	36940468	+	Missense_Mutation	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:36940468C>G	uc002oea.3	-	5	750	c.668G>C	c.(667-669)GGC>GCC	p.G223A	ZNF566_uc010xte.1_Missense_Mutation_p.G223A|ZNF566_uc010xtf.1_Missense_Mutation_p.G224A|ZNF566_uc002oeb.3_Missense_Mutation_p.G223A|ZNF566_uc002oec.3_Missense_Mutation_p.G119A|ZNF566_uc010xtg.1_Missense_Mutation_p.G119A	NM_032838	NP_116227	Q969W8	ZN566_HUMAN	zinc finger protein 566 isoform 1	223					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.162)					GGGTTTCTTGCCAGTATGAAT	0.388													32	89	---	---	---	---	PASS
ZNF461	92283	broad.mit.edu	37	19	37130357	37130357	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:37130357C>T	uc002oem.2	-	6	1118	c.890G>A	c.(889-891)GGT>GAT	p.G297D	ZNF461_uc002oen.2_Missense_Mutation_p.G266D|ZNF461_uc010xtj.1_Missense_Mutation_p.G274D	NM_153257	NP_694989	Q8TAF7	ZN461_HUMAN	gonadotropin inducible transcription repressor	297					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			AGGTTTCTCACCAGTGTGAAT	0.383													3	28	---	---	---	---	PASS
ZNF461	92283	broad.mit.edu	37	19	37130358	37130358	+	Missense_Mutation	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:37130358C>G	uc002oem.2	-	6	1117	c.889G>C	c.(889-891)GGT>CGT	p.G297R	ZNF461_uc002oen.2_Missense_Mutation_p.G266R|ZNF461_uc010xtj.1_Missense_Mutation_p.G274R	NM_153257	NP_694989	Q8TAF7	ZN461_HUMAN	gonadotropin inducible transcription repressor	297					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			GGTTTCTCACCAGTGTGAATT	0.383													3	28	---	---	---	---	PASS
PAK4	10298	broad.mit.edu	37	19	39669214	39669214	+	Nonsense_Mutation	SNP	A	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:39669214A>T	uc002okj.1	+	11	2232	c.1771A>T	c.(1771-1773)AGA>TGA	p.R591*	PAK4_uc002okl.1_Nonsense_Mutation_p.R591*|PAK4_uc002okn.1_Nonsense_Mutation_p.R591*|PAK4_uc002okm.1_Nonsense_Mutation_p.R438*|PAK4_uc002oko.1_Nonsense_Mutation_p.R438*|PAK4_uc002okp.1_Nonsense_Mutation_p.R501*	NM_001014831	NP_001014831	O96013	PAK4_HUMAN	p21-activated kinase 4 isoform 1	591					cellular component movement|signal transduction	Golgi apparatus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	all_cancers(60;1.03e-07)|all_epithelial(25;9.66e-08)|all_lung(34;1.58e-07)|Lung NSC(34;1.88e-07)|Ovarian(47;0.0454)		Epithelial(26;4.82e-25)|all cancers(26;2.94e-22)|Lung(45;0.000797)|LUSC - Lung squamous cell carcinoma(53;0.00113)			GAACCGCACCAGATGAGGCCC	0.716													28	31	---	---	---	---	PASS
PRX	57716	broad.mit.edu	37	19	40903374	40903374	+	Silent	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:40903374C>A	uc002onr.2	-	7	1154	c.885G>T	c.(883-885)GTG>GTT	p.V295V	PRX_uc002onq.2_Silent_p.V156V|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	295					axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CAGGCAGCTCCACCTGGGGGA	0.687													9	9	---	---	---	---	PASS
MIA	8190	broad.mit.edu	37	19	41281517	41281517	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:41281517G>T	uc002opb.3	+	1	218	c.70G>T	c.(70-72)GGT>TGT	p.G24C	MIA_uc010xvt.1_RNA|RAB4B_uc002opc.1_5'Flank|RAB4B_uc002opd.1_5'Flank|RAB4B_uc002ope.1_5'Flank|EGLN2_uc010ehd.2_5'Flank	NM_006533	NP_006524	Q16674	MIA_HUMAN	melanoma inhibitory activity precursor	24					cell proliferation	extracellular space	growth factor activity				0			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)	GBM - Glioblastoma multiforme(1328;0.0199)		TGGTGTCAGGGGTGGTCCTAT	0.612													109	103	---	---	---	---	PASS
CEACAM21	90273	broad.mit.edu	37	19	42085842	42085842	+	Silent	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:42085842G>A	uc002ore.3	+	3	657	c.561G>A	c.(559-561)ACG>ACA	p.T187T	CEACAM21_uc002orc.1_RNA|CEACAM21_uc002ord.1_RNA|CEACAM21_uc002orf.2_RNA|CEACAM21_uc002org.3_Silent_p.T187T	NM_001098506	NP_001091976	Q3KPI0	CEA21_HUMAN	carcinoembryonic antigen-related cell adhesion	187	Ig-like C2-type.|Extracellular (Potential).					integral to membrane				ovary(1)	1						TGCAGGTCACGAAGAGGATGA	0.532													15	36	---	---	---	---	PASS
LIPE	3991	broad.mit.edu	37	19	42911519	42911519	+	Silent	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:42911519C>A	uc002otr.2	-	6	2221	c.1944G>T	c.(1942-1944)GTG>GTT	p.V648V	uc010eif.1_Intron	NM_005357	NP_005348	Q05469	LIPS_HUMAN	hormone-sensitive lipase	648					cholesterol metabolic process|protein phosphorylation|triglyceride catabolic process	caveola|cytosol	hormone-sensitive lipase activity|protein binding			ovary(1)|breast(1)	2		Prostate(69;0.00682)				CGTGGAAGTGCACTATCAGGG	0.662													13	29	---	---	---	---	PASS
ZNF285	26974	broad.mit.edu	37	19	44891866	44891866	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:44891866G>T	uc002ozd.3	-	4	628	c.541C>A	c.(541-543)CAT>AAT	p.H181N	ZFP112_uc010xwz.1_Intron|ZNF285_uc010xxa.1_Missense_Mutation_p.H188N	NM_152354	NP_689567	Q96NJ3	ZN285_HUMAN	zinc finger protein 285	181					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(2)	4						CTGTCATCATGCTGAGCACGT	0.468													73	96	---	---	---	---	PASS
CEACAM19	56971	broad.mit.edu	37	19	45176160	45176160	+	Missense_Mutation	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:45176160C>G	uc002ozo.3	+	2	828	c.348C>G	c.(346-348)GAC>GAG	p.D116E	CEACAM19_uc002ozp.3_Missense_Mutation_p.D116E	NM_020219	NP_064604	Q7Z692	CEA19_HUMAN	carcinoembryonic antigen-related cell adhesion	116	Extracellular (Potential).					integral to membrane					0	Lung NSC(12;0.00308)|all_lung(12;0.00806)	Prostate(69;0.0376)				AGCCTACAGACAGTGGCACCT	0.567													6	89	---	---	---	---	PASS
HIF3A	64344	broad.mit.edu	37	19	46825125	46825125	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:46825125G>T	uc002peh.2	+	10	1266	c.1237G>T	c.(1237-1239)GAC>TAC	p.D413Y	HIF3A_uc002peg.3_Missense_Mutation_p.D413Y|HIF3A_uc010xxx.1_RNA|HIF3A_uc002pei.3_Missense_Mutation_p.D357Y|HIF3A_uc002pej.1_Missense_Mutation_p.D344Y|HIF3A_uc002pek.2_Missense_Mutation_p.D357Y|HIF3A_uc010xxy.1_Missense_Mutation_p.D344Y|HIF3A_uc002pel.2_Missense_Mutation_p.D411Y|HIF3A_uc010xxz.1_Missense_Mutation_p.D362Y	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	413					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		CTGCAGCCCTGACCTCCGTCG	0.687													45	63	---	---	---	---	PASS
HIF3A	64344	broad.mit.edu	37	19	46825126	46825126	+	Missense_Mutation	SNP	A	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:46825126A>T	uc002peh.2	+	10	1267	c.1238A>T	c.(1237-1239)GAC>GTC	p.D413V	HIF3A_uc002peg.3_Missense_Mutation_p.D413V|HIF3A_uc010xxx.1_RNA|HIF3A_uc002pei.3_Missense_Mutation_p.D357V|HIF3A_uc002pej.1_Missense_Mutation_p.D344V|HIF3A_uc002pek.2_Missense_Mutation_p.D357V|HIF3A_uc010xxy.1_Missense_Mutation_p.D344V|HIF3A_uc002pel.2_Missense_Mutation_p.D411V|HIF3A_uc010xxz.1_Missense_Mutation_p.D362V	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	413					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		TGCAGCCCTGACCTCCGTCGC	0.687													45	63	---	---	---	---	PASS
NUCB1	4924	broad.mit.edu	37	19	49424479	49424479	+	Silent	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:49424479G>C	uc002plb.3	+	11	1143	c.1071G>C	c.(1069-1071)CGG>CGC	p.R357R	NUCB1_uc002pla.2_Silent_p.R357R|NUCB1_uc002plc.2_Silent_p.R357R|NUCB1_uc002pld.2_Silent_p.R20R	NM_006184	NP_006175	Q02818	NUCB1_HUMAN	nucleobindin 1 precursor	357	Potential.					ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|membrane|microtubule cytoskeleton	calcium ion binding|DNA binding				0		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000171)|all cancers(93;0.000333)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0244)		TGGCTGCCCGGGAGGCAGAGC	0.667													12	39	---	---	---	---	PASS
FTL	2512	broad.mit.edu	37	19	49468815	49468815	+	Silent	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:49468815C>G	uc002plo.2	+	1	250	c.51C>G	c.(49-51)GTC>GTG	p.V17V	FTL_uc002pln.1_Silent_p.V17V	NM_000146	NP_000137	P02792	FRIL_HUMAN	ferritin, light polypeptide	17	Ferritin-like diiron.				cell death|cellular iron ion homeostasis|cellular membrane organization|iron ion transport|post-Golgi vesicle-mediated transport	cytosol|intracellular ferritin complex	ferric iron binding|identical protein binding|oxidoreductase activity				0		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000152)|all cancers(93;0.000435)|GBM - Glioblastoma multiforme(486;0.0171)|Epithelial(262;0.0267)	Iron Dextran(DB00893)	AGGCAGCCGTCAACAGCCTGG	0.572													47	102	---	---	---	---	PASS
SLC17A7	57030	broad.mit.edu	37	19	49934604	49934604	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:49934604C>T	uc002pnp.2	-	10	1424	c.1252G>A	c.(1252-1254)GCC>ACC	p.A418T	SLC17A7_uc002pno.2_Intron	NM_020309	NP_064705	Q9P2U7	VGLU1_HUMAN	solute carrier family 17, member 7	418	Helical; (Potential).				glutamate secretion|neurotransmitter secretion	cell junction|clathrin sculpted glutamate transport vesicle membrane|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|sodium-dependent phosphate transmembrane transporter activity|sodium:inorganic phosphate symporter activity			ovary(1)|pancreas(1)|skin(1)	3		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(486;0.0245)		CCAGAGATGGCGAAGCCGCTG	0.622													34	80	---	---	---	---	PASS
MYH14	79784	broad.mit.edu	37	19	50796843	50796843	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:50796843C>T	uc002prr.1	+	37	5292	c.5245C>T	c.(5245-5247)CGT>TGT	p.R1749C	MYH14_uc010enu.1_Missense_Mutation_p.R1790C|MYH14_uc002prq.1_Missense_Mutation_p.R1757C|MYH14_uc010ycb.1_Missense_Mutation_p.R100C|MYH14_uc002prs.1_Missense_Mutation_p.R100C	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	1749	Potential.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		GGAGGAGAAGCGTCAGCTGGA	0.617													5	30	---	---	---	---	PASS
NKG7	4818	broad.mit.edu	37	19	51875032	51875032	+	Silent	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:51875032C>T	uc002pwj.2	-	4	668	c.497G>A	c.(496-498)TGA>TAA	p.*166*	CLDND2_uc002pwi.1_5'Flank|NKG7_uc002pwk.2_Silent_p.*131*	NM_005601	NP_005592	Q16617	NKG7_HUMAN	natural killer cell group 7 sequence	166						integral to plasma membrane				central_nervous_system(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000211)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		GCCTTCTGCTCACAAGGTTTC	0.587													138	351	---	---	---	---	PASS
VN1R4	317703	broad.mit.edu	37	19	53770644	53770644	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:53770644C>T	uc010ydu.1	-	1	275	c.275G>A	c.(274-276)GGA>GAA	p.G92E		NM_173857	NP_776256	Q7Z5H5	VN1R4_HUMAN	vomeronasal 1 receptor 4	92	Helical; Name=3; (Potential).				response to pheromone	actin cytoskeleton|cytoplasm|integral to membrane|plasma membrane	pheromone receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.00294)		AATGGACACTCCCCTGCCCAC	0.498										HNSCC(26;0.072)			9	12	---	---	---	---	PASS
LILRB2	10288	broad.mit.edu	37	19	54782142	54782142	+	Silent	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:54782142G>A	uc002qfb.2	-	7	1496	c.1230C>T	c.(1228-1230)CCC>CCT	p.P410P	LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_Silent_p.P410P|LILRB2_uc010erj.2_RNA|LILRB2_uc002qfc.2_Silent_p.P410P|LILRB2_uc010yet.1_Silent_p.P294P|LILRB2_uc010yeu.1_RNA	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,	410	Extracellular (Potential).|Ig-like C2-type 4.				cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GGGGCTCACTGGGGTGAGACA	0.642													30	92	---	---	---	---	PASS
LAIR1	3903	broad.mit.edu	37	19	54867018	54867018	+	Silent	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:54867018C>A	uc002qfk.1	-	10	1033	c.723G>T	c.(721-723)CTG>CTT	p.L241L	LAIR1_uc002qfl.1_Silent_p.L224L|LAIR1_uc002qfm.1_Silent_p.L240L|LAIR1_uc002qfn.1_Silent_p.L223L|LAIR1_uc010yex.1_Silent_p.L234L|LAIR1_uc002qfo.2_Silent_p.L223L	NM_002287	NP_002278	Q6GTX8	LAIR1_HUMAN	leukocyte-associated immunoglobulin-like	241	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein binding|receptor activity			ovary(4)	4	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0573)		TCCCTGCAGCCAGGGCCTAAG	0.592													52	57	---	---	---	---	PASS
LAIR1	3903	broad.mit.edu	37	19	54872558	54872558	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:54872558G>T	uc002qfk.1	-	3	639	c.329C>A	c.(328-330)TCT>TAT	p.S110Y	LAIR1_uc002qfl.1_Missense_Mutation_p.S110Y|LAIR1_uc002qfm.1_Missense_Mutation_p.S109Y|LAIR1_uc002qfn.1_Missense_Mutation_p.S109Y|LAIR1_uc010yex.1_Missense_Mutation_p.S103Y|LAIR1_uc002qfo.2_Missense_Mutation_p.S92Y	NM_002287	NP_002278	Q6GTX8	LAIR1_HUMAN	leukocyte-associated immunoglobulin-like	110	Extracellular (Potential).|Ig-like C2-type.					integral to membrane|plasma membrane	protein binding|receptor activity			ovary(4)	4	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0573)		ACTCTGCTCAGACCATTTAGG	0.562													53	180	---	---	---	---	PASS
LILRA2	11027	broad.mit.edu	37	19	55086421	55086421	+	Silent	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:55086421G>A	uc002qgg.3	+	4	665	c.576G>A	c.(574-576)TCG>TCA	p.S192S	LILRA2_uc010ern.2_Silent_p.S192S|LILRA2_uc002qgf.2_Silent_p.S192S|LILRA2_uc010yfe.1_Silent_p.S192S|LILRA2_uc010yff.1_Silent_p.S180S|LILRA2_uc010ero.2_Silent_p.S180S|LILRA2_uc010yfg.1_Silent_p.S192S	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	192	Extracellular (Potential).|Ig-like C2-type 2.				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		GCAGGTGGTCGTACAGGTGCT	0.572													35	159	---	---	---	---	PASS
FCAR	2204	broad.mit.edu	37	19	55399446	55399446	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:55399446C>A	uc002qhr.1	+	4	631	c.434C>A	c.(433-435)ACG>AAG	p.T145K	FCAR_uc002qhq.2_Missense_Mutation_p.T145K|FCAR_uc002qhs.1_Intron|FCAR_uc002qht.1_Missense_Mutation_p.T118K|FCAR_uc010esi.1_Intron|FCAR_uc002qhu.1_Intron|FCAR_uc002qhv.1_Missense_Mutation_p.T145K|FCAR_uc002qhw.1_Missense_Mutation_p.T133K|FCAR_uc002qhx.1_Intron|FCAR_uc002qhy.1_Missense_Mutation_p.T133K|FCAR_uc002qhz.1_Missense_Mutation_p.T133K|FCAR_uc002qia.1_Missense_Mutation_p.T36K	NM_002000	NP_001991	P24071	FCAR_HUMAN	Fc alpha receptor isoform a precursor	145	Ig-like C2-type 2.|Extracellular (Potential).				immune response	extracellular region|integral to plasma membrane	IgA binding|receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(193;0.0443)		ATTTCCCTCACGTGCAGCTCA	0.502													36	34	---	---	---	---	PASS
ZNF835	90485	broad.mit.edu	37	19	57176042	57176042	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:57176042G>T	uc010ygo.1	-	2	591	c.591C>A	c.(589-591)TTC>TTA	p.F197L	ZNF835_uc010ygn.1_Missense_Mutation_p.F175L	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						AGCCCTGGCTGAAGGCCTTGC	0.706													5	9	---	---	---	---	PASS
PEG3	5178	broad.mit.edu	37	19	57326041	57326041	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:57326041G>T	uc002qnu.2	-	7	4120	c.3769C>A	c.(3769-3771)CAG>AAG	p.Q1257K	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.Q1228K|PEG3_uc002qnv.2_Missense_Mutation_p.Q1257K|PEG3_uc002qnw.2_Missense_Mutation_p.Q1133K|PEG3_uc002qnx.2_Missense_Mutation_p.Q1131K|PEG3_uc010etr.2_Missense_Mutation_p.Q1257K	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1257					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TCAGCCATCTGGCTCTGCTCC	0.473													23	38	---	---	---	---	PASS
PEG3	5178	broad.mit.edu	37	19	57326467	57326467	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:57326467C>A	uc002qnu.2	-	7	3694	c.3343G>T	c.(3343-3345)GGC>TGC	p.G1115C	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.G1086C|PEG3_uc002qnv.2_Missense_Mutation_p.G1115C|PEG3_uc002qnw.2_Missense_Mutation_p.G991C|PEG3_uc002qnx.2_Missense_Mutation_p.G989C|PEG3_uc010etr.2_Missense_Mutation_p.G1115C	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1115	C2H2-type 6.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TCCACAAAGCCCAGGCCACAG	0.493													84	91	---	---	---	---	PASS
C20orf46	55321	broad.mit.edu	37	20	1161498	1161498	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:1161498C>A	uc010gaa.1	-	3	984	c.765G>T	c.(763-765)AGG>AGT	p.R255S	C20orf46_uc002weq.1_Missense_Mutation_p.R255S	NM_018354	NP_060824	Q9NUR3	CT046_HUMAN	hypothetical protein LOC55321	255						integral to membrane	protein binding			ovary(1)	1						GTTCTTAAGACCTCTGGAGGG	0.592													40	90	---	---	---	---	PASS
PAK7	57144	broad.mit.edu	37	20	9546901	9546901	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:9546901G>A	uc002wnl.2	-	6	1666	c.1121C>T	c.(1120-1122)CCG>CTG	p.P374L	PAK7_uc002wnk.2_Missense_Mutation_p.P374L|PAK7_uc002wnj.2_Missense_Mutation_p.P374L|PAK7_uc010gby.1_Missense_Mutation_p.P374L	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	374	Linker.						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)			GTACCCAGACGGGTACTGGTG	0.572													96	212	---	---	---	---	PASS
PCSK2	5126	broad.mit.edu	37	20	17462428	17462428	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:17462428G>A	uc002wpm.2	+	12	1950	c.1630G>A	c.(1630-1632)GAC>AAC	p.D544N	PCSK2_uc002wpl.2_Missense_Mutation_p.D525N|PCSK2_uc010zrm.1_Missense_Mutation_p.D509N|PCSK2_uc002wpn.2_Missense_Mutation_p.D198N	NM_002594	NP_002585	P16519	NEC2_HUMAN	proprotein convertase subtilisin/kexin type 2	544					enkephalin processing|insulin processing|islet amyloid polypeptide processing	extracellular space|membrane|soluble fraction|transport vesicle	serine-type endopeptidase activity			ovary(3)|central_nervous_system(2)|large_intestine(1)|pancreas(1)	7					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AAGGGATGACGACTCCAAGGT	0.577													12	76	---	---	---	---	PASS
CRNKL1	51340	broad.mit.edu	37	20	20033174	20033174	+	Missense_Mutation	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:20033174C>G	uc002wrs.2	-	2	328	c.296G>C	c.(295-297)GGT>GCT	p.G99A	C20orf26_uc010gcw.1_5'Flank|C20orf26_uc010zse.1_5'Flank|C20orf26_uc002wru.2_5'Flank|CRNKL1_uc002wrt.1_Missense_Mutation_p.G87A	NM_016652	NP_057736	Q9BZJ0	CRNL1_HUMAN	crooked neck-like 1 protein	99					spliceosome assembly	catalytic step 2 spliceosome|cytoplasm|nuclear speck	RNA binding			ovary(2)|large_intestine(1)	3						TCCATGGTGACCAGGCTGCGC	0.622													4	73	---	---	---	---	PASS
NKX2-4	644524	broad.mit.edu	37	20	21376578	21376578	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:21376578C>T	uc010gcz.2	-	2	1046	c.1036G>A	c.(1036-1038)GCC>ACC	p.A346T		NM_033176	NP_149416	Q9H2Z4	NKX24_HUMAN	NK2 homeobox 4	346					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AGCAGGTTGGCGCCCAGGACG	0.532													34	47	---	---	---	---	PASS
GGTLC1	92086	broad.mit.edu	37	20	23967093	23967093	+	Silent	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:23967093G>T	uc002wts.2	-	2	289	c.156C>A	c.(154-156)GCC>GCA	p.A52A	GGTLC1_uc002wtu.2_Silent_p.A52A	NM_178312	NP_842564	Q9BX51	GGTL1_HUMAN	gamma-glutamyltransferase light chain 1	52							gamma-glutamyltransferase activity			ovary(1)	1						TGGTGCTGGTGGCGGACACAG	0.632													18	25	---	---	---	---	PASS
C20orf71	128861	broad.mit.edu	37	20	31805393	31805393	+	Silent	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:31805393G>A	uc002wyr.2	+	1	259	c.51G>A	c.(49-51)TTG>TTA	p.L17L	C20orf71_uc002wys.2_Silent_p.L17L	NM_178466	NP_848561	Q9BQP9	SPLC3_HUMAN	short long palate, lung and nasal epithelium	17						extracellular region	lipid binding			ovary(1)|skin(1)	2						TGCTGGCCTTGCCCTTGGCAC	0.602													59	76	---	---	---	---	PASS
C20orf117	140710	broad.mit.edu	37	20	35422806	35422806	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:35422806C>A	uc002xgd.1	-	14	3292	c.2965G>T	c.(2965-2967)GCC>TCC	p.A989S	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	989											0		Myeloproliferative disorder(115;0.00874)				CAGGCCAGGGCACCCAGGTGG	0.642													20	42	---	---	---	---	PASS
KIAA1755	85449	broad.mit.edu	37	20	36870069	36870069	+	Missense_Mutation	SNP	C	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:36870069C>T	uc002xhy.1	-	3	736	c.464G>A	c.(463-465)AGT>AAT	p.S155N	KIAA1755_uc002xhz.1_Missense_Mutation_p.S155N	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	155										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)				CTCAAAGTCACTGTTGATGGC	0.512													68	127	---	---	---	---	PASS
PLTP	5360	broad.mit.edu	37	20	44530927	44530927	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:44530927C>A	uc002xqn.1	-	12	1234	c.1154G>T	c.(1153-1155)CGC>CTC	p.R385L	PLTP_uc002xql.1_Missense_Mutation_p.R297L|PLTP_uc002xqm.1_Missense_Mutation_p.R405L|PLTP_uc002xqo.1_Missense_Mutation_p.R333L|PLTP_uc002xqp.1_Missense_Mutation_p.R385L|PLTP_uc002xqq.1_Missense_Mutation_p.R354L|PLTP_uc010zxj.1_Missense_Mutation_p.R290L|PLTP_uc010ghj.1_Missense_Mutation_p.R385L	NM_006227	NP_006218	P55058	PLTP_HUMAN	phospholipid transfer protein isoform a	385					cellular lipid metabolic process|lipid transport	extracellular region	lipid binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CAGCTGCGTGCGCAGGGCCTT	0.602													28	57	---	---	---	---	PASS
DDX27	55661	broad.mit.edu	37	20	47836040	47836040	+	Missense_Mutation	SNP	G	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:47836040G>C	uc002xuh.2	+	1	209	c.148G>C	c.(148-150)GTG>CTG	p.V50L		NM_017895	NP_060365	Q96GQ7	DDX27_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 27	50	Asp/Glu/Lys-rich.					nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			kidney(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.000899)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			CGAGGTGCCGGTGGAGCCCGA	0.602													19	51	---	---	---	---	PASS
KCNQ2	3785	broad.mit.edu	37	20	62073850	62073850	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:62073850C>A	uc002yey.1	-	5	902	c.725G>T	c.(724-726)TGT>TTT	p.C242F	KCNQ2_uc002yez.1_Missense_Mutation_p.C242F|KCNQ2_uc002yfa.1_Missense_Mutation_p.C242F|KCNQ2_uc002yfb.1_Missense_Mutation_p.C242F|KCNQ2_uc011aax.1_Missense_Mutation_p.C242F|KCNQ2_uc002yfc.1_Missense_Mutation_p.C242F	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	242	Helical; Name=Segment S5; (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	CAGGATGAGACAAAGGAAGCC	0.478													75	211	---	---	---	---	PASS
TPTE	7179	broad.mit.edu	37	21	10944770	10944770	+	Missense_Mutation	SNP	G	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr21:10944770G>A	uc002yip.1	-	11	832	c.464C>T	c.(463-465)TCT>TTT	p.S155F	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.S137F|TPTE_uc002yir.1_Missense_Mutation_p.S117F|TPTE_uc010gkv.1_Missense_Mutation_p.S17F	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	155					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		AAATAAGTCAGAAAAATACTG	0.318													19	187	---	---	---	---	PASS
NCAM2	4685	broad.mit.edu	37	21	22696781	22696781	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr21:22696781G>T	uc002yld.1	+	6	947	c.698G>T	c.(697-699)AGG>ATG	p.R233M	NCAM2_uc011acb.1_Missense_Mutation_p.R91M|NCAM2_uc011acc.1_Missense_Mutation_p.R258M	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	233	Ig-like C2-type 3.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		TTTTCCTGCAGGGCCTCAGGC	0.498													34	72	---	---	---	---	PASS
ITGB2	3689	broad.mit.edu	37	21	46309964	46309964	+	Missense_Mutation	SNP	A	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr21:46309964A>G	uc002zgd.2	-	11	1630	c.1586T>C	c.(1585-1587)ATA>ACA	p.I529T	ITGB2_uc002zge.2_Missense_Mutation_p.I529T|ITGB2_uc002zgf.3_Missense_Mutation_p.I529T|ITGB2_uc011afl.1_Missense_Mutation_p.I451T|ITGB2_uc010gpw.2_Missense_Mutation_p.I472T|ITGB2_uc002zgg.2_Missense_Mutation_p.I529T	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	529	II.|Extracellular (Potential).|Cysteine-rich tandem repeats.				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	CTGCCCGTATATCAGCTTGCC	0.642													57	81	---	---	---	---	PASS
TSSK2	23617	broad.mit.edu	37	22	19119619	19119619	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr22:19119619C>A	uc002zow.2	+	1	1299	c.707C>A	c.(706-708)CCG>CAG	p.P236Q	DGCR14_uc002zot.2_3'UTR|DGCR14_uc002zou.2_3'UTR|DGCR14_uc002zov.2_RNA	NM_053006	NP_443732	Q96PF2	TSSK2_HUMAN	testis-specific serine kinase 2	236	Protein kinase.				cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)	1	Colorectal(54;0.0993)					GTGGACTTCCCGCGCTCCAAG	0.597													77	133	---	---	---	---	PASS
TRMT2A	27037	broad.mit.edu	37	22	20102130	20102130	+	Silent	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr22:20102130C>G	uc002zrk.1	-	8	1415	c.1200G>C	c.(1198-1200)CTG>CTC	p.L400L	TRMT2A_uc002zrl.1_Silent_p.L400L|TRMT2A_uc002zrm.1_Silent_p.L222L|TRMT2A_uc002zrn.1_Silent_p.L400L|RANBP1_uc011ahl.1_5'Flank|RANBP1_uc002zro.1_5'Flank|RANBP1_uc002zrp.2_5'Flank	NM_182984	NP_892029	Q8IZ69	TRM2A_HUMAN	HpaII tiny fragments locus 9C	400					RNA processing		nucleotide binding|RNA binding|RNA methyltransferase activity			breast(1)	1						TCCGGAAGGTCAGCCCTAGCA	0.632													65	157	---	---	---	---	PASS
LARGE	9215	broad.mit.edu	37	22	34157444	34157444	+	Missense_Mutation	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr22:34157444C>G	uc003and.3	-	3	599	c.20G>C	c.(19-21)GGG>GCG	p.G7A	LARGE_uc003ane.3_Missense_Mutation_p.G7A|LARGE_uc010gwp.2_Missense_Mutation_p.G7A|LARGE_uc011ame.1_Intron|LARGE_uc011amf.1_Missense_Mutation_p.G7A	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	7	Cytoplasmic (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				TTTCCGTCTCCCCCTGCAGAT	0.532													55	78	---	---	---	---	PASS
DDX3X	1654	broad.mit.edu	37	X	41204467	41204467	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chrX:41204467G>T	uc004dfe.2	+	11	1915	c.1060G>T	c.(1060-1062)GAT>TAT	p.D354Y	DDX3X_uc004dff.2_Missense_Mutation_p.D354Y|DDX3X_uc011mkq.1_Missense_Mutation_p.D338Y|DDX3X_uc011mkr.1_Missense_Mutation_p.D354Y|DDX3X_uc011mks.1_Intron|DDX3X_uc004dfg.2_RNA|DDX3X_uc011mkt.1_RNA	NM_001356	NP_001347	O00571	DDX3X_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3	354	Necessary for interaction with XPO1.|Helicase ATP-binding.				interspecies interaction between organisms	cytoplasm|nuclear speck	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding|RNA binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6						TCGGATGTTGGATATGGGGTT	0.398										HNSCC(61;0.18)			105	24	---	---	---	---	PASS
CPXCR1	53336	broad.mit.edu	37	X	88008875	88008875	+	Missense_Mutation	SNP	C	A	A			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chrX:88008875C>A	uc004efd.3	+	3	719	c.460C>A	c.(460-462)CAT>AAT	p.H154N	CPXCR1_uc004efc.3_Missense_Mutation_p.H154N	NM_033048	NP_149037	Q8N123	CPXCR_HUMAN	CPX chromosome region, candidate 1	154						intracellular	zinc ion binding			ovary(3)	3						TATGATTCTCCATCTGCTATG	0.368													4	41	---	---	---	---	PASS
BTK	695	broad.mit.edu	37	X	100615711	100615711	+	Silent	SNP	T	C	C			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chrX:100615711T>C	uc004ehg.2	-	8	814	c.621A>G	c.(619-621)GCA>GCG	p.A207A	BTK_uc004ehf.2_5'Flank|BTK_uc010nnh.2_5'Flank|BTK_uc010nni.2_5'Flank|BTK_uc004ehe.2_5'Flank|BTK_uc010nnj.2_5'Flank|BTK_uc010nnk.2_5'Flank|BTK_uc010nnl.2_5'Flank|BTK_uc010nnm.2_5'Flank|BTK_uc010nnn.2_Silent_p.A207A|BTK_uc010nno.2_Silent_p.A241A|BTK_uc004ehh.1_5'Flank|BTK_uc004ehi.2_Silent_p.A207A	NM_000061	NP_000052	Q06187	BTK_HUMAN	Bruton agammaglobulinemia tyrosine kinase	207					calcium-mediated signaling|induction of apoptosis by extracellular signals|mesoderm development	cytosol|membrane raft|nucleus|plasma membrane	ATP binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol-3,4,5-trisphosphate binding			lung(3)|central_nervous_system(2)|ovary(1)	6						CTGGTGCTGCTGCTGGCTCAG	0.463									Agammaglobulinemia_X-linked				70	17	---	---	---	---	PASS
H2BFWT	158983	broad.mit.edu	37	X	103267886	103267886	+	Missense_Mutation	SNP	C	G	G			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chrX:103267886C>G	uc004elr.2	-	1	371	c.347G>C	c.(346-348)CGC>CCC	p.R116P		NM_001002916	NP_001002916	Q7Z2G1	H2BWT_HUMAN	H2B histone family, member W, testis-specific	116					nucleosome assembly	nuclear membrane|nucleosome	DNA binding			ovary(1)	1						GGTGGCGATGCGGTCCAATAT	0.642													48	11	---	---	---	---	PASS
FAM50A	9130	broad.mit.edu	37	X	153674214	153674214	+	Missense_Mutation	SNP	G	T	T			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chrX:153674214G>T	uc004fll.3	+	3	349	c.251G>T	c.(250-252)CGG>CTG	p.R84L		NM_004699	NP_004690	Q14320	FA50A_HUMAN	XAP-5 protein	84					spermatogenesis	nucleus				ovary(1)	1	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GTGAAGGAGCGGGAGAAGCAG	0.607													23	12	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	1	243251423	243251423	+	RNA	DEL	A	-	-			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr1:243251423delA	uc001hzq.1	-	8		c.1209delT								Homo sapiens cDNA FLJ52610 complete cds.																		actccatctcaaaaaaaaaaa	0.179													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	90260137	90260137	+	RNA	DEL	C	-	-			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr2:90260137delC	uc010fhm.2	+	30		c.4120delC								Parts of antibodies, mostly variable regions.																		AAAGTGGGGTCCCATCAAGGT	0.468													205	103	---	---	---	---	
EPHA5	2044	broad.mit.edu	37	4	66467780	66467780	+	Frame_Shift_Del	DEL	C	-	-			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:66467780delC	uc003hcy.2	-	3	682	c.489delG	c.(487-489)GGGfs	p.G163fs	EPHA5_uc003hcx.2_Frame_Shift_Del_p.G94fs|EPHA5_uc003hcz.2_Frame_Shift_Del_p.G163fs|EPHA5_uc011cah.1_Frame_Shift_Del_p.G163fs|EPHA5_uc011cai.1_Frame_Shift_Del_p.G163fs|EPHA5_uc003hda.2_Frame_Shift_Del_p.G163fs	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	163	Extracellular (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						TGATGTTTCTCCCATTCTGAT	0.408										TSP Lung(17;0.13)			57	70	---	---	---	---	
COL25A1	84570	broad.mit.edu	37	4	109782124	109782124	+	Frame_Shift_Del	DEL	C	-	-			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr4:109782124delC	uc003hze.1	-	22	1732	c.1201delG	c.(1201-1203)GATfs	p.D401fs	COL25A1_uc003hzg.2_Frame_Shift_Del_p.D401fs|COL25A1_uc003hzd.2_RNA|COL25A1_uc003hzf.2_Frame_Shift_Del_p.D167fs	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1	401	Extracellular (Potential).|Collagen-like 5.					collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		TCTCCACGATCCCCCTTTTCC	0.433													28	32	---	---	---	---	
GCNT2	2651	broad.mit.edu	37	6	10529727	10529727	+	Frame_Shift_Del	DEL	T	-	-			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr6:10529727delT	uc010joo.2	+	3	1134	c.583delT	c.(583-585)TTTfs	p.F195fs	GCNT2_uc010jol.2_Intron|GCNT2_uc010jom.2_Intron|GCNT2_uc010jop.2_Intron|GCNT2_uc003mza.2_Intron|GCNT2_uc003mzc.3_Frame_Shift_Del_p.F194fs|GCNT2_uc010jon.2_Frame_Shift_Del_p.F194fs	NM_145649	NP_663624	Q8N0V5	GNT2A_HUMAN	glucosaminyl (N-acetyl) transferase 2,	195	Lumenal (Potential).					Golgi membrane|integral to membrane	N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity			ovary(2)	2	Ovarian(93;0.107)|Breast(50;0.148)	all_hematologic(90;0.107)		KIRC - Kidney renal clear cell carcinoma(1;0.099)|Kidney(1;0.119)		CGGGCAAGACTTTCCCCTGAA	0.532													56	30	---	---	---	---	
ANO3	63982	broad.mit.edu	37	11	26619912	26619912	+	Frame_Shift_Del	DEL	C	-	-			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:26619912delC	uc001mqt.3	+	15	1593	c.1448delC	c.(1447-1449)GCCfs	p.A483fs	ANO3_uc010rdr.1_Frame_Shift_Del_p.A467fs|ANO3_uc010rds.1_Frame_Shift_Del_p.A322fs|ANO3_uc010rdt.1_Frame_Shift_Del_p.A337fs	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	483	Helical; (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TATTTTATAGCCACAGTCTTC	0.308													87	87	---	---	---	---	
TMEM133	83935	broad.mit.edu	37	11	100863394	100863394	+	Frame_Shift_Del	DEL	G	-	-			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr11:100863394delG	uc001pgf.2	+	1	584	c.355delG	c.(355-357)GGTfs	p.G119fs		NM_032021	NP_114410	Q9H2Q1	TM133_HUMAN	transmembrane protein 133	119	Helical; (Potential).					integral to membrane					0		Acute lymphoblastic leukemia(157;0.000869)|all_hematologic(158;0.014)		BRCA - Breast invasive adenocarcinoma(274;0.0675)		AGTTCCACTTGGTAATAACGT	0.393													205	112	---	---	---	---	
RACGAP1	29127	broad.mit.edu	37	12	50388016	50388016	+	Frame_Shift_Del	DEL	C	-	-			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr12:50388016delC	uc001rvt.2	-	14	1547	c.1237delG	c.(1237-1239)GATfs	p.D413fs	RACGAP1_uc009zlm.1_Frame_Shift_Del_p.D413fs|RACGAP1_uc001rvs.2_Frame_Shift_Del_p.D413fs|RACGAP1_uc001rvu.2_Frame_Shift_Del_p.D413fs	NM_013277	NP_037409	Q9H0H5	RGAP1_HUMAN	Rac GTPase activating protein 1	413	Rho-GAP.				blood coagulation|cytokinesis, actomyosin contractile ring assembly|cytokinesis, initiation of separation|embryo development|microtubule-based movement|neuroblast proliferation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|spermatogenesis|sulfate transport	acrosomal vesicle|cytosol|microtubule|midbody|nucleus|spindle	alpha-tubulin binding|beta-tubulin binding|gamma-tubulin binding|GTPase activator activity|metal ion binding			kidney(1)	1						TGGATATCATCCACTTTGCTG	0.448													163	100	---	---	---	---	
NOTCH3	4854	broad.mit.edu	37	19	15302611	15302611	+	Frame_Shift_Del	DEL	C	-	-			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:15302611delC	uc002nan.2	-	5	823	c.747delG	c.(745-747)GGGfs	p.G249fs	NOTCH3_uc002nao.1_Frame_Shift_Del_p.G249fs	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	249	Extracellular (Potential).|EGF-like 6; calcium-binding (Potential).		Missing (in CADASIL).		Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			CCACGCATGTCCCCCCATTGA	0.622													75	48	---	---	---	---	
ZNF160	90338	broad.mit.edu	37	19	53572826	53572826	+	Frame_Shift_Del	DEL	C	-	-			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr19:53572826delC	uc010eqk.2	-	7	1377	c.961delG	c.(961-963)GTCfs	p.V321fs	ZNF160_uc002qaq.3_Frame_Shift_Del_p.V321fs|ZNF160_uc002qar.3_Frame_Shift_Del_p.V321fs	NM_001102603	NP_001096073	Q9HCG1	ZN160_HUMAN	zinc finger protein 160	321	C2H2-type 3.				hemopoiesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(134;0.02)		TGCCTGAAGACCTTGCCACAC	0.418													97	79	---	---	---	---	
GGTLC1	92086	broad.mit.edu	37	20	23967142	23967142	+	Frame_Shift_Del	DEL	C	-	-			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chr20:23967142delC	uc002wts.2	-	2	240	c.107delG	c.(106-108)GGCfs	p.G36fs	GGTLC1_uc002wtu.2_Frame_Shift_Del_p.G36fs	NM_178312	NP_842564	Q9BX51	GGTL1_HUMAN	gamma-glutamyltransferase light chain 1	36							gamma-glutamyltransferase activity			ovary(1)	1						GTGAGCAGTGCCCCCGTCATC	0.622													61	31	---	---	---	---	
SAGE1	55511	broad.mit.edu	37	X	134989943	134989943	+	Frame_Shift_Del	DEL	C	-	-			TCGA-18-5592-01A-01D-1632-08	TCGA-18-5592-11A-11D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	1a6da454-8faf-4725-a702-55d29da461a5	18e8906f-4e3d-4b55-bbeb-8fa2993d64a5	g.chrX:134989943delC	uc004ezh.2	+	10	1269	c.1102delC	c.(1102-1104)CCAfs	p.P368fs	SAGE1_uc010nry.1_Frame_Shift_Del_p.P337fs|SAGE1_uc011mvv.1_Intron	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	368										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					AACTGTTCTACCAGGGCTTGC	0.438													43	101	---	---	---	---