Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	filter
TAS1R1	80835	broad.mit.edu	37	1	6634893	6634893	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:6634893G>T	uc001ant.2	+	3	701	c.701G>T	c.(700-702)GGT>GTT	p.G234V	TAS1R1_uc001anu.2_Intron|TAS1R1_uc001anv.2_Intron|TAS1R1_uc001anw.2_Missense_Mutation_p.G234V	NM_138697	NP_619642	Q7RTX1	TS1R1_HUMAN	sweet taste receptor T1r isoform b	234	Extracellular (Potential).				sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;8.73e-34)|all_epithelial(116;9.26e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Breast(487;0.000353)|Renal(390;0.0007)|Colorectal(325;0.00104)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.29e-07)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|BRCA - Breast invasive adenocarcinoma(365;0.00108)|STAD - Stomach adenocarcinoma(132;0.0167)|READ - Rectum adenocarcinoma(331;0.0642)		CAGGCCACTGGTCAGGGGATC	0.617													7	59	---	---	---	---	PASS
HNRNPR	10236	broad.mit.edu	37	1	23637423	23637423	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:23637423C>A	uc001bgr.3	-	11	1585	c.1426G>T	c.(1426-1428)GGT>TGT	p.G476C	HNRNPR_uc001bgo.2_Missense_Mutation_p.G86C|HNRNPR_uc001bgp.3_Missense_Mutation_p.G479C|HNRNPR_uc009vqk.2_Missense_Mutation_p.G378C|HNRNPR_uc001bgs.3_Missense_Mutation_p.G375C|HNRNPR_uc010odw.1_Missense_Mutation_p.G438C|HNRNPR_uc010odx.1_Missense_Mutation_p.G316C|HNRNPR_uc009vql.2_Missense_Mutation_p.G337C	NM_005826	NP_005817	O43390	HNRPR_HUMAN	heterogeneous nuclear ribonucleoprotein R	476	2.|3 X 11 AA approximate repeats of D-D-Y-Y- G-Y-D-Y-H-D-Y.|RNA-binding RGG-box.					catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00394)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;6.83e-27)|Colorectal(126;6.01e-08)|COAD - Colon adenocarcinoma(152;3.32e-06)|GBM - Glioblastoma multiforme(114;6.69e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|KIRC - Kidney renal clear cell carcinoma(1967;0.00357)|STAD - Stomach adenocarcinoma(196;0.0131)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0875)|LUSC - Lung squamous cell carcinoma(448;0.19)		TAATCATAACCATAGTAATCA	0.403													6	120	---	---	---	---	PASS
CATSPER4	378807	broad.mit.edu	37	1	26524831	26524831	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:26524831C>A	uc010oez.1	+	6	733	c.733C>A	c.(733-735)CAG>AAG	p.Q245K	CATSPER4_uc010oey.1_Missense_Mutation_p.Q67K|CATSPER4_uc009vsf.2_RNA	NM_198137	NP_937770	Q7RTX7	CTSR4_HUMAN	cation channel, sperm associated 4	245	Extracellular (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|voltage-gated ion channel activity			ovary(1)	1		all_cancers(24;2.05e-18)|Colorectal(325;0.000147)|Renal(390;0.00211)|all_lung(284;0.00218)|Lung NSC(340;0.00239)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0687)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;3.52e-26)|Colorectal(126;1.34e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000755)|BRCA - Breast invasive adenocarcinoma(304;0.000995)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00878)|READ - Rectum adenocarcinoma(331;0.0649)		CAAGCATTTCCAGAACATACA	0.532													7	202	---	---	---	---	PASS
ARID1A	8289	broad.mit.edu	37	1	27057765	27057765	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:27057765C>A	uc001bmv.1	+	3	1846	c.1473C>A	c.(1471-1473)TCC>TCA	p.S491S	ARID1A_uc001bmt.1_Silent_p.S491S|ARID1A_uc001bmu.1_Silent_p.S491S|ARID1A_uc001bmw.1_Silent_p.S108S	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	491					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		AACCACCGTCCCAGACCCCTC	0.602			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								8	243	---	---	---	---	PASS
PUM1	9698	broad.mit.edu	37	1	31465245	31465245	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:31465245G>C	uc001bsi.1	-	7	1263	c.1150C>G	c.(1150-1152)CAA>GAA	p.Q384E	PUM1_uc001bsf.1_Missense_Mutation_p.Q45E|PUM1_uc001bsg.1_Missense_Mutation_p.Q196E|PUM1_uc001bsh.1_Missense_Mutation_p.Q384E|PUM1_uc001bsj.1_Missense_Mutation_p.Q384E|PUM1_uc010oga.1_Missense_Mutation_p.Q288E|PUM1_uc001bsk.1_Missense_Mutation_p.Q420E|PUM1_uc010ogb.1_Missense_Mutation_p.Q324E	NM_014676	NP_055491	Q14671	PUM1_HUMAN	pumilio 1 isoform 2	384					cellular membrane organization|post-Golgi vesicle-mediated transport|regulation of translation	cytosol	RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Colorectal(325;0.0211)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0381)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0232)|READ - Rectum adenocarcinoma(331;0.0681)		ACCTGTTGTTGAGAATTGTAG	0.512													24	74	---	---	---	---	PASS
PUM1	9698	broad.mit.edu	37	1	31465307	31465307	+	Nonsense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:31465307G>C	uc001bsi.1	-	7	1201	c.1088C>G	c.(1087-1089)TCA>TGA	p.S363*	PUM1_uc001bsf.1_Nonsense_Mutation_p.S24*|PUM1_uc001bsg.1_Nonsense_Mutation_p.S175*|PUM1_uc001bsh.1_Nonsense_Mutation_p.S363*|PUM1_uc001bsj.1_Nonsense_Mutation_p.S363*|PUM1_uc010oga.1_Nonsense_Mutation_p.S267*|PUM1_uc001bsk.1_Nonsense_Mutation_p.S399*|PUM1_uc010ogb.1_Nonsense_Mutation_p.S303*	NM_014676	NP_055491	Q14671	PUM1_HUMAN	pumilio 1 isoform 2	363					cellular membrane organization|post-Golgi vesicle-mediated transport|regulation of translation	cytosol	RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Colorectal(325;0.0211)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0381)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0232)|READ - Rectum adenocarcinoma(331;0.0681)		CTGCGTGCCTGAATAATCAAA	0.517													37	114	---	---	---	---	PASS
BAI2	576	broad.mit.edu	37	1	32221657	32221657	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:32221657C>T	uc001btn.2	-	4	1135	c.781G>A	c.(781-783)GAG>AAG	p.E261K	BAI2_uc010ogp.1_Missense_Mutation_p.E249K|BAI2_uc010ogq.1_Missense_Mutation_p.E261K|BAI2_uc001bto.2_Missense_Mutation_p.E261K|BAI2_uc001btq.1_Missense_Mutation_p.E249K|BAI2_uc010ogr.1_Missense_Mutation_p.E249K	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	261	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(5)|breast(4)|ovary(2)|central_nervous_system(1)|skin(1)	13		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)		STAD - Stomach adenocarcinoma(196;0.0557)		AAATCGGCCTCAGCAGGTGGG	0.672													17	36	---	---	---	---	PASS
PHC2	1912	broad.mit.edu	37	1	33820487	33820487	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:33820487G>C	uc001bxg.1	-	7	1398	c.1344C>G	c.(1342-1344)TTC>TTG	p.F448L	PHC2_uc001bxh.1_Missense_Mutation_p.F419L|PHC2_uc009vuh.1_Missense_Mutation_p.F448L	NM_198040	NP_932157	Q8IXK0	PHC2_HUMAN	polyhomeotic-like 2 isoform a	448					multicellular organismal development	PcG protein complex	DNA binding|identical protein binding|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				AAGTGTGCTGGAACCTGCGTT	0.617													8	28	---	---	---	---	PASS
DLGAP3	58512	broad.mit.edu	37	1	35334288	35334288	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:35334288C>G	uc001byc.2	-	7	2403	c.2403G>C	c.(2401-2403)ATG>ATC	p.M801I		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	801					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				CTGCCCGCAGCATCTTGATGA	0.657													9	25	---	---	---	---	PASS
MACF1	23499	broad.mit.edu	37	1	39917952	39917952	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:39917952G>T	uc010oiu.1	+	51	16003	c.15872G>T	c.(15871-15873)AGC>ATC	p.S5291I	MACF1_uc010ois.1_Missense_Mutation_p.S4789I	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			CAGGAACTGAGCACTCGCTGG	0.512													57	149	---	---	---	---	PASS
SMAP2	64744	broad.mit.edu	37	1	40872518	40872518	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:40872518C>A	uc001cfj.2	+	2	279	c.214C>A	c.(214-216)CAG>AAG	p.Q72K	SMAP2_uc010ojh.1_Missense_Mutation_p.Q72K|SMAP2_uc001cfk.2_Missense_Mutation_p.Q42K|SMAP2_uc010oji.1_5'UTR	NM_022733	NP_073570	Q8WU79	SMAP2_HUMAN	small ArfGAP2	72	Arf-GAP.				regulation of ARF GTPase activity	cytoplasm|nucleus	ARF GTPase activator activity|zinc ion binding				0	Lung NSC(20;1.56e-05)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.04e-17)			TAACCTCGACCAGTGGACTCA	0.453													5	77	---	---	---	---	PASS
SMAP2	64744	broad.mit.edu	37	1	40879887	40879887	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:40879887G>A	uc001cfj.2	+	6	611	c.546G>A	c.(544-546)GCG>GCA	p.A182A	SMAP2_uc010ojh.1_Silent_p.A182A|SMAP2_uc001cfk.2_Silent_p.A152A|SMAP2_uc010oji.1_Silent_p.A99A|SMAP2_uc010ojj.1_5'UTR	NM_022733	NP_073570	Q8WU79	SMAP2_HUMAN	small ArfGAP2	182	Interaction with clathrin heavy chains (By similarity).				regulation of ARF GTPase activity	cytoplasm|nucleus	ARF GTPase activator activity|zinc ion binding				0	Lung NSC(20;1.56e-05)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.04e-17)			AATCCACAGCGCCTGTCATGG	0.423													20	39	---	---	---	---	PASS
MAST2	23139	broad.mit.edu	37	1	46494545	46494545	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:46494545G>T	uc001cov.2	+	18	2441	c.2158G>T	c.(2158-2160)GTG>TTG	p.V720L	MAST2_uc001cow.2_Missense_Mutation_p.V720L|MAST2_uc001coy.1_Missense_Mutation_p.V394L|MAST2_uc001coz.1_Missense_Mutation_p.V605L|MAST2_uc001cpa.2_RNA	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	720	Protein kinase.				regulation of interleukin-12 biosynthetic process|spermatid differentiation	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|phosphatase binding|protein serine/threonine kinase activity			ovary(5)|lung(3)|stomach(2)|breast(1)	11	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.184)					TGAGTTCCTGGTGGGCTGCGT	0.577													57	144	---	---	---	---	PASS
LRRC41	10489	broad.mit.edu	37	1	46763281	46763281	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:46763281C>G	uc001cpn.2	-	3	355	c.311G>C	c.(310-312)CGC>CCC	p.R104P	LRRC41_uc010omb.1_Missense_Mutation_p.R104P|LRRC41_uc001cpo.1_Missense_Mutation_p.R104P	NM_006369	NP_006360	Q15345	LRC41_HUMAN	MUF1 protein	104										ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(166;0.155)					CCAGAGTCGGCGCCAGATGGC	0.463													18	50	---	---	---	---	PASS
C1orf87	127795	broad.mit.edu	37	1	60503689	60503689	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:60503689C>T	uc001czs.1	-	6	930	c.838G>A	c.(838-840)GAG>AAG	p.E280K		NM_152377	NP_689590	Q8N0U7	CA087_HUMAN	hypothetical protein LOC127795	280							calcium ion binding			ovary(1)|breast(1)	2						CCATGACTCTCAGTTTTTCTC	0.328													10	24	---	---	---	---	PASS
LEPR	3953	broad.mit.edu	37	1	66102686	66102686	+	Silent	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:66102686C>T	uc001dci.2	+	20	3688	c.3486C>T	c.(3484-3486)GAC>GAT	p.D1162D	LEPR_uc009waq.2_3'UTR	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	1162	Cytoplasmic (Potential).				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		AGATGTGTGACCTAACTGTGT	0.343													18	61	---	---	---	---	PASS
SERBP1	26135	broad.mit.edu	37	1	67895690	67895690	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:67895690G>A	uc001ddv.2	-	1	434	c.294C>T	c.(292-294)CCC>CCT	p.P98P	SERBP1_uc001ddx.2_Silent_p.P98P|SERBP1_uc001ddy.2_Silent_p.P98P|SERBP1_uc001ddw.2_Silent_p.P98P	NM_001018067	NP_001018077	Q8NC51	PAIRB_HUMAN	SERPINE1 mRNA binding protein 1 isoform 1	98					regulation of mRNA stability	nucleus|perinuclear region of cytoplasm	mRNA 3'-UTR binding|protein binding			skin(1)	1						TAAGCGCCACGGGCGGCTGCG	0.622													27	88	---	---	---	---	PASS
TNNI3K	51086	broad.mit.edu	37	1	75009592	75009592	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:75009592T>C	uc001dgf.1	+	25	2485	c.2434T>C	c.(2434-2436)TAT>CAT	p.Y812H	TNNI3K_uc001dge.1_Missense_Mutation_p.Y913H	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	812						cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						TGATGCAGGCTATGTATCCGA	0.438													9	47	---	---	---	---	PASS
RABGGTB	5876	broad.mit.edu	37	1	76259838	76259838	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:76259838G>T	uc001dgy.1	+	8	846	c.775G>T	c.(775-777)GAT>TAT	p.D259Y	MSH4_uc001dhd.1_5'Flank|RABGGTB_uc009wbt.1_RNA|RABGGTB_uc001dha.1_Missense_Mutation_p.D213Y|RABGGTB_uc001dhc.1_RNA	NM_004582	NP_004573	P53611	PGTB2_HUMAN	RAB geranylgeranyltransferase, beta subunit	259					protein modification process|visual perception		metal ion binding|protein binding|Rab geranylgeranyltransferase activity			ovary(1)	1						TCATTGGATTGATAGAGAGAA	0.408													27	86	---	---	---	---	PASS
ELTD1	64123	broad.mit.edu	37	1	79403931	79403931	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:79403931G>A	uc001diq.3	-	5	586	c.430C>T	c.(430-432)CAA>TAA	p.Q144*		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	144	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		TAGACTTCTTGTAGCAAAGCC	0.308													6	16	---	---	---	---	PASS
ELTD1	64123	broad.mit.edu	37	1	79403932	79403932	+	Silent	SNP	T	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:79403932T>A	uc001diq.3	-	5	585	c.429A>T	c.(427-429)CTA>CTT	p.L143L		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	143	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		AGACTTCTTGTAGCAAAGCCA	0.308													6	16	---	---	---	---	PASS
COL24A1	255631	broad.mit.edu	37	1	86437076	86437076	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:86437076C>A	uc001dlj.2	-	21	2407	c.2365G>T	c.(2365-2367)GGA>TGA	p.G789*	COL24A1_uc010osd.1_Nonsense_Mutation_p.G89*|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	789	Collagen-like 4.				cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		CCAAGGAGTCCCTATAAAAGC	0.378													6	23	---	---	---	---	PASS
BTBD8	284697	broad.mit.edu	37	1	92612763	92612763	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:92612763A>G	uc001doo.2	+	8	1224	c.957A>G	c.(955-957)ATA>ATG	p.I319M	BTBD8_uc010otc.1_RNA	NM_183242	NP_899065	Q5XKL5	BTBD8_HUMAN	BTB (POZ) domain containing 8	319						nucleus				ovary(1)	1		all_lung(203;0.0484)|Lung NSC(277;0.126)|Glioma(108;0.222)		all cancers(265;0.0153)|Epithelial(280;0.0982)		TGACGTCTATACTAGAATGCC	0.323													21	64	---	---	---	---	PASS
CCDC18	343099	broad.mit.edu	37	1	93704969	93704969	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:93704969C>A	uc001dpq.2	+	20	3228	c.3060C>A	c.(3058-3060)CTC>CTA	p.L1020L	CCDC18_uc009wdl.1_Silent_p.L537L	NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41	901	Potential.			L -> F (in Ref. 1; BAC86410).						ovary(2)|breast(2)|pancreas(1)	5		all_lung(203;0.00196)|Lung NSC(277;0.00903)|Melanoma(281;0.099)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00166)|GBM - Glioblastoma multiforme(16;0.00551)|Epithelial(280;0.0967)		CAATGCACCTCTCTCAATTAG	0.353													5	80	---	---	---	---	PASS
SLC35A3	23443	broad.mit.edu	37	1	100477020	100477020	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:100477020G>C	uc001dsp.1	+	5	762	c.565G>C	c.(565-567)GCT>CCT	p.A189P	SLC35A3_uc001dsq.1_Missense_Mutation_p.A189P|SLC35A3_uc009wdy.1_Missense_Mutation_p.A189P|SLC35A3_uc001dsr.1_Missense_Mutation_p.A231P|SLC35A3_uc001dss.1_Missense_Mutation_p.A108P	NM_012243	NP_036375	Q9Y2D2	S35A3_HUMAN	solute carrier family 35 member 3A	189	Helical; (Potential).				UDP-N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	sugar:hydrogen symporter activity|UDP-N-acetylglucosamine transmembrane transporter activity				0		all_epithelial(167;0.000686)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.124)|all cancers(265;0.198)|Lung(183;0.199)		AAGTGGCTTTGCTGGGGTTTA	0.353													17	60	---	---	---	---	PASS
OLFM3	118427	broad.mit.edu	37	1	102270020	102270020	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:102270020A>C	uc001duf.2	-	6	1282	c.1211T>G	c.(1210-1212)CTG>CGG	p.L404R	OLFM3_uc001dug.2_Missense_Mutation_p.L384R|OLFM3_uc001duh.2_RNA|OLFM3_uc001dui.2_RNA|OLFM3_uc001duj.2_Missense_Mutation_p.L309R|OLFM3_uc001due.2_RNA	NM_058170	NP_477518	Q96PB7	NOE3_HUMAN	olfactomedin 3	404	Olfactomedin-like.					extracellular region				ovary(2)|skin(1)	3		all_epithelial(167;1.87e-06)|all_lung(203;8.12e-05)|Lung NSC(277;0.000189)		all cancers(265;0.0843)|Epithelial(280;0.0921)|COAD - Colon adenocarcinoma(174;0.145)		GGTGACATACAGTGTCCCACA	0.463													26	71	---	---	---	---	PASS
AKNAD1	254268	broad.mit.edu	37	1	109394803	109394803	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:109394803T>C	uc001dwa.2	-	2	753	c.484A>G	c.(484-486)AAA>GAA	p.K162E	AKNAD1_uc010ovb.1_Intron|AKNAD1_uc001dwb.2_RNA	NM_152763	NP_689976	Q5T1N1	AKND1_HUMAN	hypothetical protein LOC254268	162										ovary(3)	3						GTTTGTTCTTTTGGCCAAGAA	0.408													4	50	---	---	---	---	PASS
KCNA3	3738	broad.mit.edu	37	1	111215804	111215804	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:111215804G>A	uc001dzv.1	-	1	1852	c.1628C>T	c.(1627-1629)CCC>CTC	p.P543L		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	543						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		AGGGGTCTGGGGGAAAGCGCT	0.478													25	74	---	---	---	---	PASS
FAM46C	54855	broad.mit.edu	37	1	118166109	118166109	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:118166109C>A	uc001ehe.2	+	2	818	c.619C>A	c.(619-621)CAC>AAC	p.H207N		NM_017709	NP_060179	Q5VWP2	FA46C_HUMAN	hypothetical protein LOC54855	207											0	Lung SC(450;0.225)	all_cancers(81;0.000101)|all_lung(203;3.4e-06)|all_epithelial(167;4.98e-06)|Lung NSC(69;2.33e-05)		Lung(183;0.0576)|LUSC - Lung squamous cell carcinoma(189;0.192)|Colorectal(144;0.247)		TGAGCACTTCCACCCCACCGT	0.478										Multiple Myeloma(3;1.13e-06)			6	91	---	---	---	---	PASS
UBAP2L	9898	broad.mit.edu	37	1	154221798	154221798	+	Silent	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:154221798C>T	uc001fep.3	+	12	1265	c.1098C>T	c.(1096-1098)TTC>TTT	p.F366F	UBAP2L_uc009wot.2_Silent_p.F366F|UBAP2L_uc010pek.1_Silent_p.F358F|UBAP2L_uc010pel.1_Silent_p.F376F|UBAP2L_uc010pen.1_Silent_p.F280F	NM_014847	NP_055662	Q14157	UBP2L_HUMAN	ubiquitin associated protein 2-like isoform a	366					binding of sperm to zona pellucida		protein binding			ovary(1)|central_nervous_system(1)	2	all_lung(78;1.09e-30)|Lung NSC(65;1.66e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			TGGAGCAATTCAAGACTGCCC	0.527													27	70	---	---	---	---	PASS
GBA	2629	broad.mit.edu	37	1	155208008	155208008	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:155208008G>A	uc001fjh.2	-	6	828	c.678C>T	c.(676-678)ACC>ACT	p.T226T	RAG1AP1_uc010pey.1_Intron|GBA_uc010pfw.1_Silent_p.T113T|GBA_uc010pfx.1_Silent_p.T177T|GBA_uc001fji.2_Silent_p.T226T|GBA_uc001fjj.2_Silent_p.T226T|GBA_uc001fjk.2_Silent_p.T226T|GBA_uc001fjl.2_Silent_p.T226T|GBA_uc010pfy.1_Silent_p.T139T|GBA_uc009wqk.1_Silent_p.T139T	NM_000157	NP_000148	P04062	GLCM_HUMAN	glucocerebrosidase precursor	226					carbohydrate metabolic process|cell death|cellular response to tumor necrosis factor|ceramide biosynthetic process|glucosylceramide catabolic process|lysosome organization|negative regulation of interleukin-6 production|negative regulation of MAP kinase activity|positive regulation of protein dephosphorylation|sphingosine biosynthetic process|termination of signal transduction	lysosomal lumen|lysosomal membrane	cation binding|glucosylceramidase activity|receptor binding			ovary(1)|skin(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)		Alglucerase(DB00088)|Imiglucerase(DB00053)	CCGCTCCATTGGTCTTGAGCC	0.567									Gaucher_disease_type_I				11	19	---	---	---	---	PASS
SMG5	23381	broad.mit.edu	37	1	156223290	156223290	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:156223290C>T	uc001foc.3	-	17	2601	c.2452G>A	c.(2452-2454)GAA>AAA	p.E818K	SMG5_uc009wrv.2_Missense_Mutation_p.E303K	NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay	818	Potential.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|nucleus	protein phosphatase 2A binding			ovary(2)|skin(2)|pancreas(1)	5	Hepatocellular(266;0.158)					CGACGAGCTTCCTCCTGTGCC	0.502													7	58	---	---	---	---	PASS
ARHGEF11	9826	broad.mit.edu	37	1	156931483	156931483	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:156931483G>T	uc001fqo.2	-	13	2145	c.1105C>A	c.(1105-1107)CTG>ATG	p.L369M	ARHGEF11_uc001fqn.2_Missense_Mutation_p.L409M	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	369	RGSL.				actin cytoskeleton organization|apoptosis|axon guidance|cellular component movement|cytokinesis|establishment of cell polarity|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of cell growth|regulation of Rho protein signal transduction|Rho protein signal transduction|striated muscle contraction	cytosol|Golgi apparatus|plasma membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			ovary(3)|skin(2)|pleura(1)|lung(1)|kidney(1)|pancreas(1)	9	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TTTTTCTCCAGGAAAATATTC	0.418													15	41	---	---	---	---	PASS
SPTA1	6708	broad.mit.edu	37	1	158609764	158609764	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:158609764G>A	uc001fst.1	-	34	4970	c.4771C>T	c.(4771-4773)CAT>TAT	p.H1591Y		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1591	Spectrin 15.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TCAAGCAGATGATCCCAATGT	0.488													29	59	---	---	---	---	PASS
OR6K2	81448	broad.mit.edu	37	1	158669494	158669494	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:158669494G>A	uc001fsu.1	-	1	949	c.949C>T	c.(949-951)CCA>TCA	p.P317S		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	317	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					GAGGTCCCTGGTCTTACGGAA	0.373													23	44	---	---	---	---	PASS
OR10J1	26476	broad.mit.edu	37	1	159410499	159410499	+	Silent	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:159410499G>T	uc010piv.1	+	1	951	c.951G>T	c.(949-951)GGG>GGT	p.G317G	uc001fts.3_Intron	NM_012351	NP_036483	P30954	O10J1_HUMAN	olfactory receptor, family 10, subfamily J,	317	Cytoplasmic (Potential).				sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0429)					CTGTTGGTGGGAAGTTTTCCT	0.488													23	53	---	---	---	---	PASS
ASTN1	460	broad.mit.edu	37	1	177030384	177030384	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:177030384C>A	uc001glc.2	-	2	513	c.301G>T	c.(301-303)GAG>TAG	p.E101*	ASTN1_uc001glb.1_Nonsense_Mutation_p.E101*|ASTN1_uc001gld.1_Nonsense_Mutation_p.E101*|ASTN1_uc009wwx.1_Nonsense_Mutation_p.E101*	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	101					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						GGGATATCCTCTGTGTTCCCT	0.488													6	136	---	---	---	---	PASS
CEP350	9857	broad.mit.edu	37	1	180068043	180068043	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:180068043G>C	uc001gnt.2	+	37	9495	c.9112G>C	c.(9112-9114)GAG>CAG	p.E3038Q	CEP350_uc009wxl.2_Missense_Mutation_p.E3037Q|CEP350_uc001gnv.2_Missense_Mutation_p.E1173Q|CEP350_uc001gnw.1_Missense_Mutation_p.E795Q|CEP350_uc001gnx.1_Missense_Mutation_p.E795Q	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	3038						centrosome|nucleus|spindle				ovary(4)	4						TCTTAAAAAGGAGCCAAACCA	0.378													10	44	---	---	---	---	PASS
TPR	7175	broad.mit.edu	37	1	186283765	186283765	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:186283765C>G	uc001grv.2	-	50	7329	c.7032G>C	c.(7030-7032)CAG>CAC	p.Q2344H		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	2344					carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		ATTCACCTCTCTGTCTGTTAA	0.353			T	NTRK1	papillary thyroid								8	33	---	---	---	---	PASS
FAM5C	339479	broad.mit.edu	37	1	190067764	190067764	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:190067764T>G	uc001gse.1	-	8	1917	c.1685A>C	c.(1684-1686)AAC>ACC	p.N562T	FAM5C_uc010pot.1_Missense_Mutation_p.N460T	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	562						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					CAAGGTGCTGTTTTTAGTTAA	0.458													31	59	---	---	---	---	PASS
CFHR5	81494	broad.mit.edu	37	1	196952178	196952178	+	Silent	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:196952178A>G	uc001gts.3	+	2	350	c.222A>G	c.(220-222)GAA>GAG	p.E74E		NM_030787	NP_110414	Q9BXR6	FHR5_HUMAN	complement factor H-related 5 precursor	74	Sushi 1.				complement activation, alternative pathway	extracellular region				breast(1)|skin(1)	2						CATGCACAGAAGAAGGATGGT	0.413													17	63	---	---	---	---	PASS
PPFIA4	8497	broad.mit.edu	37	1	203013100	203013100	+	Silent	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:203013100A>G	uc009xaj.2	+	8	819	c.819A>G	c.(817-819)GAA>GAG	p.E273E	PPFIA4_uc010pqf.1_5'Flank			O75335	LIPA4_HUMAN	SubName: Full=Liprin alpha4;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell communication	cell surface|cytoplasm	protein binding			ovary(4)|skin(1)	5						CCCGCCATGAACGGTCACTGC	0.627													5	22	---	---	---	---	PASS
MDM4	4194	broad.mit.edu	37	1	204507405	204507405	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:204507405C>A	uc001hba.2	+	7	642	c.480C>A	c.(478-480)ACC>ACA	p.T160T	MDM4_uc001hbd.1_RNA|MDM4_uc010pqw.1_RNA|MDM4_uc010pqx.1_Silent_p.T33T|MDM4_uc001hay.1_Silent_p.T160T|MDM4_uc001hbb.2_Silent_p.T33T|MDM4_uc010pqy.1_Intron|MDM4_uc001hbc.2_RNA|MDM4_uc009xbe.1_RNA	NM_002393	NP_002384	O15151	MDM4_HUMAN	mouse double minute 4 homolog	160					apoptosis|cell proliferation|cellular response to hypoxia|G0 to G1 transition|negative regulation of apoptosis|negative regulation of cell cycle arrest|negative regulation of cell proliferation|negative regulation of protein catabolic process|negative regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization	nucleus	enzyme binding|zinc ion binding	p.T160S(1)		upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(21;0.00146)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.112)|all_epithelial(62;0.118)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;3.15e-47)|all cancers(3;3.56e-32)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|Epithelial(59;0.143)|BRCA - Breast invasive adenocarcinoma(75;0.143)			CACTGCCTACCTCAGAGCATA	0.398			A		GBM|bladder|retinoblastoma								8	177	---	---	---	---	PASS
CNTN2	6900	broad.mit.edu	37	1	205039002	205039002	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:205039002G>A	uc001hbr.2	+	18	2513	c.2244G>A	c.(2242-2244)CTG>CTA	p.L748L	CNTN2_uc001hbq.1_Silent_p.L639L|CNTN2_uc001hbs.2_Silent_p.L536L	NM_005076	NP_005067	Q02246	CNTN2_HUMAN	contactin 2 precursor	748	Fibronectin type-III 2.				axon guidance|clustering of voltage-gated potassium channels	anchored to membrane|juxtaparanode region of axon|myelin sheath|node of Ranvier|synapse part	identical protein binding			ovary(1)	1	all_cancers(21;0.144)|Breast(84;0.0437)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			GCTACCTGCTGTCCTTCCGCA	0.662													33	68	---	---	---	---	PASS
CR1	1378	broad.mit.edu	37	1	207785045	207785045	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:207785045C>A	uc001hfy.2	+	30	5109	c.4969C>A	c.(4969-4971)CTG>ATG	p.L1657M	CR1_uc001hfx.2_Missense_Mutation_p.L2107M	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1657	Sushi 26.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						TCCAGAAATCCTGCATGGTGA	0.507													6	134	---	---	---	---	PASS
ITPKB	3707	broad.mit.edu	37	1	226835066	226835066	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:226835066G>T	uc010pvo.1	-	4	2388	c.2048C>A	c.(2047-2049)GCT>GAT	p.A683D		NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	683							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				GCCATTGGCAGCTGCCTTGAA	0.612													3	6	---	---	---	---	PASS
ABCB10	23456	broad.mit.edu	37	1	229667459	229667459	+	Silent	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:229667459C>T	uc001htp.3	-	7	1402	c.1359G>A	c.(1357-1359)TCG>TCA	p.S453S		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	453	Mitochondrial intermembrane (Potential).|ABC transmembrane type-1.|Mitochondrial matrix (Potential).					integral to mitochondrial membrane|mitochondrial inner membrane	ATP binding|oligopeptide-transporting ATPase activity			breast(2)	2	Breast(184;0.143)|Ovarian(103;0.249)	Prostate(94;0.167)				TCATCAGCTCCGAGTAGAAAG	0.547													17	35	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237729895	237729895	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:237729895C>A	uc001hyl.1	+	28	3363	c.3243C>A	c.(3241-3243)ACC>ACA	p.T1081T		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1081	Cytoplasmic (By similarity).|4 X approximate repeats.|B30.2/SPRY 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)			GCAGCGGCACCGGGGAAAGGT	0.517													19	40	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237947823	237947823	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:237947823G>T	uc001hyl.1	+	90	12931	c.12811G>T	c.(12811-12813)GTA>TTA	p.V4271L	RYR2_uc010pya.1_Missense_Mutation_p.V686L	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4271					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)			GATGAAAAAAGTAAAAAAGAT	0.478													6	29	---	---	---	---	PASS
CNST	163882	broad.mit.edu	37	1	246811036	246811036	+	Silent	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:246811036T>C	uc001ibp.2	+	9	1911	c.1533T>C	c.(1531-1533)TGT>TGC	p.C511C	CNST_uc001ibo.3_Silent_p.C511C	NM_152609	NP_689822	Q6PJW8	CNST_HUMAN	hypothetical protein LOC163882 isoform 1	511					positive regulation of Golgi to plasma membrane protein transport	integral to membrane|plasma membrane|protein complex|trans-Golgi network|transport vesicle	connexin binding				0						ATGTGCTCTGTGGAAATAATC	0.453													26	73	---	---	---	---	PASS
C1orf150	148823	broad.mit.edu	37	1	247737551	247737551	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr1:247737551T>A	uc001idf.2	+	5	320	c.275T>A	c.(274-276)ATT>AAT	p.I92N	C1orf150_uc009xgw.2_RNA|C1orf150_uc001ida.3_RNA|C1orf150_uc001idb.3_RNA|C1orf150_uc009xgx.2_RNA	NM_145278	NP_660321	Q5JQS6	CA150_HUMAN	hypothetical protein LOC148823	92											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;0.0241)			TATGAGAACATTGACTCCCTC	0.463													23	42	---	---	---	---	PASS
ASAP2	8853	broad.mit.edu	37	2	9528581	9528581	+	Silent	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:9528581C>T	uc002qzh.2	+	22	2629	c.2289C>T	c.(2287-2289)TAC>TAT	p.Y763Y	ASAP2_uc002qzi.2_Silent_p.Y763Y	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	763					regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						ATGAGACTTACGGAGCCCTCC	0.592													10	45	---	---	---	---	PASS
GREB1	9687	broad.mit.edu	37	2	11752682	11752682	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:11752682T>G	uc002rbk.1	+	19	3368	c.3068T>G	c.(3067-3069)CTG>CGG	p.L1023R	GREB1_uc002rbp.1_Missense_Mutation_p.L21R	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1023						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		CTGGAGGGTCTGCCTTGCATC	0.557													52	44	---	---	---	---	PASS
NBAS	51594	broad.mit.edu	37	2	15564444	15564444	+	Silent	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:15564444G>T	uc002rcc.1	-	23	2598	c.2572C>A	c.(2572-2574)CGG>AGG	p.R858R	NBAS_uc010exl.1_Silent_p.R50R|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	858										ovary(2)|liver(1)|skin(1)	4						CTCACCTGCCGAGCATAATGC	0.517													4	68	---	---	---	---	PASS
GEN1	348654	broad.mit.edu	37	2	17953948	17953948	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:17953948G>A	uc002rct.2	+	8	923	c.850G>A	c.(850-852)GAT>AAT	p.D284N	SMC6_uc010exo.2_Intron|GEN1_uc010yjs.1_Missense_Mutation_p.D284N|GEN1_uc002rcu.2_Missense_Mutation_p.D284N	NM_182625	NP_872431	Q17RS7	GEN_HUMAN	Gen homolog 1, endonuclease	284					DNA repair	nucleus	DNA binding|endonuclease activity|metal ion binding			breast(5)|kidney(1)|central_nervous_system(1)|skin(1)	8	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					ATGTAAAAGTGATAAATATTG	0.343								Homologous_recombination					14	48	---	---	---	---	PASS
C2orf44	80304	broad.mit.edu	37	2	24261180	24261180	+	Silent	SNP	T	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:24261180T>G	uc002rep.2	-	2	1316	c.1185A>C	c.(1183-1185)ACA>ACC	p.T395T	C2orf44_uc010eya.2_Silent_p.T395T	NM_025203	NP_079479	Q9H6R7	CB044_HUMAN	hypothetical protein LOC80304 isoform 1	395							protein binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATAGTTGGTCTGTCAAGAAAC	0.343													55	86	---	---	---	---	PASS
EIF2B4	8890	broad.mit.edu	37	2	27591276	27591276	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:27591276G>A	uc002rkb.2	-	6	696	c.553C>T	c.(553-555)CAG>TAG	p.Q185*	EIF2B4_uc002rjz.2_Nonsense_Mutation_p.Q205*|EIF2B4_uc002rka.2_Nonsense_Mutation_p.Q170*|EIF2B4_uc002rkc.2_Nonsense_Mutation_p.Q184*|EIF2B4_uc002rkd.2_5'UTR|EIF2B4_uc002rke.2_Nonsense_Mutation_p.Q154*|EIF2B4_uc002rkf.1_3'UTR|SNX17_uc010ylj.1_5'Flank|SNX17_uc002rkg.1_5'Flank|SNX17_uc010ylk.1_5'Flank|SNX17_uc010eza.1_5'Flank|SNX17_uc002rki.1_5'Flank|SNX17_uc002rkh.1_5'Flank|SNX17_uc010yll.1_5'Flank|SNX17_uc010ylm.1_5'Flank|SNX17_uc010yln.1_5'Flank|SNX17_uc010ylo.1_5'Flank|SNX17_uc010ylp.1_5'Flank|SNX17_uc010ylq.1_5'Flank	NM_001034116	NP_001029288	Q9UI10	EI2BD_HUMAN	eukaryotic translation initiation factor 2B,	185					myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	translation initiation factor activity|translation initiation factor binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGCTGTACTGGGGTAGGTGA	0.413													29	35	---	---	---	---	PASS
RBKS	64080	broad.mit.edu	37	2	28050574	28050574	+	Nonsense_Mutation	SNP	C	A	A	rs141229815		TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:28050574C>A	uc002rlo.1	-	7	666	c.655G>T	c.(655-657)GAG>TAG	p.E219*	RBKS_uc010ezi.1_Nonsense_Mutation_p.E152*|RBKS_uc010ymg.1_Nonsense_Mutation_p.E219*	NM_022128	NP_071411	Q9H477	RBSK_HUMAN	ribokinase	219					D-ribose metabolic process		ATP binding|ribokinase activity			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)					AATGCAGCCTCCCCAGCATCT	0.488													12	54	---	---	---	---	PASS
WDR43	23160	broad.mit.edu	37	2	29165192	29165192	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:29165192G>T	uc002rmo.2	+	16	1781	c.1749G>T	c.(1747-1749)GAG>GAT	p.E583D		NM_015131	NP_055946	Q15061	WDR43_HUMAN	WD repeat domain 43	583						nucleolus				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					CAGCATCAGAGAAGACAAAGG	0.443													5	73	---	---	---	---	PASS
YPEL5	51646	broad.mit.edu	37	2	30381650	30381650	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:30381650C>T	uc002rna.3	+	5	868	c.307C>T	c.(307-309)CGT>TGT	p.R103C	YPEL5_uc002rnb.3_Missense_Mutation_p.R103C|YPEL5_uc002rnc.3_Missense_Mutation_p.R103C|YPEL5_uc002rmz.3_Missense_Mutation_p.R103C|YPEL5_uc010ezn.2_RNA|YPEL5_uc002rnd.2_Missense_Mutation_p.R103C	NM_001127401	NP_001120873	P62699	YPEL5_HUMAN	yippee-like 5	103							peptide-methionine-(S)-S-oxide reductase activity				0	Acute lymphoblastic leukemia(172;0.155)					GATCCTGGAACGTGCTCTAGT	0.473													20	88	---	---	---	---	PASS
BIRC6	57448	broad.mit.edu	37	2	32740388	32740388	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:32740388C>G	uc010ezu.2	+	55	11034	c.10900C>G	c.(10900-10902)CTT>GTT	p.L3634V		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	3634					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					TTTGCCTTCTCTTCTTGTGAG	0.443													25	63	---	---	---	---	PASS
STRN	6801	broad.mit.edu	37	2	37126694	37126694	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:37126694C>G	uc002rpn.2	-	6	776	c.767G>C	c.(766-768)AGA>ACA	p.R256T	STRN_uc010ezx.2_Missense_Mutation_p.R256T	NM_003162	NP_003153	O43815	STRN_HUMAN	striatin, calmodulin binding protein	256					dendrite development|locomotory behavior|negative regulation of cell proliferation|tight junction assembly|Wnt receptor signaling pathway	cytoplasm|dendritic spine|neuronal cell body|postsynaptic density|postsynaptic membrane|tight junction	armadillo repeat domain binding|calmodulin binding|estrogen receptor binding|protein complex binding|protein phosphatase 2A binding			skin(1)	1		Ovarian(717;0.0129)|all_hematologic(82;0.21)				GCTTTTCTCTCTTCCATCAAC	0.338													11	52	---	---	---	---	PASS
PEX13	5194	broad.mit.edu	37	2	61258923	61258923	+	Silent	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:61258923C>G	uc002sau.3	+	2	545	c.462C>G	c.(460-462)GTC>GTG	p.V154V		NM_002618	NP_002609	Q92968	PEX13_HUMAN	peroxisomal biogenesis factor 13	154	Targeting to peroxisomes.|Lumenal (Potential).				cerebral cortex cell migration|fatty acid alpha-oxidation|locomotory behavior|microtubule-based peroxisome localization|neuron migration|protein import into peroxisome matrix, docking|suckling behavior	integral to peroxisomal membrane|membrane fraction	protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(5;2.05e-06)|Lung(5;3.13e-05)|Epithelial(17;0.114)			TTTCAGCTGTCTATAACAGTT	0.398													58	93	---	---	---	---	PASS
ZNF638	27332	broad.mit.edu	37	2	71577240	71577240	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:71577240G>T	uc002shx.2	+	2	1475	c.1156G>T	c.(1156-1158)GGT>TGT	p.G386C	ZNF638_uc010fec.2_Missense_Mutation_p.G492C|ZNF638_uc010yqw.1_Intron|ZNF638_uc002shw.2_Missense_Mutation_p.G386C|ZNF638_uc002shy.2_Missense_Mutation_p.G386C|ZNF638_uc002shz.2_Missense_Mutation_p.G386C|ZNF638_uc002sia.2_Missense_Mutation_p.G386C|ZNF638_uc002sib.1_Missense_Mutation_p.G386C	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	386					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						GTCTCCCTTTGGTATTGTGAA	0.408													6	111	---	---	---	---	PASS
IMMT	10989	broad.mit.edu	37	2	86371396	86371396	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:86371396C>G	uc002sqz.3	-	15	2660	c.2272G>C	c.(2272-2274)GAG>CAG	p.E758Q	IMMT_uc002sqy.3_Missense_Mutation_p.E499Q|IMMT_uc002srb.3_Missense_Mutation_p.E747Q|IMMT_uc002sra.3_Missense_Mutation_p.E757Q|IMMT_uc010ytd.1_Missense_Mutation_p.E746Q|IMMT_uc010yte.1_Missense_Mutation_p.E711Q	NM_006839	NP_006830	Q16891	IMMT_HUMAN	inner membrane protein, mitochondrial isoform 1	758	Mitochondrial intermembrane (Potential).			E -> D (in Ref. 3; CAG33074).		integral to mitochondrial inner membrane	protein binding			skin(1)	1						AAACCTCACTCTGGCTGCACC	0.473													20	49	---	---	---	---	PASS
IMMT	10989	broad.mit.edu	37	2	86371740	86371740	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:86371740C>T	uc002sqz.3	-	15	2316	c.1928G>A	c.(1927-1929)CGA>CAA	p.R643Q	IMMT_uc002sqy.3_Missense_Mutation_p.R384Q|IMMT_uc002srb.3_Missense_Mutation_p.R632Q|IMMT_uc002sra.3_Missense_Mutation_p.R642Q|IMMT_uc010ytd.1_Missense_Mutation_p.R631Q|IMMT_uc010yte.1_Missense_Mutation_p.R596Q	NM_006839	NP_006830	Q16891	IMMT_HUMAN	inner membrane protein, mitochondrial isoform 1	643	Mitochondrial intermembrane (Potential).					integral to mitochondrial inner membrane	protein binding			skin(1)	1						TGCTACCCTTCGGGCCAGTTT	0.512													28	128	---	---	---	---	PASS
ITPRIPL1	150771	broad.mit.edu	37	2	96993213	96993213	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:96993213G>A	uc002svx.2	+	3	1179	c.844G>A	c.(844-846)GTG>ATG	p.V282M	ITPRIPL1_uc010yuk.1_Missense_Mutation_p.V274M|ITPRIPL1_uc002svy.2_Missense_Mutation_p.V290M|ITPRIPL1_uc010yul.1_Missense_Mutation_p.V274M	NM_001008949	NP_001008949	Q6GPH6	IPIL1_HUMAN	inositol 1,4,5-triphosphate receptor interacting	282	Cytoplasmic (Potential).					integral to membrane				central_nervous_system(2)|ovary(1)	3						CCTAGGGGACGTGCTGTGCCT	0.612													11	11	---	---	---	---	PASS
CKAP2L	150468	broad.mit.edu	37	2	113509924	113509924	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:113509924C>A	uc002tie.2	-	5	1601	c.1522G>T	c.(1522-1524)GAG>TAG	p.E508*	CKAP2L_uc002tif.2_Nonsense_Mutation_p.E97*|CKAP2L_uc010yxp.1_Nonsense_Mutation_p.E343*|CKAP2L_uc010yxq.1_Nonsense_Mutation_p.E343*	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	508						centrosome					0						TTTTCTTCCTCTTCTTTTTCA	0.353													5	114	---	---	---	---	PASS
PCDP1	200373	broad.mit.edu	37	2	120388460	120388460	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:120388460G>A	uc002tmb.2	+	20	2191	c.1099G>A	c.(1099-1101)GAT>AAT	p.D367N	PCDP1_uc010yyq.1_Missense_Mutation_p.D497N	NM_001029996	NP_001025167	Q4G0U5	PCDP1_HUMAN	primary ciliary dyskinesia protein 1	653						cilium	calmodulin binding				0	Colorectal(110;0.196)					TCTAGATTATGATCCTCTGTA	0.443													43	98	---	---	---	---	PASS
CFC1B	653275	broad.mit.edu	37	2	131356251	131356251	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:131356251C>A	uc002tro.1	-	3	602	c.211G>T	c.(211-213)GAG>TAG	p.E71*		NM_001079530	NP_001072998	P0CG36	CFC1B_HUMAN	cripto, FRL-1, cryptic family 1B	71					gastrulation	extracellular region					0	Colorectal(110;0.1)					AGCGGCTCCTCCGGCCCCCAG	0.622													4	20	---	---	---	---	PASS
ZRANB3	84083	broad.mit.edu	37	2	135975078	135975078	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:135975078C>T	uc002tum.2	-	17	2569	c.2452G>A	c.(2452-2454)GAA>AAA	p.E818K	ZRANB3_uc002tuk.2_Missense_Mutation_p.E361K|ZRANB3_uc002tul.2_Missense_Mutation_p.E816K	NM_032143	NP_115519	Q5FWF4	ZRAB3_HUMAN	zinc finger, RAN-binding domain containing 3	818						intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)		GTGATCTCTTCCAAAGCAAGA	0.343													10	33	---	---	---	---	PASS
LRP1B	53353	broad.mit.edu	37	2	141739765	141739765	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:141739765C>A	uc002tvj.1	-	18	3823	c.2851G>T	c.(2851-2853)GAC>TAC	p.D951Y	LRP1B_uc010fnl.1_Missense_Mutation_p.D133Y	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	951	Extracellular (Potential).|LDL-receptor class A 5.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TCACCACAGTCGTCTTCCCTG	0.443										TSP Lung(27;0.18)			24	49	---	---	---	---	PASS
NR4A2	4929	broad.mit.edu	37	2	157182288	157182288	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:157182288C>G	uc002tyz.3	-	8	2187	c.1765G>C	c.(1765-1767)GAC>CAC	p.D589H	NR4A2_uc002tyx.3_Missense_Mutation_p.D526H|NR4A2_uc010zcf.1_Missense_Mutation_p.D589H	NM_006186	NP_006177	P43354	NR4A2_HUMAN	nuclear receptor subfamily 4, group A, member 2	589					cellular response to extracellular stimulus|dopaminergic neuron differentiation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus	nucleoplasm	sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						AAAAGTTTGTCAATTATTGCT	0.478													21	57	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179593231	179593231	+	Silent	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:179593231C>T	uc010zfg.1	-	63	15914	c.15690G>A	c.(15688-15690)GTG>GTA	p.V5230V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.V1891V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6157							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)			ACAAACCTAGCACTCTTAAGT	0.398													14	33	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179634819	179634819	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:179634819T>A	uc010zfg.1	-	36	8833	c.8609A>T	c.(8608-8610)CAA>CTA	p.Q2870L	TTN_uc010zfh.1_Missense_Mutation_p.Q2824L|TTN_uc010zfi.1_Missense_Mutation_p.Q2824L|TTN_uc010zfj.1_Missense_Mutation_p.Q2824L|TTN_uc002unb.2_Missense_Mutation_p.Q2870L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2870							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)			GCATTCCAATTGCCCGACCAC	0.473													22	58	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179647559	179647559	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:179647559C>T	uc010zfg.1	-	18	3298	c.3074G>A	c.(3073-3075)AGC>AAC	p.S1025N	TTN_uc010zfh.1_Missense_Mutation_p.S979N|TTN_uc010zfi.1_Missense_Mutation_p.S979N|TTN_uc010zfj.1_Missense_Mutation_p.S979N|TTN_uc002unb.2_Missense_Mutation_p.S1025N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1025							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)			GCAGGATGTGCTGACGGTTCC	0.502													11	22	---	---	---	---	PASS
MFSD6	54842	broad.mit.edu	37	2	191353382	191353382	+	Splice_Site	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:191353382G>T	uc002urz.2	+	5	1955	c.1631_splice	c.e5-1	p.G544_splice	MFSD6_uc010zge.1_Splice_Site_p.G6_splice	NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing						transmembrane transport	integral to membrane				ovary(2)	2						TTCCTCTCCAGGAGTGACACA	0.488													5	73	---	---	---	---	PASS
MAP2	4133	broad.mit.edu	37	2	210559200	210559200	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:210559200T>C	uc002vde.1	+	7	2554	c.2306T>C	c.(2305-2307)ATA>ACA	p.I769T	MAP2_uc002vdc.1_Missense_Mutation_p.I769T|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.I765T	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	769					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	GAAGAACAGATAGAGAAAGTA	0.438													17	44	---	---	---	---	PASS
CPS1	1373	broad.mit.edu	37	2	211469956	211469956	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:211469956T>A	uc002vee.3	+	17	2099	c.1967T>A	c.(1966-1968)ATG>AAG	p.M656K	CPS1_uc010fur.2_Missense_Mutation_p.M662K|CPS1_uc010fus.2_Missense_Mutation_p.M205K	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	656	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)		GTTGATGCCATGGGTGTTCAC	0.398													17	47	---	---	---	---	PASS
CPS1	1373	broad.mit.edu	37	2	211469957	211469957	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:211469957G>T	uc002vee.3	+	17	2100	c.1968G>T	c.(1966-1968)ATG>ATT	p.M656I	CPS1_uc010fur.2_Missense_Mutation_p.M662I|CPS1_uc010fus.2_Missense_Mutation_p.M205I	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	656	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)		TTGATGCCATGGGTGTTCACA	0.393													18	47	---	---	---	---	PASS
CXCR2	3579	broad.mit.edu	37	2	218999763	218999763	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:218999763G>A	uc002vgz.1	+	4	464	c.239G>A	c.(238-240)CGC>CAC	p.R80H	CXCR2_uc002vha.1_Missense_Mutation_p.R80H|CXCR2_uc002vhb.1_Missense_Mutation_p.R80H	NM_001557	NP_001548	P25025	CXCR2_HUMAN	interleukin 8 receptor beta	80	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cellular defense response|dendritic cell chemotaxis|inflammatory response|neutrophil activation|neutrophil chemotaxis|positive regulation of cell proliferation	cell surface|integral to plasma membrane|mast cell granule	interleukin-8 receptor activity			lung(1)|breast(1)	2						AGGGTCGGCCGCTCCGTCACT	0.542													42	80	---	---	---	---	PASS
TTLL4	9654	broad.mit.edu	37	2	219603028	219603028	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:219603028C>A	uc002viy.2	+	3	999	c.629C>A	c.(628-630)TCT>TAT	p.S210Y	TTLL4_uc010zkl.1_Missense_Mutation_p.S45Y|TTLL4_uc010fvx.2_Missense_Mutation_p.S210Y	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	210					protein polyglutamylation	cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity			ovary(2)|skin(1)	3		Renal(207;0.0915)		Epithelial(149;5.03e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0101)		TCTCCACTCTCTTCCTCCTAT	0.527													5	81	---	---	---	---	PASS
EPHA4	2043	broad.mit.edu	37	2	222428692	222428692	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:222428692C>A	uc002vmq.2	-	3	624	c.582G>T	c.(580-582)CTG>CTT	p.L194L	EPHA4_uc002vmr.2_Silent_p.L194L|EPHA4_uc010zlm.1_Silent_p.L135L|EPHA4_uc010zln.1_Silent_p.L194L	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	194	Cys-rich.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		GGACTGATACCAGGGCGATGC	0.522													5	83	---	---	---	---	PASS
PAX3	5077	broad.mit.edu	37	2	223086078	223086078	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:223086078C>A	uc010fwo.2	-	6	1187	c.821G>T	c.(820-822)TGG>TTG	p.W274L	PAX3_uc002vmt.1_Missense_Mutation_p.W274L|PAX3_uc002vmy.1_Missense_Mutation_p.W273L|PAX3_uc002vmv.1_Missense_Mutation_p.W274L|PAX3_uc002vmw.1_Missense_Mutation_p.W274L|PAX3_uc002vmx.1_Missense_Mutation_p.W274L	NM_181457	NP_852122	P23760	PAX3_HUMAN	paired box 3 isoform PAX3	274	Homeobox.				apoptosis|organ morphogenesis|positive regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX3/FOXO1(749)|PAX3/NCOA1(8)|PAX3/NCOA2(4)	soft_tissue(761)|ovary(4)|skin(1)	766		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;1.85e-07)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TTGCTTCCTCCATCTTGCACG	0.448			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						7	116	---	---	---	---	PASS
COL4A3	1285	broad.mit.edu	37	2	228135633	228135633	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:228135633G>T	uc002vom.1	+	25	1885	c.1723G>T	c.(1723-1725)GGA>TGA	p.G575*	COL4A3_uc002von.1_Nonsense_Mutation_p.G575*|COL4A3_uc002voo.1_Nonsense_Mutation_p.G575*|COL4A3_uc002vop.1_Nonsense_Mutation_p.G575*|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	575	Triple-helical region.				activation of caspase activity|axon guidance|blood circulation|cell adhesion|cell proliferation|cell surface receptor linked signaling pathway|glomerular basement membrane development|induction of apoptosis|negative regulation of angiogenesis|negative regulation of cell proliferation|sensory perception of sound	collagen type IV	extracellular matrix structural constituent|integrin binding|metalloendopeptidase inhibitor activity			skin(2)|ovary(1)	3		all_lung(227;0.00101)|Lung NSC(271;0.00278)|Renal(207;0.0112)|Ovarian(221;0.0129)|all_hematologic(139;0.211)|Esophageal squamous(248;0.247)		Epithelial(121;1.17e-46)|all cancers(144;6.87e-42)|Lung(261;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0187)		TGGAACTCCGGGAGTGAAAGG	0.498													5	43	---	---	---	---	PASS
TRIP12	9320	broad.mit.edu	37	2	230638891	230638891	+	Silent	SNP	T	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:230638891T>A	uc002vpw.1	-	37	5500	c.5391A>T	c.(5389-5391)CCA>CCT	p.P1797P	TRIP12_uc002vpx.1_Silent_p.P1845P|TRIP12_uc002vpy.1_Silent_p.P1527P	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1797					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		TGGGAAACCCTGGCAGAGTGA	0.408													31	63	---	---	---	---	PASS
CHRNG	1146	broad.mit.edu	37	2	233404757	233404757	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:233404757C>A	uc002vsx.1	+	2	132	c.111C>A	c.(109-111)TAC>TAA	p.Y37*	CHRNG_uc010fyd.2_Nonsense_Mutation_p.Y37*|CHRNG_uc010fye.1_Nonsense_Mutation_p.Y37*	NM_005199	NP_005190	P07510	ACHG_HUMAN	cholinergic receptor, nicotinic, gamma	37	Extracellular (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)		TGCAAAACTACGACCCCAACC	0.617													6	30	---	---	---	---	PASS
TATDN2	9797	broad.mit.edu	37	3	10311830	10311830	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:10311830G>T	uc003bvg.2	+	4	1545	c.964G>T	c.(964-966)GTG>TTG	p.V322L	TATDN2_uc003bvf.2_Missense_Mutation_p.V322L|TATDN2_uc011atr.1_Missense_Mutation_p.V322L|TATDN2_uc011ats.1_RNA|TATDN2_uc011att.1_RNA	NM_014760	NP_055575	Q93075	TATD2_HUMAN	TatD DNase domain containing 2	322						nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding			pancreas(2)	2						AGATAGGGAGGTGGTGATGGA	0.507													20	54	---	---	---	---	PASS
SYN2	6854	broad.mit.edu	37	3	12224840	12224840	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:12224840G>T	uc003bwm.2	+	15	1501	c.1337G>T	c.(1336-1338)AGC>ATC	p.S446I	SYN2_uc003bwl.1_Missense_Mutation_p.S446I|SYN2_uc003bwn.2_Missense_Mutation_p.S120I	NM_133625	NP_598328	Q92777	SYN2_HUMAN	synapsin II isoform IIa	446					neurotransmitter secretion	synaptic vesicle	ATP binding|ligase activity			ovary(1)|central_nervous_system(1)	2						CCGGACTCAAGCAAGACCCCA	0.458													7	36	---	---	---	---	PASS
NUP210	23225	broad.mit.edu	37	3	13395089	13395089	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:13395089C>A	uc003bxv.1	-	18	2676	c.2593G>T	c.(2593-2595)GAG>TAG	p.E865*	NUP210_uc003bxw.2_Nonsense_Mutation_p.E41*|NUP210_uc003bxx.2_Nonsense_Mutation_p.E537*	NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	865	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					AGGTGGGACTCCTGGTAGCCA	0.587													9	17	---	---	---	---	PASS
ITGA9	3680	broad.mit.edu	37	3	37778403	37778403	+	Silent	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:37778403C>T	uc003chd.2	+	20	2216	c.2163C>T	c.(2161-2163)TTC>TTT	p.F721F		NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor	721	Extracellular (Potential).				axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)		AGTATGAATTCAGCGTGATCT	0.433													8	31	---	---	---	---	PASS
ZNF197	10168	broad.mit.edu	37	3	44670938	44670938	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:44670938A>T	uc003cnm.2	+	2	498	c.292A>T	c.(292-294)ATT>TTT	p.I98F	ZNF197_uc003cnn.2_Missense_Mutation_p.I98F|ZNF197_uc003cno.2_RNA|ZNF197_uc003cnp.2_Missense_Mutation_p.I98F	NM_006991	NP_008922	O14709	ZN197_HUMAN	zinc finger protein 197 isoform 1	98	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|skin(1)	4				KIRC - Kidney renal clear cell carcinoma(197;0.0478)|Kidney(197;0.0598)		GCCTGGGGAGATTCGGACCTG	0.592													23	52	---	---	---	---	PASS
LARS2	23395	broad.mit.edu	37	3	45588986	45588986	+	Silent	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:45588986G>T	uc003cop.1	+	22	2861	c.2676G>T	c.(2674-2676)CCG>CCT	p.P892P	LARS2_uc010hit.1_Silent_p.P849P	NM_015340	NP_056155	Q15031	SYLM_HUMAN	leucyl-tRNA synthetase 2, mitochondrial	892					leucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|leucine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.0122)|KIRC - Kidney renal clear cell carcinoma(197;0.0313)|Kidney(197;0.0372)	L-Leucine(DB00149)	TCCTTTCCCCGAGAACTGCCC	0.557													4	104	---	---	---	---	PASS
PTPN23	25930	broad.mit.edu	37	3	47452148	47452148	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:47452148C>T	uc003crf.1	+	20	2956	c.2860C>T	c.(2860-2862)CAG>TAG	p.Q954*	PTPN23_uc011baw.1_Nonsense_Mutation_p.Q919*|PTPN23_uc011bax.1_Intron|PTPN23_uc011bay.1_Nonsense_Mutation_p.Q824*	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	954	6 X 2 AA approximate tandem repeats of P- Q.|1.|Pro-rich.|His.				cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GATTGGgccccagccccagcc	0.507													5	12	---	---	---	---	PASS
ARIH2	10425	broad.mit.edu	37	3	49006060	49006060	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:49006060G>T	uc003cvb.2	+	7	944	c.632G>T	c.(631-633)AGG>ATG	p.R211M	ARIH2_uc003cvc.2_Missense_Mutation_p.R211M|ARIH2_uc003cvf.2_Missense_Mutation_p.R129M|ARIH2_uc010hkl.2_Missense_Mutation_p.R211M	NM_006321	NP_006312	O95376	ARI2_HUMAN	ariadne homolog 2	211	IBR-type.				developmental cell growth|hemopoietic stem cell proliferation|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.42e-05)|Kidney(197;0.00258)|KIRC - Kidney renal clear cell carcinoma(197;0.00269)		GAGAAATACAGGCGCTACCTC	0.443													7	167	---	---	---	---	PASS
MST1R	4486	broad.mit.edu	37	3	49935084	49935084	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:49935084C>G	uc003cxy.3	-	6	2179	c.1915G>C	c.(1915-1917)GAG>CAG	p.E639Q	MST1R_uc011bdd.1_Missense_Mutation_p.E639Q|MST1R_uc011bdc.1_5'Flank	NM_002447	NP_002438	Q04912	RON_HUMAN	macrophage stimulating 1 receptor precursor	639	IPT/TIG 1.|Extracellular (Potential).				cellular component movement|defense response|multicellular organismal development|positive regulation of cell proliferation|single fertilization|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|macrophage colony-stimulating factor receptor activity|protein binding			ovary(5)|lung(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.65e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00553)|Kidney(197;0.00625)		AGTTCACACTCAAACTCCTCT	0.607													12	37	---	---	---	---	PASS
SFMBT1	51460	broad.mit.edu	37	3	52966255	52966255	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:52966255C>A	uc003dgf.2	-	7	1092	c.523G>T	c.(523-525)GAC>TAC	p.D175Y	SFMBT1_uc010hmr.2_Missense_Mutation_p.D122Y|SFMBT1_uc003dgg.2_Missense_Mutation_p.D175Y|SFMBT1_uc003dgh.2_Missense_Mutation_p.D175Y	NM_001005159	NP_001005159	Q9UHJ3	SMBT1_HUMAN	Scm-like with four mbt domains 1	175	MBT 2.				regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.91e-05)|Kidney(197;0.000644)|KIRC - Kidney renal clear cell carcinoma(197;0.000792)|OV - Ovarian serous cystadenocarcinoma(275;0.113)		CTTAAAGAGTCCTGGAAAGCT	0.398													22	46	---	---	---	---	PASS
ARHGEF3	50650	broad.mit.edu	37	3	56779335	56779335	+	Silent	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:56779335G>T	uc003dig.2	-	7	937	c.768C>A	c.(766-768)CTC>CTA	p.L256L	ARHGEF3_uc011bew.1_Silent_p.L256L|ARHGEF3_uc003dih.2_Silent_p.L288L|ARHGEF3_uc011bev.1_Silent_p.L227L|ARHGEF3_uc003dif.2_Silent_p.L262L|ARHGEF3_uc010hmy.1_Silent_p.L54L|ARHGEF3_uc003dii.2_Silent_p.L256L	NM_019555	NP_062455	Q9NR81	ARHG3_HUMAN	Rho guanine nucleotide exchange factor 3 isoform	256	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0161)|Kidney(284;0.019)|OV - Ovarian serous cystadenocarcinoma(275;0.193)		TTGGAATATCGAGGAAATTCC	0.468													5	218	---	---	---	---	PASS
PTPRG	5793	broad.mit.edu	37	3	62216897	62216897	+	Splice_Site	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:62216897A>G	uc003dlb.2	+	14	3008	c.2289_splice	c.e14-2	p.R763_splice	PTPRG_uc003dlc.2_Intron|PTPRG_uc011bfi.1_Intron	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G						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)		TTGTCCATTTAGAGGGTGTAA	0.473													4	21	---	---	---	---	PASS
PRICKLE2	166336	broad.mit.edu	37	3	64085478	64085478	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:64085478G>T	uc003dmf.2	-	8	2370	c.1784C>A	c.(1783-1785)TCG>TAG	p.S595*		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	595						cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		CTGCATGGACGAGTTAAGAGT	0.552													5	144	---	---	---	---	PASS
LRIG1	26018	broad.mit.edu	37	3	66430866	66430866	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:66430866C>T	uc003dmx.2	-	19	3117	c.3103G>A	c.(3103-3105)GAG>AAG	p.E1035K	SLC25A26_uc011bft.1_RNA|LRIG1_uc011bfu.1_Missense_Mutation_p.E655K|LRIG1_uc003dmw.2_Missense_Mutation_p.E701K|LRIG1_uc010hnz.2_Missense_Mutation_p.E751K|LRIG1_uc010hoa.2_Missense_Mutation_p.E1012K	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	1035	Cytoplasmic (Potential).					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		GGCTGTAGCTCTGTGGAGTCC	0.532													50	102	---	---	---	---	PASS
FOXP1	27086	broad.mit.edu	37	3	71015079	71015079	+	Silent	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:71015079C>T	uc003dol.2	-	16	2174	c.1851G>A	c.(1849-1851)GAG>GAA	p.E617E	FOXP1_uc003dom.2_Silent_p.E541E|FOXP1_uc003don.2_RNA|FOXP1_uc003doo.2_Silent_p.E616E|FOXP1_uc003dop.2_Silent_p.E617E|FOXP1_uc003doq.1_Intron|FOXP1_uc003doi.2_Silent_p.E517E|FOXP1_uc003doj.2_Silent_p.E517E|FOXP1_uc003dok.2_Silent_p.E430E	NM_032682	NP_116071	Q9H334	FOXP1_HUMAN	forkhead box P1 isoform 1	617					cardiac muscle cell differentiation|embryo development|immunoglobulin V(D)J recombination|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of immunoglobulin production|positive regulation of mesenchymal cell proliferation|pre-B cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|skeletal muscle tissue development|smooth muscle tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(201;4.62e-05)|Prostate(10;0.0181)|Hepatocellular(537;0.186)|Myeloproliferative disorder(1037;0.209)		BRCA - Breast invasive adenocarcinoma(55;1.17e-05)|Epithelial(33;1.39e-05)|LUSC - Lung squamous cell carcinoma(21;2.35e-05)|Lung(16;4.26e-05)		TGCTGTCACTCTCGTTGCTGT	0.532			T	PAX5	ALL								40	89	---	---	---	---	PASS
ARL6	84100	broad.mit.edu	37	3	97506911	97506911	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:97506911G>T	uc003drv.2	+	7	740	c.427G>T	c.(427-429)GTG>TTG	p.V143L	ARL6_uc003drw.2_RNA|ARL6_uc003dru.2_Missense_Mutation_p.V143L|ARL6_uc010hoy.2_Missense_Mutation_p.V143L	NM_177976	NP_816931	Q9H0F7	ARL6_HUMAN	ADP-ribosylation factor-like 6	143					cilium assembly|determination of left/right symmetry|melanosome transport|protein polymerization|protein targeting to membrane|small GTPase mediated signal transduction|visual perception|Wnt receptor signaling pathway	axonemal microtubule|cilium axoneme|cilium membrane|membrane coat|microtubule basal body	GTP binding|metal ion binding|phospholipid binding|protein binding				0		Lung NSC(201;0.0193)|Prostate(884;0.174)		LUSC - Lung squamous cell carcinoma(29;0.0118)|Lung(72;0.0189)		ATCTGTAAAAGTGTCTCAGTT	0.303									Bardet-Biedl_syndrome				23	33	---	---	---	---	PASS
OR5H15	403274	broad.mit.edu	37	3	97887902	97887902	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:97887902A>T	uc011bgu.1	+	1	359	c.359A>T	c.(358-360)TAT>TTT	p.Y120F		NM_001005515	NP_001005515	A6NDH6	O5H15_HUMAN	olfactory receptor, family 5, subfamily H,	120	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						ACAATGGCATATGATCGCTAT	0.378													22	99	---	---	---	---	PASS
LNP1	348801	broad.mit.edu	37	3	100170718	100170718	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:100170718C>A	uc003dtx.3	+	3	1592	c.312C>A	c.(310-312)TCC>TCA	p.S104S	LNP1_uc003dty.3_RNA|LNP1_uc011bhb.1_RNA	NM_001085451	NP_001078920	A1A4G5	LNP1_HUMAN	leukemia NUP98 fusion partner 1	104											0						AAGGAAGATCCCATTCCAAAA	0.428													6	122	---	---	---	---	PASS
DPPA4	55211	broad.mit.edu	37	3	109047782	109047782	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:109047782G>T	uc003dxq.3	-	6	888	c.833C>A	c.(832-834)CCC>CAC	p.P278H	DPPA4_uc011bho.1_Silent_p.T179T	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	278						nucleus	protein binding			upper_aerodigestive_tract(1)	1						AAGGTGCGGGGGTGGAAAATT	0.473													18	25	---	---	---	---	PASS
WDR52	55779	broad.mit.edu	37	3	113122773	113122773	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:113122773G>A	uc003eae.1	-	9	1142	c.1096C>T	c.(1096-1098)CAC>TAC	p.H366Y		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	366	WD 4.									central_nervous_system(1)	1						GGACCATTGTGACATGACTTG	0.478													38	158	---	---	---	---	PASS
ARHGAP31	57514	broad.mit.edu	37	3	119134028	119134028	+	Silent	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:119134028C>T	uc003ecj.3	+	12	3784	c.3252C>T	c.(3250-3252)CAC>CAT	p.H1084H		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	1084					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						CTGGAGAGCACCCCGCAAAGT	0.572													7	230	---	---	---	---	PASS
KALRN	8997	broad.mit.edu	37	3	124397067	124397067	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:124397067G>T	uc003ehg.2	+	50	7351	c.7224G>T	c.(7222-7224)ATG>ATT	p.M2408I	KALRN_uc003ehk.2_Missense_Mutation_p.M711I	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2407					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						CTCTACGCATGAGAAAGCGGG	0.493													6	153	---	---	---	---	PASS
CCDC37	348807	broad.mit.edu	37	3	126132997	126132997	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:126132997A>G	uc003eiu.1	+	4	299	c.200A>G	c.(199-201)GAT>GGT	p.D67G	CCDC37_uc010hsg.1_Missense_Mutation_p.D67G	NM_182628	NP_872434	Q494V2	CCD37_HUMAN	coiled-coil domain containing 37	67										ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.166)		TTGCTCAGAGATCAGGAGCGG	0.562													91	161	---	---	---	---	PASS
RAB43	339122	broad.mit.edu	37	3	128852967	128852967	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:128852967C>T	uc003elo.1	-	9	824	c.613G>A	c.(613-615)GAG>AAG	p.E205K	ISY1_uc010hsz.1_Intron|ISY1_uc003elp.1_Missense_Mutation_p.E205K|ISY1_uc010hta.1_Missense_Mutation_p.E227K	NM_020701	NP_065752	Q86YS6	RAB43_HUMAN	ISY1 splicing factor homolog	Error:Variant_position_missing_in_Q86YS6_after_alignment					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			lung(1)	1						tcttcctcctcctcttcctTT	0.448													21	66	---	---	---	---	PASS
MED12L	116931	broad.mit.edu	37	3	150876568	150876568	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:150876568G>T	uc003eyp.2	+	6	857	c.819G>T	c.(817-819)TTG>TTT	p.L273F	MED12L_uc011bnz.1_Missense_Mutation_p.L273F|MED12L_uc003eym.1_Missense_Mutation_p.L273F|MED12L_uc003eyn.2_Missense_Mutation_p.L273F|MED12L_uc003eyo.2_Missense_Mutation_p.L273F	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	273					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)			TTAAACTCTTGCTACCACTAA	0.388													18	34	---	---	---	---	PASS
SI	6476	broad.mit.edu	37	3	164773014	164773014	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:164773014G>T	uc003fei.2	-	13	1542	c.1480C>A	c.(1480-1482)CAT>AAT	p.H494N		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	494	Lumenal.|Isomaltase.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	ACTTCTTGATGGAAAATACTG	0.348										HNSCC(35;0.089)			22	73	---	---	---	---	PASS
GHSR	2693	broad.mit.edu	37	3	172163133	172163133	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:172163133C>T	uc003fib.1	-	2	919	c.919G>A	c.(919-921)GTG>ATG	p.V307M		NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	307	Helical; Name=7; (Potential).				actin polymerization or depolymerization|adult feeding behavior|decidualization|growth hormone secretion|hormone-mediated signaling pathway|negative regulation of inflammatory response|negative regulation of interleukin-1 beta production|negative regulation of interleukin-6 biosynthetic process|negative regulation of tumor necrosis factor biosynthetic process|positive regulation of appetite|positive regulation of multicellular organism growth	cell surface|integral to membrane|membrane raft|neuron projection|plasma membrane	growth hormone secretagogue receptor activity|growth hormone-releasing hormone receptor activity			lung(3)|ovary(1)|central_nervous_system(1)	5	Ovarian(172;0.00143)|Breast(254;0.197)		Lung(28;3.93e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			ACAAAGGACACGAGGTTGCAG	0.507													27	93	---	---	---	---	PASS
YEATS2	55689	broad.mit.edu	37	3	183476656	183476656	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:183476656C>A	uc003fly.2	+	13	1754	c.1559C>A	c.(1558-1560)CCT>CAT	p.P520H		NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	520					histone H3 acetylation|negative regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex	TBP-class protein binding			ovary(3)|large_intestine(1)	4	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.38e-42)|Epithelial(37;1.9e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			TCAGGAAGTCCTACAAACAAG	0.383													6	137	---	---	---	---	PASS
HTR3C	170572	broad.mit.edu	37	3	183776363	183776363	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:183776363G>C	uc003fmk.2	+	6	742	c.708G>C	c.(706-708)CAG>CAC	p.Q236H		NM_130770	NP_570126	Q8WXA8	5HT3C_HUMAN	5-hydroxytryptamine receptor 3 subunit C	236	Extracellular (Potential).					integral to membrane|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(143;2.33e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			TATATGACCAGATCATGTTTT	0.502													27	76	---	---	---	---	PASS
ATP13A4	84239	broad.mit.edu	37	3	193207607	193207607	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr3:193207607C>A	uc003ftd.2	-	7	758	c.650G>T	c.(649-651)TGG>TTG	p.W217L	ATP13A4_uc003fte.1_Missense_Mutation_p.W217L|ATP13A4_uc011bsr.1_5'UTR	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	217	Helical; (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(2)	2	all_cancers(143;1.76e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;2.72e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000109)		TTCACTAAACCACAAACAGAC	0.353													5	117	---	---	---	---	PASS
HAUS3	79441	broad.mit.edu	37	4	2241768	2241768	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:2241768G>A	uc003ges.1	-	2	1136	c.906C>T	c.(904-906)AGC>AGT	p.S302S	POLN_uc011bvi.1_Intron|HAUS3_uc011bvj.1_Silent_p.S302S|HAUS3_uc003get.1_Silent_p.S302S	NM_024511	NP_078787	Q68CZ6	HAUS3_HUMAN	HAUS augmin-like complex, subunit 3	302					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle				large_intestine(2)|breast(2)	4						TGCTTACCTTGCTGGTTAGGC	0.353													19	43	---	---	---	---	PASS
FAM193A	8603	broad.mit.edu	37	4	2673998	2673998	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:2673998C>A	uc010icl.2	+	11	1708	c.1357C>A	c.(1357-1359)CCT>ACT	p.P453T	FAM193A_uc010ick.2_Missense_Mutation_p.P653T|FAM193A_uc003gfd.2_Missense_Mutation_p.P453T|FAM193A_uc011bvm.1_Missense_Mutation_p.P475T|FAM193A_uc011bvn.1_Missense_Mutation_p.P453T|FAM193A_uc011bvo.1_RNA|FAM193A_uc010icm.2_RNA|FAM193A_uc003gfe.2_Missense_Mutation_p.P307T	NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603	453										ovary(3)	3						GCACCTTTACCCTCACATCCA	0.567													6	53	---	---	---	---	PASS
STK32B	55351	broad.mit.edu	37	4	5448438	5448438	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:5448438G>A	uc003gih.1	+	7	665	c.601G>A	c.(601-603)GGA>AGA	p.G201R	STK32B_uc010ida.1_Missense_Mutation_p.G154R	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	201	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						CAGAGGCCCCGGATACTCGTA	0.577													16	41	---	---	---	---	PASS
KCNIP4	80333	broad.mit.edu	37	4	20751284	20751284	+	Splice_Site	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:20751284C>T	uc003gqe.2	-	4	462	c.378_splice	c.e4+1	p.E126_splice	KCNIP4_uc003gqf.1_Splice_Site_p.E122_splice|KCNIP4_uc003gqg.1_Splice_Site_p.E81_splice|KCNIP4_uc003gqh.1_Splice_Site_p.E118_splice|KCNIP4_uc003gqi.1_Splice_Site_p.E81_splice|PACRGL_uc003gpu.2_Intron|PACRGL_uc003gpx.3_Intron|PACRGL_uc003gpw.2_Intron|KCNIP4_uc010iel.2_Splice_Site_p.E123_splice|KCNIP4_uc003gqd.3_Splice_Site_p.E106_splice	NM_147182	NP_671711	Q6PIL6	KCIP4_HUMAN	Kv channel interacting protein 4 isoform 3							plasma membrane	calcium ion binding|potassium channel activity|protein binding|voltage-gated ion channel activity				0		Breast(46;0.134)				CCAGAGCTTACCTCGAAACTC	0.353													5	18	---	---	---	---	PASS
GPR125	166647	broad.mit.edu	37	4	22449131	22449131	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:22449131G>C	uc003gqm.1	-	5	742	c.477C>G	c.(475-477)AAC>AAG	p.N159K	GPR125_uc010ieo.1_Missense_Mutation_p.N33K|GPR125_uc003gqo.2_Missense_Mutation_p.N159K	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	159	Extracellular (Potential).|LRR 4.				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				TCCCCGAAAGGTTTCTGAAAG	0.264													9	33	---	---	---	---	PASS
PCDH7	5099	broad.mit.edu	37	4	30724912	30724912	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:30724912C>G	uc003gsk.1	+	1	2876	c.1868C>G	c.(1867-1869)ACT>AGT	p.T623S	PCDH7_uc011bxw.1_Missense_Mutation_p.T576S|PCDH7_uc011bxx.1_Missense_Mutation_p.T623S	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	623	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						CAGGGCAGCACTACGGTGATT	0.488													18	48	---	---	---	---	PASS
CORIN	10699	broad.mit.edu	37	4	47597740	47597740	+	Nonstop_Mutation	SNP	A	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:47597740A>T	uc003gxm.2	-	22	3220	c.3127T>A	c.(3127-3129)TAA>AAA	p.*1043K	CORIN_uc011bzf.1_Nonstop_Mutation_p.*904K|CORIN_uc011bzg.1_Nonstop_Mutation_p.*976K	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	1043					peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						CCTTATAATTAGTTTAGGAGA	0.413													15	55	---	---	---	---	PASS
KDR	3791	broad.mit.edu	37	4	55970835	55970835	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:55970835G>T	uc003has.2	-	13	2264	c.1962C>A	c.(1960-1962)TGC>TGA	p.C654*	KDR_uc003hat.1_Nonsense_Mutation_p.C654*|KDR_uc011bzx.1_Nonsense_Mutation_p.C654*	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	654	Ig-like C2-type 6.|Extracellular (Potential).				angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)	GCCTGACCACGCAATGTCTTT	0.463			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			5	8	---	---	---	---	PASS
CLOCK	9575	broad.mit.edu	37	4	56308750	56308750	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:56308750G>C	uc003haz.1	-	22	2880	c.1954C>G	c.(1954-1956)CAG>GAG	p.Q652E	CLOCK_uc003hba.1_Missense_Mutation_p.Q652E|CLOCK_uc010igu.1_RNA	NM_004898	NP_004889	O15516	CLOCK_HUMAN	clock	652					circadian rhythm|photoperiodism|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|transcription factor complex	DNA binding|histone acetyltransferase activity|sequence-specific DNA binding transcription factor activity|signal transducer activity	p.Q652K(1)		central_nervous_system(2)|ovary(1)	3	Lung NSC(11;0.00335)|Glioma(25;0.08)|all_epithelial(27;0.0992)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(4;1.62e-07)|Lung(4;1.34e-06)|Epithelial(7;0.0107)			CTCTGTGTCTGACTGGGTAGA	0.403													14	34	---	---	---	---	PASS
C4orf35	85438	broad.mit.edu	37	4	71201572	71201572	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:71201572C>A	uc003hff.2	+	1	902	c.816C>A	c.(814-816)ACC>ACA	p.T272T		NM_033122	NP_149113	Q96KC9	CABS1_HUMAN	testis development protein NYD-SP26	272						flagellum	calcium ion binding				0		all_hematologic(202;0.196)				AACTCACTACCTCTGCTGAAA	0.408													6	75	---	---	---	---	PASS
PARM1	25849	broad.mit.edu	37	4	75938085	75938085	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:75938085C>A	uc003hih.1	+	2	734	c.494C>A	c.(493-495)CCA>CAA	p.P165Q		NM_015393	NP_056208	Q6UWI2	PARM1_HUMAN	prostatic androgen-repressed message-1	165	Extracellular (Potential).				positive regulation of telomerase activity	early endosome|endosome membrane|Golgi membrane|integral to membrane|late endosome|plasma membrane				ovary(1)	1						TCAACCTCACCACCTGAGGTC	0.592													8	272	---	---	---	---	PASS
G3BP2	9908	broad.mit.edu	37	4	76570869	76570869	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:76570869C>A	uc003hir.2	-	12	1359	c.1194G>T	c.(1192-1194)GGG>GGT	p.G398G	G3BP2_uc003his.2_Silent_p.G398G|G3BP2_uc003hit.2_Silent_p.G365G	NM_012297	NP_036429	Q9UN86	G3BP2_HUMAN	Ras-GTPase activating protein SH3 domain-binding	398	RRM.				cytoplasmic sequestering of NF-kappaB|mRNA transport|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	GTPase activator activity|nucleotide binding|receptor signaling complex scaffold activity|RNA binding			breast(2)|central_nervous_system(1)	3			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			AACGTACTTCCCCTCGAAACA	0.403													8	27	---	---	---	---	PASS
PLA2G12A	81579	broad.mit.edu	37	4	110635635	110635635	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:110635635C>A	uc003hzp.2	-	4	745	c.468G>T	c.(466-468)GTG>GTT	p.V156V	PLA2G12A_uc010img.2_Silent_p.V154V	NM_030821	NP_110448	Q9BZM1	PG12A_HUMAN	phospholipase A2, group XIIA precursor	156					lipid catabolic process|phospholipid metabolic process	extracellular region	calcium ion binding|calcium-dependent phospholipase A2 activity				0				OV - Ovarian serous cystadenocarcinoma(123;0.000268)		ACAAGAGCTCCACTGTTGTTT	0.408													7	123	---	---	---	---	PASS
CAMK2D	817	broad.mit.edu	37	4	114378622	114378622	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:114378622G>A	uc003ibi.2	-	17	2161	c.1302C>T	c.(1300-1302)CTC>CTT	p.L434L	CAMK2D_uc003ibj.2_Silent_p.L434L|CAMK2D_uc003ibk.2_Silent_p.L434L|CAMK2D_uc003ibo.3_Silent_p.L468L|CAMK2D_uc003ibm.2_Silent_p.L448L|CAMK2D_uc003ibn.2_Silent_p.L445L|CAMK2D_uc003ibl.2_Silent_p.L434L	NM_001221	NP_001212	Q13557	KCC2D_HUMAN	calcium/calmodulin-dependent protein kinase II	434					interferon-gamma-mediated signaling pathway|regulation of cell growth|synaptic transmission	calcium- and calmodulin-dependent protein kinase complex|cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)	1		Ovarian(17;0.00369)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000271)		TGTACTGTGTGAGCCTAATAT	0.463													33	85	---	---	---	---	PASS
GAB1	2549	broad.mit.edu	37	4	144387363	144387363	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:144387363C>A	uc003ije.2	+	9	2270	c.1911C>A	c.(1909-1911)TCC>TCA	p.S637S	GAB1_uc003ijd.2_Silent_p.S667S|GAB1_uc011chq.1_Silent_p.S534S	NM_002039	NP_002030	Q13480	GAB1_HUMAN	GRB2-associated binding protein 1 isoform b	637					cell proliferation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	cytosol	SH3/SH2 adaptor activity			breast(2)|lung(1)|skin(1)	4	all_hematologic(180;0.158)					CTGGGAAATCCACACCACCAC	0.413													5	72	---	---	---	---	PASS
PRMT10	90826	broad.mit.edu	37	4	148605110	148605110	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:148605110C>A	uc003ilc.2	-	1	171	c.29G>T	c.(28-30)CGA>CTA	p.R10L	PRMT10_uc003ild.2_5'UTR	NM_138364	NP_612373	Q6P2P2	ANM10_HUMAN	protein arginine methyltransferase 10	10						cytoplasm	binding|protein methyltransferase activity			ovary(1)|central_nervous_system(1)	2						CCCGGCGTCTCGGCGGGACCT	0.607													6	11	---	---	---	---	PASS
SH3D19	152503	broad.mit.edu	37	4	152095916	152095916	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:152095916C>A	uc010ipl.1	-	7	1690	c.600G>T	c.(598-600)TTG>TTT	p.L200F	SH3D19_uc003imc.2_Missense_Mutation_p.L200F|SH3D19_uc003ime.2_Missense_Mutation_p.L200F|SH3D19_uc010ipm.2_Missense_Mutation_p.L200F	NM_001009555	NP_001009555	Q5HYK7	SH319_HUMAN	SH3 domain containing 19 isoform a	200	Pro-rich.				cellular membrane organization|positive regulation of membrane protein ectodomain proteolysis|post-Golgi vesicle-mediated transport	cytosol|Golgi apparatus|nucleus|plasma membrane	proline-rich region binding			ovary(1)|skin(1)	2	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)				CGATGTCCACCAAGGGCTTGC	0.552													8	204	---	---	---	---	PASS
FAM198B	51313	broad.mit.edu	37	4	159052033	159052033	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:159052033C>A	uc003ipp.3	-	4	1709	c.1257G>T	c.(1255-1257)AAG>AAT	p.K419N	FAM198B_uc003ipq.3_Missense_Mutation_p.K427N|FAM198B_uc003ipr.3_Missense_Mutation_p.K419N	NM_016613	NP_057697	Q6UWH4	F198B_HUMAN	hypothetical protein LOC51313 isoform 2	419	Extracellular (Potential).					Golgi membrane|integral to membrane					0						TTGGGTCATGCTTTCGCTGGA	0.423													10	49	---	---	---	---	PASS
C4orf46	201725	broad.mit.edu	37	4	159592877	159592877	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:159592877G>C	uc003iqa.2	-	1	326	c.77C>G	c.(76-78)TCT>TGT	p.S26C	C4orf46_uc010iqp.1_Intron|ETFDH_uc010iqq.2_5'Flank|ETFDH_uc003iqb.2_5'Flank|ETFDH_uc011cjg.1_5'Flank|ETFDH_uc010iqr.2_5'Flank	NM_001008393	NP_001008394	Q504U0	CD046_HUMAN	hypothetical protein LOC201725	26										skin(1)	1						AGATGCTGCAGAGGCGTCTGA	0.667													6	7	---	---	---	---	PASS
C4orf39	152756	broad.mit.edu	37	4	165878325	165878325	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:165878325G>T	uc003iqx.1	+	1	226	c.151G>T	c.(151-153)GGC>TGC	p.G51C	TRIM61_uc003iqw.2_Intron	NM_153027	NP_694572	Q96MZ4	CD039_HUMAN	hypothetical protein LOC152756	51											0	all_hematologic(180;0.221)	Prostate(90;0.109)		GBM - Glioblastoma multiforme(119;0.146)		TACGCTGACCGGCGGCCGCCA	0.617													4	2	---	---	---	---	PASS
KIAA1712	80817	broad.mit.edu	37	4	175231093	175231093	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:175231093G>T	uc003itr.2	+	8	1185	c.771G>T	c.(769-771)AGG>AGT	p.R257S	KIAA1712_uc010iro.2_Missense_Mutation_p.R257S|KIAA1712_uc003its.2_RNA	NM_001040157	NP_001035247	Q9C0F1	CEP44_HUMAN	HBV PreS1-transactivated protein 3 isoform a	257	Potential.					centrosome|midbody|spindle pole					0		Prostate(90;0.00276)|Melanoma(52;0.0179)|Renal(120;0.0376)|Breast(14;0.0991)|all_hematologic(60;0.124)|all_neural(102;0.196)		all cancers(43;4.06e-18)|Epithelial(43;1.18e-15)|OV - Ovarian serous cystadenocarcinoma(60;4.65e-09)|GBM - Glioblastoma multiforme(59;0.00098)|STAD - Stomach adenocarcinoma(60;0.0029)|LUSC - Lung squamous cell carcinoma(193;0.0949)		TAGAGAAAAGGTTAGACTGTT	0.353													11	31	---	---	---	---	PASS
ANKH	56172	broad.mit.edu	37	5	14711350	14711350	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr5:14711350C>A	uc003jfm.3	-	12	1766	c.1435G>T	c.(1435-1437)GAG>TAG	p.E479*	ANKH_uc003jfl.3_Nonsense_Mutation_p.E192*	NM_054027	NP_473368	Q9HCJ1	ANKH_HUMAN	progressive ankylosis protein	479	Cytoplasmic (Potential).				locomotory behavior|regulation of bone mineralization|skeletal system development	integral to plasma membrane|outer membrane	inorganic diphosphate transmembrane transporter activity|inorganic phosphate transmembrane transporter activity			upper_aerodigestive_tract(1)	1						GTCACCTCCTCTGTCGGAGGC	0.537													6	149	---	---	---	---	PASS
MAST4	375449	broad.mit.edu	37	5	66460893	66460893	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr5:66460893C>A	uc003jut.1	+	28	5387	c.5319C>A	c.(5317-5319)TCC>TCA	p.S1773S	MAST4_uc003juw.2_Silent_p.S1701S|MAST4_uc003jux.2_5'Flank	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	1965						cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		CTGAAGCTTCCCCCTCAAGGG	0.642													4	10	---	---	---	---	PASS
FER	2241	broad.mit.edu	37	5	108290449	108290449	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr5:108290449T>G	uc003kop.1	+	12	1733	c.1349T>G	c.(1348-1350)ATC>AGC	p.I450S	FER_uc011cvf.1_RNA|FER_uc011cvg.1_Missense_Mutation_p.I275S	NM_005246	NP_005237	P16591	FER_HUMAN	fer (fps/fes related) tyrosine kinase	450					intracellular signal transduction|peptidyl-tyrosine phosphorylation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|kidney(1)	5		all_cancers(142;2.86e-06)|all_epithelial(76;9.81e-08)|Prostate(80;0.00972)|Lung NSC(167;0.039)|Ovarian(225;0.0448)|all_lung(232;0.0496)|Colorectal(57;0.0986)|Breast(839;0.152)		OV - Ovarian serous cystadenocarcinoma(64;6.77e-10)|Epithelial(69;4.13e-08)|COAD - Colon adenocarcinoma(37;0.0174)		ATGATCTCCATCAGTGAGAAG	0.318													3	14	---	---	---	---	PASS
PJA2	9867	broad.mit.edu	37	5	108714608	108714608	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr5:108714608G>A	uc003kos.3	-	4	800	c.580C>T	c.(580-582)CAG>TAG	p.Q194*		NM_014819	NP_055634	O43164	PJA2_HUMAN	praja 2, RING-H2 motif containing	194					long-term memory|regulation of protein kinase A signaling cascade	cell junction|endoplasmic reticulum membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	ligase activity|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(142;4.4e-06)|all_epithelial(76;8.17e-08)|Prostate(80;0.00676)|Lung NSC(167;0.0436)|Ovarian(225;0.0443)|all_lung(232;0.053)|Colorectal(57;0.0946)|Breast(839;0.151)		OV - Ovarian serous cystadenocarcinoma(64;3.46e-10)|Epithelial(69;6.02e-09)|COAD - Colon adenocarcinoma(37;0.224)		AATGATTCCTGGTATCTACTA	0.418													19	53	---	---	---	---	PASS
YTHDC2	64848	broad.mit.edu	37	5	112899572	112899572	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr5:112899572A>G	uc003kqn.2	+	20	2642	c.2459A>G	c.(2458-2460)GAT>GGT	p.D820G		NM_022828	NP_073739	Q9H6S0	YTDC2_HUMAN	YTH domain containing 2	820							ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(2)|central_nervous_system(1)	3		all_cancers(142;7.69e-05)|all_epithelial(76;6.42e-07)|Colorectal(10;0.00278)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Lung NSC(810;0.143)|all_lung(232;0.163)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;7.2e-08)|Epithelial(69;8.83e-08)|all cancers(49;6.9e-06)|COAD - Colon adenocarcinoma(37;0.0458)|Colorectal(14;0.0594)		GATGCAATGGATACATGGGAA	0.363													23	55	---	---	---	---	PASS
AQPEP	206338	broad.mit.edu	37	5	115351326	115351326	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr5:115351326T>C	uc003kro.2	+	18	2784	c.2620T>C	c.(2620-2622)TAT>CAT	p.Y874H	AQPEP_uc003krp.2_RNA|AQPEP_uc003krq.2_RNA|AQPEP_uc003krr.2_RNA|AQPEP_uc003krs.2_RNA	NM_173800	NP_776161	Q6Q4G3	AMPQ_HUMAN	laeverin	874	Lumenal (Potential).				proteolysis	integral to membrane	metallopeptidase activity|zinc ion binding				0						CTTTTGCAGATATATGGAGTA	0.328													7	17	---	---	---	---	PASS
FBN2	2201	broad.mit.edu	37	5	127597470	127597470	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr5:127597470G>T	uc003kuu.2	-	64	8761	c.8322C>A	c.(8320-8322)GAC>GAA	p.D2774E		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	2774					bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		TCTGCCTGCTGTCTTTCTTAG	0.463													12	61	---	---	---	---	PASS
TGFBI	7045	broad.mit.edu	37	5	135388688	135388688	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr5:135388688G>A	uc003lbf.3	+	8	1167	c.1006G>A	c.(1006-1008)GAG>AAG	p.E336K	TGFBI_uc003lbg.3_Missense_Mutation_p.E69K|TGFBI_uc003lbh.3_Missense_Mutation_p.E162K|TGFBI_uc011cyb.1_Missense_Mutation_p.E162K|TGFBI_uc010jed.2_Missense_Mutation_p.E69K	NM_000358	NP_000349	Q15582	BGH3_HUMAN	transforming growth factor, beta-induced, 68kDa	336	FAS1 2.				angiogenesis|cell adhesion|cell proliferation|negative regulation of cell adhesion|response to stimulus|visual perception	extracellular space|proteinaceous extracellular matrix	integrin binding			breast(3)|ovary(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CACGACACTGGAGGTGGGCTG	0.552													23	29	---	---	---	---	PASS
KDM3B	51780	broad.mit.edu	37	5	137761207	137761207	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr5:137761207G>C	uc003lcy.1	+	17	4547	c.4347G>C	c.(4345-4347)AGG>AGC	p.R1449S	KDM3B_uc010jew.1_Missense_Mutation_p.R1105S|KDM3B_uc011cys.1_Missense_Mutation_p.R481S	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	1449					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(3)|upper_aerodigestive_tract(2)|lung(2)|kidney(2)|central_nervous_system(1)|skin(1)	11						TGAACTGCAGGAACTGTGCTA	0.443													23	66	---	---	---	---	PASS
CYFIP2	26999	broad.mit.edu	37	5	156731318	156731318	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr5:156731318G>T	uc003lwq.2	+	10	877	c.739G>T	c.(739-741)GAT>TAT	p.D247Y	CYFIP2_uc011ddn.1_Missense_Mutation_p.D221Y|CYFIP2_uc011ddo.1_Intron|CYFIP2_uc003lwr.2_Missense_Mutation_p.D247Y|CYFIP2_uc003lws.2_Missense_Mutation_p.D247Y|CYFIP2_uc003lwt.2_Missense_Mutation_p.D125Y|CYFIP2_uc011ddp.1_Intron|CYFIP2_uc003lwp.2_Missense_Mutation_p.D125Y	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	247					apoptosis|cell-cell adhesion	cell junction|perinuclear region of cytoplasm|synapse|synaptosome	protein binding				0	Renal(175;0.00212)	Medulloblastoma(196;0.0306)|all_neural(177;0.0897)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CATCTGTGTGGATTACTACGA	0.532													20	48	---	---	---	---	PASS
ADRA1B	147	broad.mit.edu	37	5	159398990	159398990	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr5:159398990A>C	uc003lxt.1	+	2	1227	c.1054A>C	c.(1054-1056)AGC>CGC	p.S352R		NM_000679	NP_000670	P35368	ADA1B_HUMAN	alpha-1B-adrenergic receptor	352	Cytoplasmic (By similarity).				cell proliferation|cell-cell signaling|G-protein signaling, coupled to cAMP nucleotide second messenger|intracellular protein kinase cascade	integral to plasma membrane	alpha1-adrenergic receptor activity			lung(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Guanfacine(DB01018)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Modafinil(DB00745)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Olanzapine(DB00334)|Phendimetrazine(DB01579)|Phenylephrine(DB00388)|Prazosin(DB00457)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Trazodone(DB00656)	CCCATGCTCCAGCAAGGAGTT	0.488													9	26	---	---	---	---	PASS
GABRG2	2566	broad.mit.edu	37	5	161495049	161495049	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr5:161495049C>A	uc003lyz.3	+	1	402	c.44C>A	c.(43-45)TCG>TAG	p.S15*	GABRG2_uc010jjc.2_Nonsense_Mutation_p.S15*|GABRG2_uc003lyy.3_Nonsense_Mutation_p.S15*|GABRG2_uc011dej.1_5'UTR	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	15					gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(4)|skin(1)	5	Renal(175;0.000319)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0734)|OV - Ovarian serous cystadenocarcinoma(192;0.135)|Epithelial(171;0.136)		TCAGTCTACTCGACTCCTGTA	0.468													4	73	---	---	---	---	PASS
PANK3	79646	broad.mit.edu	37	5	167995926	167995926	+	Nonsense_Mutation	SNP	C	A	A	rs71603869		TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr5:167995926C>A	uc003lzz.1	-	2	406	c.106G>T	c.(106-108)GAG>TAG	p.E36*		NM_024594	NP_078870	Q9H999	PANK3_HUMAN	pantothenate kinase 3	36					coenzyme A biosynthetic process	cytoplasm|nucleus	ATP binding|pantothenate kinase activity			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0441)|all_lung(126;0.0909)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0989)|OV - Ovarian serous cystadenocarcinoma(192;0.147)|Epithelial(171;0.188)		TGCTCTTCCTCTGCTGTGATA	0.408													5	75	---	---	---	---	PASS
RANBP17	64901	broad.mit.edu	37	5	170337973	170337973	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr5:170337973G>A	uc003mba.2	+	7	611	c.595G>A	c.(595-597)GTG>ATG	p.V199M	RANBP17_uc003max.1_RNA|RANBP17_uc003may.1_RNA|RANBP17_uc003maz.1_RNA|RANBP17_uc010jjr.1_RNA|RANBP17_uc003maw.2_3'UTR|RANBP17_uc011dew.1_Missense_Mutation_p.V199M	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	199				V -> A (in Ref. 3; BAB55427).	mRNA transport|protein import into nucleus|transmembrane transport	cytoplasm|nuclear pore	GTP binding|protein transporter activity			ovary(2)|central_nervous_system(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00751)|all_lung(126;0.0123)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			CTTTTTTCAGGTGTTTGCCAA	0.308			T	TRD@	ALL								16	48	---	---	---	---	PASS
HMP19	51617	broad.mit.edu	37	5	173534370	173534370	+	Silent	SNP	C	G	G	rs11557147		TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr5:173534370C>G	uc003mcx.2	+	5	523	c.378C>G	c.(376-378)CCC>CCG	p.P126P	HMP19_uc011dfh.1_Missense_Mutation_p.P30R	NM_015980	NP_057064	Q9Y328	NSG2_HUMAN	HMP19 protein	126	Lumenal (Potential).				dopamine receptor signaling pathway	cytoplasmic vesicle membrane|Golgi cisterna membrane|integral to membrane|multivesicular body membrane	dopamine receptor binding			central_nervous_system(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00925)|all_lung(126;0.0148)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CCCAGGACCCCAATTCCAGAA	0.592													17	37	---	---	---	---	PASS
SFXN1	94081	broad.mit.edu	37	5	174919163	174919163	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr5:174919163C>G	uc003mda.2	+	2	195	c.57C>G	c.(55-57)AGC>AGG	p.S19R	SFXN1_uc003mdb.1_5'UTR	NM_022754	NP_073591	Q9H9B4	SFXN1_HUMAN	sideroflexin 1	19					iron ion homeostasis	integral to membrane	cation transmembrane transporter activity|protein binding			ovary(1)	1	all_cancers(89;0.00922)|Renal(175;0.000269)|Lung NSC(126;0.00515)|all_lung(126;0.00873)	Medulloblastoma(196;0.0399)|all_neural(177;0.0663)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			GGGATCAAAGCACTTTCATTG	0.448													15	34	---	---	---	---	PASS
ZNF454	285676	broad.mit.edu	37	5	178391831	178391831	+	Silent	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr5:178391831C>T	uc003mjo.1	+	5	697	c.426C>T	c.(424-426)CTC>CTT	p.L142L	ZNF454_uc010jkz.1_Silent_p.L142L	NM_182594	NP_872400	Q8N9F8	ZN454_HUMAN	zinc finger protein 454	142					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(89;0.000904)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.225)|all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.234)		GAGTGGTACTCACTCACCCCA	0.488													12	36	---	---	---	---	PASS
CDKAL1	54901	broad.mit.edu	37	6	20546619	20546619	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:20546619T>C	uc003ndc.1	+	3	212	c.38T>C	c.(37-39)ATC>ACC	p.I13T	CDKAL1_uc003ndd.1_Missense_Mutation_p.I13T|CDKAL1_uc003nde.1_5'UTR|CDKAL1_uc010jpo.1_Missense_Mutation_p.I13T|CDKAL1_uc003ndb.1_Missense_Mutation_p.I13T	NM_017774	NP_060244	Q5VV42	CDKAL_HUMAN	CDK5 regulatory subunit associated protein	13					RNA modification	integral to membrane	4 iron, 4 sulfur cluster binding|metal ion binding|transferase activity			ovary(2)	2	all_epithelial(95;0.0708)|Breast(50;0.131)|Ovarian(93;0.227)		OV - Ovarian serous cystadenocarcinoma(7;0.0241)|all cancers(50;0.123)|Epithelial(50;0.248)			CTGGATGACATCGAAGATATC	0.358													56	46	---	---	---	---	PASS
HIST1H2BM	8342	broad.mit.edu	37	6	27783015	27783015	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:27783015C>G	uc003njo.2	+	1	194	c.194C>G	c.(193-195)TCC>TGC	p.S65C	HIST1H2AJ_uc003njn.1_5'Flank	NM_003521	NP_003512	Q99879	H2B1M_HUMAN	histone cluster 1, H2bm	65					nucleosome assembly	nucleosome|nucleus	DNA binding			large_intestine(1)	1						ATCATGAACTCCTTCGTCAAC	0.567													64	76	---	---	---	---	PASS
GPX5	2880	broad.mit.edu	37	6	28493833	28493833	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:28493833C>A	uc003nll.2	+	1	45	c.43C>A	c.(43-45)CTA>ATA	p.L15I	GPX5_uc003nlm.2_Missense_Mutation_p.L15I|GPX5_uc003nln.2_5'Flank	NM_001509	NP_001500	O75715	GPX5_HUMAN	glutathione peroxidase 5 isoform 1 precursor	15					lipid metabolic process|response to oxidative stress	extracellular region	glutathione peroxidase activity			skin(1)	1					Glutathione(DB00143)	TCCCCTTCTCCTAGCCTGCTT	0.507													7	238	---	---	---	---	PASS
HLA-A	3105	broad.mit.edu	37	6	29911087	29911087	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:29911087C>A	uc003nol.2	+	3	386	c.386C>A	c.(385-387)TCG>TAG	p.S129*	HLA-G_uc011dmb.1_Intron|HCG4P6_uc003nog.1_RNA|HLA-A_uc010jrq.2_Nonsense_Mutation_p.S8*|HLA-A_uc003nok.2_Nonsense_Mutation_p.S8*|HLA-A_uc003non.2_Nonsense_Mutation_p.S129*|HLA-A_uc003noo.2_Nonsense_Mutation_p.S129*|HLA-A_uc010jrr.2_Nonsense_Mutation_p.S129*|HLA-A_uc003nom.2_Nonsense_Mutation_p.S8*|HLA-A_uc010klp.2_Nonsense_Mutation_p.S101*|HLA-A_uc011dmc.1_Nonsense_Mutation_p.S8*|HLA-A_uc011dmd.1_Nonsense_Mutation_p.S8*	NM_002116	NP_002107	P30443	1A01_HUMAN	major histocompatibility complex, class I, A	129	Extracellular (Potential).|Alpha-2.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2						GACGTGGGGTCGGACGGGCGC	0.687									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of|Osteosarcoma_Familial_Clustering_of|Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of	Multiple Myeloma(9;0.094)			11	5	---	---	---	---	PASS
MUC21	394263	broad.mit.edu	37	6	30954993	30954993	+	Silent	SNP	C	T	T	rs55809174		TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:30954993C>T	uc003nsh.2	+	2	1292	c.1041C>T	c.(1039-1041)AAC>AAT	p.N347N	MUC21_uc003nsi.1_RNA	NM_001010909	NP_001010909	Q5SSG8	MUC21_HUMAN	mucin 21 precursor	347	Ser-rich.|28 X 15 AA approximate tandem repeats.|22.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(1)|skin(1)	2						CAGCCACCAACTCTGAGTCCA	0.627													6	157	---	---	---	---	PASS
APOM	55937	broad.mit.edu	37	6	31624395	31624395	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:31624395C>A	uc003nvl.2	+	2	334	c.261C>A	c.(259-261)ACC>ACA	p.T87T	APOM_uc003nvk.2_Silent_p.T15T	NM_019101	NP_061974	O95445	APOM_HUMAN	apolipoprotein M	87					cholesterol efflux|high-density lipoprotein particle assembly|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|negative regulation of plasma lipoprotein particle oxidation|reverse cholesterol transport	discoidal high-density lipoprotein particle|integral to plasma membrane|low-density lipoprotein particle|spherical high-density lipoprotein particle|very-low-density lipoprotein particle	binding|lipid transporter activity				0						TTCGTGCTACCATCCGCATGT	0.542													5	75	---	---	---	---	PASS
HLA-DQA1	3117	broad.mit.edu	37	6	32610020	32610020	+	Silent	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:32610020G>T	uc003obr.2	+	3	656	c.603G>T	c.(601-603)CTG>CTT	p.L201L	HLA-DQA1_uc003obs.2_RNA|HLA-DQA1_uc003obt.1_Silent_p.L201L|HLA-DQA1_uc003obu.2_5'Flank	NM_002122	NP_002113	P01909	DQA1_HUMAN	major histocompatibility complex, class II, DQ	200	Ig-like C1-type.|Alpha-2.|Extracellular (Potential).				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|endosome membrane|Golgi apparatus|integral to plasma membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0						AGCCTCTTCTGAAACACTGGG	0.428													11	19	---	---	---	---	PASS
HLA-DQA2	3118	broad.mit.edu	37	6	32713839	32713839	+	Silent	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:32713839G>T	uc003obx.2	+	3	661	c.603G>T	c.(601-603)CTG>CTT	p.L201L		NM_020056	NP_064440	P01906	DQA2_HUMAN	major histocompatibility complex, class II, DQ	201	Alpha-2.|Extracellular (Potential).|Ig-like C1-type.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|endosome membrane|Golgi apparatus|integral to plasma membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AGCCTCTTCTGAAACACTGGG	0.498													16	104	---	---	---	---	PASS
HLA-DOB	3112	broad.mit.edu	37	6	32781028	32781028	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:32781028C>A	uc003oca.2	-	6	884	c.787G>T	c.(787-789)GTC>TTC	p.V263F		NM_002120	NP_002111	P13765	DOB_HUMAN	major histocompatibility complex, class II, DO	263	Cytoplasmic (Potential).				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endosome membrane|integral to membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity			skin(1)	1						GCTCTTGAGACCTGGAGGCAC	0.572													42	39	---	---	---	---	PASS
PSMB8	5696	broad.mit.edu	37	6	32808780	32808780	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:32808780C>A	uc003oce.2	-	6	830	c.787G>T	c.(787-789)GAT>TAT	p.D263Y	TAP2_uc011dqf.1_5'Flank|TAP2_uc003ocb.1_5'Flank|TAP2_uc003occ.2_5'Flank|TAP2_uc003ocd.2_5'Flank|PSMB8_uc003ocf.2_Missense_Mutation_p.D259Y	NM_148919	NP_683720	P28062	PSB8_HUMAN	proteasome beta 8 subunit isoform E2 proprotein	263					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|type I interferon-mediated signaling pathway|viral reproduction	cytoplasm|nucleus|proteasome core complex	protein binding|threonine-type endopeptidase activity			skin(1)	1						TCACTGACATCTGTACTTTCT	0.512													30	29	---	---	---	---	PASS
PGK2	5232	broad.mit.edu	37	6	49754273	49754273	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:49754273C>A	uc003ozu.2	-	1	735	c.628G>T	c.(628-630)GCT>TCT	p.A210S		NM_138733	NP_620061	P07205	PGK2_HUMAN	phosphoglycerate kinase 2	210					glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			ovary(1)	1	Lung NSC(77;0.0402)					CCAAGTATAGCCAGAAAGGGT	0.433													18	51	---	---	---	---	PASS
DST	667	broad.mit.edu	37	6	56334983	56334983	+	Silent	SNP	A	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:56334983A>C	uc003pdf.2	-	90	16090	c.16062T>G	c.(16060-16062)CTT>CTG	p.L5354L	DST_uc003pcz.3_Silent_p.L5176L|DST_uc011dxj.1_Silent_p.L5205L|DST_uc011dxk.1_Silent_p.L5216L|DST_uc003pcy.3_Silent_p.L4850L|DST_uc003pcw.3_5'Flank|DST_uc003pcx.3_5'Flank	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	7262	EF-hand 2.				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)			TATTTGGGTGAAGGGCTGCTA	0.413													8	17	---	---	---	---	PASS
BAI3	577	broad.mit.edu	37	6	69653726	69653726	+	Silent	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:69653726C>T	uc003pev.3	+	6	1483	c.1035C>T	c.(1033-1035)CAC>CAT	p.H345H	BAI3_uc010kak.2_Silent_p.H345H	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	345	Extracellular (Potential).|TSP type-1 2.				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				TTACAGTACACGGAGTATGGG	0.373													14	56	---	---	---	---	PASS
RIMS1	22999	broad.mit.edu	37	6	72957822	72957822	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:72957822C>T	uc003pga.2	+	12	2310	c.2233C>T	c.(2233-2235)CAA>TAA	p.Q745*	RIMS1_uc011dyb.1_Nonsense_Mutation_p.Q371*|RIMS1_uc003pgc.2_Nonsense_Mutation_p.Q371*|RIMS1_uc010kaq.2_Nonsense_Mutation_p.Q219*|RIMS1_uc011dyc.1_Nonsense_Mutation_p.Q219*|RIMS1_uc010kar.2_Nonsense_Mutation_p.Q138*|RIMS1_uc011dyd.1_Nonsense_Mutation_p.Q204*|RIMS1_uc003pgf.2_5'Flank|RIMS1_uc003pgg.2_5'Flank|RIMS1_uc003pgi.2_5'Flank|RIMS1_uc003pgh.2_5'Flank|RIMS1_uc003pgd.2_5'Flank|RIMS1_uc003pge.2_5'Flank|RIMS1_uc003pgb.3_Nonsense_Mutation_p.Q371*|RIMS1_uc010kas.1_Nonsense_Mutation_p.Q204*	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	745	C2 1.				calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				CTTACCAGGGCAACTTTCTGT	0.408													24	47	---	---	---	---	PASS
PHIP	55023	broad.mit.edu	37	6	79672829	79672829	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:79672829G>T	uc003pir.2	-	30	3746	c.3520C>A	c.(3520-3522)CAG>AAG	p.Q1174K	PHIP_uc003piq.2_Missense_Mutation_p.Q198K|PHIP_uc011dyp.1_Missense_Mutation_p.Q1173K|PHIP_uc003pio.3_Missense_Mutation_p.Q60K	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	1174					insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		GTCATCAACTGGTTTATTCCT	0.378													6	156	---	---	---	---	PASS
DOPEY1	23033	broad.mit.edu	37	6	83861601	83861601	+	Splice_Site	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:83861601G>T	uc003pjs.1	+	29	6165	c.5905_splice	c.e29-1	p.D1969_splice	DOPEY1_uc011dyy.1_Splice_Site_p.D1960_splice|DOPEY1_uc010kbl.1_Splice_Site_p.D1960_splice|DOPEY1_uc003pjt.2_Splice_Site	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1						protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		TATTTTTTTAGGATGTAACTC	0.353													5	61	---	---	---	---	PASS
ORC3L	23595	broad.mit.edu	37	6	88362927	88362927	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:88362927G>C	uc003pmh.2	+	14	1520	c.1476G>C	c.(1474-1476)AAG>AAC	p.K492N	ORC3L_uc011dzl.1_Missense_Mutation_p.K492N|ORC3L_uc011dzm.1_Missense_Mutation_p.K492N|ORC3L_uc011dzn.1_RNA|ORC3L_uc003pmg.2_Missense_Mutation_p.K492N|ORC3L_uc003pmi.2_Missense_Mutation_p.K454N|ORC3L_uc011dzo.1_Missense_Mutation_p.K349N|ORC3L_uc011dzp.1_Missense_Mutation_p.K349N	NM_012381	NP_036513	Q9UBD5	ORC3_HUMAN	origin recognition complex, subunit 3 isoform 2	492					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0		all_cancers(76;9.05e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;5.29e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.0469)		GCACAGCTAAGAGAATAGAGG	0.408													16	72	---	---	---	---	PASS
MDN1	23195	broad.mit.edu	37	6	90387321	90387321	+	Silent	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:90387321G>T	uc003pnn.1	-	76	12623	c.12507C>A	c.(12505-12507)TCC>TCA	p.S4169S		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4169					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TGCTGACGATGGACAATGCGC	0.438													5	57	---	---	---	---	PASS
PRDM1	639	broad.mit.edu	37	6	106547368	106547368	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:106547368G>C	uc003prd.2	+	4	839	c.605G>C	c.(604-606)CGG>CCG	p.R202P	PRDM1_uc003pre.2_Missense_Mutation_p.R68P	NM_001198	NP_001189	O75626	PRDM1_HUMAN	PR domain containing 1, with ZNF domain isoform	202	SET.				negative regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(54)|ovary(1)|skin(1)	56	Breast(9;0.022)	all_cancers(87;2.2e-31)|all_epithelial(87;2.03e-21)|Acute lymphoblastic leukemia(125;4.99e-11)|all_lung(197;7.55e-09)|all_hematologic(75;5.82e-08)|Lung NSC(302;1.28e-06)|Colorectal(196;0.0112)|Ovarian(999;0.0365)		all cancers(137;1.83e-46)|Epithelial(106;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(136;1.99e-20)|GBM - Glioblastoma multiforme(226;3.72e-11)|BRCA - Breast invasive adenocarcinoma(108;1.38e-05)		TGGTATTGTCGGGACTTTGCA	0.453			D|N|Mis|F|S		DLBCL								13	31	---	---	---	---	PASS
SYNE1	23345	broad.mit.edu	37	6	152746534	152746534	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:152746534G>T	uc010kiw.2	-	39	5851	c.5249C>A	c.(5248-5250)CCA>CAA	p.P1750Q	SYNE1_uc003qot.3_Missense_Mutation_p.P1757Q|SYNE1_uc003qou.3_Missense_Mutation_p.P1750Q|SYNE1_uc010kjb.1_Missense_Mutation_p.P1733Q	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1750	Spectrin 2.|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)		AATGATCTGTGGTAAATCTCT	0.313										HNSCC(10;0.0054)			4	41	---	---	---	---	PASS
MAP3K4	4216	broad.mit.edu	37	6	161507647	161507647	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:161507647C>T	uc003qtn.2	+	9	2646	c.2504C>T	c.(2503-2505)TCA>TTA	p.S835L	MAP3K4_uc010kkc.1_Missense_Mutation_p.S835L|MAP3K4_uc003qto.2_Missense_Mutation_p.S835L|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.S288L	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	835					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		TTCAGGCTTTCAGCCCCAGTT	0.358													13	29	---	---	---	---	PASS
TNRC18	84629	broad.mit.edu	37	7	5352184	5352184	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr7:5352184C>A	uc003soi.3	-	27	8687	c.8338G>T	c.(8338-8340)GCC>TCC	p.A2780S		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2780							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		GGCAGGAAGGCGGCGATCTTG	0.711													4	13	---	---	---	---	PASS
MIOS	54468	broad.mit.edu	37	7	7636041	7636041	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr7:7636041C>A	uc003srf.2	+	11	2658	c.2350C>A	c.(2350-2352)CGA>AGA	p.R784R	MIOS_uc003srg.2_Silent_p.R319R|MIOS_uc010ktq.2_Silent_p.R179R	NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	784											0						ACCACTTCCTCGATGTGCGCT	0.413													4	85	---	---	---	---	PASS
HOXA13	3209	broad.mit.edu	37	7	27237878	27237878	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr7:27237878C>A	uc003szb.1	-	2	1135	c.1106G>T	c.(1105-1107)TGG>TTG	p.W369L	uc003szc.1_5'Flank	NM_000522	NP_000513	P31271	HXA13_HUMAN	homeobox A13	369	Homeobox.				skeletal system development	nucleus	sequence-specific DNA binding			breast(1)	1						GTTCTGGAACCAGATTGTGAC	0.423			T	NUP98	AML								6	93	---	---	---	---	PASS
CCM2	83605	broad.mit.edu	37	7	45115438	45115438	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr7:45115438G>T	uc003tmo.2	+	10	1263	c.1117G>T	c.(1117-1119)GGC>TGC	p.G373C	CCM2_uc003tmn.2_RNA|CCM2_uc003tmp.2_Missense_Mutation_p.G315C|CCM2_uc003tmq.2_RNA|CCM2_uc003tmr.2_Missense_Mutation_p.G282C|CCM2_uc003tms.2_Missense_Mutation_p.G394C	NM_031443	NP_113631	Q9BSQ5	CCM2_HUMAN	cerebral cavernous malformation 2 isoform 2	373					endothelial tube morphogenesis|integrin-mediated signaling pathway|stress-activated MAPK cascade|vasculogenesis	cytoplasm	protein binding				0						GGAGACCATTGGCGTGAAGGA	0.602									Familial_Cerebral_Cavernous_Angioma				4	26	---	---	---	---	PASS
CLIP2	7461	broad.mit.edu	37	7	73803542	73803542	+	Silent	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr7:73803542C>T	uc003uam.2	+	13	3000	c.2673C>T	c.(2671-2673)GCC>GCT	p.A891A	CLIP2_uc003uan.2_Silent_p.A856A	NM_003388	NP_003379	Q9UDT6	CLIP2_HUMAN	CAP-GLY domain containing linker protein 2	891	Potential.					microtubule associated complex				skin(3)	3						CCCATGACGCCTCGGGCCAGC	0.677													3	15	---	---	---	---	PASS
GTF2IRD1	9569	broad.mit.edu	37	7	73929890	73929890	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr7:73929890C>T	uc003uaq.2	+	4	778	c.385C>T	c.(385-387)CGG>TGG	p.R129W	GTF2IRD1_uc010lbq.2_Missense_Mutation_p.R161W|GTF2IRD1_uc003uap.2_Missense_Mutation_p.R129W|GTF2IRD1_uc003uar.1_Missense_Mutation_p.R129W	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	129	GTF2I-like 1.					nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						GTACCTTCTGCGGAAGATGGT	0.602													8	23	---	---	---	---	PASS
DTX2	113878	broad.mit.edu	37	7	76112361	76112361	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr7:76112361G>C	uc003uff.3	+	5	1361	c.805G>C	c.(805-807)GCA>CCA	p.A269P	DTX2_uc011kgk.1_Missense_Mutation_p.A178P|DTX2_uc003ufg.3_Missense_Mutation_p.A269P|DTX2_uc003ufh.3_Missense_Mutation_p.A269P|DTX2_uc003ufj.3_Missense_Mutation_p.A269P	NM_020892	NP_065943	Q86UW9	DTX2_HUMAN	deltex 2 isoform a	269					Notch signaling pathway	cytoplasm|nucleus	protein binding|zinc ion binding			ovary(1)|skin(1)	2						CGCCTGGGGCGCAGCTCCTCC	0.672													14	43	---	---	---	---	PASS
HGF	3082	broad.mit.edu	37	7	81388038	81388038	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr7:81388038C>T	uc003uhl.2	-	3	502	c.337G>A	c.(337-339)GGC>AGC	p.G113S	HGF_uc003uhm.2_Missense_Mutation_p.G113S|HGF_uc003uhn.1_Missense_Mutation_p.G113S|HGF_uc003uho.1_Missense_Mutation_p.G113S|HGF_uc003uhp.2_Missense_Mutation_p.G113S	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	113	PAN.				epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						AATTCATGGCCAAATTCTTTT	0.323													10	43	---	---	---	---	PASS
CASD1	64921	broad.mit.edu	37	7	94178901	94178901	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr7:94178901A>T	uc003uni.3	+	14	1997	c.1770A>T	c.(1768-1770)AAA>AAT	p.K590N	CASD1_uc003unj.3_Missense_Mutation_p.K590N	NM_022900	NP_075051	Q96PB1	CASD1_HUMAN	CAS1 domain containing 1 precursor	590						integral to membrane				ovary(2)	2	all_cancers(62;6.71e-10)|all_epithelial(64;5e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			TTGAACTGAAAGGGAATGTAT	0.333													27	110	---	---	---	---	PASS
LMTK2	22853	broad.mit.edu	37	7	97800947	97800947	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr7:97800947C>T	uc003upd.1	+	7	1045	c.752C>T	c.(751-753)GCG>GTG	p.A251V		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	251	Protein kinase.				early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					GAGGTCGCCGCGGGGCTGGCC	0.672													20	22	---	---	---	---	PASS
TFEC	22797	broad.mit.edu	37	7	115594691	115594691	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr7:115594691C>T	uc003vhj.1	-	5	572	c.388G>A	c.(388-390)GAC>AAC	p.D130N	TFEC_uc003vhk.1_Missense_Mutation_p.D101N|TFEC_uc003vhl.3_Missense_Mutation_p.D101N|TFEC_uc011kmw.1_Missense_Mutation_p.D220N	NM_012252	NP_036384	O14948	TFEC_HUMAN	transcription factor EC isoform a	130	Basic motif.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			large_intestine(1)	1			STAD - Stomach adenocarcinoma(10;0.00878)			GCTCTAGTGTCAGTTTCTGAT	0.318													6	34	---	---	---	---	PASS
TSPAN33	340348	broad.mit.edu	37	7	128806698	128806698	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr7:128806698G>T	uc003vop.1	+	6	768	c.539G>T	c.(538-540)CGA>CTA	p.R180L	TSPAN33_uc003voq.1_Missense_Mutation_p.R12L	NM_178562	NP_848657	Q86UF1	TSN33_HUMAN	tetraspanin 33	180	Extracellular (Potential).					integral to membrane				ovary(1)	1						AACCCCAGTCGAGAGCGCTGC	0.527													7	283	---	---	---	---	PASS
PLXNA4	91584	broad.mit.edu	37	7	131883284	131883284	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr7:131883284C>A	uc003vra.3	-	13	2927	c.2698G>T	c.(2698-2700)GAG>TAG	p.E900*		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	900	IPT/TIG 1.|Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						GGGCTGCACTCCACGCCAGCA	0.577													25	30	---	---	---	---	PASS
TTC26	79989	broad.mit.edu	37	7	138819449	138819449	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr7:138819449G>A	uc003vus.2	+	2	166	c.52G>A	c.(52-54)GAC>AAC	p.D18N	TTC26_uc003vuq.2_Missense_Mutation_p.D18N|TTC26_uc011kqm.1_Missense_Mutation_p.D18N|TTC26_uc003vur.3_Missense_Mutation_p.D18N|TTC26_uc011kqn.1_Missense_Mutation_p.D18N|TTC26_uc011kqo.1_Missense_Mutation_p.D18N|TTC26_uc011kqp.1_5'UTR|TTC26_uc003vut.2_5'UTR|TTC26_uc011kqq.1_Missense_Mutation_p.D18N	NM_024926	NP_079202	A0AVF1	TTC26_HUMAN	tetratricopeptide repeat domain 26 isoform 1	18							binding			ovary(1)	1						ACAGCACACTGACAAAAGAAA	0.413													29	41	---	---	---	---	PASS
ACTR3B	57180	broad.mit.edu	37	7	152517413	152517413	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr7:152517413C>G	uc003wle.1	+	7	687	c.570C>G	c.(568-570)ATC>ATG	p.I190M	ACTR3B_uc003wlf.1_Missense_Mutation_p.I190M|ACTR3B_uc003wlg.1_Missense_Mutation_p.I102M|ACTR3B_uc011kvp.1_Missense_Mutation_p.I102M	NM_020445	NP_065178	Q9P1U1	ARP3B_HUMAN	actin-related protein 3-beta isoform 1	190					regulation of actin filament polymerization	cell projection|cytoplasm|cytoskeleton	actin binding|ATP binding				0		all_hematologic(28;0.0592)|Prostate(32;0.191)	OV - Ovarian serous cystadenocarcinoma(82;0.0287)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0434)		GAAGCTGCATCAAACACATCC	0.502													14	24	---	---	---	---	PASS
CSMD1	64478	broad.mit.edu	37	8	3216692	3216692	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr8:3216692G>T	uc011kwk.1	-	21	3679	c.3289C>A	c.(3289-3291)CCT>ACT	p.P1097T	CSMD1_uc011kwj.1_Missense_Mutation_p.P489T|CSMD1_uc003wqe.2_Missense_Mutation_p.P253T	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1097	Sushi 6.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CTTGGCAGAGGTGCACTCCAC	0.587													16	32	---	---	---	---	PASS
CSMD1	64478	broad.mit.edu	37	8	3889546	3889546	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr8:3889546C>G	uc011kwk.1	-	4	881	c.491G>C	c.(490-492)GGA>GCA	p.G164A		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	164	Extracellular (Potential).|Sushi 1.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GATTTTGTCTCCTATGTTGAA	0.488													15	27	---	---	---	---	PASS
LETM2	137994	broad.mit.edu	37	8	38257911	38257911	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr8:38257911C>A	uc003xlm.1	+	5	797	c.626C>A	c.(625-627)TCA>TAA	p.S209*	LETM2_uc011lbn.1_Nonsense_Mutation_p.S53*|LETM2_uc003xll.1_Nonsense_Mutation_p.S161*|LETM2_uc003xln.1_Nonsense_Mutation_p.S53*|LETM2_uc003xlo.1_Nonsense_Mutation_p.S53*	NM_144652	NP_653253	Q2VYF4	LETM2_HUMAN	leucine zipper-EF-hand containing transmembrane	256	LETM1.|Mitochondrial matrix (Potential).					integral to membrane|mitochondrial inner membrane					0	all_cancers(2;6.77e-47)|all_epithelial(2;1.01e-50)|all_lung(3;1.25e-23)|Lung NSC(2;2.76e-23)|Colorectal(12;0.000442)|Esophageal squamous(3;0.00202)	all_lung(54;0.0657)|Hepatocellular(245;0.152)|Lung NSC(58;0.175)	Epithelial(3;1.17e-42)|all cancers(3;5.44e-38)|BRCA - Breast invasive adenocarcinoma(5;5.44e-27)|LUSC - Lung squamous cell carcinoma(2;7.12e-25)|Lung(2;4.49e-22)|COAD - Colon adenocarcinoma(9;0.114)			ACACAGCTCTCATCCTACGTG	0.453													11	466	---	---	---	---	PASS
NSMAF	8439	broad.mit.edu	37	8	59514692	59514692	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr8:59514692C>A	uc003xtt.2	-	14	1264	c.1050G>T	c.(1048-1050)TTG>TTT	p.L350F	NSMAF_uc011lee.1_Missense_Mutation_p.L381F|NSMAF_uc003xtu.2_Missense_Mutation_p.L350F	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	350	BEACH.				ceramide metabolic process	cytoplasm|soluble fraction	protein binding|receptor signaling protein activity			ovary(1)	1		all_lung(136;0.174)|Lung NSC(129;0.2)				CTGGATTTGACAAATCTATAA	0.368													23	62	---	---	---	---	PASS
CHD7	55636	broad.mit.edu	37	8	61765798	61765798	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr8:61765798G>A	uc003xue.2	+	31	6991	c.6514G>A	c.(6514-6516)GAA>AAA	p.E2172K		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2172	Glu-rich.				central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			GGAACAAGCCGAAGGCAAAGT	0.498													7	30	---	---	---	---	PASS
C8orf34	116328	broad.mit.edu	37	8	69688634	69688634	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr8:69688634G>T	uc010lyz.2	+	11	1196	c.1147G>T	c.(1147-1149)GGA>TGA	p.G383*	C8orf34_uc003xyb.2_Nonsense_Mutation_p.G358*	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328	383					signal transduction		cAMP-dependent protein kinase regulator activity			large_intestine(1)	1			Epithelial(68;0.0117)|OV - Ovarian serous cystadenocarcinoma(28;0.0227)|all cancers(69;0.0502)			TTACTTCTAGGGAGAAGCCTC	0.398													5	80	---	---	---	---	PASS
CNGB3	54714	broad.mit.edu	37	8	87660080	87660080	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr8:87660080G>T	uc003ydx.2	-	8	985	c.939C>A	c.(937-939)TGC>TGA	p.C313*	CNGB3_uc010maj.2_Nonsense_Mutation_p.C175*	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	313	Helical; Name=H3; (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						AGAAGAGGTAGCAAATATCAA	0.313													28	45	---	---	---	---	PASS
SLC26A7	115111	broad.mit.edu	37	8	92330528	92330528	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr8:92330528A>G	uc003yex.2	+	6	840	c.562A>G	c.(562-564)ACC>GCC	p.T188A	SLC26A7_uc003yey.2_RNA|SLC26A7_uc003yez.2_Missense_Mutation_p.T188A|SLC26A7_uc003yfa.2_Missense_Mutation_p.T188A	NM_052832	NP_439897	Q8TE54	S26A7_HUMAN	solute carrier family 26, member 7 isoform a	188	Extracellular (Potential).					basolateral plasma membrane|integral to membrane|recycling endosome membrane	anion:anion antiporter activity|bicarbonate transmembrane transporter activity|chloride channel activity|oxalate transmembrane transporter activity|sulfate transmembrane transporter activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(11;0.00802)			TGGGGCTGCCACCCATGTGGT	0.468													39	64	---	---	---	---	PASS
LRP12	29967	broad.mit.edu	37	8	105509802	105509802	+	Missense_Mutation	SNP	G	C	C	rs138841847		TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr8:105509802G>C	uc003yma.2	-	5	1073	c.978C>G	c.(976-978)CAC>CAG	p.H326Q	LRP12_uc003ymb.2_Missense_Mutation_p.H307Q|LRP12_uc003ylz.2_5'Flank	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	326	Extracellular (Potential).|CUB 2.				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			GCAAAAGCTTGTGTGGATTCT	0.373													26	42	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	113237101	113237101	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr8:113237101C>T	uc003ynu.2	-	71	11182	c.11023G>A	c.(11023-11025)GCA>ACA	p.A3675T	CSMD3_uc003yns.2_Missense_Mutation_p.A2877T|CSMD3_uc003ynt.2_Missense_Mutation_p.A3635T|CSMD3_uc011lhx.1_Missense_Mutation_p.A3506T	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3675	Cytoplasmic (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						TCAAAAGCTGCTTGGCCATTG	0.408										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			27	129	---	---	---	---	PASS
FAM135B	51059	broad.mit.edu	37	8	139153478	139153478	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr8:139153478C>A	uc003yuy.2	-	17	3924	c.3753G>T	c.(3751-3753)CTG>CTT	p.L1251L	FAM135B_uc003yux.2_Silent_p.L1152L|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1251										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)			ACAGGGTTCCCAGGTGAGGCC	0.532										HNSCC(54;0.14)			17	44	---	---	---	---	PASS
COL22A1	169044	broad.mit.edu	37	8	139611024	139611024	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr8:139611024C>A	uc003yvd.2	-	61	4750	c.4303G>T	c.(4303-4305)GGG>TGG	p.G1435W	COL22A1_uc011ljo.1_Missense_Mutation_p.G715W	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1435	Pro-rich.|Gly-rich.|Collagen-like 14.				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)			CCATTCTCCCCAGGTAGTCCT	0.612										HNSCC(7;0.00092)			22	30	---	---	---	---	PASS
DENND3	22898	broad.mit.edu	37	8	142161912	142161912	+	Silent	SNP	C	A	A	rs142459324	byFrequency	TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr8:142161912C>A	uc003yvy.2	+	7	1088	c.810C>A	c.(808-810)CTC>CTA	p.L270L	DENND3_uc010mep.2_Silent_p.L283L	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	270	DENN.									ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			GCTGCCATCTCGACCACTTCG	0.552													5	123	---	---	---	---	PASS
PLEC	5339	broad.mit.edu	37	8	144998324	144998324	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr8:144998324C>A	uc003zaf.1	-	31	6354	c.6184G>T	c.(6184-6186)GAG>TAG	p.E2062*	PLEC_uc003zab.1_Nonsense_Mutation_p.E1925*|PLEC_uc003zac.1_Nonsense_Mutation_p.E1929*|PLEC_uc003zad.2_Nonsense_Mutation_p.E1925*|PLEC_uc003zae.1_Nonsense_Mutation_p.E1893*|PLEC_uc003zag.1_Nonsense_Mutation_p.E1903*|PLEC_uc003zah.2_Nonsense_Mutation_p.E1911*|PLEC_uc003zaj.2_Nonsense_Mutation_p.E1952*	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2062	Central fibrous rod domain.|Potential.				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						AGGATCTCCTCCTCCACCTGC	0.701													5	5	---	---	---	---	PASS
SLC39A4	55630	broad.mit.edu	37	8	145638176	145638176	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr8:145638176G>A	uc003zcq.2	-	11	1882	c.1782C>T	c.(1780-1782)ACC>ACT	p.T594T	SLC39A4_uc003zcm.1_Silent_p.T96T|SLC39A4_uc003zcn.2_Silent_p.T96T|SLC39A4_uc003zco.2_Silent_p.T318T|SLC39A4_uc003zcp.2_Silent_p.T569T	NM_130849	NP_570901	Q6P5W5	S39A4_HUMAN	solute carrier family 39 (zinc transporter),	594	Helical; Name=5; (Potential).					cytoplasmic membrane-bounded vesicle|integral to membrane|recycling endosome membrane	zinc ion transmembrane transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;1.12e-40)|all cancers(56;8.17e-36)|BRCA - Breast invasive adenocarcinoma(115;0.0407)|Colorectal(110;0.055)			GGAACAGGCCGGTGGCCACTG	0.672													7	17	---	---	---	---	PASS
IFNA6	3443	broad.mit.edu	37	9	21350809	21350809	+	Silent	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr9:21350809C>T	uc011lni.1	-	1	78	c.78G>A	c.(76-78)CTG>CTA	p.L26L		NM_021002	NP_066282	P05013	IFNA6_HUMAN	interferon, alpha 6 precursor	26					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|cytokine receptor binding				0				Lung(24;7.66e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.116)		GGGTCTGAGGCAGATCACAGT	0.512													25	45	---	---	---	---	PASS
LINGO2	158038	broad.mit.edu	37	9	27949203	27949203	+	Silent	SNP	A	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr9:27949203A>T	uc003zqu.1	-	2	1661	c.1467T>A	c.(1465-1467)GCT>GCA	p.A489A	LINGO2_uc010mjf.1_Silent_p.A489A|LINGO2_uc003zqv.1_Silent_p.A489A	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	489	Ig-like C2-type.|Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)		TATCATTCCCAGCAGCATTGC	0.498													23	33	---	---	---	---	PASS
ACO1	48	broad.mit.edu	37	9	32448965	32448965	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr9:32448965C>G	uc003zqw.3	+	20	2597	c.2442C>G	c.(2440-2442)ATC>ATG	p.I814M	ACO1_uc003zqx.3_Missense_Mutation_p.I814M|ACO1_uc003zqy.3_RNA	NM_002197	NP_002188	P21399	ACOC_HUMAN	aconitase 1	814					citrate metabolic process|response to iron(II) ion|tricarboxylic acid cycle	cytosol|endoplasmic reticulum|Golgi apparatus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron-responsive element binding|isocitrate hydro-lyase (cis-aconitate-forming) activity|metal ion binding|protein binding				0			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;3.94e-06)		TGGGTGTGATCCCACTTGAAT	0.483													18	32	---	---	---	---	PASS
DCAF10	79269	broad.mit.edu	37	9	37861493	37861493	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr9:37861493G>A	uc004aao.2	+	7	1742	c.1668G>A	c.(1666-1668)CAG>CAA	p.Q556Q	DCAF10_uc010mlz.2_Silent_p.Q383Q|DCAF10_uc004aap.2_Silent_p.Q207Q	NM_024345	NP_077321	Q5QP82	DCA10_HUMAN	WD repeat domain 32	556	WD 7.					CUL4 RING ubiquitin ligase complex				central_nervous_system(1)	1						CTTTGTATCAGCCAAAGTTTT	0.383													4	80	---	---	---	---	PASS
TRPM3	80036	broad.mit.edu	37	9	73225606	73225606	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr9:73225606C>A	uc004aid.2	-	18	2794	c.2550G>T	c.(2548-2550)CAG>CAT	p.Q850H	TRPM3_uc004ahu.2_Missense_Mutation_p.Q680H|TRPM3_uc004ahv.2_Missense_Mutation_p.Q652H|TRPM3_uc004ahw.2_Missense_Mutation_p.Q722H|TRPM3_uc004ahx.2_Missense_Mutation_p.Q709H|TRPM3_uc004ahy.2_Missense_Mutation_p.Q712H|TRPM3_uc004ahz.2_Missense_Mutation_p.Q699H|TRPM3_uc004aia.2_Missense_Mutation_p.Q697H|TRPM3_uc004aib.2_Missense_Mutation_p.Q687H|TRPM3_uc004aic.2_Missense_Mutation_p.Q850H	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	875	Extracellular (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GGTGCTTGCTCTGAACTTCCT	0.428													24	45	---	---	---	---	PASS
PRUNE2	158471	broad.mit.edu	37	9	79322116	79322116	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr9:79322116C>A	uc010mpk.2	-	8	5198	c.5074G>T	c.(5074-5076)GTC>TTC	p.V1692F		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	1692					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						TCACCACCGACACTGTCATCA	0.463													13	39	---	---	---	---	PASS
TLE4	7091	broad.mit.edu	37	9	82320816	82320816	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr9:82320816G>T	uc004ald.2	+	10	1570	c.721G>T	c.(721-723)GAG>TAG	p.E241*	TLE4_uc004alc.2_Nonsense_Mutation_p.E248*|TLE4_uc010mpr.2_Nonsense_Mutation_p.E127*|TLE4_uc004ale.2_5'UTR|TLE4_uc011lsq.1_Nonsense_Mutation_p.E216*|TLE4_uc010mps.2_Intron|TLE4_uc004alf.2_Nonsense_Mutation_p.E187*	NM_007005	NP_008936	O60756	BCE1_HUMAN	transducin-like enhancer protein 4	Error:Variant_position_missing_in_O60756_after_alignment										lung(2)|ovary(1)|breast(1)|skin(1)	5						CAGCGATGGTGAGAAAAGTGA	0.413													5	112	---	---	---	---	PASS
COL15A1	1306	broad.mit.edu	37	9	101810117	101810117	+	Missense_Mutation	SNP	G	T	T	rs138040776		TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr9:101810117G>T	uc004azb.1	+	27	2935	c.2729G>T	c.(2728-2730)CGA>CTA	p.R910L		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	910	Triple-helical region 5 (COL5).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				CTTCCCGGGCGACCTGTAGGT	0.542													40	51	---	---	---	---	PASS
EPB41L4B	54566	broad.mit.edu	37	9	111938886	111938886	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr9:111938886C>T	uc004bdz.1	-	25	2873	c.2578G>A	c.(2578-2580)GTC>ATC	p.V860I		NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	860						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						ACTGTGGAGACGGTCTCTGTC	0.562													9	26	---	---	---	---	PASS
ZNF883	169834	broad.mit.edu	37	9	115760433	115760433	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr9:115760433A>G	uc011lwy.1	-	5	1346	c.107T>C	c.(106-108)ATT>ACT	p.I36T		NM_001101338	NP_001094808	P0CG24	ZN883_HUMAN	hypothetical protein LOC169834	36					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTTTTCTCCAATATGTGTTTT	0.383													22	31	---	---	---	---	PASS
AKNA	80709	broad.mit.edu	37	9	117120298	117120298	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr9:117120298G>A	uc004biq.3	-	11	2777	c.2642C>T	c.(2641-2643)GCA>GTA	p.A881V	AKNA_uc004bin.3_Missense_Mutation_p.A128V|AKNA_uc004bio.3_Missense_Mutation_p.A341V|AKNA_uc004bip.3_Missense_Mutation_p.A800V|AKNA_uc004bir.3_Missense_Mutation_p.A881V|AKNA_uc004bis.3_Missense_Mutation_p.A881V|AKNA_uc010mve.2_Missense_Mutation_p.A762V	NM_030767	NP_110394	Q7Z591	AKNA_HUMAN	AT-hook transcription factor	881					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(2)	6						TTGGTGGGATGCTGCGGACTT	0.657													11	22	---	---	---	---	PASS
COL5A1	1289	broad.mit.edu	37	9	137714873	137714873	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr9:137714873C>A	uc004cfe.2	+	60	5020	c.4638C>A	c.(4636-4638)GGC>GGA	p.G1546G	uc004cff.2_Intron	NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1546	Triple-helical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		GTGCTAAGGGCTCCTCGGTAA	0.632													6	18	---	---	---	---	PASS
ZMYND11	10771	broad.mit.edu	37	10	293350	293350	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:293350C>G	uc010pzt.1	+	12	1599	c.1171C>G	c.(1171-1173)CAA>GAA	p.Q391E	ZMYND11_uc001ifk.2_Missense_Mutation_p.Q390E|ZMYND11_uc010pzu.1_Missense_Mutation_p.Q391E|ZMYND11_uc010pzv.1_Missense_Mutation_p.Q336E|ZMYND11_uc010pzw.1_Missense_Mutation_p.Q306E|ZMYND11_uc001ifm.2_Missense_Mutation_p.Q337E|ZMYND11_uc010pzx.1_Missense_Mutation_p.Q391E|ZMYND11_uc001ifn.2_Missense_Mutation_p.Q337E|ZMYND11_uc009xhg.2_Missense_Mutation_p.Q374E|ZMYND11_uc009xhh.2_Missense_Mutation_p.Q265E|ZMYND11_uc010pzy.1_Missense_Mutation_p.Q243E	NM_006624	NP_006615	Q15326	ZMY11_HUMAN	zinc finger, MYND domain containing 11 isoform	351					cell cycle|cell proliferation|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;1.32e-05)|all_lung(4;3.67e-05)|Lung NSC(4;0.000301)|all_epithelial(10;0.000416)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.132)	Epithelial(11;0.00289)|all cancers(11;0.0108)|Lung(33;0.0689)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		AAAGGTCACTCAAGAACCAAG	0.428													15	39	---	---	---	---	PASS
GDI2	2665	broad.mit.edu	37	10	5827861	5827861	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:5827861C>T	uc001iil.3	-	5	832	c.541G>A	c.(541-543)GTT>ATT	p.V181I	GDI2_uc001iim.3_Missense_Mutation_p.V136I|GDI2_uc009xid.2_Missense_Mutation_p.V185I	NM_001494	NP_001485	P50395	GDIB_HUMAN	GDP dissociation inhibitor 2 isoform 1	181					protein transport|small GTPase mediated signal transduction	cell surface|cytosol|membrane	protein binding|Rab GDP-dissociation inhibitor activity				0						AAATCTATAACGTCTTGACCC	0.333													14	57	---	---	---	---	PASS
CUBN	8029	broad.mit.edu	37	10	16949629	16949629	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:16949629C>T	uc001ioo.2	-	49	7635	c.7583G>A	c.(7582-7584)AGT>AAT	p.S2528N	CUBN_uc009xjq.1_Intron|CUBN_uc009xjr.1_Intron	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2528	CUB 18.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	ATTCACACTACTACACAGTTT	0.408													28	46	---	---	---	---	PASS
ACBD5	91452	broad.mit.edu	37	10	27497281	27497281	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:27497281C>A	uc010qdp.1	-	10	1489	c.1298G>T	c.(1297-1299)CGA>CTA	p.R433L	ACBD5_uc010qdm.1_Missense_Mutation_p.R431L|ACBD5_uc010qdn.1_Missense_Mutation_p.R324L|ACBD5_uc010qdo.1_Missense_Mutation_p.R256L|ACBD5_uc001ito.2_Missense_Mutation_p.R398L|ACBD5_uc001itp.2_Missense_Mutation_p.R324L|ACBD5_uc001itq.2_Missense_Mutation_p.R324L|ACBD5_uc001itr.1_Missense_Mutation_p.R222L	NM_145698	NP_663736	Q5T8D3	ACBD5_HUMAN	acyl-Coenzyme A binding domain containing 5	442					transport	integral to membrane|peroxisomal membrane	fatty-acyl-CoA binding				0						GAGGCTGCCTCGGGACCCTCT	0.572													4	60	---	---	---	---	PASS
KIAA1462	57608	broad.mit.edu	37	10	30315269	30315269	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:30315269G>A	uc001iux.2	-	2	3867	c.3808C>T	c.(3808-3810)CGG>TGG	p.R1270W	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Missense_Mutation_p.R1132W|KIAA1462_uc009xle.1_Missense_Mutation_p.R1270W	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	1270										ovary(4)	4						ACTCTCATCCGTGACACTGAG	0.577													9	38	---	---	---	---	PASS
PARD3	56288	broad.mit.edu	37	10	34408612	34408612	+	Missense_Mutation	SNP	C	G	G	rs12359558		TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:34408612C>G	uc010qej.1	-	24	3606	c.3606G>C	c.(3604-3606)CAG>CAC	p.Q1202H	PARD3_uc010qek.1_Missense_Mutation_p.Q1199H|PARD3_uc010qel.1_Missense_Mutation_p.Q1165H|PARD3_uc010qem.1_Missense_Mutation_p.Q1186H|PARD3_uc010qen.1_Missense_Mutation_p.Q1156H|PARD3_uc010qeo.1_Missense_Mutation_p.Q1119H|PARD3_uc010qep.1_Missense_Mutation_p.Q1112H|PARD3_uc010qeq.1_Missense_Mutation_p.Q1090H	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	1202	Potential.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)				GCCGCTGCATCTGCACCTCCA	0.637													4	5	---	---	---	---	PASS
ANKRD30A	91074	broad.mit.edu	37	10	37440993	37440993	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:37440993A>T	uc001iza.1	+	12	1582	c.1483A>T	c.(1483-1485)ATG>TTG	p.M495L		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	551						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						TATAGATCCGATGTTCCCACC	0.294													11	36	---	---	---	---	PASS
ANKRD30A	91074	broad.mit.edu	37	10	37442554	37442554	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:37442554C>G	uc001iza.1	+	13	1693	c.1594C>G	c.(1594-1596)CAA>GAA	p.Q532E		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	588						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						GGCTACACATCAAAAAGAAAT	0.313													21	163	---	---	---	---	PASS
ANKRD30A	91074	broad.mit.edu	37	10	37478449	37478449	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:37478449C>G	uc001iza.1	+	25	2407	c.2308C>G	c.(2308-2310)CAA>GAA	p.Q770E		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	826						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						GGCTACGCATCAAAAAGAAAT	0.299													7	13	---	---	---	---	PASS
CDK1	983	broad.mit.edu	37	10	62544477	62544477	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:62544477G>C	uc001jld.2	+	3	186	c.52G>C	c.(52-54)GTG>CTG	p.V18L	CDK1_uc010qii.1_Missense_Mutation_p.V18L|CDK1_uc001jle.2_RNA|CDK1_uc001jlf.2_Missense_Mutation_p.V18L|CDK1_uc001jlg.2_Missense_Mutation_p.V18L	NM_001786	NP_001777	P06493	CDK1_HUMAN	cell division cycle 2 isoform 1	18	ATP (By similarity).|Protein kinase.				activation of MAPK activity|activation of MAPKK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|axon guidance|cell division|epidermal growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway|mitosis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein localization to kinetochore|Ras protein signal transduction|regulation of transcription involved in G1/S phase of mitotic cell cycle|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|midbody|nucleoplasm|spindle microtubule	ATP binding|cyclin-dependent protein kinase activity|RNA polymerase II carboxy-terminal domain kinase activity			ovary(1)	1						CTATGGAGTTGTGTATAAGGG	0.338													26	67	---	---	---	---	PASS
CTNNA3	29119	broad.mit.edu	37	10	68280473	68280473	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:68280473G>T	uc009xpn.1	-	11	1556	c.1433C>A	c.(1432-1434)ACC>AAC	p.T478N	CTNNA3_uc001jmw.2_Missense_Mutation_p.T478N|CTNNA3_uc001jmx.3_Missense_Mutation_p.T478N	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	478					cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						CATTTCCATGGTGTTTTTGAC	0.338													19	67	---	---	---	---	PASS
HERC4	26091	broad.mit.edu	37	10	69700823	69700823	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:69700823T>A	uc001jng.3	-	21	2712	c.2401A>T	c.(2401-2403)ATC>TTC	p.I801F	HERC4_uc009xpq.2_Missense_Mutation_p.I334F|HERC4_uc001jnf.3_RNA|HERC4_uc001jnh.3_Missense_Mutation_p.I793F|HERC4_uc009xpr.2_Intron|HERC4_uc001jni.3_Missense_Mutation_p.I537F	NM_022079	NP_071362	Q5GLZ8	HERC4_HUMAN	hect domain and RLD 4 isoform a	801	HECT.				cell differentiation|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|spermatogenesis	cytosol	ubiquitin-protein ligase activity			ovary(1)|breast(1)|skin(1)	3						AAGCCACAGATAACACCAATC	0.294													27	78	---	---	---	---	PASS
STOX1	219736	broad.mit.edu	37	10	70644923	70644923	+	Silent	SNP	T	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:70644923T>A	uc001jos.2	+	3	1458	c.1371T>A	c.(1369-1371)GCT>GCA	p.A457A	STOX1_uc001jor.2_Intron|STOX1_uc009xpy.2_Intron|STOX1_uc001joq.2_Silent_p.A347A	NM_001130161	NP_001123633	Q6ZVD7	STOX1_HUMAN	storkhead box 1 isoform a	457						cytoplasm|nucleolus	DNA binding			kidney(1)|skin(1)	2						AGCTCCCTGCTACACAGCCCA	0.473													45	100	---	---	---	---	PASS
NDST2	8509	broad.mit.edu	37	10	75562762	75562762	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:75562762G>C	uc001jvk.2	-	13	3195	c.2391C>G	c.(2389-2391)ATC>ATG	p.I797M	NDST2_uc010qks.1_Missense_Mutation_p.I423M|NDST2_uc010qkt.1_Missense_Mutation_p.I674M|NDST2_uc001jvl.1_Missense_Mutation_p.I204M|NDST2_uc009xro.2_Missense_Mutation_p.I423M|NDST2_uc010qku.1_Missense_Mutation_p.I672M	NM_003635	NP_003626	P52849	NDST2_HUMAN	heparan glucosaminyl	797	Lumenal (Potential).|Heparan sulfate N-sulfotransferase 2.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			ovary(1)	1	Prostate(51;0.0112)					GAAAGGGTGTGATACCCAGGA	0.532													49	116	---	---	---	---	PASS
NRG3	10718	broad.mit.edu	37	10	84711279	84711279	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:84711279G>A	uc001kco.2	+	5	1136	c.1109G>A	c.(1108-1110)GGA>GAA	p.G370E	NRG3_uc010qlz.1_Missense_Mutation_p.G369E|NRG3_uc001kcp.2_Missense_Mutation_p.G149E|NRG3_uc001kcq.2_Missense_Mutation_p.G20E|NRG3_uc001kcr.2_Missense_Mutation_p.G20E	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	370	Helical; Note=Internal signal sequence; (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		ATCATCTTTGGAATTGTCATC	0.378													30	54	---	---	---	---	PASS
SORBS1	10580	broad.mit.edu	37	10	97174445	97174445	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:97174445T>G	uc001kkp.2	-	7	661	c.616A>C	c.(616-618)ACT>CCT	p.T206P	SORBS1_uc001kkl.2_5'UTR|SORBS1_uc001kkn.2_Intron|SORBS1_uc001kkm.2_Intron|SORBS1_uc001kko.2_Missense_Mutation_p.T206P|SORBS1_uc001kkq.2_Intron|SORBS1_uc001kkr.2_Intron|SORBS1_uc001kks.2_Intron|SORBS1_uc001kkt.2_RNA|SORBS1_uc001kku.2_Intron|SORBS1_uc001kkv.2_Missense_Mutation_p.T174P|SORBS1_uc001kkw.2_Missense_Mutation_p.T206P|SORBS1_uc010qoe.1_Intron|SORBS1_uc010qof.1_Missense_Mutation_p.T404P|SORBS1_uc001kkx.1_Missense_Mutation_p.T174P	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	206					focal adhesion assembly|glucose transport|insulin receptor signaling pathway|muscle contraction|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|stress fiber assembly	centrosome|cytosol|focal adhesion|membrane raft|nucleus|stress fiber|zonula adherens	actin binding|insulin receptor binding|SH3/SH2 adaptor activity			breast(1)	1		Colorectal(252;0.0429)		Epithelial(162;1.7e-06)|all cancers(201;6.52e-05)		TCATCTAGAGTCGGGAAGGTC	0.637													6	30	---	---	---	---	PASS
C10orf76	79591	broad.mit.edu	37	10	103792914	103792914	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:103792914G>A	uc009xwy.1	-	4	277	c.175C>T	c.(175-177)CTA>TTA	p.L59L	C10orf76_uc001kui.2_Silent_p.L59L	NM_024541	NP_078817	Q5T2E6	CJ076_HUMAN	hypothetical protein LOC79591	59						integral to membrane					0		Colorectal(252;0.123)		Epithelial(162;2.41e-08)|all cancers(201;6.41e-07)		TTGCCTTCTAGGTACTCTAAA	0.413													18	57	---	---	---	---	PASS
SMC3	9126	broad.mit.edu	37	10	112359487	112359487	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:112359487G>T	uc001kze.2	+	21	2470	c.2344G>T	c.(2344-2346)GGA>TGA	p.G782*		NM_005445	NP_005436	Q9UQE7	SMC3_HUMAN	structural maintenance of chromosomes 3	782	Potential.				cell division|DNA mediated transformation|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic spindle organization|negative regulation of DNA endoreduplication|signal transduction|sister chromatid cohesion	basement membrane|chromatin|chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nuclear matrix|nucleoplasm|spindle pole	ATP binding|dynein binding|microtubule motor activity|protein heterodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(234;0.0848)|Lung NSC(174;0.238)		Epithelial(162;0.00206)|all cancers(201;0.0227)|BRCA - Breast invasive adenocarcinoma(275;0.127)		AGCAGAACTGGGAACTGATTT	0.418													5	59	---	---	---	---	PASS
ATRNL1	26033	broad.mit.edu	37	10	117226718	117226718	+	Nonsense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:117226718C>G	uc001lcg.2	+	23	3838	c.3452C>G	c.(3451-3453)TCA>TGA	p.S1151*	ATRNL1_uc010qsm.1_Nonsense_Mutation_p.S280*|ATRNL1_uc010qsn.1_Intron	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	1151	Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		ATTAATGCATCAAACAACTTT	0.294													6	25	---	---	---	---	PASS
FGFR2	2263	broad.mit.edu	37	10	123263411	123263411	+	Silent	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:123263411C>G	uc010qtk.1	-	11	1979	c.1332G>C	c.(1330-1332)CTG>CTC	p.L444L	FGFR2_uc010qtg.1_Silent_p.L332L|FGFR2_uc010qth.1_Silent_p.L329L|FGFR2_uc010qti.1_Silent_p.L355L|FGFR2_uc010qtj.1_Silent_p.L445L|FGFR2_uc010qtl.1_Silent_p.L328L|FGFR2_uc010qtm.1_Silent_p.L327L|FGFR2_uc001lfl.3_Silent_p.L445L|FGFR2_uc001lfm.2_Silent_p.L356L|FGFR2_uc001lfg.3_Silent_p.L52L	NM_000141	NP_000132	P21802	FGFR2_HUMAN	fibroblast growth factor receptor 2 isoform 1	444	Cytoplasmic (Potential).				angiogenesis|axonogenesis|bone mineralization|bone morphogenesis|branch elongation involved in salivary gland morphogenesis|branching involved in embryonic placenta morphogenesis|branching morphogenesis of a nerve|bud elongation involved in lung branching|cell fate commitment|cell growth|cell-cell signaling|cellular response to protein stimulus|embryonic digestive tract morphogenesis|embryonic pattern specification|epithelial cell proliferation involved in salivary gland morphogenesis|fibroblast growth factor receptor signaling pathway involved in hemopoiesis|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|fibroblast growth factor receptor signaling pathway involved in negative regulation of apoptosis in bone marrow|fibroblast growth factor receptor signaling pathway involved in orbitofrontal cortex development|fibroblast growth factor receptor signaling pathway involved in positive regulation of cell proliferation in bone marrow|hair follicle morphogenesis|insulin receptor signaling pathway|lacrimal gland development|lateral sprouting from an epithelium|limb bud formation|lung alveolus development|lung lobe morphogenesis|lung-associated mesenchyme development|mammary gland bud formation|membranous septum morphogenesis|mesenchymal cell differentiation involved in lung development|mesenchymal cell proliferation involved in lung development|midbrain development|multicellular organism growth|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|organ growth|otic vesicle formation|outflow tract septum morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell cycle|positive regulation of cell division|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of ERK1 and ERK2 cascade|positive regulation of mesenchymal cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis|prostate epithelial cord elongation|pyramidal neuron development|regulation of branching involved in prostate gland morphogenesis|regulation of cell fate commitment|regulation of fibroblast growth factor receptor signaling pathway|regulation of multicellular organism growth|regulation of smooth muscle cell differentiation|regulation of smoothened signaling pathway|squamous basal epithelial stem cell differentiation involved in prostate gland acinus development|ureteric bud development|ventricular cardiac muscle tissue morphogenesis|ventricular zone neuroblast division	cell cortex|cell surface|excitatory synapse|extracellular region|integral to membrane|nucleus|plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|heparin binding|protein binding			endometrium(44)|skin(28)|lung(11)|ovary(4)|cervix(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|soft_tissue(1)|central_nervous_system(1)	96		Lung NSC(174;0.0841)|all_lung(145;0.106)|all_neural(114;0.107)	STAD - Stomach adenocarcinoma(1;7.52e-05)|all cancers(1;0.0722)	all cancers(201;9.73e-05)|GBM - Glioblastoma multiforme(135;0.0845)	Palifermin(DB00039)	TTATCCTCACCAGCGGGGTGT	0.532		5	Mis		gastric. NSCLC|endometrial		Crouzon|Pfeiffer|and Apert syndromes		Apert_syndrome|Saethre-Chotzen_syndrome				13	23	---	---	---	---	PASS
DMBT1	1755	broad.mit.edu	37	10	124390741	124390741	+	Missense_Mutation	SNP	G	T	T	rs149958745	by1000genomes	TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:124390741G>T	uc001lgk.1	+	46	6009	c.5903G>T	c.(5902-5904)CGA>CTA	p.R1968L	DMBT1_uc001lgl.1_Missense_Mutation_p.R1958L|DMBT1_uc001lgm.1_Missense_Mutation_p.R1340L|DMBT1_uc009xzz.1_Missense_Mutation_p.R1968L|DMBT1_uc010qtx.1_Missense_Mutation_p.R688L|DMBT1_uc009yab.1_Missense_Mutation_p.R671L|DMBT1_uc009yac.1_Missense_Mutation_p.R262L	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	1968	SRCR 14.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				TGCCGGAACCGAGGCTGGTTC	0.547													5	153	---	---	---	---	PASS
ZRANB1	54764	broad.mit.edu	37	10	126631403	126631403	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:126631403G>T	uc001lic.2	+	1	712	c.341G>T	c.(340-342)AGG>ATG	p.R114M	ZRANB1_uc010qug.1_Missense_Mutation_p.R140M	NM_017580	NP_060050	Q9UGI0	ZRAN1_HUMAN	zinc finger, RAN-binding domain containing 1	114					positive regulation of Wnt receptor signaling pathway|protein K63-linked deubiquitination|Wnt receptor signaling pathway	aggresome|centrosome|intermediate filament cytoskeleton|nucleolus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.172)		Colorectal(40;0.113)|COAD - Colon adenocarcinoma(40;0.119)		CGTAGGACCAGGAGTCCTACA	0.433													7	82	---	---	---	---	PASS
LRRC27	80313	broad.mit.edu	37	10	134175004	134175004	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr10:134175004G>T	uc010quw.1	+	9	1409	c.1214G>T	c.(1213-1215)AGG>ATG	p.R405M	LRRC27_uc001llg.2_RNA|LRRC27_uc001lli.2_Missense_Mutation_p.R405M|LRRC27_uc001llj.2_Missense_Mutation_p.R343M|LRRC27_uc001llk.3_Missense_Mutation_p.R278M	NM_030626	NP_085129	Q9C0I9	LRC27_HUMAN	leucine rich repeat containing 27 isoform a	405										ovary(1)	1		all_cancers(35;6.28e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;9.12e-05)|Epithelial(32;0.000116)|all cancers(32;0.000145)|BRCA - Breast invasive adenocarcinoma(275;0.218)		ATAGATAACAGGAAAGTACCA	0.423													7	173	---	---	---	---	PASS
OR51M1	390059	broad.mit.edu	37	11	5410783	5410783	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:5410783C>T	uc010qzc.1	+	1	155	c.155C>T	c.(154-156)TCA>TTA	p.S52L	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004756	NP_001004756	B2RNI9	B2RNI9_HUMAN	olfactory receptor, family 51, subfamily M,	52						integral to membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.98e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GTTGCCATCTCAGGCAATTGT	0.453													27	63	---	---	---	---	PASS
OR51I1	390063	broad.mit.edu	37	11	5462289	5462289	+	Silent	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:5462289G>T	uc010qze.1	-	1	456	c.456C>A	c.(454-456)ACC>ACA	p.T152T	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001005288	NP_001005288	Q9H343	O51I1_HUMAN	olfactory receptor, family 51, subfamily I,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGAAACTCTTGGTAAGGATGC	0.473													6	62	---	---	---	---	PASS
OR52N1	79473	broad.mit.edu	37	11	5809636	5809636	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:5809636G>A	uc010qzo.1	-	1	411	c.411C>T	c.(409-411)ATC>ATT	p.I137I	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001913	NP_001001913	Q8NH53	O52N1_HUMAN	olfactory receptor, family 52, subfamily N,	137	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.05e-11)|LUSC - Lung squamous cell carcinoma(625;0.112)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.195)		AATTAGTGAGGATGGTGGCAT	0.517													19	54	---	---	---	---	PASS
OR52W1	120787	broad.mit.edu	37	11	6221231	6221231	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:6221231G>T	uc010qzz.1	+	1	778	c.778G>T	c.(778-780)GGT>TGT	p.G260C		NM_001005178	NP_001005178	Q6IF63	O52W1_HUMAN	olfactory receptor, family 52, subfamily W,	260	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;2.13e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTACATACCTGGTCTCTTCTC	0.542													8	353	---	---	---	---	PASS
OR10A4	283297	broad.mit.edu	37	11	6898702	6898702	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:6898702T>A	uc010rat.1	+	1	824	c.824T>A	c.(823-825)CTG>CAG	p.L275Q		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	275	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		AAGAAGCTGCTGTCACTCTCT	0.512													41	121	---	---	---	---	PASS
SWAP70	23075	broad.mit.edu	37	11	9715738	9715738	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:9715738C>A	uc001mhw.2	+	2	244	c.145C>A	c.(145-147)CCA>ACA	p.P49T	SWAP70_uc001mhv.2_Missense_Mutation_p.P49T|SWAP70_uc001mhx.2_Missense_Mutation_p.P49T	NM_015055	NP_055870	Q9UH65	SWP70_HUMAN	SWAP-70 protein	49						cytoplasm|lamellipodium|nucleus|plasma membrane	calcium ion binding|DNA binding			ovary(2)|central_nervous_system(1)	3				all cancers(16;1.21e-10)|Epithelial(150;2.81e-09)|BRCA - Breast invasive adenocarcinoma(625;0.00649)		TCCTCATGACCCAGTTGCCCT	0.473													5	72	---	---	---	---	PASS
SWAP70	23075	broad.mit.edu	37	11	9759834	9759834	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:9759834C>A	uc001mhw.2	+	8	1254	c.1155C>A	c.(1153-1155)GCC>GCA	p.A385A	SWAP70_uc001mhv.2_Silent_p.A385A|SWAP70_uc001mhx.2_Silent_p.A327A	NM_015055	NP_055870	Q9UH65	SWP70_HUMAN	SWAP-70 protein	385	Potential.			A -> S (in Ref. 7).		cytoplasm|lamellipodium|nucleus|plasma membrane	calcium ion binding|DNA binding			ovary(2)|central_nervous_system(1)	3				all cancers(16;1.21e-10)|Epithelial(150;2.81e-09)|BRCA - Breast invasive adenocarcinoma(625;0.00649)		AACTTCAGGCCAGGTTCAGCA	0.522													5	39	---	---	---	---	PASS
ABCC8	6833	broad.mit.edu	37	11	17430031	17430031	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:17430031C>A	uc001mnc.2	-	23	2854	c.2728G>T	c.(2728-2730)GAG>TAG	p.E910*		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	910	ABC transporter 1.|Cytoplasmic (By similarity).				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	AGGGTACCCTCCCTCTGGATG	0.547													6	86	---	---	---	---	PASS
USH1C	10083	broad.mit.edu	37	11	17554867	17554867	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:17554867C>A	uc001mnf.2	-	2	148	c.39G>T	c.(37-39)GTG>GTT	p.V13V	USH1C_uc001mne.2_Silent_p.V13V|USH1C_uc009yhb.2_Silent_p.V13V|USH1C_uc001mng.2_RNA|USH1C_uc001mnd.2_5'UTR	NM_005709	NP_005700	Q9Y6N9	USH1C_HUMAN	harmonin isoform a	13					equilibrioception|G2/M transition of mitotic cell cycle|photoreceptor cell maintenance|sensory perception of sound	apical part of cell|cytoplasm|stereocilium	protein binding			ovary(1)	1						TCAGAAAATCCACCTGGAAAA	0.532													17	58	---	---	---	---	PASS
E2F8	79733	broad.mit.edu	37	11	19246901	19246901	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:19246901G>T	uc001mpm.2	-	12	2810	c.2288C>A	c.(2287-2289)CCA>CAA	p.P763Q	E2F8_uc009yhv.2_RNA|E2F8_uc001mpn.3_Missense_Mutation_p.P763Q	NM_024680	NP_078956	A0AVK6	E2F8_HUMAN	E2F family member 8	763					cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						CTCTATTCTTGGAGACACAGG	0.532													6	130	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	11	30925135	30925135	+	RNA	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:30925135C>T	uc001mss.1	-	10		c.1507G>A			uc009yjk.1_Silent_p.L916L|uc009yjj.1_RNA					Homo sapiens mRNA for KIAA1493 protein, partial cds.																		CCCATAAAACCAAATCACGCA	0.423													11	24	---	---	---	---	PASS
FNBP4	23360	broad.mit.edu	37	11	47767661	47767661	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:47767661C>G	uc009ylv.2	-	7	1345	c.1192G>C	c.(1192-1194)GAG>CAG	p.E398Q	FNBP4_uc001ngj.2_Missense_Mutation_p.E305Q|FNBP4_uc001ngl.2_RNA	NM_015308	NP_056123	Q8N3X1	FNBP4_HUMAN	formin binding protein 4	398										ovary(1)	1						TCCTCTTCCTCCTCACTTTCT	0.388													41	114	---	---	---	---	PASS
OR5D16	390144	broad.mit.edu	37	11	55606318	55606318	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:55606318T>A	uc010rio.1	+	1	91	c.91T>A	c.(91-93)TTT>ATT	p.F31I		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	31	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				TCCCCTCTTCTTTGTATTTCT	0.413													18	65	---	---	---	---	PASS
OR5D16	390144	broad.mit.edu	37	11	55606815	55606815	+	Silent	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:55606815C>T	uc010rio.1	+	1	588	c.588C>T	c.(586-588)CTC>CTT	p.L196L		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	196	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				ACTCTTATCTCAGCCAGTTGC	0.383													11	67	---	---	---	---	PASS
OR5M10	390167	broad.mit.edu	37	11	56344480	56344480	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:56344480T>A	uc001niz.1	-	1	718	c.718A>T	c.(718-720)ACG>TCG	p.T240S		NM_001004741	NP_001004741	Q6IEU7	OR5MA_HUMAN	olfactory receptor, family 5, subfamily M,	240	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GAAGCACACGTAGAAAAGGCT	0.448													36	102	---	---	---	---	PASS
LRRC55	219527	broad.mit.edu	37	11	56949826	56949826	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:56949826C>A	uc001njl.1	+	1	606	c.459C>A	c.(457-459)CTC>CTA	p.L153L		NM_001005210	NP_001005210	Q6ZSA7	LRC55_HUMAN	leucine rich repeat containing 55	123	LRR 2.					integral to membrane					0						GCCTCTTCCTCCATGCCAAGC	0.577													4	20	---	---	---	---	PASS
OR1S1	219959	broad.mit.edu	37	11	57982933	57982933	+	Silent	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:57982933G>C	uc010rkc.1	+	1	717	c.717G>C	c.(715-717)CTG>CTC	p.L239L		NM_001004458	NP_001004458	Q8NH92	OR1S1_HUMAN	olfactory receptor, family 1, subfamily S,	239	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Breast(21;0.0589)				GAGCTGTCCTGAGAGTATCTT	0.438													10	49	---	---	---	---	PASS
OR5B17	219965	broad.mit.edu	37	11	58126157	58126157	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:58126157T>C	uc010rke.1	-	1	386	c.386A>G	c.(385-387)CAT>CGT	p.H129R		NM_001005489	NP_001005489	Q8NGF7	OR5BH_HUMAN	olfactory receptor, family 5, subfamily B,	129	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				GGTGGTATAATGTAGGGGGTT	0.448													17	50	---	---	---	---	PASS
VWCE	220001	broad.mit.edu	37	11	61026151	61026151	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:61026151A>G	uc001nra.2	-	20	3143	c.2864T>C	c.(2863-2865)ATG>ACG	p.M955T	VWCE_uc001nrb.2_RNA	NM_152718	NP_689931	Q96DN2	VWCE_HUMAN	von Willebrand factor C and EGF domains	955						extracellular region	calcium ion binding			ovary(1)	1						ACCTCCTTACATGGTGGACTC	0.647													7	27	---	---	---	---	PASS
ROM1	6094	broad.mit.edu	37	11	62382190	62382190	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:62382190C>A	uc001ntv.2	+	3	1476	c.935C>A	c.(934-936)CCC>CAC	p.P312H	EML3_uc001ntt.1_5'Flank|EML3_uc001ntu.1_5'Flank|EML3_uc010rly.1_5'Flank	NM_000327	NP_000318	Q03395	ROM1_HUMAN	retinal outer segment membrane protein 1	312	Cytoplasmic (Potential).				cell adhesion|visual perception	integral to plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						TATCTCTTTCCCAGTGGGCTG	0.607													5	60	---	---	---	---	PASS
METTL12	751071	broad.mit.edu	37	11	62433368	62433368	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:62433368G>T	uc001nug.1	+	2	276	c.17G>T	c.(16-18)CGA>CTA	p.R6L	C11orf48_uc001nue.2_Intron|C11orf48_uc001nuf.2_Intron|METTL12_uc001nuh.2_5'UTR|METTL12_uc010rmc.1_RNA	NM_001043229	NP_001036694	A8MUP2	MTL12_HUMAN	methyltransferase like 12 precursor	6						mitochondrion	methyltransferase activity				0						GCGCTGCGTCGAATGCTCCAC	0.642													6	30	---	---	---	---	PASS
NUDT22	84304	broad.mit.edu	37	11	63997406	63997406	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:63997406C>T	uc001nyp.3	+	6	1036	c.856C>T	c.(856-858)CAG>TAG	p.Q286*	NUDT22_uc009ype.2_Nonsense_Mutation_p.Q286*|NUDT22_uc001nyq.3_Nonsense_Mutation_p.Q253*|NUDT22_uc010rng.1_RNA|uc001nyr.1_3'UTR|DNAJC4_uc001nys.2_5'Flank|DNAJC4_uc001nyt.2_5'Flank|DNAJC4_uc001nyu.2_5'Flank	NM_032344	NP_115720	Q9BRQ3	NUD22_HUMAN	nudix (nucleoside diphosphate linked moiety	286							hydrolase activity				0						CAACCGGGTTCAGGGAAGTCC	0.567													5	30	---	---	---	---	PASS
EHBP1L1	254102	broad.mit.edu	37	11	65357998	65357998	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:65357998G>C	uc001oeo.3	+	16	4483	c.4218G>C	c.(4216-4218)CAG>CAC	p.Q1406H		NM_001099409	NP_001092879	Q8N3D4	EH1L1_HUMAN	tangerin	1406	Potential.									central_nervous_system(1)	1						TGCTGATCCAGGAGTGGTTCA	0.647													12	27	---	---	---	---	PASS
PPFIA1	8500	broad.mit.edu	37	11	70200458	70200458	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:70200458G>A	uc001opo.2	+	17	2413	c.2215G>A	c.(2215-2217)GAA>AAA	p.E739K	PPFIA1_uc001opn.1_Missense_Mutation_p.E739K|PPFIA1_uc001opp.2_RNA|PPFIA1_uc001opq.1_RNA	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	739					cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			CATAAAGTGTGAAACCTCCCC	0.532													22	45	---	---	---	---	PASS
SHANK2	22941	broad.mit.edu	37	11	70507712	70507712	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:70507712C>A	uc001oqc.2	-	13	2003	c.1925G>T	c.(1924-1926)CGA>CTA	p.R642L	SHANK2_uc010rqn.1_Missense_Mutation_p.R54L|SHANK2_uc001opz.2_Missense_Mutation_p.R54L|uc009ysn.1_Intron|SHANK2_uc010rqp.1_Missense_Mutation_p.R54L	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	263	PDZ.				intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)			TTTGGCCCCTCGAAGCACGAA	0.383													5	113	---	---	---	---	PASS
PICALM	8301	broad.mit.edu	37	11	85701351	85701351	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:85701351G>A	uc001pbm.2	-	13	1636	c.1350C>T	c.(1348-1350)TCC>TCT	p.S450S	PICALM_uc001pbl.2_Intron|PICALM_uc001pbn.2_Silent_p.S443S|PICALM_uc010rtl.1_Intron|PICALM_uc010rtk.1_Intron|PICALM_uc001pbo.1_Silent_p.S82S	NM_007166	NP_009097	Q13492	PICAL_HUMAN	phosphatidylinositol-binding clathrin assembly	450					clathrin coat assembly|endosome transport|negative regulation of receptor-mediated endocytosis|positive regulation of transcription, DNA-dependent|receptor internalization|regulation of protein localization	clathrin coat|clathrin-coated vesicle|coated pit|Golgi apparatus|nucleus|postsynaptic membrane|presynaptic membrane	1-phosphatidylinositol binding|clathrin heavy chain binding			urinary_tract(1)|ovary(1)	2		Acute lymphoblastic leukemia(157;7.42e-07)|all_hematologic(158;0.00092)				CTGAAGAAATGGAAAGGTGAA	0.363			T	MLLT10|MLL	TALL|AML|								23	59	---	---	---	---	PASS
ZC3H12C	85463	broad.mit.edu	37	11	110036441	110036441	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:110036441G>T	uc009yxw.2	+	6	2682	c.2631G>T	c.(2629-2631)GAG>GAT	p.E877D	ZC3H12C_uc010rwc.1_Missense_Mutation_p.E878D|ZC3H12C_uc010rwd.1_Missense_Mutation_p.E878D|ZC3H12C_uc001pkr.3_Missense_Mutation_p.E846D	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	877							endonuclease activity|nucleic acid binding|zinc ion binding				0		all_cancers(61;3.24e-13)|all_epithelial(67;1.27e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.72e-06)|BRCA - Breast invasive adenocarcinoma(274;1.17e-05)|all cancers(92;9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0279)		TTTTAGTGGAGAAATCCCAGC	0.453													5	8	---	---	---	---	PASS
USP28	57646	broad.mit.edu	37	11	113704153	113704153	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:113704153C>A	uc001poh.2	-	7	781	c.748G>T	c.(748-750)GAG>TAG	p.E250*	USP28_uc010rwy.1_Nonsense_Mutation_p.E125*|USP28_uc001poi.2_5'UTR|USP28_uc001poj.3_Nonsense_Mutation_p.E250*|USP28_uc010rwz.1_Nonsense_Mutation_p.E250*	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	250					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		TGCTGTTCCTCAGATGATCGG	0.423													6	107	---	---	---	---	PASS
CEP164	22897	broad.mit.edu	37	11	117242073	117242073	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:117242073C>A	uc001prc.2	+	9	1190	c.1043C>A	c.(1042-1044)CCA>CAA	p.P348Q	CEP164_uc001prb.2_Missense_Mutation_p.P348Q|CEP164_uc010rxk.1_Missense_Mutation_p.P322Q|CEP164_uc001prf.2_RNA|CEP164_uc009yzp.1_RNA	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	348					cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;4e-05)|Epithelial(105;0.0008)		AAGGAAGCACCAGAGGACACA	0.537													5	109	---	---	---	---	PASS
VSIG2	23584	broad.mit.edu	37	11	124617490	124617490	+	Nonsense_Mutation	SNP	T	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:124617490T>A	uc001qas.2	-	7	1001	c.925A>T	c.(925-927)AGA>TGA	p.R309*		NM_014312	NP_055127	Q96IQ7	VSIG2_HUMAN	V-set and immunoglobulin domain containing 2	309	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.215)	Breast(109;0.00663)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0215)		GACGAGGGTCTTTCCAGGAAC	0.557													13	42	---	---	---	---	PASS
JAM3	83700	broad.mit.edu	37	11	134014177	134014177	+	Silent	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr11:134014177C>T	uc001qhb.1	+	4	457	c.433C>T	c.(433-435)CTG>TTG	p.L145L	JAM3_uc009zcz.1_Intron	NM_032801	NP_116190	Q9BX67	JAM3_HUMAN	junctional adhesion molecule 3 precursor	100	Extracellular (Potential).|Ig-like V-type.				angiogenesis|blood coagulation|regulation of neutrophil chemotaxis	cell-cell contact zone|desmosome|extracellular space|integral to membrane	integrin binding			ovary(1)	1	all_hematologic(175;0.127)	all_cancers(12;1.06e-21)|all_epithelial(12;3.37e-16)|all_lung(97;7.03e-06)|Lung NSC(97;1.67e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0506)|Esophageal squamous(93;0.0566)		Epithelial(10;1.55e-09)|BRCA - Breast invasive adenocarcinoma(10;1.35e-08)|all cancers(11;2.81e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00402)|Lung(977;0.245)		GAAGACATCCCTGAAGATCTG	0.458													19	50	---	---	---	---	PASS
VWF	7450	broad.mit.edu	37	12	6061676	6061676	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:6061676T>C	uc001qnn.1	-	49	8246	c.7996A>G	c.(7996-7998)ACG>GCG	p.T2666A	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	2666					blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	TCCTGGAGCGTCTCATCACGC	0.502													14	21	---	---	---	---	PASS
CD163	9332	broad.mit.edu	37	12	7635983	7635983	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:7635983T>C	uc001qsz.3	-	12	3196	c.3068A>G	c.(3067-3069)GAC>GGC	p.D1023G	CD163_uc001qta.3_Missense_Mutation_p.D1023G|CD163_uc009zfw.2_Missense_Mutation_p.D1056G	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	1023	SRCR 9.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						CACTGCAGCGTCTTCCTTGTG	0.512													8	24	---	---	---	---	PASS
WBP11	51729	broad.mit.edu	37	12	14947471	14947471	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:14947471C>A	uc001rci.2	-	7	882	c.721G>T	c.(721-723)GCC>TCC	p.A241S		NM_016312	NP_057396	Q9Y2W2	WBP11_HUMAN	WW domain binding protein 11	241					mRNA processing|RNA splicing|rRNA processing	cytoplasm	single-stranded DNA binding|WW domain binding			ovary(1)|lung(1)	2						CACTTCTCACCAAGTTCAGGA	0.413													8	280	---	---	---	---	PASS
PTPRO	5800	broad.mit.edu	37	12	15704492	15704492	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:15704492G>A	uc001rcv.1	+	15	2619	c.2445G>A	c.(2443-2445)GAG>GAA	p.E815E	PTPRO_uc001rcw.1_Silent_p.E815E|PTPRO_uc001rcx.1_Silent_p.E4E|PTPRO_uc001rcy.1_Silent_p.E4E|PTPRO_uc001rcz.1_Silent_p.E4E|PTPRO_uc001rda.1_Silent_p.E4E	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	815	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	9		Hepatocellular(102;0.244)				TAGTTACAGAGATGAATCCCA	0.398													35	85	---	---	---	---	PASS
STRAP	11171	broad.mit.edu	37	12	16052959	16052959	+	Silent	SNP	G	C	C	rs140559082	byFrequency	TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:16052959G>C	uc001rdc.3	+	8	1251	c.897G>C	c.(895-897)ACG>ACC	p.T299T	STRAP_uc010shw.1_Silent_p.T312T|STRAP_uc001rdd.3_Silent_p.T205T	NM_007178	NP_009109	Q9Y3F4	STRAP_HUMAN	serine/threonine kinase receptor associated	299	WD 7.				mRNA processing|RNA splicing	cell junction|mitochondrion|spliceosomal complex	identical protein binding			skin(1)	1		Hepatocellular(102;0.121)				TAGGAAAAACGTATGGCCTTT	0.333													15	41	---	---	---	---	PASS
ITPR2	3709	broad.mit.edu	37	12	26572033	26572033	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:26572033G>A	uc001rhg.2	-	50	7476	c.7059C>T	c.(7057-7059)GTC>GTT	p.V2353V	ITPR2_uc009zjg.1_Silent_p.V504V	NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	2353	Helical; (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					TGCAAACCAGGACATACGCCA	0.463													22	49	---	---	---	---	PASS
C12orf71	728858	broad.mit.edu	37	12	27235364	27235364	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:27235364T>C	uc001rhq.2	-	1	92	c.53A>G	c.(52-54)AAT>AGT	p.N18S		NM_001080406	NP_001073875	A8MTZ7	CL071_HUMAN	hypothetical protein LOC728858	18											0						CAGGTTGGAATTGGATTTGGA	0.493													20	21	---	---	---	---	PASS
LRRK2	120892	broad.mit.edu	37	12	40671774	40671774	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:40671774T>C	uc001rmg.3	+	17	2147	c.2026T>C	c.(2026-2028)TTC>CTC	p.F676L	LRRK2_uc001rmh.1_Missense_Mutation_p.F298L	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	676					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				CTTAGTAATATTCCATCAAAT	0.328													6	41	---	---	---	---	PASS
SLC38A4	55089	broad.mit.edu	37	12	47163091	47163091	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:47163091T>C	uc001rpi.2	-	15	1819	c.1420A>G	c.(1420-1422)ATA>GTA	p.I474V	SLC38A4_uc001rpj.2_Missense_Mutation_p.I474V	NM_018018	NP_060488	Q969I6	S38A4_HUMAN	solute carrier family 38, member 4	474	Helical; (Potential).				cellular nitrogen compound metabolic process|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Lung SC(27;0.192)|Renal(347;0.236)					ATGTATTTTATAGTTGGCACA	0.423													31	69	---	---	---	---	PASS
FIGNL2	401720	broad.mit.edu	37	12	52216039	52216039	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:52216039G>A	uc001rzc.2	-	1	170	c.159C>T	c.(157-159)GCC>GCT	p.A53A		NM_001013690	NP_001013712	A6NMB9	FIGL2_HUMAN	fidgetin-like 2	53							ATP binding|nucleoside-triphosphatase activity				0				BRCA - Breast invasive adenocarcinoma(357;0.135)		AGGCAGTGAGGGCTGAGATGT	0.642													3	9	---	---	---	---	PASS
SMARCC2	6601	broad.mit.edu	37	12	56575865	56575865	+	Splice_Site	SNP	T	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:56575865T>A	uc001skb.2	-	8	739	c.633_splice	c.e8-1	p.S211_splice	SMARCC2_uc001skd.2_Splice_Site_p.S211_splice|SMARCC2_uc001ska.2_Splice_Site_p.S211_splice|SMARCC2_uc001skc.2_Splice_Site_p.S211_splice|SMARCC2_uc010sqf.1_Splice_Site_p.S100_splice	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated						chromatin remodeling|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			lung(2)|central_nervous_system(2)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(18;0.123)			GTGTCGTAACTGCCATGGGAA	0.438													12	38	---	---	---	---	PASS
OS9	10956	broad.mit.edu	37	12	58089784	58089784	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:58089784A>G	uc001spj.2	+	4	502	c.443A>G	c.(442-444)TAC>TGC	p.Y148C	OS9_uc010srx.1_Intron|OS9_uc001spk.2_Missense_Mutation_p.Y148C|OS9_uc001spl.2_Missense_Mutation_p.Y148C|OS9_uc001spm.2_Missense_Mutation_p.Y148C|OS9_uc001spn.2_Missense_Mutation_p.Y148C|OS9_uc010sry.1_Missense_Mutation_p.Y148C|OS9_uc010srz.1_Missense_Mutation_p.Y89C	NM_006812	NP_006803	Q13438	OS9_HUMAN	osteosarcoma amplified 9, endoplasmic reticulum	148	PRKCSH.				ER-associated protein catabolic process|protein retention in ER lumen|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to endoplasmic reticulum stress	endoplasmic reticulum lumen|Hrd1p ubiquitin ligase complex	glycoprotein binding|protein binding|sugar binding			ovary(1)	1	all_neural(12;0.00548)|Glioma(12;0.0126)|Melanoma(17;0.122)		BRCA - Breast invasive adenocarcinoma(9;0.109)			CTCGGCTACTACCAATCAGCC	0.522													15	58	---	---	---	---	PASS
FAM119B	25895	broad.mit.edu	37	12	58174329	58174329	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:58174329A>T	uc001sqg.2	+	3	706	c.581A>T	c.(580-582)CAC>CTC	p.H194L	FAM119B_uc001sqf.2_3'UTR|FAM119B_uc009zqd.2_RNA|TSFM_uc001sqi.2_5'Flank|TSFM_uc010sse.1_5'Flank|TSFM_uc001sqh.2_5'Flank|TSFM_uc010ssf.1_5'Flank	NM_015433	NP_056248	Q96AZ1	MT21B_HUMAN	hypothetical protein LOC25895 isoform a	194						integral to membrane|intracellular	methyltransferase activity				0	all_cancers(7;9.07e-82)|Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					TTCTTTCAGCACCTCCTGCCC	0.562													7	20	---	---	---	---	PASS
AVIL	10677	broad.mit.edu	37	12	58200197	58200197	+	Silent	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:58200197G>T	uc001sqj.1	-	13	1646	c.1617C>A	c.(1615-1617)TCC>TCA	p.S539S	AVIL_uc009zqe.1_Silent_p.S532S|AVIL_uc001sqk.1_Silent_p.S117S|AVIL_uc001sql.3_Silent_p.S516S	NM_006576	NP_006567	O75366	AVIL_HUMAN	advillin	539	Gelsolin-like 5.|Core (By similarity).				actin filament capping|cilium morphogenesis|cytoskeleton organization|positive regulation of neuron projection development	actin cytoskeleton|axon|cytoplasm	actin binding			central_nervous_system(1)	1	Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					AGACATCATTGGAGTTTAGGG	0.542													5	63	---	---	---	---	PASS
RASSF9	9182	broad.mit.edu	37	12	86199048	86199048	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:86199048A>G	uc001taf.1	-	2	1079	c.740T>C	c.(739-741)CTA>CCA	p.L247P		NM_005447	NP_005438	O75901	RASF9_HUMAN	Ras association (RalGDS/AF-6) domain family	247	Potential.				endosome transport|protein targeting|signal transduction	cytosol|endosome|trans-Golgi network transport vesicle membrane	protein binding|transporter activity			ovary(1)	1						CTGCAAGTCTAGATTTTGCTC	0.398													31	76	---	---	---	---	PASS
C12orf63	374467	broad.mit.edu	37	12	97073530	97073530	+	Missense_Mutation	SNP	G	T	T	rs138249141		TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:97073530G>T	uc001tet.1	+	7	1069	c.991G>T	c.(991-993)GAT>TAT	p.D331Y		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	331										skin(6)|ovary(1)	7						ACAGACACAAGGTAAAATGCA	0.433													6	111	---	---	---	---	PASS
NEDD1	121441	broad.mit.edu	37	12	97311443	97311443	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:97311443G>T	uc001teu.3	+	5	615	c.276G>T	c.(274-276)TTG>TTT	p.L92F	NEDD1_uc001tev.3_Missense_Mutation_p.L92F|NEDD1_uc010svc.1_Missense_Mutation_p.L3F|NEDD1_uc001tew.2_Missense_Mutation_p.L99F|NEDD1_uc001tex.2_Missense_Mutation_p.L3F	NM_152905	NP_690869	Q8NHV4	NEDD1_HUMAN	neural precursor cell expressed, developmentally	92	WD 3.				cell division|G2/M transition of mitotic cell cycle|mitosis	cytosol					0						CTATGTATTTGGTAAGCGGAG	0.289													6	135	---	---	---	---	PASS
NFYB	4801	broad.mit.edu	37	12	104515090	104515090	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:104515090C>A	uc001tkl.1	-	6	640	c.439G>T	c.(439-441)GGA>TGA	p.G147*	NFYB_uc001tkk.1_Nonsense_Mutation_p.G145*	NM_006166	NP_006157	P25208	NFYB_HUMAN	nuclear transcription factor Y, beta	147	C domain.					CCAAT-binding factor complex	repressing transcription factor binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)	1						CCCTTTTCTCCTTTCATAGCC	0.368													7	233	---	---	---	---	PASS
RBM19	9904	broad.mit.edu	37	12	114395692	114395692	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:114395692C>A	uc009zwi.2	-	6	879	c.735G>T	c.(733-735)GAG>GAT	p.E245D	RBM19_uc001tvn.3_Missense_Mutation_p.E245D|RBM19_uc001tvm.2_Missense_Mutation_p.E245D	NM_001146699	NP_001140171	Q9Y4C8	RBM19_HUMAN	RNA binding motif protein 19	245					multicellular organismal development|positive regulation of embryonic development	chromosome|cytoplasm|nucleolus|nucleoplasm	nucleotide binding|RNA binding			skin(3)|ovary(1)|liver(1)|central_nervous_system(1)	6	Medulloblastoma(191;0.163)|all_neural(191;0.178)					CGGAGGAATCCTCTTCCTCGG	0.577													30	86	---	---	---	---	PASS
KDM2B	84678	broad.mit.edu	37	12	121880003	121880003	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:121880003C>G	uc001uat.2	-	19	3345	c.3241G>C	c.(3241-3243)GAC>CAC	p.D1081H	KDM2B_uc001uaq.2_Missense_Mutation_p.D521H|KDM2B_uc010szy.1_Missense_Mutation_p.D521H|KDM2B_uc001uar.2_Missense_Mutation_p.D672H|KDM2B_uc001uas.2_Missense_Mutation_p.D1012H|KDM2B_uc001uau.2_Intron|KDM2B_uc001uao.2_Missense_Mutation_p.D329H|KDM2B_uc010szx.1_Missense_Mutation_p.D329H|KDM2B_uc001uap.2_RNA	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	1081	F-box.				embryonic camera-type eye morphogenesis|fourth ventricle development|histone H2A monoubiquitination|initiation of neural tube closure|lateral ventricle development|midbrain development|midbrain-hindbrain boundary morphogenesis|negative regulation of neural precursor cell proliferation|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|spermatogenesis|third ventricle development|transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|rRNA binding|zinc ion binding			ovary(1)|skin(1)	2						ACACACAGGTCTTGGTGGCTG	0.652													3	18	---	---	---	---	PASS
DNAH10	196385	broad.mit.edu	37	12	124335508	124335508	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:124335508G>A	uc001uft.3	+	34	5847	c.5822G>A	c.(5821-5823)CGC>CAC	p.R1941H		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1941	AAA 1 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		TACGCAGGCCGCACGGAGCTG	0.592													14	21	---	---	---	---	PASS
AACS	65985	broad.mit.edu	37	12	125609519	125609519	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:125609519G>T	uc001uhc.2	+	12	1464	c.1258G>T	c.(1258-1260)GAG>TAG	p.E420*	AACS_uc001uhd.2_Nonsense_Mutation_p.E420*|AACS_uc009zyh.2_Intron|AACS_uc009zyi.2_Nonsense_Mutation_p.E18*	NM_023928	NP_076417	Q86V21	AACS_HUMAN	acetoacetyl-CoA synthetase	420					fatty acid metabolic process	cytosol	acetoacetate-CoA ligase activity|ATP binding			ovary(1)|liver(1)|central_nervous_system(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;9.82e-05)|Epithelial(86;0.000642)|all cancers(50;0.00843)		CCAGAGCTACGAGTATGTCTA	0.582													5	70	---	---	---	---	PASS
GALNT9	50614	broad.mit.edu	37	12	132688051	132688051	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr12:132688051G>A	uc001ukc.3	-	7	1378	c.1262C>T	c.(1261-1263)TCG>TTG	p.S421L	GALNT9_uc009zyr.2_Missense_Mutation_p.S195L|GALNT9_uc001ukb.2_Missense_Mutation_p.S278L|GALNT9_uc001uka.2_Missense_Mutation_p.S55L	NM_001122636	NP_001116108	Q9HCQ5	GALT9_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	421	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.241)		OV - Ovarian serous cystadenocarcinoma(86;7.49e-08)|Epithelial(86;3.55e-07)|all cancers(50;2.09e-05)		GGGACTCACCGACATGGGGAT	0.682													8	18	---	---	---	---	PASS
FLT1	2321	broad.mit.edu	37	13	28880836	28880836	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr13:28880836G>T	uc001usb.3	-	29	4079	c.3794C>A	c.(3793-3795)CCC>CAC	p.P1265H	FLT1_uc010aap.2_Missense_Mutation_p.P270H|FLT1_uc010aaq.2_Missense_Mutation_p.P390H|FLT1_uc001usa.3_Missense_Mutation_p.P483H	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	1265	Cytoplasmic (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)	CGAGGCCTTGGGTTTGCTGTC	0.527													18	17	---	---	---	---	PASS
MTUS2	23281	broad.mit.edu	37	13	29599505	29599505	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr13:29599505G>T	uc001usl.3	+	1	758	c.700G>T	c.(700-702)GCT>TCT	p.A234S		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	224						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						GCCAGACCACGCTGTCCCGGC	0.592													10	21	---	---	---	---	PASS
DACH1	1602	broad.mit.edu	37	13	72204798	72204798	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr13:72204798G>A	uc010thn.1	-	4	1439	c.1016C>T	c.(1015-1017)GCT>GTT	p.A339V	DACH1_uc010tho.1_Missense_Mutation_p.A339V|DACH1_uc010thp.1_Intron	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	dachshund homolog 1 isoform a	339	Interaction with SIX6 and HDAC3 (By similarity).				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|nucleotide binding|protein binding			breast(1)	1		Acute lymphoblastic leukemia(28;0.0503)|Breast(118;0.198)		GBM - Glioblastoma multiforme(99;0.00032)		CATTGCTTcagcaatagctgc	0.254													21	26	---	---	---	---	PASS
OR4M1	441670	broad.mit.edu	37	14	20249223	20249223	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr14:20249223A>T	uc010tku.1	+	1	742	c.742A>T	c.(742-744)ATT>TTT	p.I248F		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	248	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CCACATTACCATTGTGGTGCT	0.438													30	195	---	---	---	---	PASS
OR11H6	122748	broad.mit.edu	37	14	20692525	20692525	+	Silent	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr14:20692525C>T	uc010tlc.1	+	1	657	c.657C>T	c.(655-657)ACC>ACT	p.T219T		NM_001004480	NP_001004480	Q8NGC7	O11H6_HUMAN	olfactory receptor, family 11, subfamily H,	219	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(95;0.00108)		Epithelial(56;1.75e-06)|all cancers(55;1.22e-05)	GBM - Glioblastoma multiforme(265;0.0143)		TCTGTTACACCTTCAACTCGA	0.507													8	25	---	---	---	---	PASS
SLC7A8	23428	broad.mit.edu	37	14	23607195	23607195	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr14:23607195G>A	uc001wiz.2	-	7	1677	c.951C>T	c.(949-951)ATC>ATT	p.I317I	SLC7A8_uc001wix.2_Silent_p.I114I|SLC7A8_uc010tnk.1_Silent_p.I93I|SLC7A8_uc010tnl.1_Silent_p.I212I|SLC7A8_uc001wiy.2_Intron|SLC7A8_uc010akj.2_Intron	NM_012244	NP_036376	Q9UHI5	LAT2_HUMAN	solute carrier family 7 (cationic amino acid	317	Helical; (Potential).				blood coagulation|cellular amino acid metabolic process|leukocyte migration|metal ion homeostasis|response to toxin	basolateral plasma membrane|cytoplasm|integral to plasma membrane	neutral amino acid transmembrane transporter activity|organic cation transmembrane transporter activity|peptide antigen binding|protein binding|toxin transporter activity			ovary(1)	1	all_cancers(95;4.6e-05)			GBM - Glioblastoma multiforme(265;0.00809)	L-Alanine(DB00160)|L-Glutamine(DB00130)|L-Phenylalanine(DB00120)	AAATGGGCATGATCCAGGCCA	0.582													36	74	---	---	---	---	PASS
CLEC14A	161198	broad.mit.edu	37	14	38724318	38724318	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr14:38724318T>C	uc001wum.1	-	1	1257	c.910A>G	c.(910-912)AGG>GGG	p.R304G		NM_175060	NP_778230	Q86T13	CLC14_HUMAN	C-type lectin domain family 14, member A	304	Extracellular (Potential).					integral to membrane	sugar binding			ovary(3)|skin(1)	4	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00439)		GGCGGGCGCCTGGTGGGCACC	0.657													24	25	---	---	---	---	PASS
PNN	5411	broad.mit.edu	37	14	39650180	39650180	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr14:39650180A>G	uc001wuw.3	+	9	1364	c.1267A>G	c.(1267-1269)AAA>GAA	p.K423E		NM_002687	NP_002678	Q9H307	PININ_HUMAN	pinin, desmosome associated protein	423	Glu-rich.				cell adhesion|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|desmosome|intermediate filament|nuclear speck	DNA binding|protein binding|structural molecule activity			ovary(1)	1	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0119)		TGAAGCTAGCAAAGAATTGGA	0.378													33	74	---	---	---	---	PASS
FANCM	57697	broad.mit.edu	37	14	45605601	45605601	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr14:45605601G>T	uc001wwd.3	+	1	466	c.367G>T	c.(367-369)GTG>TTG	p.V123L	FANCM_uc001wwc.2_Missense_Mutation_p.V123L|FANCM_uc010anf.2_Missense_Mutation_p.V123L|FKBP3_uc010tqf.1_5'Flank	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	123	Helicase ATP-binding.				DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						TATTGCCGCCGTGGTCATGTA	0.552								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				18	41	---	---	---	---	PASS
PTGDR	5729	broad.mit.edu	37	14	52735209	52735209	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr14:52735209A>G	uc001wzq.2	+	1	779	c.677A>G	c.(676-678)TAT>TGT	p.Y226C		NM_000953	NP_000944	Q13258	PD2R_HUMAN	prostaglandin D2 receptor	226	Cytoplasmic (Potential).					integral to membrane|plasma membrane	prostaglandin D receptor activity|protein binding	p.Y226H(1)		ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	CGCAACCTCTATGCGATGCAC	0.701													9	26	---	---	---	---	PASS
SYNE2	23224	broad.mit.edu	37	14	64593056	64593056	+	Silent	SNP	A	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr14:64593056A>C	uc001xgm.2	+	72	13796	c.13566A>C	c.(13564-13566)ACA>ACC	p.T4522T	SYNE2_uc001xgl.2_Silent_p.T4522T|SYNE2_uc010apy.2_Silent_p.T907T|SYNE2_uc010apz.1_Silent_p.T414T	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	4522	Cytoplasmic (Potential).|Potential.				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		AAAATATGACAGAAGAAGCAT	0.358													16	32	---	---	---	---	PASS
PLEKHH1	57475	broad.mit.edu	37	14	68052752	68052752	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr14:68052752C>A	uc001xjl.1	+	28	4013	c.3871C>A	c.(3871-3873)CCA>ACA	p.P1291T	PLEKHH1_uc010tsw.1_Missense_Mutation_p.P859T|PLEKHH1_uc001xjn.1_Missense_Mutation_p.P806T|PLEKHH1_uc010tsx.1_Missense_Mutation_p.P156T|PLEKHH1_uc001xjo.1_Missense_Mutation_p.P156T|PLEKHH1_uc001xjp.1_Missense_Mutation_p.P156T	NM_020715	NP_065766	Q9ULM0	PKHH1_HUMAN	pleckstrin homology domain containing, family H	1291	FERM.					cytoskeleton	binding				0				all cancers(60;0.000771)|OV - Ovarian serous cystadenocarcinoma(108;0.00502)|BRCA - Breast invasive adenocarcinoma(234;0.011)		TAGATCTATCCCAGACAAGAG	0.478													8	189	---	---	---	---	PASS
EXD2	55218	broad.mit.edu	37	14	69701606	69701606	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr14:69701606G>C	uc001xkt.2	+	7	1191	c.532G>C	c.(532-534)GAG>CAG	p.E178Q	EXD2_uc001xku.2_Missense_Mutation_p.E48Q|EXD2_uc001xkv.2_Missense_Mutation_p.E303Q|EXD2_uc001xkw.2_Missense_Mutation_p.E178Q|EXD2_uc010aqt.2_Missense_Mutation_p.E303Q|EXD2_uc010tte.1_Missense_Mutation_p.E303Q|EXD2_uc001xky.2_Missense_Mutation_p.E178Q	NM_018199	NP_060669	Q9NVH0	EXD2_HUMAN	exonuclease 3'-5' domain containing 2	178					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0						ATTGGGAGAAGAGGTTAATGG	0.478													17	40	---	---	---	---	PASS
PCNX	22990	broad.mit.edu	37	14	71444805	71444805	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr14:71444805G>T	uc001xmo.2	+	6	2197	c.1751G>T	c.(1750-1752)CGA>CTA	p.R584L	PCNX_uc001xmn.3_Missense_Mutation_p.R584L|PCNX_uc010are.1_Missense_Mutation_p.R584L	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	584						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		GTTTGCTTTCGAGGTGTTTCT	0.478													5	113	---	---	---	---	PASS
TMEM90A	646658	broad.mit.edu	37	14	74876045	74876045	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr14:74876045G>T	uc001xpx.2	-	2	651	c.403C>A	c.(403-405)CAG>AAG	p.Q135K		NM_001105579	NP_001099049	A6NDD5	SYN1L_HUMAN	transmembrane protein 90A	135					response to biotic stimulus	Golgi apparatus|integral to membrane					0				BRCA - Breast invasive adenocarcinoma(234;0.00159)		TCTTCCTCCTGGTCATCCTCC	0.393													25	72	---	---	---	---	PASS
ATG2B	55102	broad.mit.edu	37	14	96797752	96797752	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr14:96797752C>A	uc001yfi.2	-	11	2056	c.1691G>T	c.(1690-1692)CGA>CTA	p.R564L		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	564										ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		AAACACTGCTCGGAAAGACTT	0.368													4	84	---	---	---	---	PASS
WARS	7453	broad.mit.edu	37	14	100803432	100803432	+	Silent	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr14:100803432G>T	uc001yhf.1	-	9	1305	c.1221C>A	c.(1219-1221)CTC>CTA	p.L407L	WARS_uc001yhe.1_Silent_p.L213L|WARS_uc001yhg.1_Silent_p.L407L|WARS_uc001yhh.1_Silent_p.L407L|WARS_uc001yhi.1_Silent_p.L366L|WARS_uc001yhj.1_Silent_p.L366L|WARS_uc001yhk.1_Silent_p.L366L|WARS_uc001yhl.1_Silent_p.L407L	NM_173701	NP_776049	P23381	SYWC_HUMAN	tryptophanyl-tRNA synthetase isoform a	407					angiogenesis|negative regulation of cell proliferation|regulation of angiogenesis|tryptophanyl-tRNA aminoacylation	cytosol|soluble fraction	ATP binding|protein binding|tryptophan-tRNA ligase activity			breast(1)	1		all_cancers(154;0.00223)|all_lung(585;2.48e-06)|all_epithelial(191;0.000564)|Melanoma(154;0.152)			L-Tryptophan(DB00150)	CGTCGTCCTCGAGGAAGAAGG	0.592													7	231	---	---	---	---	PASS
DYNC1H1	1778	broad.mit.edu	37	14	102516143	102516143	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr14:102516143G>A	uc001yks.2	+	76	13772	c.13608G>A	c.(13606-13608)CTG>CTA	p.L4536L		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	4536					cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						GCTGGTCCCTGGAGGAGCTCT	0.597													23	25	---	---	---	---	PASS
AHNAK2	113146	broad.mit.edu	37	14	105408151	105408151	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr14:105408151A>G	uc010axc.1	-	7	13757	c.13637T>C	c.(13636-13638)CTG>CCG	p.L4546P	AHNAK2_uc001ypx.2_Missense_Mutation_p.L4446P	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4546						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CACCTTGGGCAGGTGCCCTTT	0.622													91	181	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106518581	106518581	+	RNA	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr14:106518581C>A	uc010tyt.1	-	1630		c.32856G>T								Parts of antibodies, mostly variable regions.												0						TGGAGCCTGGCGGACCCAGCT	0.572													5	187	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	15	22466062	22466062	+	RNA	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr15:22466062G>A	uc001yui.1	-	1		c.29C>T								Homo sapiens clone IgA5728-2 immunoglobulin A heavy chain mRNA, partial cds.																		TGTGTCTCTCGCACAGTAATA	0.517													28	390	---	---	---	---	PASS
GABRB3	2562	broad.mit.edu	37	15	26812774	26812774	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr15:26812774C>A	uc001zaz.2	-	7	931	c.789G>T	c.(787-789)GTG>GTT	p.V263V	GABRB3_uc010uae.1_Silent_p.V178V|GABRB3_uc001zba.2_Silent_p.V263V|GABRB3_uc001zbb.2_Silent_p.V319V	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	263	Helical; (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	TCCAGAAGGACACCCACGACA	0.398													12	46	---	---	---	---	PASS
APBA2	321	broad.mit.edu	37	15	29346344	29346344	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr15:29346344A>G	uc001zck.2	+	3	464	c.257A>G	c.(256-258)TAT>TGT	p.Y86C	APBA2_uc010azj.2_Missense_Mutation_p.Y86C|APBA2_uc010uat.1_Missense_Mutation_p.Y86C|APBA2_uc001zcl.2_Missense_Mutation_p.Y86C|APBA2_uc010uas.1_Missense_Mutation_p.Y86C	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	86					nervous system development|protein transport		protein binding				0		all_lung(180;1.73e-12)|Breast(32;2.89e-05)|Colorectal(260;0.234)		all cancers(64;7.44e-11)|Epithelial(43;5.74e-10)|GBM - Glioblastoma multiforme(186;0.026)|BRCA - Breast invasive adenocarcinoma(123;0.0286)|Lung(196;0.24)		GAGGAGGACTATGACGAGGGC	0.617													15	92	---	---	---	---	PASS
CAPN3	825	broad.mit.edu	37	15	42702161	42702161	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr15:42702161G>C	uc001zpn.1	+	19	2389	c.2083G>C	c.(2083-2085)GAG>CAG	p.E695Q	CAPN3_uc001zpk.1_Missense_Mutation_p.E462Q|CAPN3_uc001zpl.1_Missense_Mutation_p.E602Q|CAPN3_uc010udf.1_Missense_Mutation_p.E608Q|CAPN3_uc010udg.1_Missense_Mutation_p.E560Q|CAPN3_uc001zpo.1_Missense_Mutation_p.E689Q|CAPN3_uc001zpp.1_Missense_Mutation_p.E603Q|CAPN3_uc001zpq.1_Missense_Mutation_p.E183Q|CAPN3_uc010bcv.1_Missense_Mutation_p.E30Q|CAPN3_uc001zpr.1_Missense_Mutation_p.E30Q|CAPN3_uc001zps.1_Missense_Mutation_p.E30Q|CAPN3_uc001zpt.1_Missense_Mutation_p.E30Q	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	695	EF-hand 2.|Domain IV.				muscle organ development|proteolysis	cytoplasm	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|signal transducer activity			central_nervous_system(1)	1		all_cancers(109;1.65e-16)|all_epithelial(112;8.34e-15)|Lung NSC(122;3.56e-09)|all_lung(180;1.68e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;7.36e-07)		GTTCACACTGGAGTCCTGCCG	0.607													16	40	---	---	---	---	PASS
UBR1	197131	broad.mit.edu	37	15	43367268	43367268	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr15:43367268C>A	uc001zqq.2	-	4	503	c.437G>T	c.(436-438)GGA>GTA	p.G146V	UBR1_uc010udk.1_Missense_Mutation_p.G146V	NM_174916	NP_777576	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin	146	UBR-type.				cellular response to leucine|negative regulation of TOR signaling cascade	cytosol	leucine binding|zinc ion binding			lung(1)	1		all_cancers(109;4.32e-15)|all_epithelial(112;4.05e-13)|Lung NSC(122;1.75e-08)|all_lung(180;2e-07)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.08e-07)|COAD - Colon adenocarcinoma(120;0.185)|Colorectal(105;0.214)		ACAGAACCCTCCTCCAGTAGA	0.368													6	139	---	---	---	---	PASS
SLC24A5	283652	broad.mit.edu	37	15	48426537	48426537	+	Silent	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr15:48426537A>G	uc001zwe.2	+	3	457	c.384A>G	c.(382-384)CTA>CTG	p.L128L	SLC24A5_uc010bel.2_Silent_p.L68L	NM_205850	NP_995322	Q71RS6	NCKX5_HUMAN	solute carrier family 24, member 5 precursor	128	Helical; Name=2; (Potential).				response to stimulus	integral to membrane|melanosome|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity				0		all_lung(180;0.00217)		all cancers(107;3.29e-10)|GBM - Glioblastoma multiforme(94;7.32e-07)		CTGCTTTCCTAGGTAAATATT	0.393													24	40	---	---	---	---	PASS
MAPK6	5597	broad.mit.edu	37	15	52353627	52353627	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr15:52353627C>G	uc002abp.2	+	5	1791	c.997C>G	c.(997-999)CAT>GAT	p.H333D		NM_002748	NP_002739	Q16659	MK06_HUMAN	mitogen-activated protein kinase 6	333					cell cycle		ATP binding|MAP kinase activity			lung(3)|ovary(1)	4				all cancers(107;0.0028)		CCATCCTTTTCATATTGAAGA	0.353													19	49	---	---	---	---	PASS
RFX7	64864	broad.mit.edu	37	15	56385972	56385972	+	Silent	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr15:56385972G>C	uc010bfn.2	-	9	3954	c.3954C>G	c.(3952-3954)ACC>ACG	p.T1318T	RFX7_uc010ugk.1_RNA|RFX7_uc002adn.1_Silent_p.T1132T	NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2	1221					regulation of transcription, DNA-dependent	nucleus	DNA binding				0						TATTACTTTTGGTGAGGTAAG	0.383													29	62	---	---	---	---	PASS
ADAM10	102	broad.mit.edu	37	15	58971384	58971384	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr15:58971384C>G	uc002afd.1	-	4	867	c.423G>C	c.(421-423)GAG>GAC	p.E141D	ADAM10_uc010bgc.1_RNA|ADAM10_uc010ugz.1_Intron|ADAM10_uc002afe.1_Intron|ADAM10_uc002afg.2_Missense_Mutation_p.E141D	NM_001110	NP_001101	O14672	ADA10_HUMAN	ADAM metallopeptidase domain 10 precursor	141	Extracellular (Potential).				cell-cell signaling|constitutive protein ectodomain proteolysis|epidermal growth factor receptor signaling pathway|in utero embryonic development|integrin-mediated signaling pathway|monocyte activation|negative regulation of cell adhesion|Notch receptor processing|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of T cell chemotaxis|protein phosphorylation|response to tumor necrosis factor	cell surface|endomembrane system|Golgi-associated vesicle|integral to membrane|nucleus|plasma membrane	integrin binding|metalloendopeptidase activity|protein homodimerization activity|protein kinase binding|SH3 domain binding|zinc ion binding			skin(2)	2				GBM - Glioblastoma multiforme(80;0.202)		TAATATATCTCTCTGCTGGCT	0.368													15	29	---	---	---	---	PASS
CA12	771	broad.mit.edu	37	15	63634235	63634235	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr15:63634235G>A	uc002amc.2	-	5	647	c.491C>T	c.(490-492)TCA>TTA	p.S164L	CA12_uc002amd.2_Missense_Mutation_p.S164L|CA12_uc002ame.2_Missense_Mutation_p.S104L	NM_001218	NP_001209	O43570	CAH12_HUMAN	carbonic anhydrase XII isoform 1 precursor	164	Extracellular (Potential).				one-carbon metabolic process	integral to membrane	carbonate dehydratase activity|zinc ion binding			ovary(1)	1					Acetazolamide(DB00819)	GAGGCCTTCTGACTTGTTGCT	0.473													16	19	---	---	---	---	PASS
HEXA	3073	broad.mit.edu	37	15	72639016	72639016	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr15:72639016C>A	uc002aun.3	-	11	1389	c.1182G>T	c.(1180-1182)GAG>GAT	p.E394D	uc002aug.2_RNA|CELF6_uc002auk.3_Intron|HEXA_uc010ukn.1_Missense_Mutation_p.E405D|HEXA_uc002auo.3_Missense_Mutation_p.E257D|HEXA_uc010bix.2_Missense_Mutation_p.E394D|HEXA_uc010biy.2_Missense_Mutation_p.E257D|HEXA_uc010uko.1_Missense_Mutation_p.E220D|HEXA_uc010biz.1_RNA	NM_000520	NP_000511	P06865	HEXA_HUMAN	hexosaminidase A preproprotein	394					cell death	lysosome	beta-N-acetylhexosaminidase activity|cation binding|protein heterodimerization activity			ovary(3)|upper_aerodigestive_tract(1)	4						CTGGAATATCCTCTCGCCACA	0.493													7	177	---	---	---	---	PASS
AP3B2	8120	broad.mit.edu	37	15	83332678	83332678	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr15:83332678C>G	uc010uoh.1	-	19	2431	c.2254G>C	c.(2254-2256)GAG>CAG	p.E752Q	AP3B2_uc010uoi.1_Missense_Mutation_p.E771Q|AP3B2_uc010uoj.1_Missense_Mutation_p.E720Q|AP3B2_uc010bmp.2_5'Flank|AP3B2_uc010uog.1_Missense_Mutation_p.E388Q|AP3B2_uc002biy.1_5'Flank	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	752	Glu/Ser-rich.				endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport	clathrin coated vesicle membrane|COPI-coated vesicle|membrane coat	binding|protein transporter activity			ovary(3)|breast(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.229)			CCTTTTCTCTCTGGCACCTTC	0.537													15	31	---	---	---	---	PASS
BNC1	646	broad.mit.edu	37	15	83935710	83935710	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr15:83935710G>A	uc002bjt.1	-	3	401	c.313C>T	c.(313-315)CCC>TCC	p.P105S	BNC1_uc010uos.1_Missense_Mutation_p.P93S	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	105					epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						AGGCGAACGGGGATGGCCTGG	0.507													22	55	---	---	---	---	PASS
ADAMTSL3	57188	broad.mit.edu	37	15	84553954	84553954	+	Silent	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr15:84553954G>T	uc002bjz.3	+	10	1286	c.1062G>T	c.(1060-1062)ACG>ACT	p.T354T	ADAMTSL3_uc010bmt.1_Silent_p.T354T|ADAMTSL3_uc010bmu.1_Silent_p.T354T	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	354						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			GCACTGTGACGTGTGGAGGAG	0.433													11	29	---	---	---	---	PASS
NTRK3	4916	broad.mit.edu	37	15	88678483	88678483	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr15:88678483T>A	uc002bme.1	-	9	1215	c.1053A>T	c.(1051-1053)GAA>GAT	p.E351D	NTRK3_uc002bmh.2_Missense_Mutation_p.E351D|NTRK3_uc002bmf.1_Missense_Mutation_p.E351D|NTRK3_uc010upl.1_Missense_Mutation_p.E253D|NTRK3_uc010bnh.1_Missense_Mutation_p.E351D|NTRK3_uc002bmg.2_Missense_Mutation_p.E351D	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	351	Ig-like C2-type 2.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity		ETV6/NTRK3(234)	soft_tissue(85)|kidney(66)|breast(56)|salivary_gland(26)|lung(22)|large_intestine(6)|ovary(6)|stomach(5)|central_nervous_system(3)|pancreas(3)|haematopoietic_and_lymphoid_tissue(2)|skin(1)	281			BRCA - Breast invasive adenocarcinoma(143;0.211)			CTTGGTAGTATTCCACATGGA	0.552			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			19	73	---	---	---	---	PASS
ZSCAN10	84891	broad.mit.edu	37	16	3142733	3142733	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr16:3142733C>A	uc002ctv.1	-	1	129	c.41G>T	c.(40-42)TGC>TTC	p.C14F	ZSCAN10_uc002cty.1_Intron|ZSCAN10_uc002ctw.1_Silent_p.L21L|ZSCAN10_uc002ctx.1_5'UTR	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	14	SCAN box.				negative regulation of transcription, DNA-dependent|viral reproduction	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						CCAGTGGCCGCAGAGCTCCCG	0.662													9	4	---	---	---	---	PASS
MEFV	4210	broad.mit.edu	37	16	3304583	3304583	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr16:3304583C>G	uc002cun.1	-	2	525	c.485G>C	c.(484-486)AGA>ACA	p.R162T		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	162					inflammatory response	cytoplasm|microtubule|microtubule associated complex|nucleus	actin binding|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|lung(1)	6					Colchicine(DB01394)	GGCCTTCTCTCTGCGTTTGCT	0.761													5	2	---	---	---	---	PASS
CREBBP	1387	broad.mit.edu	37	16	3778059	3778059	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr16:3778059A>C	uc002cvv.2	-	31	7193	c.6989T>G	c.(6988-6990)CTC>CGC	p.L2330R	CREBBP_uc002cvw.2_Missense_Mutation_p.L2292R	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	2330					cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		CTGGCCAGGGAGATGCGAGGC	0.642			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				31	16	---	---	---	---	PASS
NOMO1	23420	broad.mit.edu	37	16	14960470	14960470	+	Silent	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr16:14960470G>T	uc002dcv.2	+	15	1794	c.1728G>T	c.(1726-1728)CTG>CTT	p.L576L		NM_014287	NP_055102	Q15155	NOMO1_HUMAN	nodal modulator 1 precursor	576	Extracellular (Potential).					integral to membrane	carbohydrate binding|carboxypeptidase activity|protein binding			ovary(1)	1						TGGAAGTGCTGGAGGATGACA	0.507													6	111	---	---	---	---	PASS
GTF3C1	2975	broad.mit.edu	37	16	27497327	27497327	+	Silent	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr16:27497327G>T	uc002dov.1	-	24	3889	c.3849C>A	c.(3847-3849)CTC>CTA	p.L1283L	GTF3C1_uc002dou.2_Silent_p.L1283L	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1283						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						CCTTGGTGTTGAGGACATTGC	0.642													5	75	---	---	---	---	PASS
MAZ	4150	broad.mit.edu	37	16	29819136	29819136	+	Nonsense_Mutation	SNP	A	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr16:29819136A>T	uc002dty.2	+	2	1198	c.1030A>T	c.(1030-1032)AAG>TAG	p.K344*	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MAZ_uc002dtv.1_Intron|MAZ_uc010vdx.1_Nonsense_Mutation_p.K321*|MAZ_uc002dtw.2_Intron|MAZ_uc002dtx.2_Nonsense_Mutation_p.K344*|MAZ_uc010bzg.2_Intron|MAZ_uc002dtz.1_Nonsense_Mutation_p.K62*|MAZ_uc002dua.2_5'Flank|MAZ_uc010vdy.1_5'Flank	NM_002383	NP_002374	P56270	MAZ_HUMAN	MYC-associated zinc finger protein isoform 1	344	C2H2-type 4.				regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription|transcription initiation from RNA polymerase II promoter	nucleus	DNA binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1						CCACTGTGGCAAGAGCTTCTC	0.697													17	15	---	---	---	---	PASS
ZNF267	10308	broad.mit.edu	37	16	31926601	31926601	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr16:31926601C>A	uc002ecs.3	+	4	1240	c.1031C>A	c.(1030-1032)CCT>CAT	p.P344H		NM_003414	NP_003405	Q14586	ZN267_HUMAN	zinc finger protein 267	344					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						CAGATCATTCCTACCGAAGAG	0.363													7	176	---	---	---	---	PASS
ZNF267	10308	broad.mit.edu	37	16	31927618	31927618	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr16:31927618C>G	uc002ecs.3	+	4	2257	c.2048C>G	c.(2047-2049)ACT>AGT	p.T683S		NM_003414	NP_003405	Q14586	ZN267_HUMAN	zinc finger protein 267	683					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						AGAAGACATACTGGAGAGAGA	0.453													64	51	---	---	---	---	PASS
CHD9	80205	broad.mit.edu	37	16	53279391	53279391	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr16:53279391G>T	uc002ehb.2	+	13	3362	c.3198G>T	c.(3196-3198)CAG>CAT	p.Q1066H	CHD9_uc002egy.2_Missense_Mutation_p.Q1066H|CHD9_uc002eha.1_Missense_Mutation_p.Q1066H|CHD9_uc002ehc.2_Missense_Mutation_p.Q1066H|CHD9_uc002ehf.2_Missense_Mutation_p.Q180H|CHD9_uc002ehd.2_Missense_Mutation_p.Q592H|CHD9_uc002ehe.1_Missense_Mutation_p.Q180H	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	1066					cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				CAGAGGAACAGGTATCCTATT	0.303													4	33	---	---	---	---	PASS
RPGRIP1L	23322	broad.mit.edu	37	16	53726041	53726041	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr16:53726041G>T	uc002ehp.2	-	4	530	c.466C>A	c.(466-468)CGT>AGT	p.R156S	RPGRIP1L_uc002eho.3_Missense_Mutation_p.R156S|RPGRIP1L_uc010vgy.1_Missense_Mutation_p.R156S|RPGRIP1L_uc010cbx.2_Missense_Mutation_p.R156S|RPGRIP1L_uc010vgz.1_Missense_Mutation_p.R156S|RPGRIP1L_uc002ehq.1_Missense_Mutation_p.R156S	NM_015272	NP_056087	Q68CZ1	FTM_HUMAN	RPGRIP1-like isoform a	156					negative regulation of G-protein coupled receptor protein signaling pathway	cell-cell junction|centrosome|cilium axoneme|microtubule basal body	thromboxane A2 receptor binding			ovary(1)	1		all_cancers(37;0.0973)				GTGTTAATACGAGATTGTACA	0.378													4	107	---	---	---	---	PASS
NLRC5	84166	broad.mit.edu	37	16	57059801	57059801	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr16:57059801A>G	uc002ekk.1	+	6	1171	c.946A>G	c.(946-948)ATG>GTG	p.M316V	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Missense_Mutation_p.M121V|NLRC5_uc002ekl.2_Missense_Mutation_p.M121V|NLRC5_uc002ekm.2_Missense_Mutation_p.M121V|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	316	NACHT.				defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				CCTCCAGCCTATGGGTCCTGA	0.602													19	23	---	---	---	---	PASS
PDPR	55066	broad.mit.edu	37	16	70190383	70190383	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr16:70190383G>T	uc002eyf.1	+	19	3198	c.2241G>T	c.(2239-2241)ATG>ATT	p.M747I	CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Missense_Mutation_p.M647I|PDPR_uc002eyg.1_Missense_Mutation_p.M414I|PDPR_uc002eyh.2_Missense_Mutation_p.M92I|PDPR_uc010vls.1_Missense_Mutation_p.M92I	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory	747					glycine catabolic process|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	aminomethyltransferase activity|oxidoreductase activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.124)		CTTAGGGCATGGATTTCATTG	0.552													24	124	---	---	---	---	PASS
COG4	25839	broad.mit.edu	37	16	70543256	70543256	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr16:70543256C>A	uc002ezc.2	-	7	891	c.880G>T	c.(880-882)GTG>TTG	p.V294L	COG4_uc002ezb.2_5'UTR|COG4_uc010cfu.2_RNA|COG4_uc002ezd.2_Missense_Mutation_p.V294L|COG4_uc002eze.2_5'UTR	NM_015386	NP_056201	Q9H9E3	COG4_HUMAN	component of oligomeric golgi complex 4	290					Golgi organization|Golgi vesicle prefusion complex stabilization|protein transport|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0		Ovarian(137;0.0694)				TAGGTCTCCACTATTGGCTGG	0.463													15	19	---	---	---	---	PASS
PMFBP1	83449	broad.mit.edu	37	16	72170400	72170400	+	Missense_Mutation	SNP	C	G	G	rs149950926	byFrequency	TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr16:72170400C>G	uc002fcc.3	-	9	1322	c.1150G>C	c.(1150-1152)GAG>CAG	p.E384Q	PMFBP1_uc002fcd.2_Missense_Mutation_p.E384Q|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_Missense_Mutation_p.E239Q	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	384	Potential.									ovary(2)	2		Ovarian(137;0.179)				AGCTGCAGCTCCTGCAGCCGG	0.557													10	30	---	---	---	---	PASS
BCMO1	53630	broad.mit.edu	37	16	81298358	81298358	+	Missense_Mutation	SNP	G	T	T	rs145899743		TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr16:81298358G>T	uc002fgn.1	+	5	803	c.585G>T	c.(583-585)AAG>AAT	p.K195N	BCMO1_uc010vnp.1_Missense_Mutation_p.K126N	NM_017429	NP_059125	Q9HAY6	BCDO1_HUMAN	beta-carotene 15,15'-monooxygenase	195					retinoid metabolic process|steroid metabolic process	cytosol	beta-carotene 15,15'-monooxygenase activity|metal ion binding|monooxygenase activity				0						GGAAGACAAAGTATGTGATTT	0.443													20	22	---	---	---	---	PASS
PLCG2	5336	broad.mit.edu	37	16	81819732	81819732	+	Silent	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr16:81819732C>T	uc002fgt.2	+	2	290	c.138C>T	c.(136-138)ATC>ATT	p.I46I	PLCG2_uc010chg.1_Silent_p.I46I	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	46	PH.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						TCCAGGTGATCATGGAGACGC	0.627													13	13	---	---	---	---	PASS
SMYD4	114826	broad.mit.edu	37	17	1687711	1687711	+	Silent	SNP	G	A	A	rs144396164		TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:1687711G>A	uc002ftm.3	-	8	2097	c.1929C>T	c.(1927-1929)TCC>TCT	p.S643S	SMYD4_uc002ftn.1_Silent_p.S498S	NM_052928	NP_443160	Q8IYR2	SMYD4_HUMAN	SET and MYND domain containing 4	643							zinc ion binding			skin(3)|kidney(2)	5						TGCTGACGGCGGATTCTGCAC	0.547											OREG0024075	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	35	---	---	---	---	PASS
UBE2G1	7326	broad.mit.edu	37	17	4192629	4192629	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:4192629C>A	uc002fxs.2	-	4	680	c.322G>T	c.(322-324)GAG>TAG	p.E108*		NM_003342	NP_003333	P62253	UB2G1_HUMAN	ubiquitin-conjugating enzyme E2G 1	108					protein K48-linked ubiquitination|protein K63-linked ubiquitination|ubiquitin-dependent protein catabolic process		ATP binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity				0						CAGCGTTCCTCTGGCTTTTCA	0.428													5	63	---	---	---	---	PASS
ZNF594	84622	broad.mit.edu	37	17	5086471	5086471	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:5086471C>A	uc010cla.1	-	2	1237	c.1081G>T	c.(1081-1083)GAG>TAG	p.E361*		NM_032530	NP_115919	Q96JF6	ZN594_HUMAN	zinc finger protein 594	361	C2H2-type 9; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3						CTAAGCTCCTCATCCTTGCTG	0.453													6	149	---	---	---	---	PASS
TP53	7157	broad.mit.edu	37	17	7577505	7577505	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:7577505T>A	uc002gim.2	-	7	970	c.776A>T	c.(775-777)GAC>GTC	p.D259V	TP53_uc002gig.1_Missense_Mutation_p.D259V|TP53_uc002gih.2_Missense_Mutation_p.D259V|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.D127V|TP53_uc010cng.1_Missense_Mutation_p.D127V|TP53_uc002gii.1_Missense_Mutation_p.D127V|TP53_uc010cnh.1_Missense_Mutation_p.D259V|TP53_uc010cni.1_Missense_Mutation_p.D259V|TP53_uc002gij.2_Missense_Mutation_p.D259V|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.D166V|TP53_uc002gio.2_Missense_Mutation_p.D127V	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	259	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		D -> Y (in sporadic cancers; somatic mutation).|D -> A (in a sporadic cancer; somatic mutation).|D -> E (in sporadic cancers; somatic mutation).|D -> H (in sporadic cancers; somatic mutation).|D -> S (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|D -> N (in sporadic cancers; somatic mutation).|D -> V (in sporadic cancers; somatic mutation).|D -> G (in sporadic cancers; somatic mutation).|D -> P (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).		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.D259Y(19)|p.D259V(13)|p.0?(7)|p.D259N(6)|p.D259fs*86(4)|p.D259G(4)|p.D259fs*5(3)|p.D259E(3)|p.D259D(2)|p.?(1)|p.E258fs*85(1)|p.E258fs*71(1)|p.E258fs*2(1)|p.E258_S260delEDS(1)|p.D259S(1)|p.D259H(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)		TGACCTGGAGTCTTCCAGTGT	0.587		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)			8	12	---	---	---	---	PASS
TP53	7157	broad.mit.edu	37	17	7577506	7577506	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:7577506C>A	uc002gim.2	-	7	969	c.775G>T	c.(775-777)GAC>TAC	p.D259Y	TP53_uc002gig.1_Missense_Mutation_p.D259Y|TP53_uc002gih.2_Missense_Mutation_p.D259Y|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.D127Y|TP53_uc010cng.1_Missense_Mutation_p.D127Y|TP53_uc002gii.1_Missense_Mutation_p.D127Y|TP53_uc010cnh.1_Missense_Mutation_p.D259Y|TP53_uc010cni.1_Missense_Mutation_p.D259Y|TP53_uc002gij.2_Missense_Mutation_p.D259Y|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.D166Y|TP53_uc002gio.2_Missense_Mutation_p.D127Y	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	259	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		D -> Y (in sporadic cancers; somatic mutation).|D -> A (in a sporadic cancer; somatic mutation).|D -> E (in sporadic cancers; somatic mutation).|D -> H (in sporadic cancers; somatic mutation).|D -> S (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|D -> N (in sporadic cancers; somatic mutation).|D -> V (in sporadic cancers; somatic mutation).|D -> G (in sporadic cancers; somatic mutation).|D -> P (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).		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.D259Y(19)|p.D259V(13)|p.0?(7)|p.D259N(6)|p.D259fs*86(4)|p.D259G(4)|p.D259fs*5(3)|p.D259E(3)|p.D259D(2)|p.?(1)|p.E258fs*85(1)|p.E258fs*71(1)|p.E258fs*2(1)|p.E258_S260delEDS(1)|p.D259S(1)|p.D259H(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)		GACCTGGAGTCTTCCAGTGTG	0.582		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)			8	12	---	---	---	---	PASS
TOP3A	7156	broad.mit.edu	37	17	18196077	18196077	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:18196077C>T	uc002gsx.1	-	11	1392	c.1163G>A	c.(1162-1164)CGC>CAC	p.R388H	TOP3A_uc010cpz.1_5'Flank|TOP3A_uc010vxr.1_Intron|TOP3A_uc002gsw.1_Intron|TOP3A_uc010vxs.1_Missense_Mutation_p.R286H	NM_004618	NP_004609	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	388					DNA topological change|meiosis	chromosome|PML body	ATP binding|DNA topoisomerase type I activity|protein binding|zinc ion binding			skin(3)	3						GGCCCCCCAGCGTGGATCGGG	0.547													27	26	---	---	---	---	PASS
KCNH4	23415	broad.mit.edu	37	17	40332908	40332908	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:40332908G>T	uc002hzb.2	-	1	389	c.56C>A	c.(55-57)GCC>GAC	p.A19D		NM_012285	NP_036417	Q9UQ05	KCNH4_HUMAN	potassium voltage-gated channel, subfamily H,	19	Cytoplasmic (Potential).|PAS.				regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	two-component sensor activity|voltage-gated potassium channel activity			large_intestine(1)	1		all_cancers(22;1.24e-06)|all_epithelial(22;4.33e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.126)		AAAACGGGTGGCGATGGTGTC	0.652													24	96	---	---	---	---	PASS
KCNH4	23415	broad.mit.edu	37	17	40332909	40332909	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:40332909C>T	uc002hzb.2	-	1	388	c.55G>A	c.(55-57)GCC>ACC	p.A19T		NM_012285	NP_036417	Q9UQ05	KCNH4_HUMAN	potassium voltage-gated channel, subfamily H,	19	Cytoplasmic (Potential).|PAS.				regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	two-component sensor activity|voltage-gated potassium channel activity			large_intestine(1)	1		all_cancers(22;1.24e-06)|all_epithelial(22;4.33e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.126)		AAACGGGTGGCGATGGTGTCC	0.652													25	94	---	---	---	---	PASS
PTRF	284119	broad.mit.edu	37	17	40575028	40575028	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:40575028G>C	uc002hzo.2	-	1	247	c.88C>G	c.(88-90)CAG>GAG	p.Q30E	PTRF_uc010wgi.1_Missense_Mutation_p.Q30E	NM_012232	NP_036364	Q6NZI2	PTRF_HUMAN	polymerase I and transcript release factor	30					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription initiation from RNA polymerase I promoter	caveola|cytosol|endoplasmic reticulum|microsome|mitochondrion|nucleoplasm	protein binding|rRNA primary transcript binding			breast(1)	1		all_cancers(22;0.00146)|Breast(137;0.00116)|all_epithelial(22;0.0134)		BRCA - Breast invasive adenocarcinoma(366;0.193)		TCCGCTGCCTGAGCCCCAGCG	0.677													9	13	---	---	---	---	PASS
PTRF	284119	broad.mit.edu	37	17	40575045	40575045	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:40575045G>A	uc002hzo.2	-	1	230	c.71C>T	c.(70-72)CCT>CTT	p.P24L	PTRF_uc010wgi.1_Missense_Mutation_p.P24L	NM_012232	NP_036364	Q6NZI2	PTRF_HUMAN	polymerase I and transcript release factor	24					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription initiation from RNA polymerase I promoter	caveola|cytosol|endoplasmic reticulum|microsome|mitochondrion|nucleoplasm	protein binding|rRNA primary transcript binding			breast(1)	1		all_cancers(22;0.00146)|Breast(137;0.00116)|all_epithelial(22;0.0134)		BRCA - Breast invasive adenocarcinoma(366;0.193)		AGCGGAGGAAGGCTCCGGGGC	0.711													9	9	---	---	---	---	PASS
BECN1	8678	broad.mit.edu	37	17	40966595	40966595	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:40966595C>G	uc002ibo.3	-	9	1062	c.927G>C	c.(925-927)CAG>CAC	p.Q309H	BECN1_uc010whb.1_Missense_Mutation_p.Q222H|BECN1_uc010whc.1_Missense_Mutation_p.Q233H|BECN1_uc002ibn.2_Missense_Mutation_p.Q309H	NM_003766	NP_003757	Q14457	BECN1_HUMAN	beclin 1	309					anti-apoptosis|cell cycle|cellular defense response|cytokinesis|response to virus	membrane	protein binding			ovary(1)	1		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0745)		GCAACACAGTCTGGCCCCAAG	0.493													15	56	---	---	---	---	PASS
RUNDC1	146923	broad.mit.edu	37	17	41143505	41143505	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:41143505G>A	uc002ici.1	+	5	1626	c.1614G>A	c.(1612-1614)TTG>TTA	p.L538L	RUNDC1_uc010whi.1_Silent_p.L308L	NM_173079	NP_775102	Q96C34	RUND1_HUMAN	RUN domain containing 1	538	RUN.										0		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.161)		ACTCAGAATTGAAGGCCTTGG	0.562													9	18	---	---	---	---	PASS
GPATCH8	23131	broad.mit.edu	37	17	42478693	42478693	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:42478693G>T	uc002igw.1	-	8	816	c.752C>A	c.(751-753)TCT>TAT	p.S251Y	GPATCH8_uc002igv.1_Missense_Mutation_p.S173Y|GPATCH8_uc010wiz.1_Missense_Mutation_p.S173Y	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	251						intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		GGAGAATTCAGATCCCAGGCC	0.502													31	74	---	---	---	---	PASS
ACBD4	79777	broad.mit.edu	37	17	43214419	43214419	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:43214419G>C	uc002iid.2	+	5	672	c.328G>C	c.(328-330)GAG>CAG	p.E110Q	ACBD4_uc010wjj.1_Missense_Mutation_p.E110Q|ACBD4_uc002iie.2_Missense_Mutation_p.E110Q|ACBD4_uc002iif.2_Missense_Mutation_p.E110Q|ACBD4_uc002iic.2_Missense_Mutation_p.E110Q|ACBD4_uc010dae.2_Missense_Mutation_p.E32Q	NM_001135707	NP_001129179	Q8NC06	ACBD4_HUMAN	acyl-Coenzyme A binding domain containing 4	110							fatty-acyl-CoA binding			ovary(1)|kidney(1)	2						TGAGGTGGCAGAGGACATGTT	0.622													6	19	---	---	---	---	PASS
KIAA1267	284058	broad.mit.edu	37	17	44248240	44248240	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:44248240C>A	uc002ikb.2	-	1	1355	c.1270G>T	c.(1270-1272)GAG>TAG	p.E424*	KIAA1267_uc002ikc.2_Nonsense_Mutation_p.E424*|KIAA1267_uc002ikd.2_Nonsense_Mutation_p.E424*|KIAA1267_uc010dav.2_Nonsense_Mutation_p.E424*	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	424						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				TGACGCTGCTCGGGATCAGCT	0.463													6	377	---	---	---	---	PASS
RSAD1	55316	broad.mit.edu	37	17	48560734	48560734	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:48560734G>A	uc002iqw.1	+	6	994	c.938G>A	c.(937-939)GGA>GAA	p.G313E	RSAD1_uc010wmq.1_RNA	NM_018346	NP_060816	Q9HA92	RSAD1_HUMAN	radical S-adenosyl methionine domain containing	313					porphyrin biosynthetic process	mitochondrion	4 iron, 4 sulfur cluster binding|coproporphyrinogen oxidase activity|metal ion binding				0	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			CAGGGGGCTGGAGGCCACACC	0.547													4	11	---	---	---	---	PASS
DGKE	8526	broad.mit.edu	37	17	54912380	54912380	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:54912380G>T	uc002iur.2	+	2	404	c.224G>T	c.(223-225)TGC>TTC	p.C75F	DGKE_uc002ius.1_Missense_Mutation_p.C75F|C17orf67_uc002iuq.2_5'Flank	NM_003647	NP_003638	P52429	DGKE_HUMAN	diacylglycerol kinase epsilon	75	Phorbol-ester/DAG-type 1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|phospholipid biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding|protein binding			breast(2)	2	Breast(9;3.59e-07)					ACCTACTGCTGCGTGTGCGCG	0.687													7	23	---	---	---	---	PASS
BZRAP1	9256	broad.mit.edu	37	17	56387418	56387418	+	Silent	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:56387418C>T	uc002ivx.3	-	21	4672	c.3801G>A	c.(3799-3801)GAG>GAA	p.E1267E	BZRAP1_uc010dcs.2_Silent_p.E1207E|BZRAP1_uc010wnt.1_Silent_p.E1267E	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	1267	Poly-Glu.					mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					cctcctcctcctcctcttcct	0.468													22	59	---	---	---	---	PASS
BCAS3	54828	broad.mit.edu	37	17	59155868	59155868	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:59155868G>T	uc002iyv.3	+	22	2459	c.2350G>T	c.(2350-2352)GAT>TAT	p.D784Y	BCAS3_uc002iyu.3_Missense_Mutation_p.D769Y|BCAS3_uc002iyw.3_Missense_Mutation_p.D765Y|BCAS3_uc002iyy.3_Missense_Mutation_p.D540Y|BCAS3_uc002iyz.3_Missense_Mutation_p.D338Y|BCAS3_uc002iza.3_Missense_Mutation_p.D323Y	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1	784						nucleus				ovary(2)|central_nervous_system(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(1;3.11e-12)|Epithelial(12;8.2e-07)|all cancers(12;5.33e-06)			TGATACAGATGATCTTGATCT	0.408													16	30	---	---	---	---	PASS
SCN4A	6329	broad.mit.edu	37	17	62034644	62034644	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:62034644G>T	uc002jds.1	-	13	2331	c.2254C>A	c.(2254-2256)CTC>ATC	p.L752I		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	752	II.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	AAGACGATGAGGAAGGAGTGG	0.577													5	72	---	---	---	---	PASS
DDX5	1655	broad.mit.edu	37	17	62500359	62500359	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:62500359A>C	uc002jek.2	-	3	535	c.288T>G	c.(286-288)TTT>TTG	p.F96L	CCDC45_uc002jem.2_5'Flank|CCDC45_uc002jen.2_5'Flank|CCDC45_uc010wqb.1_5'Flank|DDX5_uc010deh.2_Missense_Mutation_p.F96L|DDX5_uc002jej.2_5'UTR|DDX5_uc010wqa.1_Intron|DDX5_uc002jel.1_5'Flank	NM_004396	NP_004387	P17844	DDX5_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 5	96	Q motif.				cell growth|regulation of alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nucleolus	ATP binding|ATP-dependent helicase activity|mRNA binding|protein binding|RNA helicase activity|transcription cofactor activity			ovary(2)|lung(1)	3	Breast(5;2.15e-14)		BRCA - Breast invasive adenocarcinoma(8;8.6e-12)			TGGCTTCATAAAAATTTAGAA	0.393			T	ETV4	prostate								26	75	---	---	---	---	PASS
RNF213	57674	broad.mit.edu	37	17	78322000	78322000	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:78322000C>T	uc002jyh.1	+	4	4307	c.4084C>T	c.(4084-4086)CAC>TAC	p.H1362Y		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			GGAGTACTTTCACAGACAGAG	0.597													4	30	---	---	---	---	PASS
PYCR1	5831	broad.mit.edu	37	17	79891161	79891161	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:79891161C>T	uc002kcr.1	-	7	1167	c.889G>A	c.(889-891)GGG>AGG	p.G297R	PYCR1_uc002kcq.1_3'UTR|PYCR1_uc002kcp.2_Intron|PYCR1_uc002kcs.1_3'UTR|PYCR1_uc010wvd.1_Missense_Mutation_p.G324R|PYCR1_uc002kct.1_Missense_Mutation_p.G297R|PYCR1_uc002kcu.1_Missense_Mutation_p.G266R	NM_006907	NP_008838	P32322	P5CR1_HUMAN	pyrroline-5-carboxylate reductase 1 isoform 1	297					cellular response to oxidative stress|proline biosynthetic process	mitochondrial matrix	binding|pyrroline-5-carboxylate reductase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0165)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)		L-Proline(DB00172)|NADH(DB00157)	AGAGCGGTCCCTGCAGGGGAG	0.637													13	28	---	---	---	---	PASS
FASN	2194	broad.mit.edu	37	17	80053236	80053236	+	Silent	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:80053236C>T	uc002kdu.2	-	3	357	c.240G>A	c.(238-240)CGG>CGA	p.R80R		NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	80	Beta-ketoacyl synthase (By similarity).				energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	CCAGCAGCAGCCGCAGCTGAG	0.632													11	10	---	---	---	---	PASS
C17orf101	79701	broad.mit.edu	37	17	80369398	80369398	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr17:80369398G>A	uc002keu.1	-	3	414	c.313C>T	c.(313-315)CCC>TCC	p.P105S	C17orf101_uc002ket.1_Missense_Mutation_p.P105S|C17orf101_uc010dip.1_RNA	NM_024648	NP_078924	Q6PK18	CQ101_HUMAN	hypothetical protein LOC79701 isoform 1	105	Lumenal (Potential).					integral to membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(1)	1						CACTTTCGGGGAGTGCAGCCT	0.622													16	30	---	---	---	---	PASS
LAMA1	284217	broad.mit.edu	37	18	6949175	6949175	+	Silent	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr18:6949175T>C	uc002knm.2	-	59	8575	c.8481A>G	c.(8479-8481)GGA>GGG	p.G2827G	LAMA1_uc002knk.2_Silent_p.G157G|LAMA1_uc002knl.2_Silent_p.G280G|LAMA1_uc010wzj.1_Silent_p.G2303G	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2827	Laminin G-like 4.				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)	CCAGCATGGTTCCATCTCCCA	0.483													7	34	---	---	---	---	PASS
ROCK1	6093	broad.mit.edu	37	18	18608740	18608740	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr18:18608740C>T	uc002kte.2	-	10	2149	c.1208G>A	c.(1207-1209)CGT>CAT	p.R403H		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	403	Interaction with FHOD1.|AGC-kinase C-terminal.				actin cytoskeleton organization|axon guidance|cellular component disassembly involved in apoptosis|cytokinesis|leukocyte tethering or rolling|membrane to membrane docking|Rho protein signal transduction	centriole|cytosol|Golgi membrane	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|breast(2)|central_nervous_system(1)	5	Melanoma(1;0.165)					TACTTACCTACGATTGCTATA	0.308													18	58	---	---	---	---	PASS
ZNF521	25925	broad.mit.edu	37	18	22804669	22804669	+	Silent	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr18:22804669G>C	uc002kvk.2	-	4	3460	c.3213C>G	c.(3211-3213)CTC>CTG	p.L1071L	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Silent_p.L1071L|ZNF521_uc002kvl.2_Silent_p.L851L	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	1071	C2H2-type 25; degenerate.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					GGAATTCTTTGAGGCAAGATG	0.522			T	PAX5	ALL								17	47	---	---	---	---	PASS
RNF125	54941	broad.mit.edu	37	18	29648306	29648306	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr18:29648306C>T	uc002kxf.1	+	6	1040	c.658C>T	c.(658-660)CGG>TGG	p.R220W		NM_017831	NP_060301	Q96EQ8	RN125_HUMAN	ring finger protein 125	220					negative regulation of type I interferon production	intracellular	ligase activity|zinc ion binding				0						AGTCTTAGACCGGTCACTTCT	0.328													7	34	---	---	---	---	PASS
SYT4	6860	broad.mit.edu	37	18	40850348	40850348	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr18:40850348G>A	uc002law.2	-	4	1605	c.1236C>T	c.(1234-1236)CCC>CCT	p.P412P	SYT4_uc010dng.2_RNA|SYT4_uc010xcm.1_Silent_p.P394P|SYT4_uc010dnh.2_RNA	NM_020783	NP_065834	Q9H2B2	SYT4_HUMAN	synaptotagmin IV	412	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			skin(5)	5						TTTGTCTCCTGGGGTAGTCAC	0.488													64	163	---	---	---	---	PASS
ME2	4200	broad.mit.edu	37	18	48434457	48434457	+	Nonsense_Mutation	SNP	C	T	T	rs138563580		TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr18:48434457C>T	uc002ley.2	+	3	389	c.133C>T	c.(133-135)CGA>TGA	p.R45*	ME2_uc010dpd.2_Nonsense_Mutation_p.R45*	NM_002396	NP_002387	P23368	MAOM_HUMAN	malic enzyme 2, NAD(+)-dependent, mitochondrial	45					malate metabolic process	mitochondrial matrix	electron carrier activity|malate dehydrogenase (decarboxylating) activity|malate dehydrogenase (oxaloacetate-decarboxylating) activity|metal ion binding|NAD binding				0		Colorectal(6;0.0273)|all_epithelial(6;0.118)		Colorectal(21;0.0313)|READ - Rectum adenocarcinoma(32;0.105)|STAD - Stomach adenocarcinoma(97;0.184)	NADH(DB00157)	TTTACAAGAACGACAAATGCT	0.338													15	54	---	---	---	---	PASS
STXBP2	6813	broad.mit.edu	37	19	7712063	7712063	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:7712063C>T	uc002mha.3	+	17	1513	c.1468C>T	c.(1468-1470)CGG>TGG	p.R490W	STXBP2_uc002mhb.3_Missense_Mutation_p.R487W|STXBP2_uc010dvj.2_RNA|STXBP2_uc010xjr.1_Missense_Mutation_p.R501W|STXBP2_uc010dvk.2_Missense_Mutation_p.R458W|STXBP2_uc002mhc.3_Missense_Mutation_p.R226W|STXBP2_uc002mhe.1_3'UTR	NM_006949	NP_008880	Q15833	STXB2_HUMAN	syntaxin binding protein 2 isoform a	490					leukocyte mediated cytotoxicity|neutrophil degranulation|protein transport|regulation of mast cell degranulation|vesicle docking involved in exocytosis	azurophil granule|cytolytic granule|cytosol|specific granule|tertiary granule	syntaxin-3 binding			central_nervous_system(1)	1						CGTGGAGGACCGGCTGGACAG	0.637													5	11	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	8993007	8993007	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:8993007T>C	uc002mkp.2	-	67	41956	c.41752A>G	c.(41752-41754)ACC>GCC	p.T13918A	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.T735A|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13921	Extracellular (Potential).			Missing (in Ref. 3; AAK74120).	cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GAATACTCACTGCTGGTGGTG	0.532													29	82	---	---	---	---	PASS
ZNF560	147741	broad.mit.edu	37	19	9577339	9577339	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:9577339G>C	uc002mlp.1	-	10	2494	c.2284C>G	c.(2284-2286)CAT>GAT	p.H762D	ZNF560_uc010dwr.1_Missense_Mutation_p.H656D	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	762	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|pancreas(1)|liver(1)	6						TCTCCCATATGAGTTCTTAAA	0.433													26	88	---	---	---	---	PASS
COL5A3	50509	broad.mit.edu	37	19	10083669	10083669	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:10083669A>G	uc002mmq.1	-	51	3786	c.3700T>C	c.(3700-3702)TCA>CCA	p.S1234P		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1234	Triple-helical region.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			GATGGGCCTGAGTCCCCCTTT	0.592													3	10	---	---	---	---	PASS
DOCK6	57572	broad.mit.edu	37	19	11362852	11362852	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:11362852G>A	uc002mqs.3	-	5	491	c.450C>T	c.(448-450)CCC>CCT	p.P150P		NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	150					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						AGACCTGGCGGGGGAGGCCCT	0.627													3	5	---	---	---	---	PASS
CCDC151	115948	broad.mit.edu	37	19	11537557	11537557	+	Silent	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:11537557C>G	uc002mrs.2	-	5	803	c.660G>C	c.(658-660)GCG>GCC	p.A220A	CCDC151_uc002mrr.2_Silent_p.A155A|CCDC151_uc010dxz.2_Intron	NM_145045	NP_659482	A5D8V7	CC151_HUMAN	coiled-coil domain containing 151	220	Potential.									ovary(1)	1						CGGCCTCCTGCGCCTTCATCT	0.622													4	11	---	---	---	---	PASS
ELAVL3	1995	broad.mit.edu	37	19	11577040	11577040	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:11577040C>T	uc002mry.1	-	3	660	c.280G>A	c.(280-282)GAC>AAC	p.D94N	ELAVL3_uc002mrx.1_Missense_Mutation_p.D94N	NM_001420	NP_001411	Q14576	ELAV3_HUMAN	ELAV-like protein 3 isoform 1	94	RRM 1.				cell differentiation|nervous system development		AU-rich element binding|nucleotide binding			ovary(1)|breast(1)|skin(1)	3						ATGGCTTTGTCTGCATCATTG	0.547													15	48	---	---	---	---	PASS
FARSA	2193	broad.mit.edu	37	19	13041515	13041515	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:13041515C>T	uc002mvs.2	-	2	244	c.196G>A	c.(196-198)GAG>AAG	p.E66K	FARSA_uc002mvt.2_RNA|FARSA_uc010xmv.1_Missense_Mutation_p.E66K|FARSA_uc010dyy.1_Intron	NM_004461	NP_004452	Q9Y285	SYFA_HUMAN	phenylalanyl-tRNA synthetase, alpha subunit	66					phenylalanyl-tRNA aminoacylation	cytosol|soluble fraction	ATP binding|phenylalanine-tRNA ligase activity|protein binding|tRNA binding			ovary(1)	1					L-Phenylalanine(DB00120)	TCCTCGCCCTCCGCAGTAAGC	0.632													15	21	---	---	---	---	PASS
OR7A10	390892	broad.mit.edu	37	19	14951900	14951900	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:14951900C>G	uc002mzx.1	-	1	790	c.790G>C	c.(790-792)GCC>CCC	p.A264P		NM_001005190	NP_001005190	O76100	OR7AA_HUMAN	olfactory receptor, family 7, subfamily A,	264	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Ovarian(108;0.203)					TTGTGGGTGGCAGCAGAACTA	0.483													25	52	---	---	---	---	PASS
SLC35E1	79939	broad.mit.edu	37	19	16664518	16664518	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:16664518G>T	uc010xph.1	-	6	1223	c.1205C>A	c.(1204-1206)TCG>TAG	p.S402*	MED26_uc002nee.2_Intron	NM_024881	NP_079157	Q96K37	S35E1_HUMAN	solute carrier family 35, member E1	402					transport	integral to membrane				ovary(1)|central_nervous_system(1)	2						CAAACTGTACGAGTTTGGGTA	0.542													5	107	---	---	---	---	PASS
SFRS14	10147	broad.mit.edu	37	19	19112431	19112431	+	Silent	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:19112431G>T	uc002nkx.2	-	8	3128	c.2982C>A	c.(2980-2982)TCC>TCA	p.S994S	SFRS14_uc002nkz.1_Silent_p.S1008S|SFRS14_uc002nla.1_Silent_p.S994S|SFRS14_uc002nlb.2_Silent_p.S994S|SFRS14_uc010xqk.1_Silent_p.S763S	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	994					mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			CCTTCTTTTTGGACATGGGAC	0.433													5	52	---	---	---	---	PASS
ZNF99	7652	broad.mit.edu	37	19	22941187	22941187	+	Silent	SNP	A	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:22941187A>T	uc010xrh.1	-	5	1251	c.1251T>A	c.(1249-1251)CCT>CCA	p.P417P		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				CACATTTGCAAGGTTTCTCTT	0.348													19	50	---	---	---	---	PASS
CHST8	64377	broad.mit.edu	37	19	34262868	34262868	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:34262868C>T	uc002nus.3	+	5	680	c.175C>T	c.(175-177)CCA>TCA	p.P59S	CHST8_uc002nut.3_Missense_Mutation_p.P59S|CHST8_uc002nuu.2_Missense_Mutation_p.P59S	NM_001127895	NP_001121367	Q9H2A9	CHST8_HUMAN	carbohydrate (N-acetylgalactosamine 4-0)	59	Lumenal (Potential).				carbohydrate biosynthetic process|central nervous system development|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			skin(2)|large_intestine(1)|ovary(1)	4	Esophageal squamous(110;0.162)					CCAGGACCTCCCACCAGGCGG	0.637													14	34	---	---	---	---	PASS
CD22	933	broad.mit.edu	37	19	35823475	35823475	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:35823475C>A	uc010edt.2	+	3	137	c.60C>A	c.(58-60)GAC>GAA	p.D20E	CD22_uc010xst.1_5'UTR|CD22_uc010edu.2_Missense_Mutation_p.D20E|CD22_uc010edv.2_Missense_Mutation_p.D20E|CD22_uc002nzb.3_Missense_Mutation_p.D20E	NM_001771	NP_001762	P20273	CD22_HUMAN	CD22 molecule precursor	20	Extracellular (Potential).|Ig-like V-type.				cell adhesion		protein binding|sugar binding			ovary(5)|lung(3)|breast(1)	9	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.83e-19)|OV - Ovarian serous cystadenocarcinoma(14;3.19e-18)|all cancers(14;3.41e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)		OspA lipoprotein(DB00045)	CTTTCTCTGACTCAAGTAAAT	0.458													9	23	---	---	---	---	PASS
ZNF585B	92285	broad.mit.edu	37	19	37680650	37680650	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:37680650G>C	uc002ofq.2	-	4	459	c.205C>G	c.(205-207)CAA>GAA	p.Q69E	ZNF585B_uc002ofr.1_Translation_Start_Site	NM_152279	NP_689492	Q52M93	Z585B_HUMAN	zinc finger protein 585B	69	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTAGGAACTTGATACCCTGTT	0.468													7	42	---	---	---	---	PASS
ZNF383	163087	broad.mit.edu	37	19	37734138	37734138	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:37734138G>T	uc002oft.1	+	8	1580	c.1000G>T	c.(1000-1002)GGT>TGT	p.G334C	ZNF383_uc002ofs.1_Missense_Mutation_p.G269C|ZNF383_uc002ofu.1_Missense_Mutation_p.G334C	NM_152604	NP_689817	Q8NA42	ZN383_HUMAN	zinc finger protein 383	334					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AATTCATACTGGTGAGAAACC	0.428													6	94	---	---	---	---	PASS
RPS19	6223	broad.mit.edu	37	19	42373788	42373788	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:42373788C>T	uc002ort.2	+	5	748	c.376C>T	c.(376-378)CAG>TAG	p.Q126*		NM_001022	NP_001013	P39019	RS19_HUMAN	ribosomal protein S19	126					endocrine pancreas development|erythrocyte differentiation|gas transport|positive regulation of cellular component movement|response to extracellular stimulus|ribosomal small subunit biogenesis|rRNA processing|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome				0						ACTGACACCTCAGGGACAAAG	0.617									Diamond-Blackfan_Anemia				13	53	---	---	---	---	PASS
CLPTM1	1209	broad.mit.edu	37	19	45493665	45493665	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:45493665G>T	uc002pai.2	+	10	1160	c.1145G>T	c.(1144-1146)TGG>TTG	p.W382L	CLPTM1_uc010xxf.1_Missense_Mutation_p.W280L|CLPTM1_uc010xxg.1_Missense_Mutation_p.W368L	NM_001294	NP_001285	O96005	CLPT1_HUMAN	cleft lip and palate associated transmembrane	382	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|regulation of T cell differentiation in thymus	external side of plasma membrane|integral to plasma membrane				ovary(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00354)|Epithelial(262;0.187)		ATCCAGTTCTGGAACAGCCGG	0.627													5	87	---	---	---	---	PASS
PGLYRP1	8993	broad.mit.edu	37	19	46526200	46526200	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:46526200G>T	uc002pdx.1	-	1	124	c.80C>A	c.(79-81)CCG>CAG	p.P27Q		NM_005091	NP_005082	O75594	PGRP1_HUMAN	peptidoglycan recognition protein 1 precursor	27					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptidoglycan catabolic process	extracellular region	bacterial cell surface binding|N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(2)	2		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.0036)|GBM - Glioblastoma multiforme(486;0.022)|Epithelial(262;0.208)		GCAGCAGGCCGGGTCTTCTGT	0.662													3	2	---	---	---	---	PASS
GRWD1	83743	broad.mit.edu	37	19	48949683	48949683	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:48949683G>T	uc002pjd.2	+	2	462	c.229G>T	c.(229-231)GGA>TGA	p.G77*		NM_031485	NP_113673	Q9BQ67	GRWD1_HUMAN	glutamate-rich WD repeat containing 1	77						nucleolus				ovary(1)	1		all_lung(116;0.000147)|Lung NSC(112;0.000251)|all_epithelial(76;0.000326)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000206)|all cancers(93;0.000207)|Epithelial(262;0.0125)|GBM - Glioblastoma multiforme(486;0.0222)		GGATCACCTGGGAGACAACCG	0.552											OREG0025607	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	46	---	---	---	---	PASS
RCN3	57333	broad.mit.edu	37	19	50040310	50040310	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:50040310G>C	uc002poj.2	+	4	913	c.466G>C	c.(466-468)GAG>CAG	p.E156Q		NM_020650	NP_065701	Q96D15	RCN3_HUMAN	reticulocalbin 3, EF-hand calcium binding domain	156						endoplasmic reticulum lumen	calcium ion binding|protein binding			ovary(1)	1		all_lung(116;7.84e-06)|Lung NSC(112;2.8e-05)|all_neural(266;0.0966)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00295)|GBM - Glioblastoma multiforme(134;0.0159)		TCATGACGTGGAGGATGCAGA	0.532													51	146	---	---	---	---	PASS
SIGLEC11	114132	broad.mit.edu	37	19	50463852	50463852	+	Silent	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:50463852C>G	uc010ybh.1	-	2	508	c.417G>C	c.(415-417)GTG>GTC	p.V139V	SIGLEC11_uc010ybi.1_Silent_p.V139V	NM_052884	NP_443116	Q96RL6	SIG11_HUMAN	sialic acid binding Ig-like lectin 11 isoform 1	139	Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|central_nervous_system(2)|pancreas(1)	6		all_lung(116;0.00318)|all_neural(266;0.107)|Ovarian(192;0.17)		GBM - Glioblastoma multiforme(134;0.00107)|OV - Ovarian serous cystadenocarcinoma(262;0.00517)		AACTATGTCTCACACGGCTTC	0.567													10	39	---	---	---	---	PASS
PRKCG	5582	broad.mit.edu	37	19	54401227	54401227	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:54401227C>A	uc002qcq.1	+	10	1236	c.954C>A	c.(952-954)GGC>GGA	p.G318G	PRKCG_uc010yef.1_Missense_Mutation_p.A289D|PRKCG_uc010yeg.1_Silent_p.G318G|PRKCG_uc010yeh.1_Silent_p.G205G	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	318					activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)		TGCGGATGGGcccctcttcct	0.478													20	50	---	---	---	---	PASS
LILRA2	11027	broad.mit.edu	37	19	55086892	55086892	+	Silent	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:55086892C>T	uc002qgg.3	+	5	914	c.825C>T	c.(823-825)CTC>CTT	p.L275L	LILRA2_uc010ern.2_Silent_p.L275L|LILRA2_uc002qgf.2_Silent_p.L275L|LILRA2_uc010yfe.1_Silent_p.L275L|LILRA2_uc010yff.1_Silent_p.L263L|LILRA2_uc010ero.2_Silent_p.L263L|LILRA2_uc010yfg.1_Intron	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	275	Ig-like C2-type 3.|Extracellular (Potential).				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		AGGCTGGGCTCTCCCAGGCCA	0.617													12	47	---	---	---	---	PASS
PTPRH	5794	broad.mit.edu	37	19	55713428	55713428	+	Silent	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:55713428G>T	uc002qjq.2	-	6	1222	c.1149C>A	c.(1147-1149)ACC>ACA	p.T383T	PTPRH_uc010esv.2_Silent_p.T205T|PTPRH_uc002qjs.2_Silent_p.T390T	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	383	Extracellular (Potential).|Fibronectin type-III 4.				apoptosis	cytoplasm|integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0479)		TCTCACCTGTGGTGGCATTTC	0.483													9	544	---	---	---	---	PASS
BRSK1	84446	broad.mit.edu	37	19	55813535	55813535	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:55813535C>A	uc002qkg.2	+	9	1133	c.856C>A	c.(856-858)CTA>ATA	p.L286I	BRSK1_uc002qkf.2_Missense_Mutation_p.L302I|BRSK1_uc002qkh.2_5'UTR	NM_032430	NP_115806	Q8TDC3	BRSK1_HUMAN	BR serine/threonine kinase 1	286					establishment of cell polarity|G2/M transition DNA damage checkpoint|neuron differentiation|response to UV	cell junction|cytoplasm|nucleus	magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|stomach(1)|lung(1)|breast(1)|skin(1)	6		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0474)		TCCTTGGTACCTGTGAGTATG	0.562											OREG0025680	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	924	---	---	---	---	PASS
UBE2S	27338	broad.mit.edu	37	19	55912921	55912921	+	Silent	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:55912921G>T	uc002qkx.1	-	4	920	c.552C>A	c.(550-552)GCC>GCA	p.A184A		NM_014501	NP_055316	Q16763	UBE2S_HUMAN	ubiquitin-conjugating enzyme E2S	184					activation of anaphase-promoting complex activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|exit from mitosis|free ubiquitin chain polymerization|protein K11-linked ubiquitination|protein K27-linked ubiquitination|protein K29-linked ubiquitination|protein K6-linked ubiquitination|protein K63-linked ubiquitination	anaphase-promoting complex	ATP binding|ubiquitin-protein ligase activity				0	Breast(117;0.155)		LUSC - Lung squamous cell carcinoma(43;0.13)|BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.11)		GGCCCCCTGGGGCCCCAGGGT	0.701													8	182	---	---	---	---	PASS
NLRP4	147945	broad.mit.edu	37	19	56369237	56369237	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:56369237G>T	uc002qmd.3	+	3	900	c.478G>T	c.(478-480)GGA>TGA	p.G160*	NLRP4_uc002qmf.2_Nonsense_Mutation_p.G85*|NLRP4_uc010etf.2_5'UTR	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	160	NACHT.|ATP (Potential).						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		ACAAGGAATTGGAAAAACGAC	0.473													12	889	---	---	---	---	PASS
NLRP4	147945	broad.mit.edu	37	19	56372833	56372833	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:56372833G>T	uc002qmd.3	+	4	2360	c.1938G>T	c.(1936-1938)CAG>CAT	p.Q646H	NLRP4_uc002qmf.2_Missense_Mutation_p.Q571H|NLRP4_uc010etf.2_Missense_Mutation_p.Q477H	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	646	LRR 1.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		TCCAGGTGCAGGACAGCACCC	0.567													10	568	---	---	---	---	PASS
NLRP4	147945	broad.mit.edu	37	19	56372849	56372849	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:56372849G>T	uc002qmd.3	+	4	2376	c.1954G>T	c.(1954-1956)GAG>TAG	p.E652*	NLRP4_uc002qmf.2_Nonsense_Mutation_p.E577*|NLRP4_uc010etf.2_Nonsense_Mutation_p.E483*	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	652	LRR 1.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		CACCCTCAGCGAGTCGACCTT	0.567													7	597	---	---	---	---	PASS
NLRP13	126204	broad.mit.edu	37	19	56423905	56423905	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:56423905C>A	uc010ygg.1	-	5	1303	c.1278G>T	c.(1276-1278)ATG>ATT	p.M426I		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	426	NACHT.						ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		TCCAACACACCATGGGGGCAC	0.438													12	911	---	---	---	---	PASS
NLRP8	126205	broad.mit.edu	37	19	56465898	56465898	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:56465898G>T	uc002qmh.2	+	3	545	c.474G>T	c.(472-474)ATG>ATT	p.M158I	NLRP8_uc010etg.2_Missense_Mutation_p.M158I	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	158						cytoplasm	ATP binding			ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		CGAATGTGATGGAAAAGTTTT	0.423													13	857	---	---	---	---	PASS
NLRP5	126206	broad.mit.edu	37	19	56549482	56549482	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:56549482G>T	uc002qmj.2	+	10	2707	c.2707G>T	c.(2707-2709)GGA>TGA	p.G903*	NLRP5_uc002qmi.2_Nonsense_Mutation_p.G884*	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	903	LRR 7.					mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		GAGCCTGGCAGGAAACAAGGT	0.542													11	929	---	---	---	---	PASS
GALP	85569	broad.mit.edu	37	19	56694541	56694541	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:56694541G>T	uc002qmo.1	+	5	337	c.255G>T	c.(253-255)AAG>AAT	p.K85N	GALP_uc010eti.2_3'UTR	NM_033106	NP_149097	Q9UBC7	GALP_HUMAN	galanin-like peptide isoform 1 precursor	85					neuropeptide signaling pathway	extracellular region	hormone activity				0		Colorectal(82;0.000147)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0507)		AGCCCTCCAAGAGGAATGTGA	0.388													9	637	---	---	---	---	PASS
ZSCAN5B	342933	broad.mit.edu	37	19	56701770	56701770	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:56701770G>T	uc010ygh.1	-	4	914	c.914C>A	c.(913-915)TCC>TAC	p.S305Y		NM_001080456	NP_001073925	A6NJL1	ZSA5B_HUMAN	zinc finger and SCAN domain containing 5B	305					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TTGGGAAATGGAGGAGGCATC	0.537													14	914	---	---	---	---	PASS
ZSCAN5A	79149	broad.mit.edu	37	19	56733294	56733294	+	Nonsense_Mutation	SNP	C	A	A	rs142761513	byFrequency	TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:56733294C>A	uc002qmq.2	-	5	1307	c.1141G>T	c.(1141-1143)GAG>TAG	p.E381*	ZSCAN5A_uc010ygi.1_Nonsense_Mutation_p.E264*|ZSCAN5A_uc002qmr.2_Nonsense_Mutation_p.E381*|ZSCAN5A_uc002qms.1_Nonsense_Mutation_p.E380*	NM_024303	NP_077279	Q9BUG6	ZSA5A_HUMAN	zinc finger and SCAN domain containing 5A	381					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						AAGAGTCTCTCGCCTGTGTGT	0.517													10	559	---	---	---	---	PASS
ZSCAN5A	79149	broad.mit.edu	37	19	56733549	56733549	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:56733549T>C	uc002qmq.2	-	5	1052	c.886A>G	c.(886-888)AGT>GGT	p.S296G	ZSCAN5A_uc010ygi.1_Missense_Mutation_p.S179G|ZSCAN5A_uc002qmr.2_Missense_Mutation_p.S296G|ZSCAN5A_uc002qms.1_Missense_Mutation_p.S295G	NM_024303	NP_077279	Q9BUG6	ZSA5A_HUMAN	zinc finger and SCAN domain containing 5A	296					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						CTTTTGGGACTGCTCAGATTC	0.542													774	59	---	---	---	---	PASS
ZSCAN5A	79149	broad.mit.edu	37	19	56733550	56733550	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr19:56733550G>T	uc002qmq.2	-	5	1051	c.885C>A	c.(883-885)AGC>AGA	p.S295R	ZSCAN5A_uc010ygi.1_Missense_Mutation_p.S178R|ZSCAN5A_uc002qmr.2_Missense_Mutation_p.S295R|ZSCAN5A_uc002qms.1_Missense_Mutation_p.S294R	NM_024303	NP_077279	Q9BUG6	ZSA5A_HUMAN	zinc finger and SCAN domain containing 5A	295					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						TTTTGGGACTGCTCAGATTCA	0.542													776	58	---	---	---	---	PASS
BTBD3	22903	broad.mit.edu	37	20	11899249	11899249	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr20:11899249G>T	uc002wnz.2	+	1	685	c.326G>T	c.(325-327)AGA>ATA	p.R109I	BTBD3_uc002wny.2_Missense_Mutation_p.R48I|BTBD3_uc002woa.2_Missense_Mutation_p.R48I|BTBD3_uc010zrf.1_5'UTR|BTBD3_uc010zrg.1_5'Flank|BTBD3_uc010zrh.1_5'Flank	NM_014962	NP_055777	Q9Y2F9	BTBD3_HUMAN	BTB/POZ domain containing protein 3 isoform a	109										ovary(2)|central_nervous_system(1)	3						ATTAGAGAGAGGTAAGTGCCG	0.448													6	93	---	---	---	---	PASS
SEL1L2	80343	broad.mit.edu	37	20	13971175	13971175	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr20:13971175C>G	uc010gcf.2	-	1	88	c.6G>C	c.(4-6)AAG>AAC	p.K2N	SEL1L2_uc002woq.3_5'UTR|SEL1L2_uc010zrl.1_Missense_Mutation_p.K2N|SEL1L2_uc002wor.2_Intron	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	2						integral to membrane	binding			ovary(2)	2						GAGACAAGGGCTTCATCTTCT	0.433													18	35	---	---	---	---	PASS
KIF16B	55614	broad.mit.edu	37	20	16360239	16360239	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr20:16360239C>T	uc002wpg.1	-	19	2566	c.2408G>A	c.(2407-2409)CGG>CAG	p.R803Q	KIF16B_uc002wpe.1_Missense_Mutation_p.R185Q|KIF16B_uc002wpf.1_Missense_Mutation_p.R185Q|KIF16B_uc010gch.1_Missense_Mutation_p.R803Q|KIF16B_uc010gci.1_Missense_Mutation_p.R803Q|KIF16B_uc010gcj.1_Missense_Mutation_p.R814Q	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	803	Glu-rich.|Potential.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity	p.R803L(1)		skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						CTCCTTCACCCGCAGGAGGGA	0.567													18	32	---	---	---	---	PASS
CST7	8530	broad.mit.edu	37	20	24938088	24938088	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr20:24938088T>C	uc002wtx.1	+	2	512	c.302T>C	c.(301-303)CTA>CCA	p.L101P		NM_003650	NP_003641	O76096	CYTF_HUMAN	cystatin F	79					immune response	cytoplasm|extracellular region	cysteine-type endopeptidase inhibitor activity			ovary(1)	1						ACAAGGGCCCTAGTTCAGGTA	0.532													18	64	---	---	---	---	PASS
SUN5	140732	broad.mit.edu	37	20	31573704	31573704	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr20:31573704G>T	uc002wyi.2	-	11	828	c.735C>A	c.(733-735)AAC>AAA	p.N245K		NM_080675	NP_542406	Q8TC36	SUN5_HUMAN	sperm associated antigen 4-like	245	SUN.				spermatogenesis					skin(1)	1						CAGGTGTCACGTTGGGCTAGA	0.517													5	46	---	---	---	---	PASS
RBM12	10137	broad.mit.edu	37	20	34240640	34240640	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr20:34240640T>C	uc002xdq.2	-	3	2837	c.2605A>G	c.(2605-2607)ATT>GTT	p.I869V	CPNE1_uc010zvj.1_Intron|CPNE1_uc002xde.2_Intron|CPNE1_uc002xdf.2_Intron|CPNE1_uc002xdg.2_Intron|CPNE1_uc010gfi.2_Intron|CPNE1_uc010gfj.2_Intron|CPNE1_uc002xdh.2_Intron|CPNE1_uc002xdi.2_Intron|CPNE1_uc002xdj.2_Intron|CPNE1_uc002xdk.2_Intron|CPNE1_uc002xdl.2_Intron|CPNE1_uc002xdm.2_Intron|CPNE1_uc010gfk.1_Intron|CPNE1_uc002xdn.1_Intron|CPNE1_uc002xdo.1_Intron|CPNE1_uc002xdp.1_Intron|RBM12_uc002xdr.2_Missense_Mutation_p.I869V|RBM12_uc002xds.2_Missense_Mutation_p.I869V	NM_152838	NP_690051	Q9NTZ6	RBM12_HUMAN	RNA binding motif protein 12	869	RRM 3.					nucleus	nucleotide binding|protein binding|RNA binding			ovary(3)	3	Lung NSC(9;0.00608)|all_lung(11;0.00918)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			ATCTCATCAATAGACACAGTA	0.393													42	39	---	---	---	---	PASS
C20orf117	140710	broad.mit.edu	37	20	35443706	35443706	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr20:35443706G>A	uc002xgd.1	-	5	1752	c.1425C>T	c.(1423-1425)ATC>ATT	p.I475I	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	475											0		Myeloproliferative disorder(115;0.00874)				GGCGCACCAGGATGGCATGGA	0.627													16	52	---	---	---	---	PASS
C20orf117	140710	broad.mit.edu	37	20	35443718	35443718	+	Silent	SNP	G	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr20:35443718G>C	uc002xgd.1	-	5	1740	c.1413C>G	c.(1411-1413)CTC>CTG	p.L471L	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	471											0		Myeloproliferative disorder(115;0.00874)				TGGCATGGATGAGCTTGGTGT	0.637													11	45	---	---	---	---	PASS
C20orf117	140710	broad.mit.edu	37	20	35444418	35444418	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr20:35444418G>A	uc002xgd.1	-	5	1040	c.713C>T	c.(712-714)GCT>GTT	p.A238V	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	238											0		Myeloproliferative disorder(115;0.00874)				GTCCATCTCAGCCCGCAGGCC	0.657													16	13	---	---	---	---	PASS
RALGAPB	57148	broad.mit.edu	37	20	37137763	37137763	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr20:37137763G>T	uc002xiw.2	+	6	1041	c.784G>T	c.(784-786)GTT>TTT	p.V262F	RALGAPB_uc010zvz.1_Missense_Mutation_p.V262F|RALGAPB_uc002xix.2_Missense_Mutation_p.V262F|RALGAPB_uc002xiy.1_Missense_Mutation_p.V262F|RALGAPB_uc002xiz.2_Missense_Mutation_p.V40F|RALGAPB_uc002xja.1_5'UTR	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	262					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						TGCATTTAAAGTTCCCGATGA	0.373													68	70	---	---	---	---	PASS
RALGAPB	57148	broad.mit.edu	37	20	37146532	37146532	+	Silent	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr20:37146532C>A	uc002xiw.2	+	9	1563	c.1306C>A	c.(1306-1308)CGG>AGG	p.R436R	RALGAPB_uc010zvz.1_Silent_p.R436R|RALGAPB_uc002xix.2_Silent_p.R436R|RALGAPB_uc002xiy.1_Silent_p.R436R|RALGAPB_uc002xiz.2_Silent_p.R214R|RALGAPB_uc002xja.1_Silent_p.R163R	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	436					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						GCCTGCCCCTCGGAGACCAAA	0.468													6	121	---	---	---	---	PASS
KCNS1	3787	broad.mit.edu	37	20	43723776	43723776	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr20:43723776G>T	uc002xnc.2	-	5	1713	c.1316C>A	c.(1315-1317)TCA>TAA	p.S439*	KCNS1_uc002xnd.2_Nonsense_Mutation_p.S439*	NM_002251	NP_002242	Q96KK3	KCNS1_HUMAN	potassium voltage-gated channel	439	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity|protein binding				0		Myeloproliferative disorder(115;0.0122)				GATGCAGCCTGAGGCTGCCAG	0.612													15	73	---	---	---	---	PASS
MATN4	8785	broad.mit.edu	37	20	43933243	43933243	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr20:43933243C>A	uc002xnn.2	-	3	455	c.268G>T	c.(268-270)GCG>TCG	p.A90S	MATN4_uc002xno.2_Missense_Mutation_p.A90S|MATN4_uc002xnp.2_Missense_Mutation_p.A90S|MATN4_uc010zwr.1_Missense_Mutation_p.A38S|MATN4_uc002xnr.1_Missense_Mutation_p.A90S|RBPJL_uc002xns.2_5'Flank|RBPJL_uc002xnt.2_5'Flank	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	90	VWFA 1.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				CGAGAGAACGCGCGGAGAGGG	0.647													6	35	---	---	---	---	PASS
PIGT	51604	broad.mit.edu	37	20	44050036	44050036	+	Silent	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr20:44050036G>T	uc002xoh.1	+	9	1120	c.1047G>T	c.(1045-1047)GTG>GTT	p.V349V	PIGT_uc010ghd.1_Silent_p.V256V|PIGT_uc010ghc.1_RNA|PIGT_uc010ghe.1_Silent_p.V312V|PIGT_uc010ghf.1_Silent_p.V302V|PIGT_uc002xoj.1_Intron|PIGT_uc002xok.1_Silent_p.V314V|PIGT_uc010zwu.1_Silent_p.V87V|PIGT_uc002xoi.1_RNA|PIGT_uc010zwv.1_Silent_p.V87V|PIGT_uc010zww.1_Silent_p.V293V|PIGT_uc010zwx.1_Silent_p.V184V|PIGT_uc010zwy.1_Silent_p.V247V|PIGT_uc010zwz.1_Silent_p.V87V|PIGT_uc010zxa.1_Silent_p.V187V|PIGT_uc002xol.1_Intron|PIGT_uc010zxb.1_Silent_p.V25V|PIGT_uc002xom.1_5'Flank	NM_015937	NP_057021	Q969N2	PIGT_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	349	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation	GPI-anchor transamidase complex	protein binding			pancreas(1)	1		Myeloproliferative disorder(115;0.0122)				CCCCCCCAGTGCCCTTCCTGC	0.587													6	30	---	---	---	---	PASS
PLTP	5360	broad.mit.edu	37	20	44533736	44533736	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr20:44533736C>T	uc002xqn.1	-	9	807	c.727G>A	c.(727-729)GAG>AAG	p.E243K	PLTP_uc002xql.1_Missense_Mutation_p.E155K|PLTP_uc002xqm.1_Missense_Mutation_p.E263K|PLTP_uc002xqo.1_Missense_Mutation_p.E191K|PLTP_uc002xqp.1_Missense_Mutation_p.E243K|PLTP_uc002xqq.1_Missense_Mutation_p.E212K|PLTP_uc010zxj.1_Missense_Mutation_p.E148K|PLTP_uc010ghj.1_Missense_Mutation_p.E243K	NM_006227	NP_006218	P55058	PLTP_HUMAN	phospholipid transfer protein isoform a	243					cellular lipid metabolic process|lipid transport	extracellular region	lipid binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CAGTTCCTCTCAGTCAGGGGG	0.632													10	57	---	---	---	---	PASS
ZNF335	63925	broad.mit.edu	37	20	44581131	44581131	+	Silent	SNP	T	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr20:44581131T>A	uc002xqw.2	-	20	2967	c.2844A>T	c.(2842-2844)CCA>CCT	p.P948P	ZNF335_uc002xqv.2_Silent_p.P60P|ZNF335_uc010zxk.1_Silent_p.P793P	NM_022095	NP_071378	Q9H4Z2	ZN335_HUMAN	zinc finger protein 335	948					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|ovary(1)	4		Myeloproliferative disorder(115;0.0122)				CATCTGGACTTGGGAAGGAGA	0.627													90	56	---	---	---	---	PASS
SNAI1	6615	broad.mit.edu	37	20	48600442	48600442	+	Missense_Mutation	SNP	C	T	T	rs137950928		TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr20:48600442C>T	uc002xuz.2	+	2	234	c.164C>T	c.(163-165)TCG>TTG	p.S55L		NM_005985	NP_005976	O95863	SNAI1_HUMAN	snail 1 homolog	55					epithelial to mesenchymal transition|mesoderm formation|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	kinase binding|zinc ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			CCCACCGCCTCGCTGCCAATG	0.637													9	84	---	---	---	---	PASS
TAF4	6874	broad.mit.edu	37	20	60572686	60572686	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr20:60572686C>G	uc002ybs.2	-	14	3010	c.3010G>C	c.(3010-3012)GCC>CCC	p.A1004P		NM_003185	NP_003176	O00268	TAF4_HUMAN	TBP-associated factor 4	1004					interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|pancreas(1)	3	Breast(26;1e-08)		BRCA - Breast invasive adenocarcinoma(19;3.1e-07)			GTGAGGTTGGCGTCCCGCTGT	0.502													16	53	---	---	---	---	PASS
TAF4	6874	broad.mit.edu	37	20	60589753	60589753	+	Silent	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr20:60589753G>T	uc002ybs.2	-	2	1371	c.1371C>A	c.(1369-1371)CTC>CTA	p.L457L		NM_003185	NP_003176	O00268	TAF4_HUMAN	TBP-associated factor 4	457					interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|pancreas(1)	3	Breast(26;1e-08)		BRCA - Breast invasive adenocarcinoma(19;3.1e-07)			CACTTCGGACGAGGACCATTC	0.617													5	81	---	---	---	---	PASS
CLDN17	26285	broad.mit.edu	37	21	31538660	31538660	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr21:31538660C>G	uc011acv.1	-	1	276	c.276G>C	c.(274-276)TTG>TTC	p.L92F		NM_012131	NP_036263	P56750	CLD17_HUMAN	claudin 17	92	Helical; (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	Golgi apparatus|integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(2)	2						GCAGGGCGATCAAGGAGAGAG	0.567													20	34	---	---	---	---	PASS
SON	6651	broad.mit.edu	37	21	34921900	34921900	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr21:34921900G>T	uc002yse.1	+	3	412	c.363G>T	c.(361-363)AAG>AAT	p.K121N	SON_uc002ysb.1_Missense_Mutation_p.K121N|SON_uc002ysc.2_Missense_Mutation_p.K121N|SON_uc002ysd.2_5'UTR|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	121					anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						agaagaaaaagaagaaagaaa	0.279											OREG0003562	type=REGULATORY REGION|Gene=AK091233|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	10	19	---	---	---	---	PASS
RIPK4	54101	broad.mit.edu	37	21	43161628	43161628	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr21:43161628G>A	uc002yzn.1	-	8	1773	c.1725C>T	c.(1723-1725)CAC>CAT	p.H575H		NM_020639	NP_065690	P57078	RIPK4_HUMAN	ankyrin repeat domain 3	575						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|skin(1)	7						AGGCAGCGTAGTGCAGTGGCA	0.672													12	19	---	---	---	---	PASS
DGCR8	54487	broad.mit.edu	37	22	20094896	20094896	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr22:20094896G>T	uc002zri.2	+	12	2449	c.2099G>T	c.(2098-2100)CGT>CTT	p.R700L	DGCR8_uc010grz.2_Missense_Mutation_p.R667L|DGCR8_uc002zrj.2_Missense_Mutation_p.R343L	NM_022720	NP_073557	Q8WYQ5	DGCR8_HUMAN	DiGeorge syndrome critical region gene 8	700	Necessary for heme-binding and pri-miRNA processing.|Necessary for interaction with DROSHA.				primary miRNA processing	cytoplasm|cytoplasm|microtubule cytoskeleton|nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding				0	Colorectal(54;0.0993)					ATGTATGGCCGTGAGAGCAGC	0.552													15	44	---	---	---	---	PASS
HPS4	89781	broad.mit.edu	37	22	26860753	26860753	+	Silent	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr22:26860753G>A	uc003acl.2	-	11	1502	c.843C>T	c.(841-843)GCC>GCT	p.A281A	HPS4_uc003aci.2_Silent_p.A276A|HPS4_uc003acj.2_Silent_p.A145A|HPS4_uc003ack.2_Silent_p.A72A|HPS4_uc003acn.2_Silent_p.A127A|HPS4_uc010gvd.1_Silent_p.A299A|HPS4_uc003ach.2_Silent_p.A16A	NM_022081	NP_071364	Q9NQG7	HPS4_HUMAN	light ear protein isoform a	281					lysosome organization|positive regulation of eye pigmentation|protein stabilization|protein targeting	lysosome|melanosome|membrane fraction|platelet dense granule	protein homodimerization activity				0						GATGGTGCTGGGCTGAACCAT	0.572									Hermansky-Pudlak_syndrome				13	31	---	---	---	---	PASS
C22orf42	150297	broad.mit.edu	37	22	32555004	32555004	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr22:32555004G>T	uc003amd.2	-	1	240	c.199C>A	c.(199-201)CCG>ACG	p.P67T		NM_001010859	NP_001010859	Q6IC83	CV042_HUMAN	chromosome 22 open reading frame 42	67										ovary(1)|skin(1)	2						GGCGTCTTCGGGAGGCTGAGG	0.552													7	205	---	---	---	---	PASS
EP300	2033	broad.mit.edu	37	22	41565505	41565505	+	Splice_Site	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr22:41565505A>G	uc003azl.3	+	26	4568	c.4173_splice	c.e26-2	p.R1391_splice		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300						apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						CATTTTGTATAGGAGAGTATA	0.373			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				22	27	---	---	---	---	PASS
PRR5	55615	broad.mit.edu	37	22	45133115	45133115	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr22:45133115G>T	uc003bfb.1	+	8	1427	c.1155G>T	c.(1153-1155)CAG>CAT	p.Q385H	PRR5_uc003bew.1_Missense_Mutation_p.Q376H|PRR5_uc003bex.1_Missense_Mutation_p.Q290H|PRR5_uc010gzt.1_Missense_Mutation_p.Q408H|PRR5_uc010gzu.1_Missense_Mutation_p.Q349H|PRR5_uc003bey.1_Missense_Mutation_p.Q376H|PRR5_uc003bez.1_Missense_Mutation_p.Q290H|PRR5-ARHGAP8_uc003bfc.2_Intron|PRR5-ARHGAP8_uc003bfd.2_Intron|PRR5-ARHGAP8_uc011aqi.1_Intron|PRR5-ARHGAP8_uc011aqj.1_Intron|PRR5_uc003bfa.1_Missense_Mutation_p.Q278H|PRR5_uc003bfe.1_RNA|PRR5-ARHGAP8_uc003bfg.1_Intron|PRR5_uc003bfh.1_Missense_Mutation_p.Q284H	NM_181333	NP_851850	P85299	PRR5_HUMAN	proline rich 5 (renal) isoform 1	385					cell cycle					skin(1)	1		all_neural(38;0.00409)|Ovarian(80;0.024)|Glioma(61;0.0647)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)		GGGGCCGGCAGAGTGTCGTGT	0.587													10	20	---	---	---	---	PASS
KAL1	3730	broad.mit.edu	37	X	8503661	8503661	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chrX:8503661T>A	uc004csf.2	-	12	1963	c.1813A>T	c.(1813-1815)ATT>TTT	p.I605F		NM_000216	NP_000207	P23352	KALM_HUMAN	Kallmann syndrome 1 protein precursor	605	Fibronectin type-III 4.				axon guidance|cell adhesion|cellular component movement	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|serine-type endopeptidase inhibitor activity			ovary(3)|pancreas(1)	4						TGTGAAATAATGCTGTTGGGT	0.493													17	16	---	---	---	---	PASS
GEMIN8	54960	broad.mit.edu	37	X	14027118	14027118	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chrX:14027118T>C	uc004cwb.2	-	5	986	c.643A>G	c.(643-645)ATG>GTG	p.M215V	GEMIN8_uc004cwc.2_Missense_Mutation_p.M215V|GEMIN8_uc004cwd.2_Missense_Mutation_p.M215V	NM_017856	NP_060326	Q9NWZ8	GEMI8_HUMAN	gem (nuclear organelle) associated protein 8	215					spliceosomal snRNP assembly	Cajal body|cytoplasm|SMN complex|spliceosomal complex	protein binding				0						GCGGCCTCCATGGCTTGGATC	0.627													18	22	---	---	---	---	PASS
BEND2	139105	broad.mit.edu	37	X	18189144	18189144	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chrX:18189144G>T	uc004cyj.3	-	13	2316	c.2162C>A	c.(2161-2163)CCC>CAC	p.P721H	BEND2_uc010nfb.2_Missense_Mutation_p.P630H	NM_153346	NP_699177	Q8NDZ0	BEND2_HUMAN	BEN domain containing 2	721	BEN 2.									ovary(3)|kidney(1)|central_nervous_system(1)	5						AATCTTATTGGGGTCAAGGGC	0.408													58	32	---	---	---	---	PASS
GPR64	10149	broad.mit.edu	37	X	19021038	19021038	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chrX:19021038A>G	uc004cyx.2	-	24	2320	c.2156T>C	c.(2155-2157)ATG>ACG	p.M719T	GPR64_uc004cyy.2_Missense_Mutation_p.M716T|GPR64_uc004cyz.2_Missense_Mutation_p.M705T|GPR64_uc004czb.2_Missense_Mutation_p.M719T|GPR64_uc004czc.2_Missense_Mutation_p.M703T|GPR64_uc004czd.2_Missense_Mutation_p.M695T|GPR64_uc004cze.2_Missense_Mutation_p.M689T|GPR64_uc004czf.2_Missense_Mutation_p.M681T|GPR64_uc004cza.2_Missense_Mutation_p.M697T|GPR64_uc004cyw.2_Missense_Mutation_p.M703T|GPR64_uc010nfj.2_Missense_Mutation_p.M600T	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1	719	Cytoplasmic (Potential).				neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					GGCCAGGTACATATGGAATGC	0.413													45	19	---	---	---	---	PASS
PPP1R3F	89801	broad.mit.edu	37	X	49143531	49143531	+	Silent	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chrX:49143531C>G	uc004dnh.1	+	4	2395	c.2379C>G	c.(2377-2379)CTC>CTG	p.L793L	PPP1R3F_uc011mnd.1_Silent_p.L464L|PPP1R3F_uc004dni.2_Silent_p.L447L|PPP1R3F_uc004dnj.1_Silent_p.L447L	NM_033215	NP_149992	Q6ZSY5	PPR3F_HUMAN	protein phosphatase 1, regulatory (inhibitor)	793	Cytoplasmic (Potential).					integral to membrane				ovary(2)|skin(1)	3	Ovarian(276;0.236)					CGCTGTGCCTCTCTCTGGCTT	0.612													12	8	---	---	---	---	PASS
UBQLN2	29978	broad.mit.edu	37	X	56591546	56591546	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chrX:56591546C>T	uc004dus.2	+	1	1475	c.1240C>T	c.(1240-1242)CCG>TCG	p.P414S	UBQLN2_uc011moq.1_Missense_Mutation_p.P414S	NM_013444	NP_038472	Q9UHD9	UBQL2_HUMAN	ubiquilin 2	414						cytoplasm|nucleus|plasma membrane	binding			ovary(1)|skin(1)	2						GCTGAATAGCCCGCTGTTTAC	0.537													8	9	---	---	---	---	PASS
MAGEE1	57692	broad.mit.edu	37	X	75649174	75649174	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chrX:75649174T>C	uc004ecm.1	+	1	1058	c.851T>C	c.(850-852)TTG>TCG	p.L284S		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	284	Pro-rich.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						AGCATCTCCTTGGTGCCCACC	0.692													8	9	---	---	---	---	PASS
NAP1L3	4675	broad.mit.edu	37	X	92927345	92927345	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chrX:92927345T>A	uc004efq.2	-	1	1264	c.959A>T	c.(958-960)AAG>ATG	p.K320M	FAM133A_uc004efr.1_5'Flank	NM_004538	NP_004529	Q99457	NP1L3_HUMAN	nucleosome assembly protein 1-like 3	320					nucleosome assembly	chromatin assembly complex				ovary(1)|skin(1)	2						GTCAACATTCTTTAAAACAAT	0.438													17	17	---	---	---	---	PASS
NRK	203447	broad.mit.edu	37	X	105075047	105075047	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chrX:105075047G>A	uc004emd.2	+	2	361	c.58G>A	c.(58-60)GAT>AAT	p.D20N	NRK_uc010npc.1_5'UTR	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	20							ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						TTTTTTGCAGGATCCAACTGG	0.249										HNSCC(51;0.14)			12	7	---	---	---	---	PASS
XPNPEP2	7512	broad.mit.edu	37	X	128902323	128902323	+	Silent	SNP	G	T	T			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chrX:128902323G>T	uc004eut.1	+	21	2131	c.1887G>T	c.(1885-1887)CTG>CTT	p.L629L		NM_003399	NP_003390	O43895	XPP2_HUMAN	X-prolyl aminopeptidase 2, membrane-bound	629					cellular process|proteolysis	anchored to membrane|plasma membrane	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0						GTCCAGAGCTGCAGAGGCGCC	0.612													16	9	---	---	---	---	PASS
CXorf66	347487	broad.mit.edu	37	X	139038193	139038193	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chrX:139038193C>A	uc004fbb.2	-	3	970	c.948G>T	c.(946-948)AGG>AGT	p.R316S		NM_001013403	NP_001013421	Q5JRM2	CX066_HUMAN	hypothetical protein LOC347487 precursor	316	Cytoplasmic (Potential).					integral to membrane					0						ATGCATTGTTCCTGGAATCTA	0.378													34	25	---	---	---	---	PASS
MAGEC1	9947	broad.mit.edu	37	X	140995703	140995703	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chrX:140995703C>G	uc004fbt.2	+	4	2799	c.2513C>G	c.(2512-2514)ACT>AGT	p.T838S	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	838							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CCCTCCTCCACTTCATCGAGT	0.552										HNSCC(15;0.026)			44	53	---	---	---	---	PASS
BGN	633	broad.mit.edu	37	X	152773715	152773715	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chrX:152773715C>G	uc004fhr.1	+	8	1091	c.919C>G	c.(919-921)CTG>GTG	p.L307V	BGN_uc004fhq.1_RNA	NM_001711	NP_001702	P21810	PGS1_HUMAN	biglycan preproprotein	307	LRR 10.					proteinaceous extracellular matrix|transport vesicle	extracellular matrix structural constituent			breast(2)	2	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGTGGTCTATCTGCACTCCAA	0.597													67	33	---	---	---	---	PASS
USP9Y	8287	broad.mit.edu	37	Y	14888737	14888737	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chrY:14888737A>G	uc004fst.1	+	19	3527	c.2582A>G	c.(2581-2583)TAC>TGC	p.Y861C	USP9Y_uc010nwu.1_RNA	NM_004654	NP_004645	O00507	USP9Y_HUMAN	ubiquitin specific protease 9, Y-linked	861					BMP signaling pathway|protein deubiquitination|spermatogenesis|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity				0						ATAAAAGAGTACATTAATGAA	0.323													14	18	---	---	---	---	PASS
TET3	200424	broad.mit.edu	37	2	74328275	74328275	+	Frame_Shift_Del	DEL	G	-	-			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr2:74328275delG	uc002skb.3	+	9	3955	c.3955delG	c.(3955-3957)GGCfs	p.G1319fs		NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	1319							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						CGGTGTGGGTGGCAGCTGGGG	0.602													26	22	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	110268685	110268685	+	RNA	DEL	G	-	-			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:110268685delG	uc003hzi.1	-	8		c.1379delC								Homo sapiens cDNA FLJ25407 fis, clone TST02904.																		CTTGCCGACAGGGGCTTCCTA	0.507													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	189459065	189459065	+	RNA	DEL	T	-	-			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr4:189459065delT	uc003izp.1	+	6		c.1791delT								Homo sapiens cDNA FLJ38649 fis, clone HHDPC2007302.																		CCCTGTATGGTTTTTTTTTTT	0.383													4	2	---	---	---	---	
PPP2R5D	5528	broad.mit.edu	37	6	42974327	42974327	+	Frame_Shift_Del	DEL	C	-	-			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr6:42974327delC	uc003oth.2	+	3	318	c.232delC	c.(232-234)CCCfs	p.P78fs	MEA1_uc010jyc.1_Intron|PPP2R5D_uc003otg.2_Frame_Shift_Del_p.P78fs|PPP2R5D_uc010jyd.2_Intron|PPP2R5D_uc011dva.1_5'UTR|PPP2R5D_uc003oti.2_5'UTR|PPP2R5D_uc003otj.2_5'UTR	NM_006245	NP_006236	Q14738	2A5D_HUMAN	delta isoform of regulatory subunit B56, protein	78					nervous system development|signal transduction	cytoplasm|nucleus|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			breast(1)|central_nervous_system(1)	2			Colorectal(64;0.00237)|all cancers(41;0.00411)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0664)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			CTCAGGGGGGCCCCAGATTGT	0.512													34	31	---	---	---	---	
MAPK15	225689	broad.mit.edu	37	8	144802438	144802438	+	Frame_Shift_Del	DEL	C	-	-			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr8:144802438delC	uc003yzj.2	+	8	801	c.760delC	c.(760-762)CTGfs	p.L254fs		NM_139021	NP_620590	Q8TD08	MK15_HUMAN	mitogen-activated protein kinase 15	254	Protein kinase.				protein autophosphorylation	extracellular region	ATP binding|MAP kinase activity|SH3 domain binding			lung(2)	2	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			TGCCTCTGTGCTGCACCAGCT	0.672													11	5	---	---	---	---	
GARNL3	84253	broad.mit.edu	37	9	130104531	130104533	+	In_Frame_Del	DEL	CAA	-	-			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr9:130104531_130104533delCAA	uc011mae.1	+	14	1570_1572	c.1169_1171delCAA	c.(1168-1173)CCAACA>CCA	p.T391del	GARNL3_uc011mad.1_In_Frame_Del_p.T369del|GARNL3_uc004bqt.1_In_Frame_Del_p.T172del	NM_032293	NP_115669	Q5VVW2	GARL3_HUMAN	GTPase activating Rap/RanGAP domain-like 3	391	Rap-GAP.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity|small GTPase regulator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						TTGGAAACCCCAACATTTGCCCA	0.379													35	24	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	21906560	21906560	+	RNA	DEL	T	-	-			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr13:21906560delT	uc001unz.1	+	3		c.2089delT								Homo sapiens cDNA FLJ33446 fis, clone BRAMY1000095.																		ATTAAAGTTGTTTCTTTGTCA	0.428													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	73079701	73079702	+	RNA	INS	-	GT	GT	rs143434829	by1000genomes	TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr14:73079701_73079702insGT	uc010arh.1	-	1		c.102_103insAC								Homo sapiens cDNA FLJ14079 fis, clone HEMBB1002134, weakly similar to ZINC-FINGER PROTEIN NEURO-D4.																		TTAAGTAGGGCgtgtgtgtgtg	0.381													4	2	---	---	---	---	
IRX6	79190	broad.mit.edu	37	16	55361548	55361548	+	Frame_Shift_Del	DEL	G	-	-			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chr16:55361548delG	uc002ehy.2	+	4	997	c.464delG	c.(463-465)CGGfs	p.R155fs	IRX6_uc002ehx.2_Frame_Shift_Del_p.R155fs|IRX6_uc010ccb.1_RNA	NM_024335	NP_077311	P78412	IRX6_HUMAN	iroquois homeobox protein 6	155	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(1)	6						AACGCGACCCGGGAGACCACC	0.562													14	12	---	---	---	---	
CXorf1	9142	broad.mit.edu	37	X	144909203	144909203	+	Frame_Shift_Del	DEL	C	-	-			TCGA-18-3419-01A-01D-0983-08	TCGA-18-3419-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c75ed357-d845-4443-8c9e-a2afa8ed30df	3d42a627-7d26-47b1-865b-99aa0339cf42	g.chrX:144909203delC	uc004fch.2	+	1	276	c.8delC	c.(7-9)TCCfs	p.S3fs		NM_004709	NP_004700	O96002	CX001_HUMAN	hypothetical protein LOC9142	3											0	Acute lymphoblastic leukemia(192;6.56e-05)					TGAATGTATTCCAGACTATTT	0.244													6	4	---	---	---	---	
